Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014871.1 Corchorus capsularis cultivar CVL-1 contig14892, 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: 36565
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1402 original size:12 final size:12
Alignment explanation
Indices: 1387--1420 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1377 GATTTCGACT
1387 AAAATTTCGCAA
1 AAAATTTCGCAA
* *
1399 AAAATTACCCAA
1 AAAATTTCGCAA
1411 AAAATTTCGC
1 AAAATTTCGC
1421 CCCAATTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (12 bp):
AAAATTTCGCAA
Found at i:1951 original size:328 final size:317
Alignment explanation
Indices: 768--1981 Score: 1051
Period size: 331 Copynumber: 3.7 Consensus size: 317
758 ACCCAAACAA
* * * * *
768 TTTCTCAATTCTTGGCCACAATACTCATAAAATTATATAACTCAACGCCAAAAAGGTTGAAGGGC
1 TTTCTCAATTTTTGGACACAATACTCATAAAATTATATAATTCAACGCCAAAAAGATTGAAAGGC
*
833 TTTTCACGCTTCTAATATCGTTTTTTCCTATTCTTTTCCGAATTAATTT-TCAATTAAATCGAAA
66 TTTTCACGCTTCTAATAT--TGTTTT-CTATT-TTTT-CGAATTAATTTCT-AATTAAATCGAAA
* * * *
897 ACAGATTGAGATACTCGTAAAAACAAATCTTTAAATCCAATGT-GACTGAGATTTCGTTAGATGA
125 A-AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGA-TGAGATTTGGTTAGATGA
* * * * * *
961 ATATAGATATTTCAATAAGTCTCGGCGTC-AAAAATCATGCAAAACTGAGCC-GGAACCCGGAAC
188 ATATAGATATTTCAATGAGACTTGGCG-CAAAAAATCATACAAAACTGAGCCTGGGACCCGGAAT
* * * *
1024 GTGTTTTTAGCCAAAAAC-TGTG---ATAA-TTAG-TACACAATTTTGGCT-AAAATTCACCCGA
252 GTGTTTTTAGCCAAAACCGTATGCACACAATTTCGTTA-A-AATTTT-GCTAAAAATT-ACCCG-
*
1082 AATAAT
312 AATATT
* * * *
1088 TTTCGTCAATTTTTGGCCA-AGATAATCATAAAAAATATATAATACAACGCCAAAAAGATTGAAA
1 TTTC-TCAATTTTTGGACACA-ATACTCAT-AAAATTATATAATTCAACGCCAAAAAGATTGAAA
* * *
1152 GGTTTTTCACACTTCAAATATTGTTATTC-ATTTTTTCGAATTAATTTCTAATTAAATC-AAGAT
63 GGCTTTTCACGCTTCTAATATTGTT-TTCTATTTTTTCGAATTAATTTCTAATTAAATCGAA-A-
* * * * * *
1215 ATA-ATTCAGATGCTTGTAAAAGCAAATCGTTAAATCCGATGTGGGTGCGATTTGGTTAGATGAA
125 A-AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGATGAGATTTGGTTAGATGAA
** * * * * *
1279 TATAGATATTTCAATGAGACTTGGAACCAAAAATCATACAAAACAGA-TCTGGGGCCATGGAATG
189 TATAGATATTTCAATGAGACTTGGCGCAAAAAATCATACAAAACTGAGCCTGGGACC-CGGAATG
* ** * * * *
1343 CGTTTTTAGTAAAAACCCGTGATGGTCGGTACACGATTTCGACTAAAATTTCGCAAAAAATTACC
253 TGTTTTTAGCCAAAA-CCGT-AT-G-C---ACACAATTTCG-TTAAAATTTTGCTAAAAATTACC
* *
1408 CAAAAAATT
310 C-GAATATT
** * * * * * *
1417 TCGCCCCAA-TTTTAGATCACAATACTCATAAAATATATATAATTCAACTCCAGAAATATTGAAG
1 T-TTCTCAATTTTTGGA-CACAATACTCATAAAAT-TATATAATTCAACGCCAAAAAGATTGAAA
* *
1481 GGCTTTTCACGCTTCTAATATTGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATTGAAAC
63 GGCTTTTCACGCTTCTAATATTG-TTTT-CTATTTTTTCGAATTAATTTCTAATTAAATCGAAA-
* * * *
1546 AAGATTCAGATGTTCGTAAAAACAAATCCTTAAATCCAACGTGGATGAGATTTTGTTAGATAAAT
125 AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGATGAGATTTGGTTAGATGAAT
* * * * * * * *
1611 ATAGACATTTCAAGGAGTCTTGGTGCAAAAAATCATACAAAACTGAGCCTGGGTCCCGAAATATT
190 ATAGATATTTCAATGAGACTTGGCGCAAAAAATCATACAAAACTGAGCCTGGGACCCGGAATGTG
*
1676 TTTTTAGCCAAATACCGTCATGCACACAATTTCGTTTGAAATTTTG-TAAAAATTGACCCGAATG
255 TTTTTAGCCAAA-ACCGT-ATGCACACAATTTCG-TTAAAATTTTGCTAAAAATT-ACCCGAAT-
1740 AGTT
315 A-TT
* * * *
1744 TTTCTCAATTTTTGGACACGATACTTATAAAAATTTTATAATTCAACACCAAAAAGATTGAAAGG
1 TTTCTCAATTTTTGGACACAATACTCAT-AAAATTATATAATTCAACGCCAAAAAGATTGAAAGG
* * * *
1809 CTATTCACGCTTCTAATATCAGTTTTCTATTTTCTTTTCGAAATAATTCCTAATTAAATCGAAAG
65 CTTTTCACGCTTCTAATAT-TGTTTTCTA--TT-TTTTCGAATTAATTTCTAATTAAATCGAAA-
* * * * * *
1874 ATGATTCAGATGCTCGTAAAAACAATTCCTTAAATCCAATGTGGTTAAGATTTGGTTAGACGGAT
125 AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGATGAGATTTGGTTAGATGAAT
* * *
1939 ATAAATATTTCAATGAGACTTGGCGCAAAGAATCATGCAAAAC
190 ATAGATATTTCAATGAGACTTGGCGCAAAAAATCATACAAAAC
1982 ATATTAGGAG
Statistics
Matches: 713, Mismatches: 134, Indels: 86
0.76 0.14 0.09
Matches are distributed among these distances:
316 4 0.01
317 113 0.16
318 25 0.04
319 4 0.01
320 10 0.01
321 23 0.03
322 48 0.07
325 12 0.02
326 85 0.12
327 17 0.02
328 126 0.18
329 72 0.10
330 21 0.03
331 141 0.20
332 12 0.02
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (317 bp):
TTTCTCAATTTTTGGACACAATACTCATAAAATTATATAATTCAACGCCAAAAAGATTGAAAGGC
TTTTCACGCTTCTAATATTGTTTTCTATTTTTTCGAATTAATTTCTAATTAAATCGAAAAAGATT
CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGATGAGATTTGGTTAGATGAATATAGAT
ATTTCAATGAGACTTGGCGCAAAAAATCATACAAAACTGAGCCTGGGACCCGGAATGTGTTTTTA
GCCAAAACCGTATGCACACAATTTCGTTAAAATTTTGCTAAAAATTACCCGAATATT
Found at i:2178 original size:659 final size:648
Alignment explanation
Indices: 768--2199 Score: 1597
Period size: 659 Copynumber: 2.2 Consensus size: 648
758 ACCCAAACAA
* * * *
768 TTTCTCAATTCTTGGCCACAATACTCAT-AAAATTATATAACTCAACGCCAAAAAGGTTGAAGGG
1 TTTC-CAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGTTTGAAGGG
832 CTTTTCACGCTTCTAATATCGTTTTTTCCTATTCTTTTCCGAATTAATTT-TCAATTAAATCGAA
65 CTTTTCACGCTTCTAATATCG-TTTTTCCTATT-TTTTCCGAATTAATTTCT-AATTAAATCGAA
* * * *
896 AACAGATTGAGATACTCGTAAAAACAAATCTTTAAATCCAATGTGACTGAGATTTCGTTAGATGA
127 AACAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAACGTGACTGAGATTTCGTTAGATAA
* * * * *
961 ATATAGATATTTCAATAAGTCTCGGCGTCAAAAATCATGCAAAACTGAGCCGGAACCCGGAACGT
192 ATATAGACATTTCAAGAAGTCTCGGCGTCAAAAATCATACAAAACTGAGCCGGAACCCGAAACAT
* *
1026 GTTTTTAGCCAAAAACTGTGATAATTAGTACACAATTTTGGCTAAAATTCACCCGAAATAATTTT
257 GTTTTTAGCCAAAAACTATGACAATTAGTACACAATTTTGGCTAAAATTCACCCGAAATAATTTT
* * *
1091 CGTCAATTTTTGGCCAAGATAATCATAAAAAATATATAATACAACGCCAAAAAGATTGAAAGGTT
322 CGTCAATTTTTGGACAAGATAATCATAAAAAATATATAATACAACACCAAAAAGATTGAAAGGCT
* * * * *
1156 TTTCACACTTCAAATATTGTTATTCATTTTTTCGAATTAATTTCTAATTAAATCAAGATATAATT
387 ATTCACACTTCAAATATAGTTATTCATTTTTTCGAAATAATTCCTAATTAAATCAAGAGATAATT
* * * * ** * *
1221 CAGATGCTTGTAAAAGCAAATCGTTAAATCCGATGTGGGTGCGATTTGGTTAGATGAATATAGAT
452 CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTAAGATTTGGTTAGACGAATATAAAT
* ** * *
1286 ATTTCAATGAGACTTGGAACCAAAAATCATACAAAACAGATCTGGGGCCATGGAATGCGTTTTTA
517 ATTTCAATGAGACTTGG-ACCAAAAATCATACAAAACAGATCTGGAGCCACAGAACGCATTTTTA
** * * *
1351 GTAAAAACCCGTGATGGTCGGTACACGATTTCGACTAAAATTTCGCAAAAAATTACCCAAAAAAT
581 GTAAAAACCAATGATGGTCAGTACACGATTTCGACTAAAATTTCGCAAAAAATGACACAAAAAAT
1416 TTC
646 TTC
*** * * * * *
1419 GCCCCAA-TTTTAGATCACAATACTCATAAAATATATATAATTCAACTCCAGAAA-TATTGAAGG
1 TTTCCAATTTTTAG-CCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGT-TTGAAGG
* *
1482 GCTTTTCACGCTTCTAATATTGTTTTTCCTA-TTTTTCCGAATTAATTTCTAATTAAATTG-AAA
64 GCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAAA
** *
1545 CAAGATTCAGATGTTCGTAAAAACAAATCCTTAAATCCAACGTGGA-TGAGATTTTGTTAGATAA
129 C-AGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAACGT-GACTGAGATTTCGTTAGATAA
* * * ** *
1609 ATATAGACATTTCAAGGAGTCTTGGTG-CAAAAAATCATACAAAACTGAGCCTGGGTCCCGAAAT
192 ATATAGACATTTCAAGAAGTCTCGGCGTC-AAAAATCATACAAAACTGAGCC-GGAACCCGAAAC
* * * ** *
1673 ATTTTTTTAGCCAAATACCGTCATGCACACAATTTCGTTTGA-AATTTT-G-TAAAAATTGACCC
255 ATGTTTTTAGCCAAA-AAC-T-ATG---ACAA-TTAG-TACACAATTTTGGCT-AAAATTCACCC
* * * * * * *
1735 G-AATGAGTTTTTC-TCAATTTTTGGACACGATACTTATAAAAATTTTATAATTCAACACCAAAA
311 GAAAT-A-ATTTTCGTCAATTTTTGGACAAGATAATCATAAAAAATATATAATACAACACCAAAA
* *
1798 AGATTGAAAGGCTATTCACGCTTCTAATATCAGTT-TTCTATTTTCTTTTCGAAATAATTCCTAA
374 AGATTGAAAGGCTATTCACACTTCAAATAT-AGTTATTC-A--TT-TTTTCGAAATAATTCCTAA
* * *
1862 TTAAATCGAA-AGATGATTCAGATGCTCGTAAAAACAATTCCTTAAATCCAATGTGGTTAAGATT
434 TTAAATC-AAGAGATAATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTAAGATT
* * *
1926 TGGTTAGACGGATATAAATATTTCAATGAGACTTGG-CGCAAAGAATCATGCAAAACATAT-TAG
498 TGGTTAGACGAATATAAATATTTCAATGAGACTTGGAC-CAAA-AATCATACAAAACAGATCT-G
* * * *
1989 GAGCCACAGAACGCATTTTTAGCTAAAAA-CAATGATGGTTAGTATACGATTTTGGCTAAAATTT
560 GAGCCACAGAACGCATTTTTAG-TAAAAACCAATGATGGTCAGTACACGATTTCGACTAAAATTT
* **
2053 TGC-AAAAATGACACGGAAAATTTC
624 CGCAAAAAATGACACAAAAAATTTC
* * *
2077 TTTCCAATTTTTTGCCACAAGACTCATAAAAAATATATAACTCAACGCCAAAAAGTTTGGAGGGC
1 TTTCCAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGTTTGAAGGGC
* **
2142 TTTTCAGGCTTCTAATATCGGGTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATC
66 TTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATC
2200 CTTAAATCCA
Statistics
Matches: 645, Mismatches: 104, Indels: 56
0.80 0.13 0.07
Matches are distributed among these distances:
647 5 0.01
648 120 0.19
649 29 0.04
650 26 0.04
651 51 0.08
652 2 0.00
654 4 0.01
655 87 0.13
656 18 0.03
657 3 0.00
658 95 0.15
659 197 0.31
660 8 0.01
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (648 bp):
TTTCCAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGTTTGAAGGGC
TTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAAACA
GATTCAGATACTCGTAAAAACAAATCCTTAAATCCAACGTGACTGAGATTTCGTTAGATAAATAT
AGACATTTCAAGAAGTCTCGGCGTCAAAAATCATACAAAACTGAGCCGGAACCCGAAACATGTTT
TTAGCCAAAAACTATGACAATTAGTACACAATTTTGGCTAAAATTCACCCGAAATAATTTTCGTC
AATTTTTGGACAAGATAATCATAAAAAATATATAATACAACACCAAAAAGATTGAAAGGCTATTC
ACACTTCAAATATAGTTATTCATTTTTTCGAAATAATTCCTAATTAAATCAAGAGATAATTCAGA
TGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTAAGATTTGGTTAGACGAATATAAATATTT
CAATGAGACTTGGACCAAAAATCATACAAAACAGATCTGGAGCCACAGAACGCATTTTTAGTAAA
AACCAATGATGGTCAGTACACGATTTCGACTAAAATTTCGCAAAAAATGACACAAAAAATTTC
Found at i:2481 original size:295 final size:296
Alignment explanation
Indices: 1900--2494 Score: 758
Period size: 295 Copynumber: 2.0 Consensus size: 296
1890 TAAAAACAAT
* *
1900 TCCTTAAATCCAATGTGGTTAAGATTTGGTTAGACGGATATAAATATTTCAATGAGACTTGGCGC
1 TCCTTAAATCCAATGTGGTTAAGATTTAGTTAGACGGATATAAATA--TCAATGAGACTTGACGC
* *
1965 AAAGAATCATGCAAAACATATTAGGAGCCACAGAACGCATTTTTAGCTAAAAACAATGATGGTTA
64 AAAGAATCATGCAAAACAGATCAGGAGCCACAGAACGCATTTTTAGCTAAAAACAATGATGGTTA
* ** * * * * *
2030 GTATACGATTTTGGCTAAAATTTTGCAAAAATGACACGGAAAATTTCTTTCCAATTTTTTGCCAC
129 GTACACGATTTCAGCTAAAATTTTACAAAAATGACACGAAAAATTTCTCTCCAATTCTTGGCCAC
** * * *
2095 AAGACTCATAAAAAATATATAACTCAACGCCAAAAAGTTTGGAGGGCTTTTCAGGCTTCTAATAT
194 AAGACAAATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATAT
2160 CGGGTTTCCTATTTTTTCCGAATTAATTTCTAATTAAA
259 CGGGTTTCCTATTTTTTCCGAATTAATTTCTAATTAAA
* * * *
2198 TCCTTAAATCCATTGTTGG-TGATATTTAGTTAGATGGATATAAATA-CAATGAGA-TATGACGC
1 TCCTTAAATCCAATG-TGGTTAAGATTTAGTTAGACGGATATAAATATCAATGAGACT-TGACGC
* * * *
2260 TAAA-AATCATGCAAAATAGAGTCAGG-GCCTCAGAACGCGTTTTTAGTTAAAAATC-ATGATGG
64 -AAAGAATCATGCAAAACAGA-TCAGGAGCCACAGAACGCATTTTTAGCTAAAAA-CAATGATGG
*
2322 TTAGTACACGATTTCAGCTAAAATTTTACAAAAATTGAC-CAGAAAAATTTCTC-CTCTATTCTT
126 TTAGTACACGATTTCAGCTAAAATTTTACAAAAA-TGACAC-GAAAAATTTCTCTC-CAATTCTT
* *
2385 GGCCACAATACAAATAAAAAATATATAACTCAACGCCAAAAA-ATTGAAGGGCTTTTTACGCTTC
188 GGCCACAAGACAAATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTC
** *
2449 TAATATCGTTTTTCCTATTTTTTCCTAATTAATTTCTAATTAAA
253 TAATATCGGGTTTCCTATTTTTTCCGAATTAATTTCTAATTAAA
2493 TC
1 TC
2495 GAAACTAGAT
Statistics
Matches: 258, Mismatches: 31, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
294 1 0.00
295 151 0.59
296 66 0.26
298 37 0.14
299 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (296 bp):
TCCTTAAATCCAATGTGGTTAAGATTTAGTTAGACGGATATAAATATCAATGAGACTTGACGCAA
AGAATCATGCAAAACAGATCAGGAGCCACAGAACGCATTTTTAGCTAAAAACAATGATGGTTAGT
ACACGATTTCAGCTAAAATTTTACAAAAATGACACGAAAAATTTCTCTCCAATTCTTGGCCACAA
GACAAATAAAAAATATATAACTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCG
GGTTTCCTATTTTTTCCGAATTAATTTCTAATTAAA
Found at i:4958 original size:337 final size:324
Alignment explanation
Indices: 4230--5011 Score: 787
Period size: 337 Copynumber: 2.4 Consensus size: 324
4220 TTGGCTAAAA
* *
4230 TTTTAGCCACGATACTCATAAAAAATATATAATACAACACCAAAAA-ATTGAAAGGTTTTTCACG
1 TTTTAGCCACAATACTCAT-AAAAATATATAATTCAACACCAAAAAGATTG-AAGGTTTTTCACG
* * * * * * *
4294 CTTATAATATTGTATTTCC-TATTTTTCCGAATTTATTTCTAATTAAATTGAAATATAATTTAGA
64 CTTCTAATA-TGTTTTTCCTTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAGAATTAAGA
* * * *
4358 TGCTCGTAAAAACAAATCCTTAAATCCGATATGGGTGAGATATGGTTAGATGAATATAGATATTT
128 TGCTCGTAAAAAAAAATCCTTAAATCCGATATGGGTGAGATATCGTTAGAGGAATATAAATATTT
* * *
4423 CAATGAGACTTGGCGCAAAAAATAATGCAAAACGGATCCGGGGCCACGAAATGCATTTTTAGTCA
193 CAATAAGACTTGGAGCAAAAAATAATGCAAAACGGATCCGGGGCCACGAAACGCATTTTTAGTCA
* *
4488 AAAACCGTGATAGTACACGATTTCGACTAAAATTTTACAAAAATGACCCGAAAAATTTCTCCCCA
258 AAAACCGTGAGAGTACACAATTTCGACTAAAATTTTACAAAAATGACCCGAAAAATTTCTCCCCA
4553 AT
323 AT
* * * * * * *
4555 TTTTTGCCACAATACTCGTGAAAAATATATAACTCAACGCCAAAAAGTTTGAAGGGCTTCTCACG
1 TTTTAGCCACAATACTCAT-AAAAATATATAATTCAACACCAAAAAGATTGAA-GGTTTTTCACG
* * *
4620 CTTCTAATATCGTTTTTCCTTTTTTATTCCGGATTAATTTCTAATTAAATTGAAACCGGATTAAG
64 CTTCTAATAT-GTTTTTCCTTTTTT-TTCCGAATTAATTTCTAATTAAATTGAAACAGAATTAAG
* * *
4685 ATGCTCGTAAAAAAAAATTCCTTAAGTCC-AT-TGTGACG-GAGATTTCGTTATAGGAATATAAA
127 ATGCTCGTAAAAAAAAA-TCCTTAAATCCGATATG-G--GTGAGATATCGTTAGAGGAATATAAA
* * * * * *
4747 TATTTCAATAAGTCTTGGAGCCAAAAATCATGCAAAACTGAGT-CGGGGCCGC-AGAACGCGTTT
188 TATTTCAATAAGACTTGGAGCAAAAAATAATGCAAAACGGA-TCCGGGGCCACGA-AACGCATTT
** * * * * * *
4810 TTAG-CAAAAAAAATTGTAATGGTTAGAGTACGCAATTTCGGCT-AAATTTTGGCAAAATTTTAG
251 TTAGTC---AAAAACCG---T-G--AGAGTACACAATTTCGACTAAAATTTT-ACAAAA-ATGAC
*
4873 CCG-AAAGTTT-TCCCTCAAT
305 CCGAAAAATTTCTCCC-CAAT
*
4892 TTTTAGCCACAATACTCATAAAATATATATAATTCAATACCAAAAAGATTGAAGGATTTTTCACG
1 TTTTAGCCACAATACTCATAAAA-ATATATAATTCAACACCAAAAAGATTGAAGG-TTTTTCACG
* *
4957 CTTCTAATAT-TTTTTCCTTTATTTTTCTGAATTAATTTCTAATTAAATCGAAACA
64 CTTCTAATATGTTTTTCCTTT-TTTTTCCGAATTAATTTCTAATTAAATTGAAACA
5012 AGATTCAAAA
Statistics
Matches: 372, Mismatches: 59, Indels: 42
0.79 0.12 0.09
Matches are distributed among these distances:
325 42 0.11
326 27 0.07
327 6 0.02
328 53 0.14
329 83 0.22
330 2 0.01
331 6 0.02
334 1 0.00
335 38 0.10
336 20 0.05
337 89 0.24
338 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (324 bp):
TTTTAGCCACAATACTCATAAAAATATATAATTCAACACCAAAAAGATTGAAGGTTTTTCACGCT
TCTAATATGTTTTTCCTTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACAGAATTAAGATGC
TCGTAAAAAAAAATCCTTAAATCCGATATGGGTGAGATATCGTTAGAGGAATATAAATATTTCAA
TAAGACTTGGAGCAAAAAATAATGCAAAACGGATCCGGGGCCACGAAACGCATTTTTAGTCAAAA
ACCGTGAGAGTACACAATTTCGACTAAAATTTTACAAAAATGACCCGAAAAATTTCTCCCCAAT
Found at i:6394 original size:173 final size:174
Alignment explanation
Indices: 6081--6414 Score: 591
Period size: 173 Copynumber: 1.9 Consensus size: 174
6071 TCACGCTTCT
6081 AATATCGTTTTCCTTATTTTGTCTGAATTAATTTCTCATTAAATCGAAACAAGATTCAGATTCTC
1 AATATCGTTTTCCTTATTTTGTCTGAATTAATTTCTCATTAAATCGAAACAAGATTCAGATTCTC
*
6146 GTAAAAAGAAATCCTTAAATCCAATATGGATGATATTTGGTTAGATGAATATAGATATTTCAAGG
66 GTAAAAAGAAATCCTTAAATCCAATATGGATGATATTTGGTTAGATGAATATAGATATTCCAAGG
*
6211 AGTCTTGACGCCAAAAATCATGTAAAACTGAGTTTGGGTCCCGG
131 AGTCTTGACGCCAAAAATCATGCAAAACTGAGTTTGGGTCCCGG
* * *
6255 AATATCGTTTTCCTT-TTTT-TTTAGAATTAATTTCTCATTAAATCGAAACAAGATTTATATTCT
1 AATATCGTTTTCCTTATTTTGTCT-GAATTAATTTCTCATTAAATCGAAACAAGATTCAGATTCT
*
6318 CGTAATAAGAAATCCTTAAATCCAATATGGATGATATTTGGTTAGATGAATATAGATATTCCAAG
65 CGTAAAAAGAAATCCTTAAATCCAATATGGATGATATTTGGTTAGATGAATATAGATATTCCAAG
6383 GAGTCTTGACGCCAAAAATCATGCAAAACTGA
130 GAGTCTTGACGCCAAAAATCATGCAAAACTGA
6415 ACCTGAGTCT
Statistics
Matches: 153, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
172 2 0.01
173 136 0.89
174 15 0.10
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (174 bp):
AATATCGTTTTCCTTATTTTGTCTGAATTAATTTCTCATTAAATCGAAACAAGATTCAGATTCTC
GTAAAAAGAAATCCTTAAATCCAATATGGATGATATTTGGTTAGATGAATATAGATATTCCAAGG
AGTCTTGACGCCAAAAATCATGCAAAACTGAGTTTGGGTCCCGG
Found at i:7371 original size:331 final size:329
Alignment explanation
Indices: 6766--10269 Score: 2739
Period size: 331 Copynumber: 10.7 Consensus size: 329
6756 GCGTTTTTAG
* * ** *
6766 GTACACGATTTCGGCTAAAAATTTGCAACAATAGACACGAAAAATTTCTCCTCAATTTTTAGCCA
1 GTACACGATTTCGGCTAAAATTTTGCAAAAATTTAC-CGAAAAATTT-TCCTCAATTTTTGGCCA
* * *
6831 CAATACTCATAAAAAATATATAACTCAAGGCCAAAAAGATTGAAGGGTTTCTCACGCTTCTAATA
64 CAATACTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATA
* * * * ** *
6896 TCATTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAAATC-GGATTGAGATTTTAGTA
128 TCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAA-CATGATTCAGATGCTCGTA
* *
6960 AAAACAAATCCTTAAATCCAATGTGGCTGAGATTTCGTT-GCATGAATATAGATATTTCAATGAG
192 AAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAG-ATGAATATAGATATTTCAATGAG
* * *
7024 TCTTGGCGTCAAAAATCATGCAAAACTGAACCGGGACCTTGGAACGCGTTTTTAGCTAAAAACCG
256 ACTTGGCGGCAAAAATCATGCAAAACTGAACCGGGACCTCGGAACGCGTTTTTAGCTAAAAACCG
7089 TGATGGTTA
321 TGATGGTTA
* * **
7098 GTACACGATTTCGGCTAAAATTTTGCAAAAGTTTACTCGAAAGAGATTTT-CTTAATTTTTCTCC
1 GTACACGATTTCGGCTAAAATTTTGCAAAAATTTAC-CGAAA-A-ATTTTCCTCAATTTTTGGCC
* * * * *
7162 ACGATGCTCATAAAAAATATATAATACAACGCAAAAAAAATTGAAAGGTTTTTCACGCTTCTACT
63 ACAATACTCATAAAAAATATATAAT-CAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAAT
* * * * * *
7227 ATTGTTTTTTCTA-TTTTTCCGAATTAATTTCTAATTATATTGAAATATGATTCAGATGCTTGTA
127 ATCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTA
* * * * *
7291 AAAGCAAATTCTTAAATCCATTGTGGGTGAGATTTGGTTAGATTAATATAGATATTTCAATGACA
192 AAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGA
* * * * * * * * *
7356 CTTGGCGGAAAAAATCATGCAAAGCAGATCTGGGGCCAT-AGAACGTGTTTTTAGAC-AAAAATC
257 CTTGGCGGCAAAAATCATGCAAAACTGAACCGGGACC-TCGGAACGCGTTTTTAG-CTAAAAACC
7419 GTGATGGTTA
320 GTGATGGTTA
* * * * *
7429 GTACAAGATTTCGACTAAAATTTTGCAAAGAA-TGACCCGAAAAGTTTATCCCCAATTTTTGGCC
1 GTACACGATTTCGGCTAAAATTTTGCAAA-AATTTA-CCGAAAAATTT-TCCTCAATTTTTGGCC
* * * ** *
7493 ATAATACTCATAAAAAATATATAACTCAATGCCAAAAAGATTGAAGGGTTGCTCATGCTTCTAAT
63 ACAATACTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAAT
* * * * ** *
7558 AACATTTTTCCTATCTTTTCTCGAATTGATTTCTAATTAAATCGAAACCGGATTGAGATGCTCGT
127 ATCGTTTTTCCTATTTTTTC-CGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGT
* * * * *
7623 AAAACCAAATCTTTAAATCCAATGTGGTTGAGGTTTCGTTAGATGAATATAGATATTTCAATGAG
191 AAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAG
* * * * * * * *
7688 TCTT----G---ACACCA---AAAACTGAACCGGGGCCTTGGAACGCGATTTTAGCCAAAAACTG
256 ACTTGGCGGCAAAAATCATGCAAAACTGAACCGGGACCTCGGAACGCGTTTTTAGCTAAAAACCG
**
7743 T-AACG---
321 TGATGGTTA
* * *
7748 G--CACGATTTCGGCT-AAATTCTTGCAAAAATTTAACCG-AAAGTTTTCCCTTAATTTTTAGCC
1 GTACACGATTTCGGCTAAAATT-TTGCAAAAATTT-ACCGAAAAATTTT-CCTCAATTTTTGGCC
* * *
7809 ACAATACTCATAAAATATATATAATTCAACGTCAAAATGATTG-AAGGTTTTTCACGCTTCTAAT
63 ACAATACTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAAT
* * * * *
7873 ATCG-TTTTCCTTTATTTTTTCTGAATTAATTT-TAAATAAATGGAAAAAAAGATTCAGATGCTC
127 ATCGTTTTTCC--TATTTTTTCCGAATTAATTTCTAATTAAATCG-AAACATGATTCAGATGCTC
* * * * * *
7936 GTAAAAACAAATCCTTAAATACAATATGGATGTGATTTGGTTAGATGAATATAGATATATCAAAG
189 GTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATG
* ** * * * *
8001 AGTCTTGGC-GCAAAAAATCATGCAAAACTGAGTCTGGATCCTAGG-ACGTGTTTTTAGCTAAGA
254 AGACTTGGCGGC-AAAAATCATGCAAAACTGAACCGGGA-CCTCGGAACGCGTTTTTAGCTAAAA
8064 ACCGTGAT-G---
317 ACCGTGATGGTTA
* * ***
8073 GTACACGATTTCGG-TAAAATTTTACAAAAATTTACCCGAAAGAATTTTCCTAAATTTTTTATCA
1 GTACACGATTTCGGCTAAAATTTTGCAAAAATTTA-CCGAAA-AATTTTCCTCAATTTTTGGCCA
* * * * ** *
8137 CGATACTCATAAAAAAATATACAATTCAACACCAAAAAAATTGAAAGACTTTTCAGGCTTCTAAT
64 CAATACTCAT-AAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAAT
* * * *
8202 ATCGGTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTTGTA
127 ATCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTA
* * *
8267 AAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGATAGATGGATATAAATATTTCAATGAGA
192 AAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGA
* * * * * * *
8332 CTTGGCGGTAAAAATCATGTAAAACAGAGCCAGGACC-CTGGAACGCGTTTATAG-TCACAAACC
257 CTTGGCGGCAAAAATCATGCAAAACTGAACCGGGACCTC-GGAACGCGTTTTTAGCT-AAAAACC
8395 GTGATGGTTA
320 GTGATGGTTA
* * * * * * * *
8405 GTGCACGATTTTGGTTAAAATTTTGTAAAAATTGACCCAAAAAACTTCTCCTCAATTCTTGGCCA
1 GTACACGATTTCGGCTAAAATTTTGCAAAAATTTA-CCGAAAAA-TTTTCCTCAATTTTTGGCCA
* * * *
8470 CAA-ATCTTATAAAAAATATATAACTCAACGCCAAAAAGATTG-AAGAGCTTCTCACGCTTCTAT
64 CAATA-CTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAG-GTTTTTCACGCTTCTAA
* * * *
8533 TATCGTTCTTCCTATTTTTTCCCGAATTAATTTCTAATTAAATCGAAACAGGATTGAGATACTCG
126 TATCGTTTTTCCTATTTTTT-CCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCG
* ** *
8598 TAAAAACAAAT-CTATAAATCCAATGTGGCTGAGATTTCATTAGATAAATAATTAAATTTAGATA
190 TAAAAACAAATCCT-TAAATCCAATGTGGGTGAGATTTGGTTAGAT---GAA-T--A--TAGATA
* * * *** * * * * * * *
8662 TTTC-ATTAAATATTGGCATTAAAATTCATGCAAAATTGAGCCGGAACCCCGTAACGCCTTTTTA
246 TTTCAATGAGA-CTTGGCGGCAAAAATCATGCAAAACTGAACCGGGACCTCGGAACGCGTTTTTA
8726 GCCT-AAAACCGTGATGGTTTA
310 G-CTAAAAACCGTGATGG-TTA
*
8747 GTACACGATTT---C--------TGCAAAAATTTACCTGAAAGAATTTTCCTCATTTTTTGGCCA
1 GTACACGATTTCGGCTAAAATTTTGCAAAAATTTACC-GAAA-AATTTTCCTCAATTTTTGGCCA
* * * *
8801 CGATACTCATAAAAAATATATAATACATCGCCAAAAAGATTGAAATGTTTTTCATGCTTCTAATA
64 CAATACTCATAAAAAATATATAAT-CAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATA
* * * * ** ** * *
8866 TTGTTTTTCCTA-TTTTTCTGAAATAGTTTCTAATTTTATCGAAATTTGATTCAAATGCTCATAA
128 TCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAA
** * * * *
8930 AAGGAAATCCTTAAATCCGATGTGGGAGACATTTGATTAGATGAATATAGATATTTCAATGAGAC
193 AAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGAC
* * * * *
8995 TTGGC-GC-AAAA--A--CAAATCTG----GGG-CCACGGAATGCGTTTTCAGACCAAAAAACCG
258 TTGGCGGCAAAAATCATGCAAAACTGAACCGGGACCTCGGAACGCGTTTTTAG--CTAAAAACCG
*
9049 TGA-GGTTT
321 TGATGGTTA
* * * * * * * * *
9057 GTATACGATTTCGACT-AAATTTCGAAAAAAATGACCCAAAAAATTTCCCCTAATTTTTGGCCAC
1 GTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCGAAAAATTTTCCTC-AATTTTTGGCCAC
* * * * * * *
9121 AATACTCATAGAGAATATATAACTCAACGCCAAAAAGTTTGAAGGGCTTCTCACACTTCTAATAT
65 AATACTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATAT
* * ** *
9186 TGTTTTTCCT-TTTTTTCTGAATTAATTTCTAATTAAATCGAAACCGGATTGAGATGCTCGTAAA
129 CGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAA
* * * * * * *
9250 AAGAAATCCTTAAATCCAATGTGGTTGATATTTCGTTAGATTAATATAGATATCTCAATGAGTCT
194 AACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGACT
* * *
9315 TGGCGCCAAAAATCATGCAAAACTGAACC-GGAGCCGCGAAACGCGTTTTTAG-TCAAAAA-C--
259 TGGCGGCAAAAATCATGCAAAACTGAACCGGGA-CCTCGGAACGCGTTTTTAGCT-AAAAACCGT
9375 ------T-
322 GATGGTTA
* * *
9376 GT---CG---T---CTAAACTTTTGCAAAAATTTAACCG-AAACTTTTCCCTCAATTTTTAGCCA
1 GTACACGATTTCGGCTAAAATTTTGCAAAAATTT-ACCGAAAAATTTT-CCTCAATTTTTGGCCA
* * * *
9431 CAATAATCATAAAATATATATAATTCAACGCCAAAAACATTGAAAGCTTTTT-ACGCTTCTAATA
64 CAATACTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATA
* * * *
9495 TTG-TTTTCCTTATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGCA
128 TCGTTTTTCC-TATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTA
* * ** * * * **
9559 AAAACAAATCTTTAAATCCAATATGGAAGATATTTGGTTAGATGAGTAAAGATATTTCAA-GTTT
192 AAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATG-AG
* * * * * *
9623 TCTTGGCGCCAAAAATTATGCAAAACT-AAGCCTGGGTCC-CAGG-ACGTGTTTTTAGCTAAGAA
256 ACTTGGCGGCAAAAATCATGCAAAACTGAA-CC-GGGACCTC-GGAACGCGTTTTTAGCTAAAAA
** *
9685 CTATAATGG-TA
318 CCGTGATGGTTA
* * * * *
9696 -CACATTG-TTTCGG-TAAAATTTTGCAAAAATTTACTC-AAAGAACTTTCCTCAATTTTAGGTC
1 GTACA-CGATTTCGGCTAAAATTTTGCAAAAATTTAC-CGAAA-AATTTTCCTCAATTTTTGGCC
* * * * * * **
9757 ACGATTCTCATAAAAAAATATATAATTGAACGTCAAAAAAATAGAAAGACTTTTCACGCTTCTAA
63 ACAATACTCAT-AAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAA
* * * * *
9822 TATTGGTTTTCCTATTTTTTCCGAACTAATTTCTGATTAAATCGAAACATAATTCAGATGCTCGT
126 TATCGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGT
* * *
9887 AAAAACAAATCCTTAAATCCAACGTGGGTGAGATTTGGTTAGATGGATATGGATATTTCAATGAG
191 AAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAG
* * * * *
9952 ACTTGGC-GCTAAAATCCATTCAAAAC-AAAGTCAGGG--CTCCGGAACGCATTTTTAG-TCAAA
256 ACTTGGCGGCAAAAAT-CATGCAAAACTGAA--CCGGGACCT-CGGAACGCGTTTTTAGCT-AAA
*
10012 AACCGTTATGGTTA
316 AACCGTGATGGTTA
* * ** * * * *
10026 GTATATGATTTCAGGAAAAAAGTTT-CAAAAATTGACCCGAAAAGTTTCTCCTCAATTTTTTGCC
1 GTACACGATTTC-GGCTAAAATTTTGCAAAAATTTA-CCGAAAAATTT-TCCTCAATTTTTGGCC
* * * * *
10090 ACAATACTCGTAACAAATATATAACTCAACGCTAAAAAAATTG-AAGGATTTCTCACGCTTCTAA
63 ACAATACTCATAAAAAATATATAA-TCAACGCCAAAAAGATTGAAAGG-TTTTTCACGCTTCTAA
** ** * * *
10154 TATCGTTTAACCTATTTTTTTCTAAATTAATTTCTAATTAAATCGAAA-TTGGATTGAGATGCTT
126 TATCGTTTTTCCTA-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACAT-GATTCAGATGCTC
* * * * *
10218 GT-AAAAGAAATCATTAAATCCAATGT-GTTAGAGATTTCGTTGGATGAATATA
189 GTAAAAACAAATCCTTAAATCCAATGTGGGT-GAGATTTGGTTAGATGAATATA
10270 AAACTGAGCC
Statistics
Matches: 2526, Mismatches: 484, Indels: 324
0.76 0.15 0.10
Matches are distributed among these distances:
309 6 0.00
310 46 0.02
311 218 0.09
312 20 0.01
313 4 0.00
314 15 0.01
315 111 0.04
316 73 0.03
317 23 0.01
318 10 0.00
319 186 0.07
320 13 0.01
321 19 0.01
322 12 0.00
323 35 0.01
325 41 0.02
326 29 0.01
327 87 0.03
328 226 0.09
329 257 0.10
330 45 0.02
331 365 0.14
332 309 0.12
333 289 0.11
334 4 0.00
336 1 0.00
337 1 0.00
339 1 0.00
340 4 0.00
341 61 0.02
342 14 0.01
343 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (329 bp):
GTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCGAAAAATTTTCCTCAATTTTTGGCCACA
ATACTCATAAAAAATATATAATCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATATCG
TTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAA
CAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGACTTG
GCGGCAAAAATCATGCAAAACTGAACCGGGACCTCGGAACGCGTTTTTAGCTAAAAACCGTGATG
GTTA
Found at i:8484 original size:976 final size:978
Alignment explanation
Indices: 6810--8647 Score: 2482
Period size: 976 Copynumber: 1.9 Consensus size: 978
6800 ACACGAAAAA
*
6810 TTTCTCCTCAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAAGGCCAAAAAGATTGAA
1 TTTCTCCTCAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
* *
6875 GGGTTTCTCACGCTTCTAATATCATTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAA
66 GGGTTTCTCACGCTTCTAATATCAGTTTTCCTATTTTTTCCAAATTAATTTCTAAATAAATCGAA
*** * ** * * *
6940 ATCGGATTGAGATTTTAGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTCGTTGCATGA
131 AAAAGATTCAGATGCTAGTAAAAACAAATCCTTAAATACAATATGGATGAGATTTCGTTGCATGA
* * *
7005 ATATAGATATTTCAATGAGTCTTGGCGTCAAAAATCATGCAAAACTGAACCGGGACCTTGGAACG
196 ATATAGATATATCAAAGAGTCTTGGCGTCAAAAATCATGCAAAACTGAACCGGGACCTAGGAACG
* * *
7070 CGTTTTTAGCTAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAGTTTACT
261 CGTTTTTAGCTAAAAACCGTGATGG-T-GTACACGATTTCGGCTAAAATTTTACAAAAATTTACC
* * * *
7135 CGAAAGAGATTTTCTTAATTTTTCTCCACGATGCTCATAAAAAATATATAATACAACGCAAAAAA
324 CGAAAGAGATTTTCTAAATTTTTCTCCACGATACTCATAAAAAATATACAATACAACACAAAAAA
** * * * * * *
7200 AATTGAAAGGTTTTTCACGCTTCTACTATTGTTTTTTCTATTTTTCCGAATTAATTTCTAATTAT
389 AATTGAAAGACTTTTCACGCTTCTAATATCGGTTTTCCTATTTTTCCAAATTAATTTCTAATTAA
* * * * *
7265 ATTGAAATATGATTCAGATGCTTGTAAAAGCAAATTCTTAAATCCATTGTGGGTGAGATTTGGTT
454 ATCGAAATATGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGAT
* * * * ** *
7330 AGATTAATATAGATATTTCAATGACACTTGGCGGAAAAAATCATGCAAAGCAGATCTGGGGCCAT
519 AGATGAATATAAATATTTCAATGACACTTGGCGGAAAAAATCATGCAAAACAGAGCCAGGACCAT
* * *
7395 AGAACGTGTTTTTAGACAAAAATCGTGATGGTTAGTACAAGATTTCGACTAAAATTTTGCAAAGA
584 AGAACGCGTTTATAGACAAAAACCGTGATGGTTAGTACAAGATTTCGACTAAAATTTTGCAAAGA
* ** * * *
7460 ATGACCCGAAAAGTTTATCCCCAATTTTTGGCCATAATACTCATAAAAAATATATAACTCAATGC
649 ATGACCCAAAAAACTTATCCCCAATTCTTGGCCAAAATACTCATAAAAAATATATAACTCAACGC
* * * * *
7525 CAAAAAGATTGAAG-GGTTGCTCATGCTTCTAATAACATTTTTCCTATCTTTTCTCGAATTGATT
714 CAAAAAGATTGAAGAGCTT-CTCACGCTTCTAATAACATTCTTCCTATCTTTTCCCGAATTAATT
* * * * *
7589 TCTAATTAAATCGAAACCGGATTGAGATGCTCGTAAAACCAAATCTTTAAATCCAATGTGGTTGA
778 TCTAATTAAATCGAAACAGGATTGAGATACTCGTAAAAACAAATCTATAAATCCAATGTGGCTGA
* * *
7654 GGTTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGACACCAAAAACTGAACCGGGGCCTTG
843 GATTTCATTAGATAAATATAGATATTTCAATGAGTCTTGACACCAAAAACTGAACCGGGGCCTTG
7719 GAACGCGATTTTAGCCAAAAACTGTAACGGCACGATTTCGGCTAAATTCTTGCAAAAATTTAACC
908 GAACGCGATTTTAGCCAAAAACTGTAACGGCACGATTTCGGCTAAATTCTTGCAAAAATTTAACC
7784 GAAAGT
973 GAAAGT
* * * * *
7790 TTTC-CCTTAATTTTTAGCCACAATACTCATAAAATATATATAATTCAACGTCAAAATGATTGAA
1 TTTCTCCTCAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
* ** *
7854 -GGTTTTTCACGCTTCTAATATC-GTTTTCCTTTATTTTTTCTGAATTAATTT-TAAATAAATGG
66 GGGTTTCTCACGCTTCTAATATCAGTTTTCC--TATTTTTTCCAAATTAATTTCTAAATAAATCG
* * *
7916 AAAAAAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATACAATATGGATGTGATTTGGTTAG-
129 -AAAAAAGATTCAGATGCTAGTAAAAACAAATCCTTAAATACAATATGGATGAGATTTCGTT-GC
** *
7980 ATGAATATAGATATATCAAAGAGTCTTGGCG-CAAAAAATCATGCAAAACTGAGTCTGGATCCTA
192 ATGAATATAGATATATCAAAGAGTCTTGGCGTC-AAAAATCATGCAAAACTGAACCGGGA-CCTA
* *
8044 GG-ACGTGTTTTTAGCTAAGAACCGTGAT-G-GTACACGATTTCGG-TAAAATTTTACAAAAATT
255 GGAACGCGTTTTTAGCTAAAAACCGTGATGGTGTACACGATTTCGGCTAAAATTTTACAAAAATT
* *
8105 TACCCGAAAGA-ATTTTCCTAAATTTTT-TATCACGATACTCATAAAAAAATATACAATTCAACA
320 TACCCGAAAGAGATTTT-CTAAATTTTTCT-CCACGATACTCAT-AAAAAATATACAATACAACA
* *
8168 CCAAAAAAATTGAAAGACTTTTCAGGCTTCTAATATCGGTTTTCCTATTTTTTCCAAATTAATTT
382 CAAAAAAAATTGAAAGACTTTTCACGCTTCTAATATCGGTTTTCCTA-TTTTTCCAAATTAATTT
8233 CTAATTAAATCGAAATATGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGGTGAG
446 CTAATTAAATCGAAATATGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGGTGAG
* * * *
8298 ATTTGGATAGATGGATATAAATATTTCAATGAGACTTGGCGGTAAAAATCATGTAAAACAGAGCC
511 ATTTGGATAGATGAATATAAATATTTCAATGACACTTGGCGGAAAAAATCATGCAAAACAGAGCC
* * * * * * * **
8363 AGGACCCTGGAACGCGTTTATAGTCACAAACCGTGATGGTTAGTGCACGATTTTGGTTAAAATTT
576 AGGACCATAGAACGCGTTTATAGACAAAAACCGTGATGGTTAGTACAAGATTTCGACTAAAATTT
* * * *
8428 TGTAAA-AATTGACCCAAAAAACTTCTCCTCAATTCTTGGCCACAAAT-CTTATAAAAAATATAT
641 TGCAAAGAA-TGACCCAAAAAACTTATCCCCAATTCTTGGCCA-AAATACTCATAAAAAATATAT
* * * *
8491 AACTCAACGCCAAAAAGATTGAAGAGCTTCTCACGCTTCTATTATCGTTCTTCCTATTTTTTCCC
704 AACTCAACGCCAAAAAGATTGAAGAGCTTCTCACGCTTCTAATAACATTCTTCCTATCTTTTCCC
8556 GAATTAATTTCTAATTAAATCGAAACAGGATTGAGATACTCGTAAAAACAAATCTATAAATCCAA
769 GAATTAATTTCTAATTAAATCGAAACAGGATTGAGATACTCGTAAAAACAAATCTATAAATCCAA
8621 TGTGGCTGAGATTTCATTAGATAAATA
834 TGTGGCTGAGATTTCATTAGATAAATA
8648 ATTAAATTTA
Statistics
Matches: 739, Mismatches: 106, Indels: 30
0.84 0.12 0.03
Matches are distributed among these distances:
973 6 0.01
974 46 0.06
975 72 0.10
976 364 0.49
977 12 0.02
978 32 0.04
979 197 0.27
980 10 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (978 bp):
TTTCTCCTCAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
GGGTTTCTCACGCTTCTAATATCAGTTTTCCTATTTTTTCCAAATTAATTTCTAAATAAATCGAA
AAAAGATTCAGATGCTAGTAAAAACAAATCCTTAAATACAATATGGATGAGATTTCGTTGCATGA
ATATAGATATATCAAAGAGTCTTGGCGTCAAAAATCATGCAAAACTGAACCGGGACCTAGGAACG
CGTTTTTAGCTAAAAACCGTGATGGTGTACACGATTTCGGCTAAAATTTTACAAAAATTTACCCG
AAAGAGATTTTCTAAATTTTTCTCCACGATACTCATAAAAAATATACAATACAACACAAAAAAAA
TTGAAAGACTTTTCACGCTTCTAATATCGGTTTTCCTATTTTTCCAAATTAATTTCTAATTAAAT
CGAAATATGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGATAG
ATGAATATAAATATTTCAATGACACTTGGCGGAAAAAATCATGCAAAACAGAGCCAGGACCATAG
AACGCGTTTATAGACAAAAACCGTGATGGTTAGTACAAGATTTCGACTAAAATTTTGCAAAGAAT
GACCCAAAAAACTTATCCCCAATTCTTGGCCAAAATACTCATAAAAAATATATAACTCAACGCCA
AAAAGATTGAAGAGCTTCTCACGCTTCTAATAACATTCTTCCTATCTTTTCCCGAATTAATTTCT
AATTAAATCGAAACAGGATTGAGATACTCGTAAAAACAAATCTATAAATCCAATGTGGCTGAGAT
TTCATTAGATAAATATAGATATTTCAATGAGTCTTGACACCAAAAACTGAACCGGGGCCTTGGAA
CGCGATTTTAGCCAAAAACTGTAACGGCACGATTTCGGCTAAATTCTTGCAAAAATTTAACCGAA
AGT
Found at i:11477 original size:212 final size:212
Alignment explanation
Indices: 11073--11479 Score: 548
Period size: 212 Copynumber: 1.9 Consensus size: 212
11063 GAAAGGTTTT
* * * **
11073 TCACGCTTCTAATATTGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATTATT
1 TCACACTTCTAATATAGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACAGGATT
* ** * * *
11138 CAGATGCTCGGAAAAGGAAATTCTTAAATCCTATGTGGGTGACATTTGGTTAGATGAATATAGAT
66 AAGATGCTCGGAAAAAAAAATCCTTAAATCCAATGTGGCTGACATTTGGTTAGATGAATATAGAT
* ** * ** *
11203 ATTTTAATGAGACTTGGCGTCAAAAGTCATGCAAAACATATCTGGGGCCATGGAATGCGTTTTTA
131 ATTTCAATGAGACTTGGCACCAAAAATCATGCAAAACATATCTGGGGCCACAGAACGCGTTTTTA
11268 GTCAAAAATCGTGAATC
196 GTCAAAAATCGTGAATC
* *
11285 TCACACTTCTAATATAGTTTTTCCTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGGATT
1 TCACACTTCTAATATAGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACAGGATT
* * *
11350 AAGATGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTTGTTAGATGAATATAGAT
66 AAGATGCTCGGAAAAAAAAATCCTTAAATCCAATGTGGCTGACATTTGGTTAGATGAATATAGAT
* * *
11415 ATTTCAATGAGTCTTGGCACCAAAAATCATGCAAAAC-TGA-GTGGGAGCCCCAGAACGCGTTTT
131 ATTTCAATGAGACTTGGCACCAAAAATCATGCAAAACAT-ATCTGGG-GCCACAGAACGCGTTTT
11478 TA
194 TA
11480 ACCAAAAACT
Statistics
Matches: 167, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
211 5 0.03
212 162 0.97
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (212 bp):
TCACACTTCTAATATAGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACAGGATT
AAGATGCTCGGAAAAAAAAATCCTTAAATCCAATGTGGCTGACATTTGGTTAGATGAATATAGAT
ATTTCAATGAGACTTGGCACCAAAAATCATGCAAAACATATCTGGGGCCACAGAACGCGTTTTTA
GTCAAAAATCGTGAATC
Found at i:11811 original size:544 final size:528
Alignment explanation
Indices: 10754--11825 Score: 1230
Period size: 544 Copynumber: 2.0 Consensus size: 528
10744 ATGAAGGGTT
* * *
10754 TCTCACGCTTCTAATATCGTTTTCCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACTGG
1 TCTCACACTTCTAATATAGTTTTCCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGG
*
10819 ATTGAGATGCTCGTAAAAAAAAAATCATTAAATCCAATGTGGCTGAGAGTTAGTTAGATAAATAT
66 ATTAAGATGCTCGTAAAAAAAAAATCATTAAATCCAATGTGGCTGAGAGTTAGTTAGATAAATAT
* *
10884 AGATATTTCATTATTGGTGTAAAAAATCATGCAAAACTAAGCCGGAACCCCGTAACGCGTTTTTA
131 AGATATTTCATGATTGGTGCAAAAAATCATGCAAAACTAAGCCGGAACCCCGTAACGCGTTTTTA
* *
10949 GCCAAAAACCGTAATGATTAGTACACGATTTCTGCAAAAATTTACCCGAAAGAAGTTTCCTCATT
196 ACCAAAAACCGTAATGATTAGTACACGATTTCTGCAAAAATTTACCC-AAAGAAGTTTCCTCAAT
* * * **
11014 TTTTGGCCACGATAATCATAAAAATATAAAATACAACTTTAAAAAGATTGAAAGGTTTTTCACGC
260 TTTTAGCCACAATAATCATAAAAAAATAAAATACAACTGCAAAAAGATTGAAAGGTTTTTCACGC
* * * * **
11079 TTCTAATATTGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATTATTCAGATG
325 TTCTAATATCGTTTTTCCTATTTTTCCGAATTAATTTCTAATCAAATAGAAACAAGATTCAGATG
** * * * * * *
11144 CTCGGAAAAGGAAATTCTTAAATCCTATGTGGGTGACATTTGGTTAGATGAATATAGATATTTTA
390 CTCGGAAAAACAAATCCTTAAATCCAATATGGATGACATTTGGTTAGATGAATAAAGATATTTCA
* * * * * * *
11209 ATGAGACTTGGCGTCAAAAGTCATGCAAAACATATCTGGGGCCATGGAATGCGTTTTTAG-TCAA
455 AGGAGACTTAGCGCCAAAAATCATGCAAAACATACCTGGGGCCACGGAACGCGTTTTTAGCT-AA
*
11273 AAATCGTGAA
519 AAACCGTGAA
*
11283 TCTCACACTTCTAATATAGTTTTTCCT-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGG
1 TCTCACACTTCTAATATAGTTTTCCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGG
* * * *
11347 ATTAAGATGCTCGT-AAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTTGTTAGATGAATAT
66 ATTAAGATGCTCGTAAAAAAAAAATCATTAAATCCAATGTGGCTGAGAGTTAGTTAGATAAATAT
* * ** *
11411 AGATATTTCAATGAGTCTTG-GCACCAAAAATCATGCAAAACTGAGTGGGAGCCCCAG-AACGCG
131 AGATATTTC-ATGA-T-TGGTGCA--AAAAATCATGCAAAACTAAGCCGGAACCCC-GTAACGCG
* * *
11474 TTTTTAACCAAAAACTGTAATGGTTAGTACACAATTTCGTCTAAATTTTTGCAAAAATTTAACCC
190 TTTTTAACCAAAAACCGTAATGATTAGT--AC-A---CG-----ATTTCTGCAAAAATTT-ACCC
** * * * * *
11539 -AA-ACTTTTCCCTCAATTTTTAGCCACAATACTCATAAAATAAATATAATTCAAC-GCCAAAAT
243 AAAGAAGTTT-CCTCAATTTTTAGCCACAATAATCATAAAA-AAATAAAATACAACTGCAAAAAG
* *
11601 ATTGAAAGGTTTTTCACGCTTCTAATATCG-TTTTCCTTATTTTTTTTCTATATTAATTTCTAAT
306 ATTGAAAGGTTTTTCACGCTTCTAATATCGTTTTTCC-TA--TTTTTCCGA-ATTAATTTCTAAT
* *
11665 CAAATAGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGATGATATTTG
367 CAAATAGAAACAAGATTCAGATGCTCGGAAAAACAAATCCTTAAATCCAATATGGATGACATTTG
* * *
11730 GTTAGATGAATAAAGATATTTCAAGGAGTCTTAGTGCCAAAAATCATGCAAAAC-TGGGCCTGGG
432 GTTAGATGAATAAAGATATTTCAAGGAGACTTAGCGCCAAAAATCATGCAAAACAT--ACCTGGG
* * *
11794 TCC-CGGGACGTGTTTTTAGCTAAAAACCGTGA
495 GCCACGGAACGCGTTTTTAGCTAAAAACCGTGA
11826 TGGTGCACTG
Statistics
Matches: 451, Mismatches: 65, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
527 55 0.12
528 52 0.12
529 27 0.06
530 2 0.00
531 57 0.13
532 1 0.00
533 2 0.00
534 1 0.00
537 2 0.00
540 10 0.02
541 63 0.14
542 26 0.06
543 12 0.03
544 133 0.29
545 8 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (528 bp):
TCTCACACTTCTAATATAGTTTTCCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGG
ATTAAGATGCTCGTAAAAAAAAAATCATTAAATCCAATGTGGCTGAGAGTTAGTTAGATAAATAT
AGATATTTCATGATTGGTGCAAAAAATCATGCAAAACTAAGCCGGAACCCCGTAACGCGTTTTTA
ACCAAAAACCGTAATGATTAGTACACGATTTCTGCAAAAATTTACCCAAAGAAGTTTCCTCAATT
TTTAGCCACAATAATCATAAAAAAATAAAATACAACTGCAAAAAGATTGAAAGGTTTTTCACGCT
TCTAATATCGTTTTTCCTATTTTTCCGAATTAATTTCTAATCAAATAGAAACAAGATTCAGATGC
TCGGAAAAACAAATCCTTAAATCCAATATGGATGACATTTGGTTAGATGAATAAAGATATTTCAA
GGAGACTTAGCGCCAAAAATCATGCAAAACATACCTGGGGCCACGGAACGCGTTTTTAGCTAAAA
ACCGTGAA
Found at i:12059 original size:328 final size:330
Alignment explanation
Indices: 11285--14666 Score: 2832
Period size: 332 Copynumber: 10.2 Consensus size: 330
11275 ATCGTGAATC
* * **
11285 TCACACTTCTAATATAGTTTTTCCT-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGGAT
1 TCACGCTTCTAATATTGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGAT
* * * *
11349 TAAGATGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTTGTTAGATGAATATAGA
66 TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATATAGA
* *
11414 TATTTCAATGAGTCTTGGCACCAAAAATCATGCAAAACTGAG-TGGGAGCCCCAGAACGCGTTTT
131 TATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCT-GG-GCCCCGGAACGCGTTTT
* * * * * * * *
11478 TAACCAAAAACTGTAATGGTTAGTACAC-AATTTCGTCTAAATTTTTGCAAAAATTTAAC-CCAA
194 TAGCTAAAAACCGTGATGGTTAGT-CACTGATTTCGGCTAAAATTTTGCAAAAATTT-ACTCGAA
** * *
11541 A-CTTTTC-CCTCAATTTTTAGCCACAATACTCATAAAATAA-ATATAATTCAACGCC-AAAATA
257 AGAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAA-AATATATAA-TCAACGCCAAAAAGA
*
11602 TTGAAAGGTTTT
320 TTG-AAGGGTTT
* * * * * *
11614 TCACGCTTCTAATATCG-TTTTCCTTATTTTTTTTCTATATTAATTTCTAATCAAATAGAAACAA
1 TCACGCTTCTAATATTGTTTTTCC-TA-TTTTTTCCGA-ATTAATTTCTAATTAAATCGAAACAT
* * * * *
11678 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGATGATATTTGGTTAGATGAATAA
63 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATAT
* * * * * * *
11743 AGATATTTCAAGGAGTCTTAGTGCCAAAAATCATGCAAAACTGGGCCTGGGTCCCGGGACGTGTT
128 AGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAG-CTGGGCCCCGGAACGCGTT
* * *
11808 TTTAGCTAAAAACCGTGATGG-T-G-CACTG-TTTCAG-TAATATTTTCCAAAAATTTACTC-AA
192 TTTAGCTAAAAACCGTGATGGTTAGTCACTGATTTCGGCTAAAATTTTGCAAAAATTTACTCGAA
* * ** *
11867 AGAACTT-TCCTCAATTTTTGGTCATGATACTCATAAAAACTATATATAATGCAACGCCAAAAAA
257 AGAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAA--ATATATAAT-CAACGCCAAAAAG
* ***
11931 ATAGAAAAACTTT
319 ATTG-AAGGGTTT
* *
11944 TTACGCTTCTAATATT-TGTTTTCCTATTTTTTCTGAATTAATTTCTAATTAAATCGAAACATGA
1 TCACGCTTCTAATATTGT-TTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGA
* * * * *
12008 TTCAGATGCTCGTAAAAACAAATCTTTAAATCCAACGTGGGTGAGATTTGGTTAGATGGATATGG
65 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATATAG
* * * * ** ** * *
12073 ATATTTCAATGAGACTTGGCGCTAAAAACCATTCAAAACAAAGTCAAGGCTCCGGAACGCATTTT
130 ATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAG-CTGGGCCCCGGAACGCGTTTT
* * * * *
12138 TAG-TCAAAAATCGTGATGGTTAGTACAC-GATTTCAGCAAAAATTGTT-CAAAAATTGACCCGA
194 TAGCT-AAAAACCGTGATGGTTAGT-CACTGATTTCGGCTAAAATT-TTGCAAAAATTTACTCGA
* * * * * * *
12200 AA-AATTTATCCTCAATTTTTGGCCATAATACTAATAAGAAATATATAACTGAACTCCTAAAAGA
256 AAGAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA-TCAACGCCAAAAAGA
*
12264 TTGAACGGTTTT
320 TTGAA-GGGTTT
* **
12276 TCACGCTTCTAATATCGTTTTTCCTA-TTTTTCTAAATTAATTTCTAATTAAATCGAAAC-TGGA
1 TCACGCTTCTAATATTGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAT-GA
* * * * *
12339 TTGAGATGCTCGT-AAAAGAAATCATTAAATCCAATGTGGTTGAGATTTCGTTGGATGAATATAG
65 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATATAG
* * * *
12403 ATATTTCAATGAGTCTTGGCGTCAAAAATCATGCAAACCTAAGCTGTGACCCCGGAACGCGTTTT
130 ATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCTG-GGCCCCGGAACGCGTTTT
*
12468 TAGCCAAAAACCGTGAATCCGTGATGGTTAGT-ACATGATTTCGGCTAAAATTTTGCAAAAATTT
194 TAG-C-TAAA-----AA-CCGTGATGGTTAGTCAC-TGATTTCGGCTAAAATTTTGCAAAAATTT
* *** ** * *
12532 AC-CGGAAAGAATTT-TTCTCAATTTTACACCATGATACTCATAAAAAATATATAATATAATGCC
250 ACTC-GAAAGAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAAT-CAACGCC
* *
12595 -AAAATATTGAAAGGTTTT
313 AAAAAGATTG-AAGGGTTT
* * * *
12613 TCATGCTACTAATATTGTTTTTCCTA-TTTTTCCGAATTAATTT-TTATTAAATCGAAATATGAT
1 TCACGCTTCTAATATTGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGAT
* * * * *
12676 TCAAATTCTCGTAAAAGCAAATCCGTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATATA
66 TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATG---A-ATA
* * * * * **
12741 TATATATATATATATATATATTTCAATGTGACGTGAAGCCAAAAATCATGCAAAACAT-ATATGA
127 TAGATAT-T-T-CA-AT-GA-GTC--T-T---G-G-CGCCAAAAATCATGCAAAAC-TGAGCTG-
* * * * * *
12805 GGCCACAGAACGTGCTTTTAG-TAAAAAAAAACCGTGATGGTTAGTACACT-ATTTCGACAAAAA
176 GGCCCCGGAACGCGTTTTTAGCT----AAAAACCGTGATGGTTAGT-CACTGATTTCGGCTAAAA
* * * * * * ** *
12868 TGTCGCAAATATTGATTCGAAA-AATATCTCCTCAATTTTTGGTTACAATACTCGTAAAAAATAT
236 TTTTGCAAAAATTTACTCGAAAGAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATAT
*
12932 ATAACTCAACACCAAAAAGATTGAAGGGTTT
301 ATAA-TCAACGCCAAAAAGATTGAAGGGTTT
**
12963 CTCACGCTTCTAATATCATTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAAC-TGG
1 -TCACGCTTCTAATATTGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAT-G
* * *
13027 ATTGC-GATGCTCGTAGAAACAAATCATTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATAT
64 ATT-CAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATAT
* ** * * * *
13091 AGATATTTCAATGAGTCTTGGCGTCAAAAATCATGTGAAACTTAGTTGTGACCCCGGAACGTGTT
128 AGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCTG-GGCCCCGGAACGCGTT
* ** * *
13156 TTTAGCCAAAAATAGGGATGGTTAGTACAC-GATTTCGGCT-AAATTTTTCAAAAATTTA-TCTG
192 TTTAGCTAAAAACCGTGATGGTTAGT-CACTGATTTCGGCTAAAATTTTGCAAAAATTTACTC-G
* ** * * * *
13218 AAAGAAATTT-T-ATCAATTTTTCACCACGATACTCATAAATAATATATAATACAATGTCAAAAA
255 AAAG-AATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAAT-CAACGCCAAAAA
* **
13281 GATCGAAAGATTTT
318 GATTG-AAGGGTTT
* * * *
13295 TCATGCTTCTAATATTGTTTTTTCTA-TTTTTCTGAATTAAGTTT-T-ATTAAATCGAAATATGA
1 TCACGCTTCTAATATTGTTTTTCCTATTTTTTCCGAATTAA-TTTCTAATTAAATCGAAACATGA
* * * * *
13357 TTCAGATGCTAGTAAAAGCAAATCCTTAAATCCAATATGTGTGAGATTTGGTTAGATGAATATAG
65 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATATAG
* ** * *
13422 ATATTTCAATGAGACTTGGCGCCAAAAATCATGCAAAACAT-ATTTGGGGCCACAGAACGCGTTT
130 ATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAAC-TGAGCT-GGGCCCCGGAACGCGTTT
* * * * * *
13486 TTAGC-AAAACCCGTGATGGTTAGTATAC-GATTTCGGCTAAAATTTTACAAAAAAATGAC-CCA
193 TTAGCTAAAAACCGTGATGGTTAGT-CACTGATTTCGGCTAAAATTTTGC-AAAAATTTACTCGA
* * * * * *
13548 AAAAAATTCTCC-CAAATTTTTGACCACAATACTCATAAAAAATATATAACTAAACACCTAAAAG
256 AAGAATTTCTCCTC-AATTTTTGGCCACAATACTCATAAAAAATATATAA-TCAACGCCAAAAAG
13612 ATTGAAGGGTTT
319 ATTGAAGGGTTT
* ** * **
13624 CTCATGCTTCTAATATCATTTTTCCTATTTTTTTCCCGAATTAATTTCTTATTAAATCGAAACGG
1 -TCACGCTTCTAATATTGTTTTTCCTA-TTTTTT-CCGAATTAATTTCTAATTAAATCGAAACAT
* * * * * *
13689 GATTGAGATGCTCATAAAAAGAAATCCTTAAATCCAATATGGCTGAGATTTCGTTAGAAGAATAT
63 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATAT
* * * * * * *
13754 AGATATTTGAGTGAGACTTGTCGCCAAAAATCATGCAAAACTTAGCTAGGACCCCGGAACGTGTT
128 AGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCT-GGGCCCCGGAACGCGTT
* * * *
13819 TTTAGCTAAAAACCGTGATGGTGTTTAGTTCAC-GCTTTTGGCTATATTTTTGCAAAAATTTAAC
192 TTTAGCTAAAAACCGTGAT-G-G-TTAG-TCACTGATTTCGGCTAAAATTTTGCAAAAATTT-AC
* * * * * *
13883 -CGAAAG--TTTCTCCCTCAATTTTTAGTCACAATAATCAT-AAATATACATAATTCAACG-GAA
252 TCGAAAGAATTTCT-CCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA-TCAACGCCAA
* **
13943 AAA-CTATGAATGACTTT
315 AAAGAT-TGAA-GGGTTT
* *
13960 TCATGCTTCTAATATCT-TTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGA
1 TCACGCTTCTAATAT-TGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGA
* *
14024 TTCAGATGCTCGT-AAAACAAATCCTTAAATCCAATGTGGATGAGATTTAGTTAGATG-A-AT--
65 TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATATAG
* * ** * *
14084 ATATTTCAA-GAAGTCTTGGTGCCAAAAATTATG-AAAACTGAGCCTGGATCTCGGAACGTGTTT
130 ATATTTCAATG-AGTCTTGGCGCCAAAAATCATGCAAAACTGAG-CTGGGCCCCGGAACGCGTTT
* ** * * * *
14147 TTAGCCAAAAATTGTGATAGTAAGTACAC-GATTTCGGCTAAAATTTTGTAAAAATTTACCCGAA
193 TTAGCTAAAAACCGTGATGGTTAGT-CACTGATTTCGGCTAAAATTTTGCAAAAATTTACTCGAA
* * ** *
14211 AGAAATT-TCCTCATTTTTTGGCCATGATACTCATAAAAAATATATAATTCAACGGCAAAAAGAT
257 AGAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA-TCAACGCCAAAAAGAT
*
14275 TGACCA-GCTTT
321 TGA--AGGGTTT
* *
14286 TCACGCTTCTAATATCGTTTTTCCTA-TTTTTCCGAATTAATTTCTAATTGAATCGAAACATGAT
1 TCACGCTTCTAATATTGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGAT
* * * *
14350 TAAGATGCTCGTAAAAACAAATACTTAAATCCAATGTGGGTGAGATTCCGTTAGATGGATATAGA
66 TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATATAGA
* * * *
14415 TATTTTAATGAGACTTGGCGCCAAATATCATGCAAAACAGAGCTGAGGTCCCC-GAACGCGTTTT
131 TATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCTG-GG-CCCCGGAACGCGTTTT
* * * * * *
14479 TAGTTATAATCCGTGATGG-TA--CTC-GATTTCGGCTAAAATTTTACAAAAATTGA-TCTGAAA
194 TAGCTAAAAACCGTGATGGTTAGTCACTGATTTCGGCTAAAATTTTGCAAAAATTTACTC-GAAA
* * ** *
14539 -AATTTCTCCCCAATTTTTAGCCACAATACTCATAAAAAATATATAACTCAACGTGAAAAAAAAA
258 GAATTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA-TCAAC--GCCAAAAAGA
* *
14603 TTAAATGGCTTT
320 TTGAA-GGGTTT
* *
14615 TCACGATTCTAATATCGTTTTTCCTATTTTTAT--GAATTAATTTCTAATTAAA
1 TCACGCTTCTAATATTGTTTTTCCTATTTTT-TCCGAATTAATTTCTAATTAAA
14667 AAATTATATT
Statistics
Matches: 2469, Mismatches: 433, Indels: 302
0.77 0.14 0.09
Matches are distributed among these distances:
323 3 0.00
324 55 0.02
325 66 0.03
326 88 0.04
327 161 0.07
328 223 0.09
329 240 0.10
330 259 0.10
331 184 0.07
332 288 0.12
333 78 0.03
334 169 0.07
335 79 0.03
336 51 0.02
337 124 0.05
338 108 0.04
339 6 0.00
340 2 0.00
341 10 0.00
342 1 0.00
343 3 0.00
344 2 0.00
345 4 0.00
346 2 0.00
347 3 0.00
348 1 0.00
349 14 0.01
350 84 0.03
351 35 0.01
352 20 0.01
353 64 0.03
354 2 0.00
355 36 0.01
356 4 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (330 bp):
TCACGCTTCTAATATTGTTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGAT
TCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGGTGAGATTTCGTTAGATGAATATAGA
TATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCTGGGCCCCGGAACGCGTTTTTA
GCTAAAAACCGTGATGGTTAGTCACTGATTTCGGCTAAAATTTTGCAAAAATTTACTCGAAAGAA
TTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATCAACGCCAAAAAGATTGAAG
GGTTT
Found at i:12140 original size:872 final size:851
Alignment explanation
Indices: 10438--12153 Score: 1904
Period size: 872 Copynumber: 2.0 Consensus size: 851
10428 GTTTTTCATG
* * * * * *
10438 CTTCTAATATTGTTTTTTCCTATTTTTCCGAATTAATTTTTATTAAATTGAAATATGATTCAGAT
1 CTTCTAATATAGTTTTTTCCTATTTTTCCGAATTAATTTTAATTAAATCGAAACAGGATTAAGAT
** * * *
10503 GCTCGTAAAAGCAAATCCTTAATTCCAATGTGGTTGAGATTTGGTTAGATGAATATATATATTTC
66 GCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTC
* *
10568 AATGAGACTTGGCGCCAAAAATCATGCAAAACAGATCCGGGGCCACGAAACGCAATTTTAGTCCA
131 AATGAGACTTGGCACCAAAAATCATGCAAAACAGAT-CGGGGCCACGAAACGCAATTTTAGACCA
* * * * *
10633 AAAAAAAAGCCGTGATTTTCAGCAAAATGTTGCAAAAATTGACCCGAAAAATATCTCTTCAATTT
195 AAAAAAAAGCAGTCAATTTCAGCAAAATGTTGCAAAAATTAACCCGAAAAATATCTCCTCAATTT
* * * *
10698 TTGGTCACAACACTCATAAAAAATATATAACTCAATGCCACAAAGAATGAAGGGTTTCTCACGCT
260 TTAGCCACAACACTCATAAAAAATATATAACTCAACGCCACAAAGAATGAAAGGTTTCTCACGCT
* * ** *
10763 TCTAATATCGTTTTCCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACTGGATTGAGATG
325 TCTAATATCGTTTTCCCTATTTTTTCCGAATTAATTTCTAATCAAATAGAAACAAGATTCAGATG
* * *
10828 CTCGTAAAAAAAAAATCATTAAATCCAATGTGGCTGAGAGTTAGTTAGATAAATATAGATATTTC
390 CTCGTAAAAAAAAAATCATTAAATCCAATATGGATGAGAGTTAGTTAGATAAATAAAGATATTTC
* * * *
10893 ATTATTGGTGTAAAAAATCATGCAAAACTAAGCCGGAACCCCGTAACGCGTTTTTAGCCAAAAAC
455 AGTATTAGTGCAAAAAATCATGCAAAACTAAGCCGGAACCCCGGAACGCGTTTTTAGCCAAAAAC
* * * *
10958 CGTAATGATTAGTACACGATTTCTGCAAAAATTTACCCGAAAGAAGTTTCCTCATTTTTTGGCCA
520 CGTAATGATCAGTACACGATTTCTCCAAAAATTTACCCGAAAGAACTTTCCTCAATTTTTGGCCA
*** * * **
11023 CGATAATCATAAAAATATAAAATACAACTTTAAAAAGATTGAAAGGTTTTTCACGCTTCTAATAT
585 CGATAATCATAAAAATATAAAATACAACGCCAAAAAAATAGAAAACTTTTTCACGCTTCTAATAT
* *
11088 TGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATTATTCAGATGCTCGGAAAA
650 TGTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGGAAAA
** * * *
11153 GGAAATTCTTAAATCCTATGTGGGTGACATTTGGTTAGATGAATATAGATATTTTAATGAGACTT
715 ACAAATTCTTAAATCCAACGTGGGTGACATTTGGTTAGATGAATATAGATATTTCAATGAGACTT
** * ** * * *
11218 GGCGTCAAAAGTCATGCAAAACATATCTGGGGCCATGGAATGCGTTTTTAGTCAAAAATCGTGAA
780 GGCGTCAAAAACCATGCAAAACAAATCTAAGGCCACGGAACGCATTTTTAGTCAAAAATCGTGAA
11283 TCTCACA
845 TCTCACA
* *
11290 CTTCTAATATAG-TTTTTCCTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGGATTAAGA
1 CTTCTAATATAGTTTTTTCCTATTTTTCCGAATTAATTT-TAATTAAATCGAAACAGGATTAAGA
*
11354 TGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTT
65 TGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTT
* * * **
11419 CAATGAGTCTTGGCACCAAAAATCATGCAAAACTGAGT-GGGAGCC-CCAGAACGCGTTTTTA-A
130 CAATGAGACTTGGCACCAAAAATCATGCAAAACAGA-TCGGG-GCCACGA-AACGCAATTTTAGA
** * * * **
11481 CCAAAAACTGTAATGGTTAGTACACAATTTC-GTCTAAATTTTTGCAAAAATTTAACCC-AAACT
192 CCAAAAA----AAAAG-CAGT---CAATTTCAG-C-AAAATGTTGCAAAAA-TTAACCCGAAAAA
* * * * *
11544 TTTC-CCTCAATTTTTAGCCACAATACTCATAAAATAA-ATATAATTCAACGCCA-AAATATTGA
246 TATCTCCTCAATTTTTAGCCACAACACTCATAAAA-AATATATAACTCAACGCCACAAAGAATGA
* * * *
11606 AAGGTTTTTCACGCTTCTAATATCGTTTTCCTTATTTTTTTTCTATATTAATTTCTAATCAAATA
310 AAGGTTTCTCACGCTTCTAATATCGTTTTCCCTA-TTTTTTCCGA-ATTAATTTCTAATCAAATA
* * * * *
11671 GAAACAAGATTCAGATGCTCGT-AAAAACAAATCCTTAAATCCAATATGGATGATATTTGGTTAG
373 GAAACAAGATTCAGATGCTCGTAAAAAAAAAATCATTAAATCCAATATGGATGAGAGTTAGTTAG
* * * ** **
11735 ATGAATAAAGATATTTCAAGGAGTCTTAGTGCCAAAAATCATGCAAAACTGGGCCTGG-GTCCCG
438 ATAAATAAAGATATTTC----AGTATTAGTGCAAAAAATCATGCAAAACTAAGCC-GGAACCCCG
* * * * * * *
11799 GGACGTGTTTTTAGCTAAAAACCGTGATGGTGCACTGTTTCA-GTAATATTTTCCAAAAATTTAC
498 GAACGCGTTTTTAGCCAAAAACCGTAATGAT-CA--G-TACACG--AT-TTCTCCAAAAATTTAC
* * * * *
11863 TC-AAAGAACTTTCCTCAATTTTTGGTCATGATACTCATAAAAACTATATATAATGCAACGCCAA
556 CCGAAAGAACTTTCCTCAATTTTTGGCCACGATAATCATAAAAA-TATA-A-AATACAACGCCAA
*
11927 AAAAATAGAAAAACTTTTT-ACGCTTCTAATATT-TGTTTTCCTATTTTTTCTGAATTAATTTCT
618 AAAAATAG-AAAACTTTTTCACGCTTCTAATATTGT-TTTTCCTA-TTTTTCCGAATTAATTTCT
* *
11990 AATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAA-TCTTTAAATCCAACGTGGGTGAGA
680 AATTAAATCGAAACATGATTCAGATGCTCGGAAAAACAAATTC-TTAAATCCAACGTGGGTGACA
* * *
12054 TTTGGTTAGATGGATATGGATATTTCAATGAGACTTGGCG-CTAAAAACCATTCAAAACAAAGTC
744 TTTGGTTAGATGAATATAGATATTTCAATGAGACTTGGCGTC-AAAAACCATGCAAAACAAA-TC
12118 -AAGGCTC-CGGAACGCATTTTTAGTCAAAAATCGTGA
807 TAAGGC-CACGGAACGCATTTTTAGTCAAAAATCGTGA
12154 TGGTTAGTAC
Statistics
Matches: 710, Mismatches: 114, Indels: 60
0.80 0.13 0.07
Matches are distributed among these distances:
851 37 0.05
852 135 0.19
853 1 0.00
855 3 0.00
856 2 0.00
858 39 0.05
859 104 0.15
860 57 0.08
861 6 0.01
863 56 0.08
864 3 0.00
866 2 0.00
867 3 0.00
868 38 0.05
869 19 0.03
870 2 0.00
871 40 0.06
872 160 0.23
873 3 0.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (851 bp):
CTTCTAATATAGTTTTTTCCTATTTTTCCGAATTAATTTTAATTAAATCGAAACAGGATTAAGAT
GCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTC
AATGAGACTTGGCACCAAAAATCATGCAAAACAGATCGGGGCCACGAAACGCAATTTTAGACCAA
AAAAAAAGCAGTCAATTTCAGCAAAATGTTGCAAAAATTAACCCGAAAAATATCTCCTCAATTTT
TAGCCACAACACTCATAAAAAATATATAACTCAACGCCACAAAGAATGAAAGGTTTCTCACGCTT
CTAATATCGTTTTCCCTATTTTTTCCGAATTAATTTCTAATCAAATAGAAACAAGATTCAGATGC
TCGTAAAAAAAAAATCATTAAATCCAATATGGATGAGAGTTAGTTAGATAAATAAAGATATTTCA
GTATTAGTGCAAAAAATCATGCAAAACTAAGCCGGAACCCCGGAACGCGTTTTTAGCCAAAAACC
GTAATGATCAGTACACGATTTCTCCAAAAATTTACCCGAAAGAACTTTCCTCAATTTTTGGCCAC
GATAATCATAAAAATATAAAATACAACGCCAAAAAAATAGAAAACTTTTTCACGCTTCTAATATT
GTTTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGGAAAAA
CAAATTCTTAAATCCAACGTGGGTGACATTTGGTTAGATGAATATAGATATTTCAATGAGACTTG
GCGTCAAAAACCATGCAAAACAAATCTAAGGCCACGGAACGCATTTTTAGTCAAAAATCGTGAAT
CTCACA
Found at i:12741 original size:2 final size:2
Alignment explanation
Indices: 12734--12761 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12724 GGTTAGATGA
12734 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
12762 TTCAATGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14996 original size:22 final size:22
Alignment explanation
Indices: 14954--14997 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14944 TATTCATATG
*
14954 AAATTATGATAATCTCTCTATT
1 AAATTATGATAATCTCACTATT
14976 AAATTATGATAAT-TACACTATT
1 AAATTATGATAATCT-CACTATT
14998 TTTATGATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTATGATAATCTCACTATT
Found at i:15036 original size:22 final size:22
Alignment explanation
Indices: 15011--15533 Score: 221
Period size: 22 Copynumber: 23.6 Consensus size: 22
15001 ATGATCCCAT
15011 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAACCTTCC
* ** *
15033 TATGAAATTTTAATAATGATACAC
1 TATGAAATTTTGATAA-CCTTC-C
* * * **
15057 TATGGAATTTCGAGAACCTTTT
1 TATGAAATTTTGATAACCTTCC
** *
15079 TAT-AAATTTTTTTTAACCTTCT
1 TATGAAA-TTTTGATAACCTTCC
*
15101 TATGAAATTTTGTTAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* * *
15122 TTAAGGAATTTTGA-AGACC-TCAA
1 -TATGAAATTTTGATA-ACCTTC-C
15145 TATGAAATTTTGATAA-CTTCCC
1 TATGAAATTTTGATAACCTT-CC
* **
15167 AATGAAATTTTGATAACCAACAC
1 TATGAAATTTTGATAACCTTC-C
* * ** *
15190 CATGAGAGGTTGATAACCTTCA
1 TATGAAATTTTGATAACCTTCC
* * * *
15212 TATGATATATTGATAACC-ACGT
1 TATGAAATTTTGATAACCTTC-C
* * *
15234 TATGAAAATTTAAAAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* * *
15255 ATATG-AATTGTTAATAATC-ACAC
1 -TATGAAATT-TTGATAACCTTC-C
* * *
15278 TCTGAAATTTTGATAATC-ACAC
1 TATGAAATTTTGATAACCTTC-C
* *
15300 TATGAAATTGTGATAACC-ACTC
1 TATGAAATTTTGATAACCTTC-C
*
15322 TATGAAATTTTGATAAATCTTCC
1 TATGAAATTTTGAT-AACCTTCC
* *
15345 TATAAAATTTTGATAAACCTCCC
1 TATGAAATTTTGAT-AACCTTCC
* * *
15368 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAACCTTCC
* * *
15390 TATGAAATCTTGATAACATCCC
1 TATGAAATTTTGATAACCTTCC
*** *
15412 TATGTTTTTTTGATAACC-TCAT
1 TATGAAATTTTGATAACCTTC-C
* * * *
15434 TATGAAATGTTGTTAATCTCCC
1 TATGAAATTTTGATAACCTTCC
* *
15456 TATGAAATTTTGATAACCCTCT
1 TATGAAATTTTGATAACCTTCC
* **
15478 TATGAAATTTTGA-AAACTAAAC
1 TATGAAATTTTGATAACCT-TCC
*
15500 TATGAAATTTTGATATCCTT-C
1 TATGAAATTTTGATAACCTTCC
15521 T-TGAAATTTTGAT
1 TATGAAATTTTGAT
15534 TACTCCATAA
Statistics
Matches: 374, Mismatches: 104, Indels: 48
0.71 0.20 0.09
Matches are distributed among these distances:
20 12 0.03
21 16 0.04
22 260 0.70
23 72 0.19
24 14 0.04
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCC
Found at i:15352 original size:23 final size:23
Alignment explanation
Indices: 15321--15405 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
15311 GATAACCACT
*
15321 CTATGAAATTTTGATAAATCTTC
1 CTATAAAATTTTGATAAATCTTC
* *
15344 CTATAAAATTTTGATAAACCTCC
1 CTATAAAATTTTGATAAATCTTC
*
15367 CTATAAAATTTTGATAACT-TTC
1 CTATAAAATTTTGATAAATCTTC
* * *
15389 TTATGAAATCTTGATAA
1 CTATAAAATTTTGATAA
15406 CATCCCTATG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 16 0.30
23 37 0.70
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (23 bp):
CTATAAAATTTTGATAAATCTTC
Found at i:15664 original size:22 final size:22
Alignment explanation
Indices: 15639--15763 Score: 80
Period size: 22 Copynumber: 5.7 Consensus size: 22
15629 AATCACATTT
*
15639 TGAAAATTTGATAACCTTTTTA
1 TGAAAATTTGATAACCTCTTTA
*
15661 TGAAATTTTGATAACCTCTTTA
1 TGAAAATTTGATAACCTCTTTA
* *
15683 T-AAAATTTTGTTGACC-CTTCTA
1 TGAAAA-TTTGATAACCTCTT-TA
* * *
15705 TG-AAATTCTGATAATCACATTA
1 TGAAAATT-TGATAACCTCTTTA
* *
15727 T-ATAATTTTGATAACCTCGCTT-
1 TGA-AAATTTGATAACCTC-TTTA
*
15749 TGAAATTTTGATAAC
1 TGAAAATTTGATAAC
15764 AACACTATGA
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
21 8 0.10
22 64 0.79
23 9 0.11
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (22 bp):
TGAAAATTTGATAACCTCTTTA
Found at i:15707 original size:44 final size:44
Alignment explanation
Indices: 15614--15784 Score: 141
Period size: 44 Copynumber: 3.9 Consensus size: 44
15604 AGAAATACCA
* * **
15614 CTATGAAATTTTTG-TAATCACATTTTGAAAA-TTTGATAACCTTT
1 CTATGAAA-TTTTGATAACCACATTAT-AAAATTTTGATAACCTCG
* * * * * *
15658 TTATGAAATTTTGATAACCTCTTTATAAAATTTTGTTGACC-CTT
1 CTATGAAATTTTGATAACCACATTATAAAATTTTGATAACCTC-G
* * *
15702 CTATGAAATTCTGATAATCACATTATATAATTTTGATAACCTCG
1 CTATGAAATTTTGATAACCACATTATAAAATTTTGATAACCTCG
* * * *
15746 CTTTGAAATTTTGATAACAACACTATGAAATTTTGATAA
1 CTATGAAATTTTGATAACCACATTATAAAATTTTGATAA
15785 TCTGATCTCT
Statistics
Matches: 99, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
43 9 0.09
44 89 0.90
45 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (44 bp):
CTATGAAATTTTGATAACCACATTATAAAATTTTGATAACCTCG
Found at i:15774 original size:22 final size:21
Alignment explanation
Indices: 15702--15784 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
15692 GTTGACCCTT
*
15702 CTATGAAATTCTGATAATCACA
1 CTATGAAATTTTGATAA-CACA
* * *
15724 TTAT-ATAATTTTGATAACCTCG
1 CTATGA-AATTTTGATAA-CACA
*
15746 CTTTGAAATTTTGATAACAACA
1 CTATGAAATTTTGATAAC-ACA
15768 CTATGAAATTTTGATAA
1 CTATGAAATTTTGATAA
15785 TCTGATCTCT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.04
22 45 0.94
23 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (21 bp):
CTATGAAATTTTGATAACACA
Found at i:15777 original size:88 final size:88
Alignment explanation
Indices: 15614--15780 Score: 196
Period size: 88 Copynumber: 1.9 Consensus size: 88
15604 AGAAATACCA
* * ** **
15614 CTATGAAATTTTTGTAATCACATTTTGAAAATTTGATAACCTTTTTATGAAATTTTGATAACCTC
1 CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTGCTTATGAAATTTTGATAACAAC
**
15679 TTTATAAAATTTTGTTGACCCTT
66 ACTATAAAATTTTGTTGACCCTT
*
15702 CTATGAAA-TTCTGATAATCACATTAT-ATAATTTTGATAACCTCGCTT-TGAAATTTTGATAAC
1 CTATGAAATTTCTG-TAATCACATTATGA-AAATTTGATAACCT-GCTTATGAAATTTTGATAAC
*
15764 AACACTATGAAATTTTG
63 AACACTATAAAATTTTG
15781 ATAATCTGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
87 5 0.08
88 59 0.89
89 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (88 bp):
CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTGCTTATGAAATTTTGATAACAAC
ACTATAAAATTTTGTTGACCCTT
Found at i:15935 original size:22 final size:22
Alignment explanation
Indices: 15885--16009 Score: 65
Period size: 22 Copynumber: 5.7 Consensus size: 22
15875 TAACCTTCAT
* * * *
15885 ATGATATTTTGATAACCACACT
1 ATGAAATTTTGATAACCTCCCA
* *
15907 ATAAAATTTTGATAACCTCCCC
1 ATGAAATTTTGATAACCTCCCA
* * *
15929 GTGAAATATT-AGTAACCTCCTA
1 ATGAAATTTTGA-TAACCTCCCA
* * * *
15951 ATGAAATTTTGTTAACCACACT
1 ATGAAATTTTGATAACCTCCCA
* *
15973 ATGAAATTCTT-ATAACCTCTCT
1 ATGAAATT-TTGATAACCTCCCA
* *
15995 ATGACATTTTTATAA
1 ATGAAATTTTGATAA
16010 TCTCTTTGAT
Statistics
Matches: 78, Mismatches: 21, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
21 3 0.04
22 73 0.94
23 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (22 bp):
ATGAAATTTTGATAACCTCCCA
Found at i:16014 original size:22 final size:22
Alignment explanation
Indices: 15872--16014 Score: 64
Period size: 22 Copynumber: 6.5 Consensus size: 22
15862 ATTGAGACTT
*
15872 TTATAACCT-TCATATGATATT-
1 TTATAACCTCTC-TATGAAATTC
* * *
15893 TTGATAACCACACTATAAAATT-
1 TT-ATAACCTCTCTATGAAATTC
* ** *
15915 TTGATAACCTCCCCGTGAAA-TA
1 TT-ATAACCTCTCTATGAAATTC
15937 TTAGTAACCTC-CTAATGAAATT-
1 TTA-TAACCTCTCT-ATGAAATTC
* * *
15959 TTGTTAACCACACTATGAAATTC
1 TT-ATAACCTCTCTATGAAATTC
* *
15982 TTATAACCTCTCTATGACATTT
1 TTATAACCTCTCTATGAAATTC
*
16004 TTATAATCTCT
1 TTATAACCTCT
16015 TTGATAACCT
Statistics
Matches: 94, Mismatches: 19, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
21 5 0.05
22 83 0.88
23 6 0.06
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.38
Consensus pattern (22 bp):
TTATAACCTCTCTATGAAATTC
Found at i:16092 original size:22 final size:22
Alignment explanation
Indices: 16043--16093 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
16033 AATCGTGATA
16043 ATTAACCACTCTAAGAAATTTC
1 ATTAACCACTCTAAGAAATTTC
* *
16065 AATAACCAAC-CTAAGAAATTTT
1 ATTAACC-ACTCTAAGAAATTTC
16087 ATTAACC
1 ATTAACC
16094 TGATCCAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (22 bp):
ATTAACCACTCTAAGAAATTTC
Found at i:16129 original size:46 final size:45
Alignment explanation
Indices: 16079--16227 Score: 148
Period size: 44 Copynumber: 3.3 Consensus size: 45
16069 ACCAACCTAA
*
16079 GAAATTTT-ATTAACCTGATCCA-ATGAAATTTTGGTAATCACACTAT
1 GAAATTTTGA-TAACCT--TCCATATGAAATTTTGGTAACCACACTAT
16125 GAAATTTTGATAA-CTTCCATATGAAATTTTGGTAACCACACTAT
1 GAAATTTTGATAACCTTCCATATGAAATTTTGGTAACCACACTAT
* * * ** *
16169 GGAATTTTGATAACC-TCC-TCGTGAAATTATAATAACCATC-TTAT
1 GAAATTTTGATAACCTTCCAT-ATGAAATTTTGGTAACCA-CACTAT
16213 GAAATTTTGATAACC
1 GAAATTTTGATAACC
16228 ACATAGAGAC
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
43 5 0.06
44 69 0.77
45 4 0.04
46 11 0.12
47 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (45 bp):
GAAATTTTGATAACCTTCCATATGAAATTTTGGTAACCACACTAT
Found at i:16182 original size:22 final size:22
Alignment explanation
Indices: 16101--16230 Score: 115
Period size: 22 Copynumber: 5.9 Consensus size: 22
16091 ACCTGATCCA
* *
16101 ATGAAATTTTGGTAATCACACT
1 ATGAAATTTTGATAACCACACT
16123 ATGAAATTTTGATAACTTC-CA-T
1 ATGAAATTTTGATAAC--CACACT
*
16145 ATGAAATTTTGGTAACCACACT
1 ATGAAATTTTGATAACCACACT
* *
16167 ATGGAATTTTGATAACCTC-CT
1 ATGAAATTTTGATAACCACACT
* * * *
16188 CGTGAAATTATAATAACCATC-TT
1 -ATGAAATTTTGATAACCA-CACT
16211 ATGAAATTTTGATAACCACA
1 ATGAAATTTTGATAACCACA
16231 TAGAGACAAC
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
20 1 0.01
21 5 0.06
22 75 0.87
23 4 0.05
24 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (22 bp):
ATGAAATTTTGATAACCACACT
Found at i:18641 original size:18 final size:18
Alignment explanation
Indices: 18620--18676 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
18610 ATCAGCTCTC
*
18620 CCATAACCTTTCTCGTAG
1 CCATAACCTTTCCCGTAG
* ** *
18638 CCATCACCTCCCCCGTAA
1 CCATAACCTTTCCCGTAG
*
18656 CCGTAACCTTTCCCGTAG
1 CCATAACCTTTCCCGTAG
18674 CCA
1 CCA
18677 CCACCGTAAC
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.44, G:0.11, T:0.25
Consensus pattern (18 bp):
CCATAACCTTTCCCGTAG
Found at i:18690 original size:36 final size:36
Alignment explanation
Indices: 18623--18693 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
18613 AGCTCTCCCA
* * **
18623 TAACCTTTCTCGTAGCCATCACCTCCCCCGTAACCG
1 TAACCTTTCCCGTAGCCACCACCTCAACCGTAACCG
18659 TAACCTTTCCCGTAGCCACCACCGT-AACCGTAACC
1 TAACCTTTCCCGTAGCCACCACC-TCAACCGTAACC
18694 TTTTCCGTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 29 0.97
37 1 0.03
ACGTcount: A:0.23, C:0.44, G:0.11, T:0.23
Consensus pattern (36 bp):
TAACCTTTCCCGTAGCCACCACCTCAACCGTAACCG
Found at i:18701 original size:18 final size:18
Alignment explanation
Indices: 18680--18723 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18670 GTAGCCACCA
*
18680 CCGTAACCGTAACCTTTT
1 CCGTAACCATAACCTTTT
* * *
18698 CCGTACCCATCATCTTTT
1 CCGTAACCATAACCTTTT
18716 CCGTAACC
1 CCGTAACC
18724 TTTCCCGTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.39, G:0.09, T:0.32
Consensus pattern (18 bp):
CCGTAACCATAACCTTTT
Found at i:18738 original size:30 final size:30
Alignment explanation
Indices: 18655--18744 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
18645 CTCCCCCGTA
* * * *
18655 ACCGTAACCTTTCCCGTAGCCACCACCGTA
1 ACCGTAACCTTTCCCGTAGCCATCATCTTT
* *
18685 ACCGTAACCTTTTCCGTACCCATCATCTTT
1 ACCGTAACCTTTCCCGTAGCCATCATCTTT
*
18715 TCCGTAACCTTTCCCGTAGCCATCATCTTT
1 ACCGTAACCTTTCCCGTAGCCATCATCTTT
18745 CTTGCGGTCA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.20, C:0.39, G:0.10, T:0.31
Consensus pattern (30 bp):
ACCGTAACCTTTCCCGTAGCCATCATCTTT
Found at i:18871 original size:15 final size:12
Alignment explanation
Indices: 18841--18900 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
18831 GATCTTTCCC
18841 ATCATCTTTCTT
1 ATCATCTTTCTT
18853 ATCATCTTTCTT
1 ATCATCTTTCTT
* * * *
18865 GTGATCATCCTT
1 ATCATCTTTCTT
* *
18877 GTGATCTTTCTT
1 ATCATCTTTCTT
18889 ATCATCTTTCTT
1 ATCATCTTTCTT
18901 GTGCTCATCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (12 bp):
ATCATCTTTCTT
Found at i:18883 original size:24 final size:24
Alignment explanation
Indices: 18814--18888 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
18804 TATTGCAGTC
18814 CTTGTGATCATCCTTGTGATCTTT
1 CTTGTGATCATCCTTGTGATCTTT
*** * * * * *
18838 CCCATCATCTTTCTTATCATCTTT
1 CTTGTGATCATCCTTGTGATCTTT
18862 CTTGTGATCATCCTTGTGATCTTT
1 CTTGTGATCATCCTTGTGATCTTT
18886 CTT
1 CTT
18889 ATCATCTTTC
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.13, C:0.25, G:0.11, T:0.51
Consensus pattern (24 bp):
CTTGTGATCATCCTTGTGATCTTT
Found at i:18884 original size:36 final size:33
Alignment explanation
Indices: 18844--18934 Score: 128
Period size: 36 Copynumber: 2.7 Consensus size: 33
18834 CTTTCCCATC
*
18844 ATCTTTCTTATCATCTTTCTTGTGATCATCCTTGTG
1 ATCTTTCTTATCATCTTTCTTGTGATCAT-C--ATG
*
18880 ATCTTTCTTATCATCTTTCTTGTGCTCATCATG
1 ATCTTTCTTATCATCTTTCTTGTGATCATCATG
*
18913 ATCTTTCTTATCCTCTTTCTTG
1 ATCTTTCTTATCATCTTTCTTG
18935 CAGCGATCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
33 23 0.44
35 1 0.02
36 28 0.54
ACGTcount: A:0.13, C:0.24, G:0.09, T:0.54
Consensus pattern (33 bp):
ATCTTTCTTATCATCTTTCTTGTGATCATCATG
Found at i:18901 original size:24 final size:24
Alignment explanation
Indices: 18826--18903 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
18816 TGTGATCATC
**
18826 CTTGTGATCTTTCCCATCATCTTT
1 CTTGTGATCTTTCTTATCATCTTT
* * * * * *
18850 CTTATCATCTTTCTTGTGATCATC
1 CTTGTGATCTTTCTTATCATCTTT
18874 CTTGTGATCTTTCTTATCATCTTT
1 CTTGTGATCTTTCTTATCATCTTT
18898 CTTGTG
1 CTTGTG
18904 CTCATCATGA
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.13, C:0.24, G:0.10, T:0.53
Consensus pattern (24 bp):
CTTGTGATCTTTCTTATCATCTTT
Found at i:18950 original size:33 final size:33
Alignment explanation
Indices: 18840--18950 Score: 107
Period size: 33 Copynumber: 3.3 Consensus size: 33
18830 TGATCTTTCC
* *
18840 CATCATCTTTCTTATCATCTTTCTTGTGATCAT
1 CATCATCTTTCTTATCATCTTTCTTGAGCTCAT
* * *
18873 CCTTGTGATCTTTCTTATCATCTTTCTTGTGCTCAT
1 -C--ATCATCTTTCTTATCATCTTTCTTGAGCTCAT
* * *
18909 CATGATCTTTCTTATCCTCTTTCTTGCAGC-GAT
1 CATCATCTTTCTTATCATCTTTCTTG-AGCTCAT
18942 CATCATCTT
1 CATCATCTT
18951 CTTTCCCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
33 33 0.50
34 3 0.05
35 1 0.02
36 29 0.44
ACGTcount: A:0.15, C:0.26, G:0.09, T:0.50
Consensus pattern (33 bp):
CATCATCTTTCTTATCATCTTTCTTGAGCTCAT
Found at i:18972 original size:39 final size:38
Alignment explanation
Indices: 18929--19090 Score: 93
Period size: 39 Copynumber: 4.2 Consensus size: 38
18919 CTTATCCTCT
18929 TTCTTGCAGCGATCATCATCTTCTTTCCCATATTCATCC
1 TTCTTGCAGCGATCATCATCTTCTTTCCCATA-TCATCC
* * ** * *
18968 TTCTTGCA--G-TCCTTATGATCTTTCCCATCATCTTTC
1 TTCTTGCAGCGATCATCATCTTCTTTCCCAT-ATCATCC
* * * * * * *
19004 -TCTTTCTTGCGATCATCCTTGTGATCTTT--CTTATCCTCT
1 TTCTTGC-AGCGATCAT-CATCT--TCTTTCCCATATCATCC
*
19043 TTCTTGCAGTGATCATCATCTTCTTTCCCATATTCATCC
1 TTCTTGCAGCGATCATCATCTTCTTTCCCATA-TCATCC
19082 TTCTTGCAG
1 TTCTTGCAG
19091 TCCTTATGAT
Statistics
Matches: 87, Mismatches: 24, Indels: 24
0.64 0.18 0.18
Matches are distributed among these distances:
35 5 0.06
36 24 0.28
37 2 0.02
38 7 0.08
39 35 0.40
40 9 0.10
42 5 0.06
ACGTcount: A:0.15, C:0.30, G:0.09, T:0.46
Consensus pattern (38 bp):
TTCTTGCAGCGATCATCATCTTCTTTCCCATATCATCC
Found at i:19042 original size:114 final size:114
Alignment explanation
Indices: 18911--19118 Score: 398
Period size: 114 Copynumber: 1.8 Consensus size: 114
18901 GTGCTCATCA
18911 TGATCTTTCTTATCCTCTTTCTTGCAGCGATCATCATCTTCTTTCCCATATTCATCCTTCTTGCA
1 TGATCTTTCTTATCCTCTTTCTTGCAGCGATCATCATCTTCTTTCCCATATTCATCCTTCTTGCA
*
18976 GTCCTTATGATCTTTCCCATCATCTTTCTCTTTCTTGCGATCATCCTTG
66 GTCCTTATGATCTTTCCAATCATCTTTCTCTTTCTTGCGATCATCCTTG
*
19025 TGATCTTTCTTATCCTCTTTCTTGCAGTGATCATCATCTTCTTTCCCATATTCATCCTTCTTGCA
1 TGATCTTTCTTATCCTCTTTCTTGCAGCGATCATCATCTTCTTTCCCATATTCATCCTTCTTGCA
19090 GTCCTTATGATCTTTCCAATCATCTTTCT
66 GTCCTTATGATCTTTCCAATCATCTTTCT
19119 TGTGATCATC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 92 1.00
ACGTcount: A:0.15, C:0.30, G:0.08, T:0.47
Consensus pattern (114 bp):
TGATCTTTCTTATCCTCTTTCTTGCAGCGATCATCATCTTCTTTCCCATATTCATCCTTCTTGCA
GTCCTTATGATCTTTCCAATCATCTTTCTCTTTCTTGCGATCATCCTTG
Found at i:19148 original size:36 final size:36
Alignment explanation
Indices: 18844--19153 Score: 119
Period size: 36 Copynumber: 8.5 Consensus size: 36
18834 CTTTCCCATC
** *
18844 ATCTTTCTTATCATCTTTCTTGTGATCATCCTTGTG
1 ATCTTTCCCATCATCTTTCTTGTGATCATCCTTATG
** *
18880 ATCTTTCTTATCATCTTTCTTGTGCTCAT-C--ATG
1 ATCTTTCCCATCATCTTTCTTGTGATCATCCTTATG
** * * * * * *
18913 ATCTTTCTTATCCTCTTTCTTG-CAGCGATCATCATC
1 ATCTTTCCCATCATCTTTCTTGTGATC-ATCCTTATG
* *
18949 TTCTTTCCCATATTCATCCTTC-T-TG--CAGTCCTTATG
1 ATCTTTCCC--A-TCATCTTTCTTGTGATCA-TCCTTATG
* *
18985 ATCTTTCCCATCATCTTTCTCTTTCTTGCGATCATCCTTGTG
1 ATCTTTCCCATCA------TCTTTCTTGTGATCATCCTTATG
** * *
19027 ATCTTTCTTATCCTCTTTCTTGCAGTGATCAT-C--ATC
1 ATCTTTCCCATCATCTTTCTT---GTGATCATCCTTATG
* *
19063 TTCTTTCCCATATTCATCCTTC-T-TG--CAGTCCTTATG
1 ATCTTTCCC--A-TCATCTTTCTTGTGATCA-TCCTTATG
* *
19099 ATCTTTCCAATCATCTTTCTTGTGATCATCCTTGTG
1 ATCTTTCCCATCATCTTTCTTGTGATCATCCTTATG
19135 ATCTTTCCCATCATCTTTC
1 ATCTTTCCCATCATCTTTC
19154 CCATACTTGT
Statistics
Matches: 203, Mismatches: 38, Indels: 66
0.66 0.12 0.21
Matches are distributed among these distances:
32 3 0.01
33 37 0.18
34 6 0.03
35 4 0.02
36 99 0.49
37 2 0.01
38 5 0.02
39 26 0.13
40 1 0.00
41 1 0.00
42 17 0.08
43 2 0.01
ACGTcount: A:0.15, C:0.28, G:0.09, T:0.48
Consensus pattern (36 bp):
ATCTTTCCCATCATCTTTCTTGTGATCATCCTTATG
Found at i:22186 original size:196 final size:196
Alignment explanation
Indices: 21789--22387 Score: 1058
Period size: 196 Copynumber: 3.1 Consensus size: 196
21779 AATTATGTTG
21789 ATAAAAATATTACTTCTTTTGATGAAAGATGAATTAATCGTGTAAAGCGTGTAATTATTTTAAAA
1 ATAAAAATATTACTTCTTTTGATGAAAGATGAATTAATCGTGTAAAGCGTGTAATTATTTTAAAA
21854 CTTATCGTGTGTCATTTTTACTGTGTTATTGTGTTATACACGTTAAATAAGCGTGTTCGTGTTCA
66 CTTATCGTGTGTCATTTTTACTGTGTTATTGTG-T-TACACGTTAAATAAGCGTGTTCGTGTTCA
*
21919 TGTTTAAAAATATTGACACGATTATTGATGATCATGTTGTGTCTGTATATGATCAAATACATATA
129 TGTTTAAAAATATTGACACGATTATTGATGATCATGTTGTGTCCGTATATGATCAAATACATATA
21984 TTA
194 TTA
* *
21987 ATAAAAATATTACTTCTTTTGATGAAAGATGAATTAATCATGTAAAGCGTGTGATTATTTTAAAA
1 ATAAAAATATTACTTCTTTTGATGAAAGATGAATTAATCGTGTAAAGCGTGTAATTATTTTAAAA
*
22052 CTTATCGTGTGTCGTTTTTACTGTGTTATTGTGTTACACGTTAAATAAGCGTGTTCGTGTTCATG
66 CTTATCGTGTGTCATTTTTACTGTGTTATTGTGTTACACGTTAAATAAGCGTGTTCGTGTTCATG
* *
22117 TTTAAAAATAATGACACGATTATTGATGATCATTTTGTGTCCGTATATGATCAAATACATATATT
131 TTTAAAAATATTGACACGATTATTGATGATCATGTTGTGTCCGTATATGATCAAATACATATATT
22182 A
196 A
* * *
22183 ATAAAAATATAACTTCTTTTGATGAAAGATGAATTAATCGTATAAAGTGTGTAATTATTTTAAAA
1 ATAAAAATATTACTTCTTTTGATGAAAGATGAATTAATCGTGTAAAGCGTGTAATTATTTTAAAA
* *
22248 CTTATCGTGTGTCATTTTTACTGTATTATTGTGTTACACGTTAAATAAGCTTG-T-GTGTTCATG
66 CTTATCGTGTGTCATTTTTACTGTGTTATTGTGTTACACGTTAAATAAGCGTGTTCGTGTTCATG
*
22311 TTTAAAAATATTGACACGATTATTGATGATCATGTTGTGTCCGTATATGATCAAATACATATATC
131 TTTAAAAATATTGACACGATTATTGATGATCATGTTGTGTCCGTATATGATCAAATACATATATT
22376 A
196 A
22377 ATAAAAATATT
1 ATAAAAATATT
22388 TTAATACTCT
Statistics
Matches: 383, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
194 82 0.21
195 1 0.00
196 204 0.53
197 1 0.00
198 95 0.25
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (196 bp):
ATAAAAATATTACTTCTTTTGATGAAAGATGAATTAATCGTGTAAAGCGTGTAATTATTTTAAAA
CTTATCGTGTGTCATTTTTACTGTGTTATTGTGTTACACGTTAAATAAGCGTGTTCGTGTTCATG
TTTAAAAATATTGACACGATTATTGATGATCATGTTGTGTCCGTATATGATCAAATACATATATT
A
Found at i:30800 original size:23 final size:23
Alignment explanation
Indices: 30748--30792 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
30738 AAAAAAATGC
30748 TGACATGGCATGACGTGGAATAA
1 TGACATGGCATGACGTGGAATAA
30771 TGACATGGCATGACGTGGAATA
1 TGACATGGCATGACGTGGAATA
30793 TTGCCATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.22
Consensus pattern (23 bp):
TGACATGGCATGACGTGGAATAA
Done.