Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020855.1 Corchorus olitorius cultivar O-4 contig20888, 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: 162264
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:1385 original size:662 final size:665
Alignment explanation
Indices: 1--2867 Score: 3690
Period size: 662 Copynumber: 4.3 Consensus size: 665
* *
1 TTTTTCACGCTTCGAAGATCGTTTTTCTTATGCTTTTCCGAATTATTTTTTCAATTAAATT-GAA
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTA-ATTTTCAATT-AATTCGAA
* *
65 ACTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAAATTTGGGTAGATTA
64 ACTGGATTCTGATGCTCGT-AAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGA
* * * ** * *
130 GTATTGACATTCCAAGGAGTCTTGATGCCAAAAATCT-TACAAAA-TGGAG-TCGTGGCCCTGGA
128 ATATAGATATTCCAAGGAGTCTTGGCGCCAAAAAT-TATACAAAACT-GAGCT-GGGGCCCCGGA
* * * * * *
192 ACGCGTTTTTAGCTGAAAACTGTGATGGTTAGTATACGATTTCGGTCAACATTTTGCAAAAATTT
190 ACGCGTTTTTAGCCGAAAACTATGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTG
* * *
257 ACTCGAATGATTTTTCCT-AATTTGTTGGCCAAAATACTCATAAAAAATAAATAAATAATCGCCA
255 ACCCGAATGATTTTTCCTCAATTT-TTGGCCAAAATACTCATAAAAAATATATAAATCATCGCCA
* * *
321 AAAAGATTGAAGGTTTTTTCACGCTTCGAAGATCGTTTTTCATATGCTTTTCCGAATTAATTTCC
319 AAAAGATTGAAGGGTTTTTCACGCTTCAAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCC
* * *
386 AATGAAATTGAAACTGGATTCTGATGCTCGTAAAAATAAATCTTTAAATCTTATGTGGCTGAGAT
384 AATTAAATCGAAACTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGAT
* * * * *
451 TTGGGCAGATGAATATAGACATTTCGAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCCGG
449 TTGGGTAGATGAATATAGACATTCCAAGGAGTCTTGACGCCAAAAATCATACAAAACTGAGCCGG
* * * * * *
516 GG-CCTCGAAACGCG-TTTTAGCCGATAA-TAGTGA---TAACGCACATGATTTTGGTCAAGATT
514 GGCCCT-GGAACGCGTTTTTAGCCGAAAACT-GTGATGGTTA-GCACACGATTTCGGTCAACATT
*
575 TTGCAAAAATTGACCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAAATATAC
576 TTGCAAAAATTGACCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCAT-AAAAAATATAT
*
640 AAATCATCGCCAAAAAGTTTGAAGGA
640 AAATCATCGCCAAAAAGATTGAAGGA
* * * *
666 TTTTTCACGCTTTGAAGATCGTTTTTCCTGTACTTTTCCGAATTACTTTTTCAATTAATTCGAAA
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTA-ATTTTCAATTAATTCGAAA
* **
731 CTGGATTCTGATGCTCGT-AAA-AAATCTTTAATTCTTATGTGGCTGAGATTTGATTAGATGAAT
65 CTGGATTCTGATGCTCGTAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAAT
* * *
794 ATAGATATTCGAAGGAGTCTTGGCGCCGAAAATTATACAAAACTGAGCTAGGGCCCCGGAACGCG
130 ATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCTGGGGCCCCGGAACGCG
* *
859 TTTTTAGCCGAAAACTATGATGTTTAGAACACT-ATTTCGGTCAACATTTTGCAAAAATTGACCC
195 TTTTTAGCCGAAAACTATGATGGTTAGCACA-TGATTTCGGTCAACATTTTGCAAAAATTGACCC
* * *
923 GAATGATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATACATAAATCATTGCCAAAAAG
259 GAATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATATAAATCATCGCCAAAAAG
* *
988 ATTGAAGGGTTTTTCACGCTTCAAAGATCGTTTTTCCTATGTTTTTCCGAATTAAATTCCAATTA
324 ATTGAAGGGTTTTTCACGCTTCAAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTA
* * * *
1053 AATCGAAACTGGATTCCGATGCTCGTAAAATCAAATCTTTAAATCTTATGTAGCTGATATTTGGG
389 AATCGAAACTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGG
* *
1118 TAGATGAATATAGACATTCCAAGGAGTCTTCACGCCAAAAATCATACAAAACTGATCCGGGGCCC
454 TAGATGAATATAGACATTCCAAGGAGTCTTGACGCCAAAAATCATACAAAACTGAGCCGGGGCCC
* *
1183 TGGAACGCGTTTTTAGCCGAAAACTGTGATGGTTAGTATACGATTTCGGTCAACATTTT-CTAAA
519 TGGAACGCGTTTTTAGCCGAAAACTGTGATGGTTAGCACACGATTTCGGTCAACATTTTGC-AAA
* *
1247 AATTGACCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCAT-AAAATTATATAAATAATC
583 AATTGACCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATATAAATCATC
1311 GCCAAAAAGATTGAAGGA
648 GCCAAAAAGATTGAAGGA
* *
1329 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGTTTTTCCGAATTAATTTCCAATTAAATT-GAAA
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTTCAATT-AATTCGAAA
* *
1393 CTGGATTCTGATGCTCGTAAAAATAAATCTTTAAATCTTATGT-GATCGAGATTTGGGTAGATGA
65 CTGGATTCTGATGCTCGT-AAAACAAATCTTTAAATCTTATGTGGCT-GAGATTTGGGTAGATGA
* *** * *
1457 ATATAGACT-TTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCCGGGGTTTCAGAAT
128 ATATAGA-TATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCTGGGGCCCCGGAAC
* *
1521 GAGTTTTTAGCCGAAAAC-AGTGATGGTTAGCACATGATTTCGGTCAAAATTTTGCAAAAA-TGA
192 GCGTTTTTAGCCGAAAACTA-TGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGA
* *
1584 CCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTTATAAAAAATATATAAATTATCGCCAAA
256 CCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATATAAATCATCGCCAAA
* * * * *
1649 AATATTGAAGGTGTTTTTCACGCTTC-GAGATCGTTTTTCTTATACTTTTCCGAATGAATTTCCA
321 AAGATTGAAGG-GTTTTTCACGCTTCAAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCA
** * * * *
1713 ATTAAATTTAAACTGGATTATAATGCTCGTAAAAACAAATCTTTAAATCTTTTATGGCTGAGATT
385 ATTAAATCGAAACTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATT
* * * * * * * * **
1778 T-GATCAGATGAATATAGATATTCGAGGGAGTGTTGGCGCCGAAAATTATACAAAACTGAGCTAG
450 TGGGT-AGATGAATATAGACATTCCAAGGAGTCTTGACGCCAAAAATCATACAAAACTGAGCCGG
* * * * *
1842 GGCCCCGGAACGCGTTTTTAGCCTAAAACTATGATAGTTAGTACACGATTTCGGTCAACATTTTG
514 GGCCCTGGAACGCGTTTTTAGCCGAAAACTGTGATGGTTAGCACACGATTTCGGTCAACATTTTG
* * *
1907 CAAAAATTGACCCGAGT-AATTTTCCTCAATTTTTGCCCAAAATACTCATAAAAAATATATAAAT
579 CAAAAATTGACCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATATAAAT
** *
1971 CATCGTTAAAAAGATTGAAGGG
644 CATCGCCAAAAAGATTGAAGGA
* * * *
1993 TTTTTCACGCTTCAAAGATCGTTTTTCCTATGTTTTTCCGAATTAA-TTTCCATTAAATCGAAAC
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTTCAATTAATTCGAAAC
* * *
2057 TGGATTCTGATGCTCGTAAAAAAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTATATAAATA
66 TGGATTCTGATGCTCGTAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAATA
* * * *
2122 TAGATATTCTAAGGAGTCTTGACGCCAAAAATTATACAAAATTGAGCTGGGGCCCCGCAACGCGT
131 TAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCTGGGGCCCCGGAACGCGT
* *
2187 TTTTAGCCGAAAAC-AGTGATGATTAGCACATGATTTCGGTCAAGATTTTGCAAAAATTGACCCG
196 TTTTAGCCGAAAACTA-TGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGACCCG
* * *
2251 AATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAACAAATATATAAATCATCACCAATAAGA
260 AATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATATAAATCATCGCCAAAAAGA
* ** *
2316 TTGAA-GG-----CACGCTTCAAAGATCATTTTTCCTATG-TTTTTGGAATTAATTTGCAATTAA
325 TTGAAGGGTTTTTCACGCTTCAAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAA
* * * *
2374 ATCGAAACTGGATTCTGATGCTTGTAAAAACATATTTTTAAATCTTATGTGGCTGAGATTTTGGT
390 ATCGAAACTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGT
* * ** * * *
2439 AGATGAATATAGATATTCCAAGGATTCTT-AGCGTTAAAAATCATACAAAACTGTGTCGTGGCCC
455 AGATGAATATAGACATTCCAAGGAGTCTTGA-CGCCAAAAATCATACAAAACTGAGCCGGGGCCC
* * ** *
2503 TGGAACGCGTTTTTAGCTGAAAACTGTGATGGTTAGCACATGATTTCAATCAAGATTTT-CAAAA
519 TGGAACGCGTTTTTAGCCGAAAACTGTGATGGTTAGCACACGATTTCGGTCAACATTTTGCAAAA
* *
2567 ATTGACCCGAATGATTTTTCCTTTAA-TTTTGGCGC--AATATTCATAAAAAATATATAAATCAT
584 ATTGACCCGAATGATTTTTCC-TCAATTTTTGGC-CAAAATACTCATAAAAAATATATAAATCAT
*
2629 CGCCAAAAAGATTGAAGGG
647 CGCCAAAAAGATTGAAGGA
* * * *
2648 TTTTTAATGCTTCGAATG-TCATTTTTCCTATGCTTTTCCGAATTAATTTTCAATTAAATCGAAA
1 TTTTTCACGCTTCGAA-GATCGTTTTTCCTATGCTTTTCCGAATTAATTTTCAATTAATTCGAAA
* * * *
2712 CCGGATTATGATGCTCGTAAAAACAAATCTTTAAATATTATGTGGCTGAGATTTTGGTAGATGAA
65 CTGGATTCTGATGCTCGT-AAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAA
* * * * * * * *
2777 TATAGATATTCCAAGGAGCCTTGGCGGCGAAAATCATACAAAACTAAGAT-TGACCCCGGAACGC
129 TATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCTGGGGCCCCGGAACGC
* *
2841 GTTTTTAGCTGAAAACTGTGATGGTTA
194 GTTTTTAGCCGAAAACTATGATGGTTA
2868 TTCAGTTTAT
Statistics
Matches: 1926, Mismatches: 237, Indels: 87
0.86 0.11 0.04
Matches are distributed among these distances:
655 98 0.05
656 258 0.13
657 102 0.05
661 3 0.00
662 557 0.29
663 239 0.12
664 372 0.19
665 294 0.15
666 3 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (665 bp):
TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTTCAATTAATTCGAAAC
TGGATTCTGATGCTCGTAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAATA
TAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCTGGGGCCCCGGAACGCGT
TTTTAGCCGAAAACTATGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGACCCGA
ATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATATAAATCATCGCCAAAAAGAT
TGAAGGGTTTTTCACGCTTCAAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAA
TCGAAACTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTA
GATGAATATAGACATTCCAAGGAGTCTTGACGCCAAAAATCATACAAAACTGAGCCGGGGCCCTG
GAACGCGTTTTTAGCCGAAAACTGTGATGGTTAGCACACGATTTCGGTCAACATTTTGCAAAAAT
TGACCCGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAATATATAAATCATCGCC
AAAAAGATTGAAGGA
Found at i:2760 original size:331 final size:331
Alignment explanation
Indices: 1--2867 Score: 3653
Period size: 332 Copynumber: 8.7 Consensus size: 331
* * * *
1 TTTTTCACGCTTCGAAGATCGTTTTTCTTATGCTTTTCCGAATTATTTTTTCAATTAAATTGAAA
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTA-ATTTCCAATTAAATCGAAA
* * *
66 CTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAAATTTGGGTAGATTAG
65 CTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAA
* * **
131 TATTGACATTCCAAGGAGTCTTGATGCCAAAAATCT-TACAAAA-TGGAGTCGTGGCCCTGGAAC
130 TATAGATATTCCAAGGAGTCTTGGCGCCAAAAAT-TATACAAAACT-GAGTCG-GGCCCTGGAAC
* * * * *
194 GCGTTTTTAGCTGAAAACTGTGATGGTTAGTATACGATTTCGGTCAACATTTTGCAAAAATTTAC
192 GCGTTTTTAGCCGAAAACTGTGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGAC
* * *
259 TCGAATGATTTTTCCT-AATTTGTTGGCCAAAATACTCATAAAAAATAAATAAATAATCGCCAAA
257 CCGAATGATTTTTCCTCAATTT-TTGGCC-AAATACTCATAAAAAATATATAAATCATCGCCAAA
*
323 AAGATTGAAGGT
320 AAGATTGAAGGG
* * *
335 TTTTTCACGCTTCGAAGATCGTTTTTCATATGCTTTTCCGAATTAATTTCCAATGAAATTGAAAC
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAAC
* *
400 TGGATTCTGATGCTCGTAAAAATAAATCTTTAAATCTTATGTGGCTGAGATTTGGGCAGATGAAT
66 TGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAAT
* * * * * *
465 ATAGACATTTCGAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCCGGGGCCTCGAAACGCG
131 ATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGTCGGGCCCT-GGAACGCG
* * * *
530 -TTTTAGCCGATAA-TAGTGA---TAACGCACATGATTTTGGTCAAGATTTTGCAAAAATTGACC
195 TTTTTAGCCGAAAACT-GTGATGGTTA-GCACATGATTTCGGTCAACATTTTGCAAAAATTGACC
*
590 CGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAAAAAAATATACAAATCATCGCCAAAA
258 CGAATGATTTTTCCTCAATTTTTGGCC-AAATACTCAT-AAAAAATATATAAATCATCGCCAAAA
* *
655 AGTTTGAAGGA
321 AGATTGAAGGG
* * * * * *
666 TTTTTCACGCTTTGAAGATCGTTTTTCCTGTACTTTTCCGAATTACTTTTTCAATTAATTCGAAA
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTA-ATTTCCAATTAAATCGAAA
* **
731 CTGGATTCTGATGCTCGT--AAA-AAATCTTTAATTCTTATGTGGCTGAGATTTGATTAGATGAA
65 CTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAA
* * * *
793 TATAGATATTCGAAGGAGTCTTGGCGCCGAAAATTATACAAAACTGAGCTAGGGCCCCGGAACGC
130 TATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAG-TCGGGCCCTGGAACGC
* * *
858 GTTTTTAGCCGAAAACTATGATGTTTAGAACACT-ATTTCGGTCAACATTTTGCAAAAATTGACC
194 GTTTTTAGCCGAAAACTGTGATGGTTAGCACA-TGATTTCGGTCAACATTTTGCAAAAATTGACC
* * *
922 CGAATGATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATACATAAATCATTGCCAAAAA
258 CGAATGATTTTTCCTCAATTTTTGGC-CAAATACTCATAAAAAATATATAAATCATCGCCAAAAA
987 GATTGAAGGG
322 GATTGAAGGG
* * *
997 TTTTTCACGCTTCAAAGATCGTTTTTCCTATGTTTTTCCGAATTAAATTCCAATTAAATCGAAAC
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAAC
* * * *
1062 TGGATTCCGATGCTCGTAAAATCAAATCTTTAAATCTTATGTAGCTGATATTTGGGTAGATGAAT
66 TGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAAT
* ** *
1127 ATAGACATTCCAAGGAGTCTTCACGCCAAAAATCATACAAAACTGA-TCCGGGGCCCTGGAACGC
131 ATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGT-C-GGGCCCTGGAACGC
* * *
1191 GTTTTTAGCCGAAAACTGTGATGGTTAGTATACGATTTCGGTCAACATTTT-CTAAAAATTGACC
194 GTTTTTAGCCGAAAACTGTGATGGTTAGCACATGATTTCGGTCAACATTTTGC-AAAAATTGACC
* *
1255 CGAATGATTTTTCCTCAATTTTTGGCCAAAATACTCAT-AAAATTATATAAATAATCGCCAAAAA
258 CGAATGATTTTTCCTCAATTTTTGGCC-AAATACTCATAAAAAATATATAAATCATCGCCAAAAA
*
1319 GATTGAAGGA
322 GATTGAAGGG
* *
1329 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGTTTTTCCGAATTAATTTCCAATTAAATTGAAAC
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAAC
* *
1394 TGGATTCTGATGCTCGTAAAAATAAATCTTTAAATCTTATGT-GATCGAGATTTGGGTAGATGAA
66 TGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCT-GAGATTTGGGTAGATGAA
* *** * *
1458 TATAGACT-TTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGCCGGGGTTTCAGAATG
130 TATAGA-TATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGTCGGGCCCT-GGAACG
* * *
1522 AGTTTTTAGCCGAAAACAGTGATGGTTAGCACATGATTTCGGTCAAAATTTTGCAAAAA-TGACC
193 CGTTTTTAGCCGAAAACTGTGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGACC
* *
1586 CGAATGATTTTTCCTCAATTTTTGGCCAAAATACTTATAAAAAATATATAAATTATCGCCAAAAA
258 CGAATGATTTTTCCTCAATTTTTGGCC-AAATACTCATAAAAAATATATAAATCATCGCCAAAAA
*
1651 TATTGAAGGTG
322 GATTGAAGG-G
* * * **
1662 TTTTTCACGCTTCG-AGATCGTTTTTCTTATACTTTTCCGAATGAATTTCCAATTAAATTTAAAC
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAAC
* * * * *
1726 TGGATTATAATGCTCGTAAAAACAAATCTTTAAATCTTTTATGGCTGAGATTT-GATCAGATGAA
66 TGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGT-AGATGAA
* * * * * *
1790 TATAGATATTCGAGGGAGTGTTGGCGCCGAAAATTATACAAAACTGAGCTAGGGCCCCGGAACGC
130 TATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAG-TCGGGCCCTGGAACGC
* * * * *
1855 GTTTTTAGCCTAAAACTATGATAGTTAGTACACGATTTCGGTCAACATTTTGCAAAAATTGACCC
194 GTTTTTAGCCGAAAACTGTGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGACCC
* * * **
1920 GAGT-AATTTTCCTCAATTTTTGCCCAAAATACTCATAAAAAATATATAAATCATCGTTAAAAAG
259 GAATGATTTTTCCTCAATTTTTGGCC-AAATACTCATAAAAAATATATAAATCATCGCCAAAAAG
1984 ATTGAAGGG
323 ATTGAAGGG
* *
1993 TTTTTCACGCTTCAAAGATCGTTTTTCCTATGTTTTTCCGAATTAATTTCC-ATTAAATCGAAAC
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAAC
* *
2057 TGGATTCTGATGCTCGTAAAAA-AAATCTTTAAATCTTATGTGGCTGAGATTTGGGTATATAAAT
66 TGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAAT
* * * * * *
2121 ATAGATATTCTAAGGAGTCTTGACGCCAAAAATTATACAAAATTGAGCTGGGGCCCCGCAACGCG
131 ATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAG-TCGGGCCCTGGAACGCG
* * *
2186 TTTTTAGCCGAAAACAGTGATGATTAGCACATGATTTCGGTCAAGATTTTGCAAAAATTGACCCG
195 TTTTTAGCCGAAAACTGTGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGACCCG
* * *
2251 AATGATTTTTCCTCAATTTTTGGCCAAAATACTCATAACAAATATATAAATCATCACCAATAAGA
260 AATGATTTTTCCTCAATTTTTGGCC-AAATACTCATAAAAAATATATAAATCATCGCCAAAAAGA
2316 TTGAA-GG
324 TTGAAGGG
* * ** *
2323 -----CACGCTTCAAAGATCATTTTTCCTATG-TTTTTGGAATTAATTTGCAATTAAATCGAAAC
1 TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAAC
* * * *
2382 TGGATTCTGATGCTTGTAAAAACATATTTTTAAATCTTATGTGGCTGAGATTTTGGTAGATGAAT
66 TGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAAT
* * ** * *
2447 ATAGATATTCCAAGGATTCTTAGCGTTAAAAATCATACAAAACTGTGTCGTGGCCCTGGAACGCG
131 ATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGTCG-GGCCCTGGAACGCG
* ** *
2512 TTTTTAGCTGAAAACTGTGATGGTTAGCACATGATTTCAATCAAGATTTT-CAAAAATTGACCCG
195 TTTTTAGCCGAAAACTGTGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGACCCG
* *
2576 AATGATTTTTCCTTTAA-TTTTGGCGC-AATATTCATAAAAAATATATAAATCATCGCCAAAAAG
260 AATGATTTTTCC-TCAATTTTTGGC-CAAATACTCATAAAAAATATATAAATCATCGCCAAAAAG
2639 ATTGAAGGG
323 ATTGAAGGG
* * * *
2648 TTTTTAATGCTTCGAATG-TCATTTTTCCTATGCTTTTCCGAATTAATTTTCAATTAAATCGAAA
1 TTTTTCACGCTTCGAA-GATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAA
* * * *
2712 CCGGATTATGATGCTCGTAAAAACAAATCTTTAAATATTATGTGGCTGAGATTTTGGTAGATGAA
65 CTGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAA
* * * * * * * *
2777 TATAGATATTCCAAGGAGCCTTGGCGGCGAAAATCATACAAAACTAAGAT-TGACCCCGGAACGC
130 TATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAG-TCGGGCCCTGGAACGC
*
2841 GTTTTTAGCTGAAAACTGTGATGGTTA
194 GTTTTTAGCCGAAAACTGTGATGGTTA
2868 TTCAGTTTAT
Statistics
Matches: 2216, Mismatches: 264, Indels: 110
0.86 0.10 0.04
Matches are distributed among these distances:
324 54 0.02
325 97 0.04
326 136 0.06
329 89 0.04
330 329 0.15
331 438 0.20
332 690 0.31
333 338 0.15
334 45 0.02
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (331 bp):
TTTTTCACGCTTCGAAGATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAAC
TGGATTCTGATGCTCGTAAAAACAAATCTTTAAATCTTATGTGGCTGAGATTTGGGTAGATGAAT
ATAGATATTCCAAGGAGTCTTGGCGCCAAAAATTATACAAAACTGAGTCGGGCCCTGGAACGCGT
TTTTAGCCGAAAACTGTGATGGTTAGCACATGATTTCGGTCAACATTTTGCAAAAATTGACCCGA
ATGATTTTTCCTCAATTTTTGGCCAAATACTCATAAAAAATATATAAATCATCGCCAAAAAGATT
GAAGGG
Found at i:23438 original size:2 final size:2
Alignment explanation
Indices: 23431--23460 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23421 TGAACACCAC
23431 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
23461 GACAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24673 original size:29 final size:29
Alignment explanation
Indices: 24631--24688 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
24621 ATTATATCCA
* *
24631 CTTAAATTTTCACACGTTTACGTGGTGGG
1 CTTAAAATTTCACACGTGTACGTGGTGGG
24660 CTTAAAATTTCACACGTGTACGTGGTGGG
1 CTTAAAATTTCACACGTGTACGTGGTGGG
24689 GGGTGGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (29 bp):
CTTAAAATTTCACACGTGTACGTGGTGGG
Found at i:28940 original size:34 final size:35
Alignment explanation
Indices: 28871--28957 Score: 140
Period size: 34 Copynumber: 2.5 Consensus size: 35
28861 CTTTAGTTAA
28871 AGTAATCATGTCATTATTTCCTCAAAAAAAAAAAAAC
1 AGTAATCATGTCATTATTTCCTC--AAAAAAAAAAAC
*
28908 AGTAACCATGTCATTATTTCCTC-AAAAAAAAAAC
1 AGTAATCATGTCATTATTTCCTCAAAAAAAAAAAC
28942 AGTAATCATGTCATTA
1 AGTAATCATGTCATTA
28958 AGGCACGACC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
34 26 0.54
37 22 0.46
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (35 bp):
AGTAATCATGTCATTATTTCCTCAAAAAAAAAAAC
Found at i:31319 original size:3 final size:3
Alignment explanation
Indices: 31313--31338 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31303 AAAAAAAATA
31313 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
31339 AACATGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34231 original size:13 final size:13
Alignment explanation
Indices: 34213--34312 Score: 76
Period size: 13 Copynumber: 7.2 Consensus size: 13
34203 AATGCATTGG
34213 TTTCTTTTGTAAT
1 TTTCTTTTGTAAT
34226 TTTCTTCTTGCATAA-
1 TTTCTT-TTG--TAAT
*
34241 CTTCTTTTGTAAT
1 TTTCTTTTGTAAT
* * *
34254 TTTCTCATTGCATAG
1 TTTCT-TTTGTA-AT
34269 TTTCTTTTGTAAT
1 TTTCTTTTGTAAT
34282 TTTCTTCTTGTATAAT
1 TTTCTT-TTG--TAAT
*
34298 TTTCATTTGTAAT
1 TTTCTTTTGTAAT
34311 TT
1 TT
34313 AATATATGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.04
13 23 0.33
14 17 0.25
15 14 0.20
16 12 0.17
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (13 bp):
TTTCTTTTGTAAT
Found at i:34246 original size:28 final size:28
Alignment explanation
Indices: 34213--34312 Score: 139
Period size: 28 Copynumber: 3.5 Consensus size: 28
34203 AATGCATTGG
34213 TTTCTTTTGTAATTTTCTTCTTGCATAA
1 TTTCTTTTGTAATTTTCTTCTTGCATAA
* *
34241 CTTCTTTTGTAATTTTC-TCATTGCATAG
1 TTTCTTTTGTAATTTTCTTC-TTGCATAA
*
34269 TTTCTTTTGTAATTTTCTTCTTGTATAA
1 TTTCTTTTGTAATTTTCTTCTTGCATAA
*
34297 TTTTCATTTGTAATTT
1 -TTTCTTTTGTAATTT
34313 AATATATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 45 0.71
29 16 0.25
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (28 bp):
TTTCTTTTGTAATTTTCTTCTTGCATAA
Found at i:42149 original size:2 final size:2
Alignment explanation
Indices: 42142--42168 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42132 GGCATTAAGC
42142 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
42169 CAGTACAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44440 original size:14 final size:13
Alignment explanation
Indices: 44423--44452 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
44413 TTTCCCCGTC
44423 TTTTTTTCTTTTCT
1 TTTTTTTC-TTTCT
44437 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
44450 TTT
1 TTT
44453 AAGTCCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTTCTTTCT
Found at i:52560 original size:24 final size:24
Alignment explanation
Indices: 52515--52560 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
52505 GCAATTTTAA
*
52515 TGTTACTGGAAGTTTAGTTTCTGG
1 TGTTACTGGAAGTTTAGATTCTGG
*
52539 TGTTA-TGGAAAGTTTGGATTCT
1 TGTTACTGG-AAGTTTAGATTCT
52561 AAATATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.46
Consensus pattern (24 bp):
TGTTACTGGAAGTTTAGATTCTGG
Found at i:65919 original size:12 final size:13
Alignment explanation
Indices: 65895--65924 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
65885 TCTCCAGCCC
65895 AAAAGTGATAAAA
1 AAAAGTGATAAAA
65908 AAAAGTGA-AAAA
1 AAAAGTGATAAAA
65920 AAAAG
1 AAAAG
65925 GCTATGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (13 bp):
AAAAGTGATAAAA
Found at i:68771 original size:120 final size:119
Alignment explanation
Indices: 68551--68788 Score: 397
Period size: 120 Copynumber: 2.0 Consensus size: 119
68541 TGCCCCCTTA
* *
68551 CCACTCCAATTCTTCGATTACCATCATGAAAATAAATGATGCTTGATTTTCTGTTAAGAGTCTTT
1 CCACTCCAATTCTTCGATTACCACCATGAAAATAAATGATGCTTGATTTTCTGTTAAGAATCTTT
68616 GTGATTCTCATGTAAGGTAACTTTGTTCGATACATTCTATGAATTATAAAGCAT
66 GTGATTCTCATGTAAGGTAACTTTGTTCGATACATTCTATGAATTATAAAGCAT
*
68670 CCACTCCAA-TCTTCTGATTACCACCATGGAAATAAATGATGCTTGATTTTCTGGTTAAGAATCT
1 CCACTCCAATTCTTC-GATTACCACCATGAAAATAAATGATGCTTGATTTTCT-GTTAAGAATCT
* * *
68734 TTGTTATTCTCATGTATGGTGACTTTGTTCGATACATTCTATGAATTATAAAGCA
64 TTGTGATTCTCATGTAAGGTAACTTTGTTCGATACATTCTATGAATTATAAAGCA
68789 AATTTCTCTT
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
118 5 0.05
119 44 0.40
120 62 0.56
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (119 bp):
CCACTCCAATTCTTCGATTACCACCATGAAAATAAATGATGCTTGATTTTCTGTTAAGAATCTTT
GTGATTCTCATGTAAGGTAACTTTGTTCGATACATTCTATGAATTATAAAGCAT
Found at i:83761 original size:41 final size:41
Alignment explanation
Indices: 83716--83799 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
83706 ATGCATTCCA
*
83716 TGTTCAGCATTGGAAAAACGAGTGAAATATGAGAGGAAACT
1 TGTTCAGCATTGGAAAAACGAGTGAAATACGAGAGGAAACT
83757 TGTTCAGCATTGGAAAAACGAGTGAAATACGAGAGGAAACT
1 TGTTCAGCATTGGAAAAACGAGTGAAATACGAGAGGAAACT
83798 TG
1 TG
83800 GAGGAGGGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.21
Consensus pattern (41 bp):
TGTTCAGCATTGGAAAAACGAGTGAAATACGAGAGGAAACT
Found at i:89065 original size:3 final size:3
Alignment explanation
Indices: 89057--89097 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
89047 AAATTAACTC
89057 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
89098 CGATTGTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:94204 original size:89 final size:90
Alignment explanation
Indices: 94050--94228 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 90
94040 ATGTCTAGCT
94050 TAATCATGCTTCACGTCCTAACATTTTTTTGTTTGGTTCTCAATTTTCCAAATTAAAGTAGTTAA
1 TAATCATGCTTCACGTCCTAACATTTTTTTGTTTGGTTCTCAATTTTCCAAATTAAAGTAGTTAA
94115 TTGTTTTTATCACGAAATTGTAAGA
66 TTGTTTTTATCACGAAATTGTAAGA
*
94140 TAATCATGCTTCACGTCCTAACA-TTTTTTGTTTGGTTCTCAATTTTCCAAATTAAAGTATTTAA
1 TAATCATGCTTCACGTCCTAACATTTTTTTGTTTGGTTCTCAATTTTCCAAATTAAAGTAGTTAA
94204 TTGTTTTTATCACGAAATTGTAAGA
66 TTGTTTTTATCACGAAATTGTAAGA
94229 ACGTCAACGT
Statistics
Matches: 88, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 65 0.74
90 23 0.26
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.45
Consensus pattern (90 bp):
TAATCATGCTTCACGTCCTAACATTTTTTTGTTTGGTTCTCAATTTTCCAAATTAAAGTAGTTAA
TTGTTTTTATCACGAAATTGTAAGA
Found at i:100542 original size:7 final size:7
Alignment explanation
Indices: 100530--100562 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
100520 TATTATTACT
*
100530 ATATATG
1 ATATATA
100537 ATATATA
1 ATATATA
100544 ATATATA
1 ATATATA
100551 ATAT-TA
1 ATATATA
100557 ATATAT
1 ATATAT
100563 TAGATTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (7 bp):
ATATATA
Found at i:103230 original size:17 final size:18
Alignment explanation
Indices: 103208--103243 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
103198 GATTAGTCAT
103208 TTAAATCAATC-AATCAA
1 TTAAATCAATCAAATCAA
103225 TTAAATCAATCAAATCAA
1 TTAAATCAATCAAATCAA
103243 T
1 T
103244 CTCTTTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAATCAATCAAATCAA
Found at i:103244 original size:9 final size:9
Alignment explanation
Indices: 103210--103244 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
103200 TTAGTCATTT
103210 AAATCAATC
1 AAATCAATC
*
103219 -AATCAATT
1 AAATCAATC
103227 AAATCAATC
1 AAATCAATC
103236 AAATCAATC
1 AAATCAATC
103245 TCTTTCTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (9 bp):
AAATCAATC
Found at i:103244 original size:13 final size:13
Alignment explanation
Indices: 103210--103244 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
103200 TTAGTCATTT
103210 AAATCAATCAATC
1 AAATCAATCAATC
* *
103223 AATTAAATCAATC
1 AAATCAATCAATC
103236 AAATCAATC
1 AAATCAATC
103245 TCTTTCTCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATCAATCAATC
Found at i:107474 original size:18 final size:18
Alignment explanation
Indices: 107453--107487 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
107443 TGAGAAATTG
*
107453 AAAAAAAGAAGGAAAAGA
1 AAAAAAAGAAAGAAAAGA
107471 AAAAAAAGAAAGAAAAG
1 AAAAAAAGAAAGAAAAG
107488 GAATGGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAGAAAAGA
Found at i:138315 original size:2 final size:2
Alignment explanation
Indices: 138308--138368 Score: 56
Period size: 2 Copynumber: 31.0 Consensus size: 2
138298 TATGATAGTG
* * *
138308 TA TA TA TA TA TA TA TA TA T- TA TCC TA TC T- TA TA TCC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T-A TA TA TA
138350 TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
138369 AAAGCTCTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
1 3 0.06
2 44 0.90
3 2 0.04
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:139087 original size:16 final size:16
Alignment explanation
Indices: 139066--139099 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
139056 TTTAGATTCT
139066 TACATTATAATTAGTA
1 TACATTATAATTAGTA
139082 TACATTATAATTAGTA
1 TACATTATAATTAGTA
139098 TA
1 TA
139100 GATAGCATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TACATTATAATTAGTA
Found at i:149909 original size:16 final size:16
Alignment explanation
Indices: 149890--149942 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
149880 AAAAAGCTCA
149890 AACCCGAAAAAACCAG
1 AACCCGAAAAAACCAG
* * *
149906 AACCCG-ATAAATCTG
1 AACCCGAAAAAACCAG
*
149921 AAACCCGAAAAAACCCG
1 -AACCCGAAAAAACCAG
149938 AACCC
1 AACCC
149943 AAACCTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 6 0.21
16 17 0.59
17 6 0.21
ACGTcount: A:0.49, C:0.34, G:0.11, T:0.06
Consensus pattern (16 bp):
AACCCGAAAAAACCAG
Found at i:150209 original size:32 final size:32
Alignment explanation
Indices: 150132--150256 Score: 112
Period size: 32 Copynumber: 3.9 Consensus size: 32
150122 GCCAAAACTC
* *
150132 AACCCGAACCCGAATTAACCTGATCCTAAA-TT
1 AACCCGAACCCGAATCAACCTGA-CCCAAATTT
* * *
150164 GACCCAAACCCGAATCAACATGACCCAAATTT
1 AACCCGAACCCGAATCAACCTGACCCAAATTT
* *
150196 AACCCGAATCCGAATCAACCCT-ATCCAAATTT
1 AACCCGAACCCGAATCAA-CCTGACCCAAATTT
* *
150228 AACCCG-ACCTGACTCAAACCTGAACCCAA
1 AACCCGAACCCGAATC-AACCTG-ACCCAA
150257 GAATGACCTG
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
31 14 0.19
32 53 0.72
33 7 0.09
ACGTcount: A:0.38, C:0.35, G:0.09, T:0.18
Consensus pattern (32 bp):
AACCCGAACCCGAATCAACCTGACCCAAATTT
Found at i:150231 original size:16 final size:17
Alignment explanation
Indices: 150188--150234 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
150178 TCAACATGAC
150188 CCAAATTTAACCCGAAT
1 CCAAATTTAACCCGAAT
* * *
150205 CCGAA-TCAACCC-TAT
1 CCAAATTTAACCCGAAT
150220 CCAAATTTAACCCGA
1 CCAAATTTAACCCGA
150235 CCTGACTCAA
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
15 6 0.27
16 12 0.55
17 4 0.18
ACGTcount: A:0.38, C:0.34, G:0.06, T:0.21
Consensus pattern (17 bp):
CCAAATTTAACCCGAAT
Found at i:150807 original size:6 final size:6
Alignment explanation
Indices: 150770--150805 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
150760 CCCAGTTCGA
*
150770 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC CTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
150806 CTCCTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:152184 original size:18 final size:20
Alignment explanation
Indices: 152144--152181 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
152134 ACTCTTCCAG
152144 AATTGGTATAGTATTTGCTT
1 AATTGGTATAGTATTTGCTT
152164 AATT-GTAT-GTATGTTGCT
1 AATTGGTATAGTAT-TTGCT
152182 AATAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (20 bp):
AATTGGTATAGTATTTGCTT
Found at i:156597 original size:36 final size:36
Alignment explanation
Indices: 156550--156961 Score: 419
Period size: 36 Copynumber: 12.4 Consensus size: 36
156540 TTACATCATA
156550 AGCGCCACATCATATACATCATATAGACTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
* **
156586 AGCGCCACATCATATA-GTC-T-TACTCTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
* *
156619 AGCGTCACATCATATACATCATATAGTCTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
156655 AGCGCCACATCATATACATCATATAGACTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
*
156691 AGTG---C--C----ACATCATATAGACTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
*
156718 AGCGCCACATCATATACATCATATAGATTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
*
156754 AGCGCCACATCATATACATCATATAGATTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
*
156790 AGCG---C--C----ACATCATATAGATTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
*
156817 AGCG-C-CA-C------ATCATATAGATTTAGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
* *
156844 AGTGCCACATCATATACATCATATAGATTTAGGT--
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
* *
156878 ----CCACATCATATACATCATATAGTCTTGGGTCC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
* *
156910 AGCGCCACATCATATACATCATATAGATTTAGGTTC
1 AGCGCCACATCATATACATCATATAGACTTAGGTCC
*
156946 AACGCCACATCATATA
1 AGCGCCACATCATATA
156962 GTCTTAGGTC
Statistics
Matches: 327, Mismatches: 20, Indels: 58
0.81 0.05 0.14
Matches are distributed among these distances:
27 71 0.22
28 2 0.01
29 3 0.01
30 29 0.09
31 2 0.01
32 1 0.00
33 28 0.09
34 3 0.01
35 3 0.01
36 185 0.57
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (36 bp):
AGCGCCACATCATATACATCATATAGACTTAGGTCC
Found at i:156607 original size:27 final size:27
Alignment explanation
Indices: 156565--157068 Score: 201
Period size: 27 Copynumber: 16.4 Consensus size: 27
156555 CACATCATAT
*
156565 ACATCATATAGACTTAGGTCCAGCGCC
1 ACATCATATAGTCTTAGGTCCAGCGCC
156592 ACATCATATAGTCTTACTCTTAGGTCCAGCGTCAC
1 ACATCATATAG------TCTTAGGTCCAGCG-C-C
156627 ATCATATACATCATATAGTCTTAGGTCCAGCGCC
1 A-C--AT----CATATAGTCTTAGGTCCAGCGCC
* *
156661 ACATCATATACATCATATAGACTTAGGTCCAGTGCC
1 ACATCATATA-GTC--------TTAGGTCCAGCGCC
*
156697 ACATCATATAGACTTAGGTCCAGCGCC
1 ACATCATATAGTCTTAGGTCCAGCGCC
*
156724 ACATCATATACATCATATAGATTTAGGTCCAGCGCC
1 ACATCATATA-GTC--------TTAGGTCCAGCGCC
*
156760 ACATCATATACATCATATAGATTTAGGTCCAGCGCC
1 ACATCATATA-GTC--------TTAGGTCCAGCGCC
156796 ACATCATATAGAT-TTAGGTCCAGCGCC
1 ACATCATATAG-TCTTAGGTCCAGCGCC
*
156823 ACATCATATAGAT-TTAGGTCCAGTGCC
1 ACATCATATAG-TCTTAGGTCCAGCGCC
* * *
156850 ACATCATATACATCATATAGATTTAGGTCCA-CATCATAT
1 ACATCATATA-GTC--------TTAGGTCCAGC-GC---C
*
156889 ACATCATATAGTCTTGGGTCCAGCGCC
1 ACATCATATAGTCTTAGGTCCAGCGCC
* * *
156916 ACATCATATACATCATATAGATTTAGGTTCAACGCC
1 ACATCATATA-GTC--------TTAGGTCCAGCGCC
156952 ACATCATATAGTCTTAGGTCCAGCGCC
1 ACATCATATAGTCTTAGGTCCAGCGCC
*
156979 ACATCATATAGAT-TTAGGTCCAGCGCT
1 ACATCATATAG-TCTTAGGTCCAGCGCC
* *
157006 ACATCATATAGACTTAGGTTCAGCGCC
1 ACATCATATAGTCTTAGGTCCAGCGCC
157033 ACATCATAT-GAT-TTAGGTCCAGCGCC
1 ACATCATATAG-TCTTAGGTCCAGCGCC
157059 ACATCATATA
1 ACATCATATA
157069 CATCATATAG
Statistics
Matches: 384, Mismatches: 31, Indels: 124
0.71 0.06 0.23
Matches are distributed among these distances:
26 23 0.06
27 169 0.44
28 6 0.02
30 9 0.02
31 3 0.01
33 14 0.04
34 3 0.01
35 6 0.02
36 130 0.34
38 4 0.01
39 10 0.03
42 7 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
ACATCATATAGTCTTAGGTCCAGCGCC
Found at i:156733 original size:63 final size:63
Alignment explanation
Indices: 156634--157041 Score: 455
Period size: 63 Copynumber: 6.6 Consensus size: 63
156624 CACATCATAT
* * *
156634 ACATCATATAGTCTTAGGTCCAGCGCCACATCATATACATCATATAGACTTAGGTCCAGTGCC
1 ACATCATATAGACTTAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGCGCC
156697 ACATCATATAGACTTAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGCGCC
1 ACATCATATAGACTTAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGCGCC
* * ** * * ***
156760 ACATCATATACATCATATAGATTTAG-GTC-CAGC-GCCACATCATATAGATTTAGGTCCAGCGC
1 ACATCATATAGA-C-T-TAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGCGC
156822 C
63 C
* * *
156823 ACATCATATAGATTTAGGTCCAGTGCCACATCATATACATCATATAGATTTAGGTCCA-CATCAT
1 ACATCATATAGACTTAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGC-GC--
*
156887 AT
63 -C
* * * *
156889 ACATCATATAGTCTTGGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTTCAACGCC
1 ACATCATATAGACTTAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGCGCC
* *
156952 ACATCATATAGTCTTAGGTCCAGCG---C--C----ACATCATATAGATTTAGGTCCAGCGCT
1 ACATCATATAGACTTAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGCGCC
*
157006 ACATCATATAGACTTAGGTTCAGCGCCACATCATAT
1 ACATCATATAGACTTAGGTCCAGCGCCACATCATAT
157042 GATTTAGGTC
Statistics
Matches: 288, Mismatches: 37, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
54 47 0.16
57 1 0.00
58 1 0.00
59 1 0.00
60 7 0.02
61 3 0.01
62 4 0.01
63 156 0.54
64 4 0.01
65 3 0.01
66 60 0.21
67 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (63 bp):
ACATCATATAGACTTAGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTCCAGCGCC
Found at i:156851 original size:54 final size:54
Alignment explanation
Indices: 156769--157068 Score: 275
Period size: 54 Copynumber: 5.2 Consensus size: 54
156759 CACATCATAT
156769 ACATCATATAGATTTAGGTCCAGCGCCACATCATATAGATTTAGGTCCAGCGCC
1 ACATCATATAGATTTAGGTCCAGCGCCACATCATATAGATTTAGGTCCAGCGCC
* *
156823 ACATCATATAGATTTAGGTCCAGTGCCACATCATATACATCATATAGATTTAGGTCCA-CATCAT
1 ACATCATATAGATTTAGGTCCA--G-CGC--C----ACATCATATAGATTTAGGTCCAGC-GC--
*
156887 AT
54 -C
* * *
156889 ACATCATATAG-TCTTGGGTCCAGCGCCACATCATATACATCATATAGATTTAGGTTCAACGCC
1 ACATCATATAGAT-TTAGGTCCAGCG---C--C----ACATCATATAGATTTAGGTCCAGCGCC
*
156952 ACATCATATAG-TCTTAGGTCCAGCGCCACATCATATAGATTTAGGTCCAGCGCT
1 ACATCATATAGAT-TTAGGTCCAGCGCCACATCATATAGATTTAGGTCCAGCGCC
* *
157006 ACATCATATAGACTTAGGTTCAGCGCCACATCATAT-GATTTAGGTCCAGCGCC
1 ACATCATATAGATTTAGGTCCAGCGCCACATCATATAGATTTAGGTCCAGCGCC
157059 ACATCATATA
1 ACATCATATA
157069 CATCATATAG
Statistics
Matches: 212, Mismatches: 15, Indels: 39
0.80 0.06 0.15
Matches are distributed among these distances:
53 26 0.12
54 79 0.37
56 1 0.00
57 2 0.01
58 1 0.00
59 1 0.00
60 1 0.00
62 1 0.00
63 48 0.23
64 1 0.00
65 1 0.00
66 49 0.23
67 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (54 bp):
ACATCATATAGATTTAGGTCCAGCGCCACATCATATAGATTTAGGTCCAGCGCC
Found at i:157086 original size:36 final size:35
Alignment explanation
Indices: 157033--157139 Score: 126
Period size: 35 Copynumber: 3.0 Consensus size: 35
157023 GTTCAGCGCC
157033 ACATCATATGATTTAGGTCCAGCGCCACATCATAT
1 ACATCATATGATTTAGGTCCAGCGCCACATCATAT
* *
157068 ACATCATATAGATTTAGGT-CAGCACCTCATCATAT
1 ACATCATAT-GATTTAGGTCCAGCGCCACATCATAT
* * * * *
157103 ACATCATATTGACTTAGCTCCAACGTCATATCATAT
1 ACATCATA-TGATTTAGGTCCAGCGCCACATCATAT
157139 A
1 A
157140 GTCTCTGGTC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
35 38 0.63
36 22 0.37
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
ACATCATATGATTTAGGTCCAGCGCCACATCATAT
Found at i:158018 original size:44 final size:43
Alignment explanation
Indices: 157935--158019 Score: 125
Period size: 44 Copynumber: 2.0 Consensus size: 43
157925 TCTATAGGGC
* * *
157935 CATATAGTTGCATATTCAGTAGGTGACATAGTTGCATATTCGT
1 CATACAGTTGCATATTCAATAGGTCACATAGTTGCATATTCGT
*
157978 CATACAGTTGCATATTCAATAAGGTCATATAGTTGCATATTC
1 CATACAGTTGCATATTCAAT-AGGTCACATAGTTGCATATTC
158020 AAAAGGGGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 18 0.49
44 19 0.51
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (43 bp):
CATACAGTTGCATATTCAATAGGTCACATAGTTGCATATTCGT
Found at i:158032 original size:26 final size:26
Alignment explanation
Indices: 157976--159769 Score: 1817
Period size: 26 Copynumber: 69.7 Consensus size: 26
157966 TTGCATATTC
* * *
157976 GTCATACAGTTGCATATTCAATA-AG
1 GTCATATAGTTGCATATTCAGTAGGG
**
158001 GTCATATAGTTGCATATTCAAAAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158027 GTCATATAGTTGCATATTGAGTA--G
1 GTCATATAGTTGCATATTCAGTAGGG
* * * *
158051 GACAATATAGTTGCAAATTCAATA-GA
1 GTC-ATATAGTTGCATATTCAGTAGGG
*
158077 GTCATATAGTTGCATATTCAGTA-TG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158102 ATCCATATAGTTGCATATTCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
158128 GCCATATAGTTGCATATTCAATAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** *
158154 ACCATACAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * * * *
158180 ACCATACAGTTACATATTTAGTATGG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158206 GTCAAATAGTTGCATGTTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158231 ATCCATATAGTTGAATATTCAGTAGGG
1 GT-CATATAGTTGCATATTCAGTAGGG
*
158258 GTCATATAGTTGCATAATCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158283 ATCCATATAGTTGCATATTCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
158309 GTCATATAGTTGCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158334 GTCATTTAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** *
158360 ACCATACAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158386 GTCAAATAGTTACATATTC-GATA-GG
1 GTCATATAGTTGCATATTCAG-TAGGG
*
158411 ATCCATATAGTT--ATATTCAGTAGGG
1 GT-CATATAGTTGCATATTCAGTAGGG
*
158436 GTCATGTAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * *
158462 ACCATACAATTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * * * *
158488 ACCATACAATTACATATTCAGTAAGG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158514 GTCAAATAGTTCCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158539 ATCCATATAGTTGCATATTCAGCAGGG
1 GT-CATATAGTTGCATATTCAGTAGGG
*
158566 GTCATGTAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * * *
158592 ACCATACATTTACATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158618 GTCAAATAGTTGCATATTCAGTA-AG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158643 ATCCATATAGTTGCATATTCAGTAGGG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
158670 GTCATATAGTTACATAATCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158695 ATCCATATAGTTGAATATTCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
158721 GTCATATAGTAGCATATTCAGTA-AG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158746 GTCATTTAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** *
158772 ACCATACAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * *
158798 ACCATACAGTTACATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158824 GTCAAATAGTTGCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158849 ATCCATATAGTTGCATATTCAGTAGGG
1 GT-CATATAGTTGCATATTCAGTAGGG
* **
158876 GTCATGTAGTTGTTTATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** *
158902 ACCATATAGTTACATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
*
158928 GTCAAATAGTTGCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
158953 ATCCATATAGTTGCATATTCAGTAGTG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
158980 GTCATATAGTTACATAATCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* * *
159005 ATCCTTATAGTTGAATATTCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
*
159031 GTCATATAGTTGCATATTCAGTA-AG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159056 GTCATTTAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * *
159082 ACCATACAGTTGCATATTTAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * *
159108 ACCATACAGTTACATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159134 GTCAAATAGTTGCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159159 ATCCATATAGTTGCATATTCAGTAGGG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
159186 GTCATGTAGTTGTATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** *
159212 ACCATATAGTTACATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159238 GTCAAATAGTTGCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
159263 ATCCATATAGTTGCATATTCAGTAGTG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
159290 GTCATATAGTTACATAATCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
159315 ATCCATATAGTTGAATATTCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
* * *
159341 GTCATATAATTGCATATCCAGTA-AG
1 GTCATATAGTTGCATATTCAGTAGGG
* * *
159366 GTCATTTAGTTGCAAATTCAGTA-TG
1 GTCATATAGTTGCATATTCAGTAGGG
159391 GTCATATAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** *
159417 ACCATACAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * *
159443 ACCATACAGTTACATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159469 GTCAAATAGTTGCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159494 ATCCATATAGTTGCATATTCAGTAGGG
1 GT-CATATAGTTGCATATTCAGTAGGG
*
159521 GTCATGTAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** *
159547 ACCATACAGTTGCATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
** * *
159573 ACCATATAATTACATATTCAGTAGGG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159599 GTCAAATAGTTGCATATTCAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
159624 ATCCATATAGTTGCATAATCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
159650 ATCCATATAGTTGCATAGTCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
* *
159676 ATCCATGTAGTTGCATATTCAGTA-GG
1 GT-CATATAGTTGCATATTCAGTAGGG
*
159702 GTCATATAGTTGCATATTTAGTA-GG
1 GTCATATAGTTGCATATTCAGTAGGG
*
159727 GTCATATAGTTGCATATTTAGT-GGG
1 GTCATATAGTTGCATATTCAGTAGGG
* *
159752 GCCCATATAGGTGCATAT
1 G-TCATATAGTTGCATAT
159770 ATTTCCATAT
Statistics
Matches: 1493, Mismatches: 238, Indels: 75
0.83 0.13 0.04
Matches are distributed among these distances:
24 19 0.01
25 355 0.24
26 1098 0.74
27 21 0.01
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (26 bp):
GTCATATAGTTGCATATTCAGTAGGG
Found at i:158217 original size:52 final size:51
Alignment explanation
Indices: 157978--160010 Score: 2036
Period size: 52 Copynumber: 39.3 Consensus size: 51
157968 GCATATTCGT
* * * ** **
157978 CATACAGTTGCATATTCAATAAGGTCATATAGTTGCATATTCAAAAGGGGT
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
* * * * * *
158029 CATATAGTTGCATATTGAGTA-GGACAATATAGTTGCAAATTCAATAGAG-T
1 CATATAGTTGCATATTCAGTAGGGTC-ATATAGTTGCATATTCAGTAGGGAC
* *
158079 CATATAGTTGCATATTCAGTATGATCCATATAGTTGCATATTCAGTAGGG-C
1 CATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATATTCAGTAGGGAC
* * *
158130 CATATAGTTGCATATTCAATAGGGACCATACAGTTGCATATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * * * *
158182 CATACAGTTACATATTTAGTATGGGTCAAATAGTTGCATGTTCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* *
158234 CATATAGTTGAATATTCAGTAGGGGTCATATAGTTGCATAATCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
*
158286 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGG-T
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
* * * **
158336 CATTTAGTTGCATATTCAGTAGGGACCATACAGTTGCATATTCAGTAGGGGT
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * * **
158388 CAAATAGTTACATATTC-GATAGGATCCATATAGTT--ATATTCAGTAGGGGT
1 CATATAGTTGCATATTCAG-TAGGGT-CATATAGTTGCATATTCAGTAGGGAC
* * * *
158438 CATGTAGTTGCATATTCAGTAGGGACCATACAATTGCATATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * * * *
158490 CATACAATTACATATTCAGTAAGGGTCAAATAGTTCCATATTCAGTA-GGATC
1 CATATAGTTGCATATTCAGT-AGGGTCATATAGTTGCATATTCAGTAGGGA-C
* *
158542 CATATAGTTGCATATTCAGCAGGGGTCATGTAGTTGCATATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGAC
* * * * *
158594 CATACATTTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTA-AGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* *
158646 CATATAGTTGCATATTCAGTAGGGGTCATATAGTTACATAATCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* * * *
158698 CATATAGTTGAATATTCAGTAGGGTCATATAGTAGCATATTCAGTAAGG-T
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
* * *
158748 CATTTAGTTGCATATTCAGTAGGGACCATACAGTTGCATATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * *
158800 CATACAGTTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* **
158852 CATATAGTTGCATATTCAGTAGGGGTCATGTAGTTGTTTATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGAC
* *
158904 CATATAGTTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* *
158956 CATATAGTTGCATATTCAGTAGTGGTCATATAGTTACATAATCAGTA-GGATC
1 CATATAGTTGCATATTCAGTAG-GGTCATATAGTTGCATATTCAGTAGGGA-C
* * * *
159008 CTTATAGTTGAATATTCAGTAGGGTCATATAGTTGCATATTCAGTAAGG-T
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
* * * *
159058 CATTTAGTTGCATATTCAGTAGGGACCATACAGTTGCATATTTAGTAGGGAC
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * *
159110 CATACAGTTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* *
159162 CATATAGTTGCATATTCAGTAGGGGTCATGTAGTTGTATATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGAC
* *
159214 CATATAGTTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* *
159266 CATATAGTTGCATATTCAGTAGTGGTCATATAGTTACATAATCAGTA-GGATC
1 CATATAGTTGCATATTCAGTAG-GGTCATATAGTTGCATATTCAGTAGGGA-C
* * * * *
159318 CATATAGTTGAATATTCAGTAGGGTCATATAATTGCATATCCAGTAAGG-T
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
* * *
159368 CATTTAGTTGCAAATTCAGTATGGTCATATAGTTGCATATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
* * * * **
159419 CATACAGTTGCATATTCAGTAGGGACCATACAGTTACATATTCAGTAGGGGT
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * **
159471 CAAATAGTTGCATATTCAGTAGGATCCATATAGTTGCATATTCAGTAGGGGT
1 CATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATATTCAGTAGGGAC
* * *
159523 CATGTAGTTGCATATTCAGTAGGGACCATACAGTTGCATATTCAGTAGGGAC
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * *
159575 CATATAATTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTA-GGATC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* * *
159627 CATATAGTTGCATAATCAGTAGGATCCATATAGTTGCATAGTCAGTA-GGATC
1 CATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATATTCAGTAGGGA-C
* * *
159679 CATGTAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTTAGTAGGG-T
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
* * * *
159729 CATATAGTTGCATATTTAGTGGGGCCCATATAGGTGCATATATTTCCA-TATTTCGTAGGAGC
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGC--ATA-TT-CAGTA----G--GGA-C
* * *
159791 CATATAGTTGTATATTCAGTAGGGGTCATATTGCTGCATATTCAGTA-GGACC
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGA-C
* * * * * *
159843 CATATAGCTGCATATTCTGTAGGGCCCATATAGCTCCATATTCAATAGGG-C
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGAC
* * * * *
159894 CACATTGTCGCATATTCAGTAAGGGTCATATAGTTGCATATTCAATAGGGCAT
1 CATATAGTTGCATATTCAGT-AGGGTCATATAGTTGCATATTCAGTAGGG-AC
** * * * **
159947 CATATAACT-CATATTCCA-TATGAGTCATATAGTTGCATATTTAGTGGGGGT
1 CATATAGTTGCATATT-CAGTA-GGGTCATATAGTTGCATATTCAGTAGGGAC
159998 CATATAGTTGCAT
1 CATATAGTTGCAT
160011 TTGCTTTGTA
Statistics
Matches: 1665, Mismatches: 248, Indels: 137
0.81 0.12 0.07
Matches are distributed among these distances:
50 193 0.12
51 386 0.23
52 1003 0.60
53 36 0.02
54 4 0.00
55 1 0.00
58 3 0.00
59 4 0.00
60 5 0.00
62 27 0.02
63 3 0.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (51 bp):
CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGAC
Found at i:159772 original size:78 final size:75
Alignment explanation
Indices: 157888--160010 Score: 2044
Period size: 78 Copynumber: 27.5 Consensus size: 75
157878 AAATTGGTAG
* * *
157888 TATAGTTGCATATTCAGTAGGTTCATATAG-TGTATATTCTA-TAGGGCCATATAGTTGCATATT
1 TATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTC-AGTAGGGTCATATAGTTGCATATT
*
157951 CAGTA-GGTGA
65 CAGTAGGGTCA
* * * *
157961 CATAGTTGCATATTC------GTCATACAGTTGCATATTCAATAAGGTCATATAGTTGCATATTC
1 TATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTC
**
158020 AAAAGGGGTCA
66 AGTA-GGGTCA
* * * * *
158031 TATAGTTGCATATTGAGTA-GGACAATATAGTTGCAAATTCAATAGAGTCATATAGTTGCATATT
1 TATAGTTGCATATTCAGTAGGGTC-ATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATT
* *
158095 CAGTATGATCCA
65 CAGTAGGGT-CA
* * * *
158107 TATAGTTGCATATTCAGTAGGGCCATATAGTTGCATATTCAATAGGGACCATACAGTTGCATATT
1 TATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATT
*
158172 CAGTAGGGACCA
65 CAGTAGGG-TCA
* * * * * * *
158184 TACAGTTACATATTTAGTATGGGTCAAATAGTTGCATGTTCAGTAGGATCCATATAGTTGAATAT
1 TATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
158249 TCAGTAGGGGTCA
64 TCAGTA-GGGTCA
* *
158262 TATAGTTGCATAATCAGTAGGATCCATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATT
1 TATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATT
158327 CAGTAGGGTCA
65 CAGTAGGGTCA
* * * * *
158338 TTTAGTTGCATATTCAGTAGGGACCATACAGTTGCATATTCAGTAGGGGTCAAATAGTTACATAT
1 TATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATAT
*
158403 TC-GATAGGATCCA
64 TCAG-TAGGGT-CA
* * * *
158416 TATAGTT--ATATTCAGTAGGGGTCATGTAGTTGCATATTCAGTAGGGACCATACAATTGCATAT
1 TATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATAT
*
158479 TCAGTAGGGACCA
64 TCAGTAGGG-TCA
* * * * * *
158492 TACAATTACATATTCAGTAAGGGTCAAATAGTTCCATATTCAGTAGGATCCATATAGTTGCATAT
1 TATAGTTGCATATTCAGT-AGGGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
*
158557 TCAGCAGGGGTCA
64 TCAGTA-GGGTCA
* * * * * *
158570 TGTAGTTGCATATTCAGTAGGGACCATACATTTACATATTCAGTAGGGGTCAAATAGTTGCATAT
1 TATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATAT
* *
158635 TCAGTAAGATCCA
64 TCAGTAGGGT-CA
* * * *
158648 TATAGTTGCATATTCAGTAGGGGTCATATAGTTACATAATCAGTAGGATCCATATAGTTGAATAT
1 TATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
158713 TCAGTAGGGTCA
64 TCAGTAGGGTCA
* * * * *
158725 TATAGTAGCATATTCAGTAAGGTCATTTAGTTGCATATTCAGTAGGGACCATACAGTTGCATATT
1 TATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATT
*
158790 CAGTAGGGACCA
65 CAGTAGGG-TCA
* * * *
158802 TACAGTTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTAGGATCCATATAGTTGCATAT
1 TATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
158867 TCAGTAGGGGTCA
64 TCAGTA-GGGTCA
* ** * * *
158880 TGTAGTTGTTTATTCAGTAGGGACCATATAGTTACATATTCAGTAGGGGTCAAATAGTTGCATAT
1 TATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATAT
*
158945 TCAGTAGGATCCA
64 TCAGTAGGGT-CA
* * * * *
158958 TATAGTTGCATATTCAGTAGTGGTCATATAGTTACATAATCAGTAGGATCCTTATAGTTGAATAT
1 TATAGTTGCATATTCAGTAG-GGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
159023 TCAGTAGGGTCA
64 TCAGTAGGGTCA
* * * *
159035 TATAGTTGCATATTCAGTAAGGTCATTTAGTTGCATATTCAGTAGGGACCATACAGTTGCATATT
1 TATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATT
* *
159100 TAGTAGGGACCA
65 CAGTAGGG-TCA
* * * *
159112 TACAGTTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTAGGATCCATATAGTTGCATAT
1 TATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
159177 TCAGTAGGGGTCA
64 TCAGTA-GGGTCA
* * * * *
159190 TGTAGTTGTATATTCAGTAGGGACCATATAGTTACATATTCAGTAGGGGTCAAATAGTTGCATAT
1 TATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATAT
*
159255 TCAGTAGGATCCA
64 TCAGTAGGGT-CA
* * * *
159268 TATAGTTGCATATTCAGTAGTGGTCATATAGTTACATAATCAGTAGGATCCATATAGTTGAATAT
1 TATAGTTGCATATTCAGTAG-GGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
159333 TCAGTAGGGTCA
64 TCAGTAGGGTCA
* * * * * *
159345 TATAATTGCATATCCAGTAAGGTCATTTAGTTGCAAATTCAGTATGGTCATATAGTTGCATATTC
1 TATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTC
*
159410 AGTAGGGACCA
66 AGTAGGG-TCA
* * * * *
159421 TACAGTTGCATATTCAGTAGGGACCATACAGTTACATATTCAGTAGGGGTCAAATAGTTGCATAT
1 TATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATAT
*
159486 TCAGTAGGATCCA
64 TCAGTAGGGT-CA
* * *
159499 TATAGTTGCATATTCAGTAGGGGTCATGTAGTTGCATATTCAGTAGGGACCATACAGTTGCATAT
1 TATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATAT
*
159564 TCAGTAGGGACCA
64 TCAGTAGGG-TCA
* * * * *
159577 TATAATTACATATTCAGTAGGGGTCAAATAGTTGCATATTCAGTAGGATCCATATAGTTGCATAA
1 TATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATAT
*
159642 TCAGTAGGATCCA
64 TCAGTAGGGT-CA
* * *
159655 TATAGTTGCATAGTCAGTAGGATCCATGTAGTTGCATATTCAGTAGGGTCATATAGTTGCATATT
1 TATAGTTGCATATTCAGTAGGGT-CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATT
*
159720 TAGTAGGGTCA
65 CAGTAGGGTCA
* * * * *
159731 TATAGTTGCATATTTAGTGGGGCCCATATAGGTGCATATATTTCCATATTTCGTAGGAGCCATAT
1 TATAGTTGCATATTCAGTAGGG-TCATATAGTTGC--ATA-TT-C--A----GTAGG-GTCATAT
*
159796 AGTTGTATATTCAGTAGGGGTCA
54 AGTTGCATATTCAGTA-GGGTCA
* * ** * * * * *
159819 TATTGCTGCATATTCAGTAGGACCCATATAGCTGCATATTCTGTAGGGCCCATATAGCTCCATAT
1 TATAGTTGCATATTCAGTAGG-GTCATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATAT
* *
159884 TCAATAGGGCCA
64 TCAGTAGGGTCA
* * * * **
159896 CATTGTCGCATATTCAGTAAGGGTCATATAGTTGCATATTCAATAGGGCATCATATAACT-CATA
1 TATAGTTGCATATTCAGT-AGGGTCATATAGTTGCATATTCAGTAGGG--TCATATAGTTGCATA
*
159960 TTCCA-TATGAGTCA
63 TT-CAGTA-GGGTCA
* *
159974 TATAGTTGCATATTTAGTGGGGGTCATATAGTTGCAT
1 TATAGTTGCATATTCAGT-AGGGTCATATAGTTGCAT
160011 TTGCTTTGTA
Statistics
Matches: 1686, Mismatches: 279, Indels: 165
0.79 0.13 0.08
Matches are distributed among these distances:
67 8 0.00
68 31 0.02
70 17 0.01
73 14 0.01
75 30 0.02
76 338 0.20
77 312 0.19
78 835 0.50
79 34 0.02
80 1 0.00
82 1 0.00
84 1 0.00
85 2 0.00
86 8 0.00
87 20 0.01
88 34 0.02
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (75 bp):
TATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTC
AGTAGGGTCA
Found at i:159805 original size:26 final size:26
Alignment explanation
Indices: 159775--160010 Score: 146
Period size: 26 Copynumber: 9.1 Consensus size: 26
159765 CATATATTTC
*
159775 CATATTTC-GTAGGAGCCATATAGTTG
1 CATA-TTCAGTAGGAGCCATATAGCTG
* * * *
159801 TATATTCAGTAGGGGTCATATTGCTG
1 CATATTCAGTAGGAGCCATATAGCTG
*
159827 CATATTCAGTAGGACCCATATAGCTG
1 CATATTCAGTAGGAGCCATATAGCTG
* *
159853 CATATTCTGTAGG-GCCCATATAGCTC
1 CATATTCAGTAGGAG-CCATATAGCTG
* * *
159879 CATATTCAATAGG-GCCACATTG-TCG
1 CATATTCAGTAGGAGCCATATAGCT-G
* *
159904 CATATTCAGTAAGG-GTCATATAGTTG
1 CATATTCAGT-AGGAGCCATATAGCTG
* *
159930 CATATTCAATAGG-GCATCATATAACT-
1 CATATTCAGTAGGAGC--CATATAGCTG
* * *
159956 CATATTCCA-TATGAGTCATATAGTTG
1 CATATT-CAGTAGGAGCCATATAGCTG
* * * * *
159982 CATATTTAGTGGGGGTCATATAGTTG
1 CATATTCAGTAGGAGCCATATAGCTG
160008 CAT
1 CAT
160011 TTGCTTTGTA
Statistics
Matches: 165, Mismatches: 34, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.01
25 30 0.18
26 123 0.75
27 11 0.07
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (26 bp):
CATATTCAGTAGGAGCCATATAGCTG
Found at i:159821 original size:62 final size:61
Alignment explanation
Indices: 159704--159831 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 61
159694 TCAGTAGGGT
* * * *
159704 CATATAGTTGCATATTTAGTAGGGTCATATAGTTGCATATTTAGTGGGGCCCATATAGGTG
1 CATATAGTTCCATATTTAGTAGGGCCATATAGTTGCATATTCAGTGGGGCCCATATAGCTG
* * * * *
159765 CATATATTTCCATATTTCGTAGGAGCCATATAGTTGTATATTCAGTAGGGG-TCATATTGCTG
1 CATATAGTTCCATATTTAGTAGG-GCCATATAGTTGCATATTCAGT-GGGGCCCATATAGCTG
159827 CATAT
1 CATAT
159832 TCAGTAGGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
61 20 0.36
62 32 0.57
63 4 0.07
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.38
Consensus pattern (61 bp):
CATATAGTTCCATATTTAGTAGGGCCATATAGTTGCATATTCAGTGGGGCCCATATAGCTG
Found at i:161618 original size:333 final size:332
Alignment explanation
Indices: 161007--162264 Score: 1788
Period size: 333 Copynumber: 3.8 Consensus size: 332
160997 GCTCAGCCAC
* * *
161007 ATTT-GATTTAAGTATTTGTTTTTACGAGCATCTAAATCATA-TTTCGATTTAATAAGAAATTAA
1 ATTTGGATTTAAGTATTTGTTTTGACGAGCATCTGAATCA-AGTTTCGATTTAATCAGAAATTAA
* * * * * *
161070 TTCGGTTAAAAATAGAAAAAACGATATTTGAAGCCTGAAAAGCCATTCAATCTTCTTGGCGTTAA
65 TTCCGCTAAAAATTGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGA
* * *
161135 ATAATATATATTTTTATGAGTATTGCGGCCAAAAATTGAGGAAAAATTTTCGGGTTTGTTTTTG-
130 ATAATATAT-TTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTCGAGTTAGTTTTTGC
* * *
161199 AAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGGC
194 AAAAA-TTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTGACTAAAAGCGCATTCCGGAGAC
*
161264 CCGGCTTAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAA
258 CCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAA
161329 GTCTCATACA
323 GTCTCATACA
* * *
161339 ATTTGGATTTAAGGATTTGTTTTGACAAGCATCTGAATCAAGTTTCGATTTAATCAGAAATTCAT
1 ATTTGGATTTAAGTATTTGTTTTGACGAGCATCTGAATCAAGTTTCGATTTAATCAGAAATTAAT
* *
161404 TCCGCTAAAAATTGAAAAAACGATATTAGAAGTCTGAAAAGTCTTTCAATCTTCTTGGCGTTGAA
66 TCCGCTAAAAATTGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAA
* **
161469 TAATATATTTTGTTATGAGTATTGTGGCCAAAATTTGAGGATTAATTTTCGAGTTAGTTTTTGCA
131 TAATATATTTT-TTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTCGAGTTAGTTTTTGCA
* * * *
161534 AAAATTTGGTCGAAACCGTTTACTAACTATCACGGTTTTTGACTAATAGCGCATTCCGGAGACCC
195 AAAATTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTGACTAAAAGCGCATTCCGGAGACCC
* * *
161599 GGCTCAGTTTTGTCTGATTCTTGGCGCTAAGGCTCATTGAAATATCTACATTCATCTAACCAAAT
260 GGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAGT
* *
161664 CTGATGCA
325 CTCATACA
* * * * *
161672 CTTTGGATTTAAGTATTTGTTTTTACGAGCATCTGATTTAAGTTTCGATTTAATCAGAATTTAAT
1 ATTTGGATTTAAGTATTTGTTTTGACGAGCATCTGAATCAAGTTTCGATTTAATCAGAAATTAAT
* * * * * *
161737 TCAGTTAATAATGGAAAAAACGATATTACAAGCCTGAAAAGCCTTTCTATCTTCTTGGCGTTGAA
66 TCCGCTAAAAATTGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAA
* * * * * *
161802 TAATATATTTTTTCATGAGTATTATGGCAAAAAATTGACGAAAAATTTCCGGGTTACTTTTTGCA
131 TAATATATTTTTT-ATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTCGAGTTAGTTTTTGCA
* * * *
161867 AAATTTTAGCCGAAATCGTTTACTAACAATCACTG-TTTTGGCTAAAAGCGCATTCCGGAGACCC
195 AAAATTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTGACTAAAAGCGCATTCCGGAGACCC
*
161931 GGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAGA
260 GGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAGT
161996 CTCATACA
325 CTCATACA
* * *
162004 ATTTGGA-TTAAATAATTTGTTTTGACGAGCATCTGTATCAAGTTTCGATTTAATCAAAAATTAA
1 ATTTGGATTTAAGT-ATTTGTTTTGACGAGCATCTGAATCAAGTTTCGATTTAATCAGAAATTAA
** ** *
162068 TTCCGCTAAAAATTGAAAAAACGATATTAGAATTCTGAAAAGCCTTTCAATCTTCTACGCGCTGA
65 TTCCGCTAAAAATTGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGA
*
162133 ATAATATATTTTGTTATGAGTATTGTGGCCAAAATTTGAGGAAAAATTTTCGAGTTAGTTTTTGC
130 ATAATATATTTT-TTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTCGAGTTAGTTTTTGC
* * * * *
162198 AAAAATTTGGTCCAAAATCGTTTACTAACTTTTACGGTTTTTGACTAATAGCGCATTCCGGAGAC
194 AAAAATTTAG-CCGAAATCGTTTACTAACTATCACGGTTTTTGACTAAAAGCGCATTCCGGAGAC
162263 CC
258 CC
Statistics
Matches: 810, Mismatches: 107, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
331 5 0.01
332 271 0.33
333 502 0.62
334 32 0.04
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (332 bp):
ATTTGGATTTAAGTATTTGTTTTGACGAGCATCTGAATCAAGTTTCGATTTAATCAGAAATTAAT
TCCGCTAAAAATTGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAA
TAATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTCGAGTTAGTTTTTGCAA
AAATTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTGACTAAAAGCGCATTCCGGAGACCCG
GCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAGTC
TCATACA
Done.