Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015383.1 Kokia drynarioides strain JFW-HI SEQ_130430, 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: 970611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 920 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:399 original size:214 final size:214
Alignment explanation
Indices: 2--417 Score: 437
Period size: 214 Copynumber: 1.9 Consensus size: 214
1 A
* * * * * ** *
2 TGAATTAAAAACTTATTCAGGTGAGAA-TAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAAGT
1 TGAATTAAAAA-TTTTTTAGGTGAGAATTA-TTTCTTTCTTGGTTCTCGGACGAAC-TTTGAACT
* * ** * *
66 TGACAAACTTTTACGTGTTATTTTATAACTTCGGTTCCTTAAGGTATTCAAGACGAACCATTCCT
63 TGACAAACTTTTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCC-
* * * * * * *
131 TTC-AGAAATTTATTT-AACATTACAAGCTTAGTAAATCTCATC-TTTTGGTCTAAATAGTTGTC
127 TTCGAGCAATTT-TTTGAACATTCCATGCTTGGGAAATCACATCATTTAGGTCTAAATAGTTGTC
193 ATTTTGTAAACAACTTTTGGTCTT
191 ATTTTGTAAACAACTTTTGGTCTT
* * *
217 TGAATTAATAAATTTTTTATGTGAGAATTATTTCTTTCTTGGTTCTCGGACGAACTTTAAACTTT
1 TGAATTAA-AAATTTTTTAGGTGAGAATTATTTCTTTCTTGGTTCTCGGACGAACTTTGAACTTG
** * *
282 ACAAACTTTTATAAGTTCTTTTATAACTTTTGTTCATTAAAGTATTCAAGACGATCCATTTCTTC
65 ACAAACTTTTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
* * * * *
347 GAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCATCACTT-GTTCTAAATACATTGTCATT
130 GAGCAATTTTTTGAACATTCCATGCTTGGGAAATCACATCATTTAGGTCTAAATA-GTTGTCATT
411 TTGTAAA
194 TTGTAAA
418 AACAAGTTAT
Statistics
Matches: 164, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
213 6 0.04
214 94 0.57
215 59 0.36
216 5 0.03
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (214 bp):
TGAATTAAAAATTTTTTAGGTGAGAATTATTTCTTTCTTGGTTCTCGGACGAACTTTGAACTTGA
CAAACTTTTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
AGCAATTTTTTGAACATTCCATGCTTGGGAAATCACATCATTTAGGTCTAAATAGTTGTCATTTT
GTAAACAACTTTTGGTCTT
Found at i:567 original size:196 final size:194
Alignment explanation
Indices: 232--612 Score: 464
Period size: 196 Copynumber: 2.0 Consensus size: 194
222 TAATAAATTT
* * * *
232 TTTATGTGAGAATTATTTCTTTCTTGGTTCTCGGACGAACTTTAAACTTTACAAACTTTTATAAG
1 TTTATGTGAGAATTATTTCTTTCTTGGTTCTCGGACGAACTTTAAACTTCAAAAACTTTAACAAG
* ***
297 TTCTTTTATAACTTTTGTTCATTAAAGTATTCAAGACGATCCATTTCTTCGAGCAATTTTTTGAA
66 TTCTTTTATAACTTTTGTTCATTAAAGAATTCAAGACGATCCATTTCTTCGAGCAATTTTCCCAA
* * * **
362 CATTCCATGCTCGGGAAATCGCATCACTT-GTTCTAAATACATTGTCATTTTGTAAAAACAAGTT
131 CAGTCCATGCTCCGGAAATCACATCA-TTAGGCCTAAATA-ATTGTCATTTTGTAAAAACAAGTT
426 A
194 A
* * * * *
427 TTTATGTTAGAATTGTTTCTTTCTTTGTTCTCGGTTC-AACTTTTAAACTTCAAAAACTTTAACG
1 TTTATGTGAGAATTATTTCTTTCTTGGTTCTCGG-ACGAAC-TTTAAACTTCAAAAACTTTAACA
* * *
491 AGTTCTTTTATAACTTTTGTTCGTTAAAGAATTCAGGACGATCCATTAT-TTTGAGCAA-TTTCC
64 AGTTCTTTTATAACTTTTGTTCATTAAAGAATTCAAGACGATCCATT-TCTTCGAGCAATTTTCC
* * *
554 CACACAGTCCATGCTCCTGAGATCACATCATTAGGCCTAAATAATTGTCATTTTTTAAA
128 CA-ACAGTCCATGCTCCGGAAATCACATCATTAGGCCTAAATAATTGTCATTTTGTAAA
613 CTACTTTTGG
Statistics
Matches: 157, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
195 55 0.35
196 101 0.64
197 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (194 bp):
TTTATGTGAGAATTATTTCTTTCTTGGTTCTCGGACGAACTTTAAACTTCAAAAACTTTAACAAG
TTCTTTTATAACTTTTGTTCATTAAAGAATTCAAGACGATCCATTTCTTCGAGCAATTTTCCCAA
CAGTCCATGCTCCGGAAATCACATCATTAGGCCTAAATAATTGTCATTTTGTAAAAACAAGTTA
Found at i:868 original size:215 final size:215
Alignment explanation
Indices: 424--2131 Score: 1611
Period size: 215 Copynumber: 8.0 Consensus size: 215
414 TAAAAACAAG
* * * * * * ** * * *
424 TTATTTATGTTAGAATTGTTTCTTTCTTTGTTCTCGGTTC-AACTTTTAAACTTCAAAAACTTTA
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGG-CCGAACTTTCGAACTTGACAAACTTTT
* * * * ** * **
488 ACGAGTTCTTTTATAACTTTTGTTCGTTAAAGAATTCAGGACGATCCATTATTTTGAGCAA-TTT
65 ACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGATAAATTTT
*** * *** * * * * * * *
552 CCCACACAGTCCATGCTCCTGAGATCACATCATTAGGCCTAAATAATTGTCATTTTTTAAACTAC
130 TTGA-ACATTCCATGCTTAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAAC
*
617 TTTTGGTCTATGAATTAAAAAC
194 TTTTGGTCTTTGAATTAAAAAC
* * * * *
639 TTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAAGTTGACAAACTTTTA
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGGCCGAACTTTCGAACTTGACAAACTTTTA
** * *
704 CGAGTTCTTTTATAACTTTGGTTCCTTATGGTATTCAAGACAAACCATTCCGTT-GATAAATTTA
66 CGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCC-TTCGATAAATTT-
* * * * *
768 TTT-AACATTACAAGCTTAGTAAATCTCATCTTTTGGTCTAAATAGTTGTCATTTTGTAAACAAC
129 TTTGAACATTCCATGCTTAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAAC
*
832 TTTTGGTCTTTGAATTAATTAA-
194 TTTTGGTCTTTGAATTAA-AAAC
* * * * *
854 TTCTTTATGTGAGAATTGTTTCTTTCTTGGTTCTCGGCCGAACTTT-AAACTTGACAAACTTTTA
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGGCCGAACTTTCGAACTTGACAAACTTTTA
** * * * *
918 TAACTTCTTTTATAACTTTTGTTCGTTAAAGTATTCAAGACGATTCATTCCTTCGAGT-AATTTT
66 CGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA-TAAATTTT
* * * * * * *
982 CTGTACAGTCCATGCTTGGGAAATCACATCATTAGGTCTAAATAGTTGTCATTTTGTAAACTACT
130 TTGAACATTCCATGCTTAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAACT
* * *
1047 TTTGGTTTTTCAATTAAAAAG
195 TTTGGTCTTTGAATTAAAAAC
* * * *
1068 TTATTTAGGTGAGAATTGTTTCTCTATTCGTTCT----C-AGC--T-GAACTTGACAAAGTTTTA
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGGCCGAACTTTCGAACTTGACAAACTTTTA
* * * * *
1125 CGAGTACTTTTTTAACTTTTGTTCATTAAAGTATTCAAGACGATCCTTTCCTTCGAGT-AATTTT
66 CGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA-TAAATTTT
* * * * * * *
1189 TTGTACAGTCCATGCTTGGGGAATCACATCATTAGGTCTAAATAGTTGTCATTTCT-TAAACTAC
130 TTGAACATTCCATGCTTAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTT-TGTAAACAAC
* **
1253 TTTTGGTCTTCGAATTAAAATT
194 TTTTGGTCTTTGAATTAAAAAC
* * * * * *
1275 TTATTTAGGTGAGGATTGTTTCTCTTTTGGTTCTCGGTCGAACTTCCGAACTTGAAAAACTTTTA
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGGCCGAACTTTCGAACTTGACAAACTTTTA
* * * * **
1340 CGAGTTAC-TTTATAACTTTGATTCCCTAAATTATTCAAGACGATCCATTCCTTCAAGCAATTTT
66 CGAGTT-CTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGATAAATTTT
** * * * * * * * *
1404 AGGAAAATTGCATGCTCTA-GAAATCGCATCATTTAGTCTGAATAATTGCCATTATGCAAACAAC
130 TTGAACATTCCATGCT-TAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAAC
1468 TTTTGGTCTTTGAATTAAAAAC
194 TTTTGGTCTTTGAATTAAAAAC
* * ** *
1490 TTTTTTAGGTGAGAATAG-TTCTCTCTTATTTCTAGGCCGAACTTTCGAAGTTGACAAACTTTTA
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGGCCGAACTTTCGAACTTGACAAACTTTTA
* * **
1554 CGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAATCAAGACGATCCATTCCTTCGAGCAATTTTT
66 CGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGATAAATTTTT
* * *
1619 TGAACATTCCATGC-TCGAGAAATCGCATCATTTGGTCTAAATAGTTGTTATTTTGTAAACCACT
131 TGAACATTCCATGCTTAG-GAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAACT
*
1683 TTTGGTCATTGAATTAAAAAC
195 TTTGGTCTTTGAATTAAAAAC
* ** * * *
1704 TAATTTAGGTGAGAATAATTTCTCTCTTGGTTCTGGGCTGAACTTTCGAAGTTGACAAACTTTTA
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGGCCGAACTTTCGAACTTGACAAACTTTTA
* * *
1769 CGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTTAAGACGATCCATTCCTTCAAT-CATTTTT
66 CGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGATAAATTTTT
*
1833 TCGAACATTCCATGCTT-GGAAATGGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAACT
131 T-GAACATTCCATGCTTAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAACT
*
1897 TTTGGTCTTTGAATT-AAAAT
195 TTTGGTCTTTGAATTAAAAAC
* ** * * * * * *
1917 TTTTTTATATGAGAATTGTTTCTTTCTTGGTTCTCA-ACCAAACTTT-AAACGTGACAAAATTTT
1 TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCT-AGGCCGAACTTTCGAACTTGACAAACTTTT
* * * * ** *
1980 -CAAGTTCTTTTATAAATTTTGTTCATTAAAGTATTCAAGACGATCCATTCCTTC-AGCAATTTA
65 ACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGATAAATTTT
* * * * * * * * *
2043 TT-ATACAGTCCATGCTTGGGAAATCACATTATTAGGTCTAAATTGTTGTCATTCTGCAAACTAC
130 TTGA-ACATTCCATGCTTAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAAC
* * *
2107 TTTTCGTTTTTCAATTAAAAAC
194 TTTTGGTCTTTGAATTAAAAAC
2129 TTA
1 TTA
2132 GGGCATGATC
Statistics
Matches: 1233, Mismatches: 227, Indels: 69
0.81 0.15 0.05
Matches are distributed among these distances:
207 181 0.15
208 1 0.00
209 3 0.00
210 14 0.01
211 107 0.09
212 22 0.02
213 45 0.04
214 404 0.33
215 445 0.36
216 10 0.01
217 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (215 bp):
TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTAGGCCGAACTTTCGAACTTGACAAACTTTTA
CGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGATAAATTTTT
TGAACATTCCATGCTTAGGAAATCGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAACTT
TTGGTCTTTGAATTAAAAAC
Found at i:1326 original size:429 final size:425
Alignment explanation
Indices: 424--2110 Score: 1579
Period size: 429 Copynumber: 4.0 Consensus size: 425
414 TAAAAACAAG
* * * * * *
424 TTATTTATGTTAGAATTGTTTCT-TTCTTTGTTCTC-GG-TTC-AACTTTTAAACTTCAAAAACT
1 TTATTTAGGTGAGAATTGTTTCTCTT-TTGGTTCTCGGGCTCCGAAC-TTT-AACTTGACAAACT
* * * * ** *
485 TTAACGAGTTCTTTTATAACTTTTGTTCGTTAAAGAATTCAGGACGATCCATTATTTTGAGCAA-
63 TTTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAT
** * * *
549 TTTCCCACACAGTCCATGCTCCT-GAGATCACATCATTAGGCCTAAATAATTGTCATTTTTTAAA
128 TTTCTGA-ACAGTCCATGCT--TGGAAATCACATCATTAGGTCTAAATAATTGTCATTTTGTAAA
* * * * *
613 CTACTTTTGGTCTATGAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCC
190 CAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATAGTTTCTCTATTCGTTCTA---C
* * * **
678 GAACATCCGAAGTTGACAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTATGGTATTCAAG
252 GAAC-TTCGAACTTGACAAACTTTTACGAGTTCTTTTATAACTTTGGTTCATTAAAGTATTCAAG
* * ** * * * * * * * *
743 ACAAACCATTCCGTT-GATAAATTTATTT-AACATTACAAGCTTAGTAAATCTCATCTTTTGGTC
316 ACGATCCATTCC-TTCGAGCAATTT-TTTGAACAGTCCATGCTTGGGAAATCACATCATTAGGTC
*
806 TAAATAGTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT--AATT
379 TAAATAGTTGTCATTTTGTAAACTACTTTTGGTC-TTGAATTAAAATT
* *
852 AATTCTTTATGTGAGAATTGTTTCT-TTCTTGGTTCTC-GG--CCGAACTTTAAACTTGACAAAC
1 --TTATTTAGGTGAGAATTGTTTCTCTT-TTGGTTCTCGGGCTCCGAACTTT-AACTTGACAAAC
** * * * *
913 TTTTATAACTTCTTTTATAACTTTTGTTCGTTAAAGTATTCAAGACGATTCATTCCTTCGAGTAA
62 TTTTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA
* *
978 TTTTCTGTACAGTCCATGCTTGGGAAATCACATCATTAGGTCTAAATAGTTGTCATTTTGTAAAC
127 TTTTCTGAACAGTCCATGCTT-GGAAATCACATCATTAGGTCTAAATAATTGTCATTTTGTAAAC
* * * * * *
1043 TACTTTTGGTTTTTCAATTAAAAAGTTATTTAGGTGAGAATTGTTTCTCTATTCGTTCT-C-AGC
191 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATAGTTTCTCTATTCGTTCTACGAAC
* * * *
1106 -T-GAACTTGACAAAGTTTTACGAGTACTTTTTTAACTTTTGTTCATTAAAGTATTCAAGACGAT
256 TTCGAACTTGACAAACTTTTACGAGTTCTTTTATAACTTTGGTTCATTAAAGTATTCAAGACGAT
* * * *
1169 CCTTTCCTTCGAGTAATTTTTTGTACAGTCCATGCTTGGGGAATCACATCATTAGGTCTAAATAG
321 CCATTCCTTCGAGCAATTTTTTGAACAGTCCATGCTTGGGAAATCACATCATTAGGTCTAAATAG
1234 TTGTCATTTCT-TAAACTACTTTTGGTCTTCGAATTAAAATT
386 TTGTCATTT-TGTAAACTACTTTTGGTCTT-GAATTAAAATT
* * *
1275 TTATTTAGGTGAGGATTGTTTCTCTTTTGGTTCTC-GG-T-CGAACTTCCGAACTTGAAAAACTT
1 TTATTTAGGTGAGAATTGTTTCTCTTTTGGTTCTCGGGCTCCGAACTT--TAACTTGACAAACTT
* * *
1337 TTACGAGTTAC-TTTATAAC-TTTGATTCCCTAAATTATTCAAGACGATCCATTCCTTCAAGCAA
64 TTACGAGTT-CTTTTATAACTTTTG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA
** * * * * * * * * *
1400 TTTTAGGAAAATTGCATGCTCTAGAAATCGCATCATTTA-GTCTGAATAATTGCCATTATGCAAA
127 TTTTCTGAACAGTCCATGCT-TGGAAATCACATCA-TTAGGTCTAAATAATTGTCATTTTGTAAA
* * **
1464 CAACTTTTGGTCTTTGAATTAAAAACTTTTTTAGGTGAGAATAG-TTCTCTCTTATTTCTAGGCC
190 CAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATAGTTTCTCTATTCGTTCTA---C
* * * *
1528 GAACTTTCGAAGTTGACAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAATCAAG
252 GAAC-TTCGAACTTGACAAACTTTTACGAGTTCTTTTATAACTTTGGTTCATTAAAGTATTCAAG
* * * * *
1593 ACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTA
316 ACGATCCATTCCTTCGAGCAATTTTTTGAACAGTCCATGCTTGGGAAATCACATCATTAGGTCTA
* * **
1658 AATAGTTGTTATTTTGTAAACCACTTTTGGTCATTGAATTAAAAAC
381 AATAGTTGTCATTTTGTAAACTACTTTTGGTC-TTGAATTAAAATT
* ** * *
1704 TAATTTAGGTGAGAATAATTTCTCTCTTGGTTCT-GGGCT--GAACTTTCGAAGTTGACAAACTT
1 TTATTTAGGTGAGAATTGTTTCTCTTTTGGTTCTCGGGCTCCGAACTTT--AACTTGACAAACTT
* * * *
1766 TTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTTAAGACGATCCATTCCTTCAATC-ATT
64 TTACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* * ** * *
1830 TTTTCGAACATTCCATGCTTGGAAATGGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAA
129 TTCT-GAACAGTCCATGCTTGGAAATCACATCATTAGGTCTAAATAATTGTCATTTTGTAAACAA
* * ** * * * * *
1895 CTTTTGGTCTTTGAATT-AAAATTTTTTTATATGAGAATTGTTTCTTTCTTGGTTCTCAACCAAA
193 CTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATAGTTTCTCTATTCGTTCT--A-CGAA
** * * * * *
1959 CTTTAAACGTGACAAAATTTT-CAAGTTCTTTTATAAATTTTGTTCATTAAAGTATTCAAGACGA
255 CTTCGAACTTGACAAACTTTTACGAGTTCTTTTATAACTTTGGTTCATTAAAGTATTCAAGACGA
* *
2023 TCCATTCCTTC-AGCAATTTATT-ATACAGTCCATGCTTGGGAAATCACATTATTAGGTCTAAAT
320 TCCATTCCTTCGAGCAATTTTTTGA-ACAGTCCATGCTTGGGAAATCACATCATTAGGTCTAAAT
* * *
2086 TGTTGTCATTCTGCAAACTACTTTT
384 AGTTGTCATTTTGTAAACTACTTTT
2111 CGTTTTTCAA
Statistics
Matches: 1045, Mismatches: 172, Indels: 85
0.80 0.13 0.07
Matches are distributed among these distances:
420 7 0.01
421 180 0.17
422 146 0.14
423 9 0.01
424 3 0.00
425 65 0.06
426 50 0.05
427 37 0.04
428 77 0.07
429 423 0.40
430 48 0.05
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (425 bp):
TTATTTAGGTGAGAATTGTTTCTCTTTTGGTTCTCGGGCTCCGAACTTTAACTTGACAAACTTTT
ACGAGTTCTTTTATAACTTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT
CTGAACAGTCCATGCTTGGAAATCACATCATTAGGTCTAAATAATTGTCATTTTGTAAACAACTT
TTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATAGTTTCTCTATTCGTTCTACGAACTTCGA
ACTTGACAAACTTTTACGAGTTCTTTTATAACTTTGGTTCATTAAAGTATTCAAGACGATCCATT
CCTTCGAGCAATTTTTTGAACAGTCCATGCTTGGGAAATCACATCATTAGGTCTAAATAGTTGTC
ATTTTGTAAACTACTTTTGGTCTTGAATTAAAATT
Found at i:1475 original size:636 final size:629
Alignment explanation
Indices: 2--2124 Score: 2210
Period size: 636 Copynumber: 3.4 Consensus size: 629
1 A
*
2 TGAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAAGTT
1 TGAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAACTT
* * * * * *
67 GACAAACTTTTACGTGTTATTTTATAACTTCGGTTCCTTAAGGTATTCAAGACGAACCATTCCTT
66 GAAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGAACCATTCCGT
*
132 TCAGAAATTTATTTAACATTACAAGCTTAGTAAATCTCATCTTTTGGTCTAAATAGTTGTCATTT
131 TCAGAATTTTATTTAACATTACAAGCTTAGTAAATCTCATCTTTTGGTCTAAATAGTTGTCATTT
*
197 TGTAAACAACTTTTGGTCTTTGAATTAATAAATTTTTTATGTGAGAATTATTTCTTTCTTGGTTC
196 TGTAAACAACTTTTGGTCTTTGAATTAATAAATTTTTTATGTGAGAATTGTTTCTTTCTTGGTTC
* *
262 TCGGACGAACTTTAAACTTTACAAACTTTTATAAGTTCTTTTATAACTTTTGTTCATTAAAGTAT
261 TCGGCCGAACTTTAAACTTGACAAACTTTTATAAGTTCTTTTATAACTTTTGTTCATTAAAGTAT
*
327 TCAAGACGATCCATTTCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCATCACTTG
326 TCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCATCA-TTG
* * *
392 TTCTAAATA-----CA--TTGT---CA-TTTT-G--TAA--AAACAAGTTATTTATGTTAGAATT
390 GTCTAAATAGTTGTCATTTTGTAAACACTTTTGGTTTAATTAAA-AAGTTATTTAGGTGAGAATT
* * * * * *
441 GTTTCTTTCTTTGTTCTCGGTTCAACTTTTAAACTTCAAAAACTTTAACGAGTTCTTTTATAACT
454 GTTTCTCTCTTCG-T-TC---TCAAC--TTGAACTTGACAAACTTTTACGAGTTCTTTTATAACT
* * * ** * * ***
506 TTTGTTCGTTAAAGAATTCAGGACGATCCATTATTTTGAGCAA-TTTCCCACACAGTCCATGCTC
512 TTTGTTCATTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTTGA-ACAGTCCATGCT-
* * *
570 CTGAG-ATCACATCATTAGGCCTAAATAATTGTCATTTTTTAAACTACTTTTGGTCT
575 -TGGGAATCACATCATTAGGTCTAAATAGTTGTCA-TTTTTAAACTACTTTTGGTCT
*
626 ATGAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAAGT
1 -TGAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAACT
* ** *
691 TGACAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTATGGTATTCAAGACAAACCATTCCG
65 TGAAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGAACCATTCCG
* * *
756 TTGATAAATTTATTTAACATTACAAGCTTAGTAAATCTCATCTTTTGGTCTAAATAGTTGTCATT
130 TTCAGAATTTTATTTAACATTACAAGCTTAGTAAATCTCATCTTTTGGTCTAAATAGTTGTCATT
* *
821 TTGTAAACAACTTTTGGTCTTTGAATTAATTAATTCTTTATGTGAGAATTGTTTCTTTCTTGGTT
195 TTGTAAACAACTTTTGGTCTTTGAATTAATAAATTTTTTATGTGAGAATTGTTTCTTTCTTGGTT
* *
886 CTCGGCCGAACTTTAAACTTGACAAACTTTTATAACTTCTTTTATAACTTTTGTTCGTTAAAGTA
260 CTCGGCCGAACTTTAAACTTGACAAACTTTTATAAGTTCTTTTATAACTTTTGTTCATTAAAGTA
* * * * * * *
951 TTCAAGACGATTCATTCCTTCGAGTAATTTTCTGTACAGTCCATGCTTGGGAAATCACATCATTA
325 TTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCATCATT-
1016 GGTCTAAATAGTTGTCATTTTGTAAACTACTTTTGGTTTTTCAATTAAAAAGTTATTTAGGTGAG
389 GGTCTAAATAGTTGTCATTTTGTAAAC-ACTTTTGG--TTT-AATTAAAAAGTTATTTAGGTGAG
* * * * *
1081 AATTGTTTCTCTATTCGTTCTCAGC-TGAACTTGACAAAGTTTTACGAGTACTTTTTTAACTTTT
450 AATTGTTTCTCTCTTCGTTCTCAACTTGAACTTGACAAACTTTTACGAGTTCTTTTATAACTTTT
* *
1145 GTTCATTAAAGTATTCAAGACGATCCTTTCCTTCGAGTAATTTTTTGTACAGTCCATGCTTGGGG
515 GTTCATTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTTGAACAGTCCATGCTT-GGG
1210 AATCACATCATTAGGTCTAAATAGTTGTCATTTCTTAAACTACTTTTGGTCT
579 AATCACATCATTAGGTCTAAATAGTTGTCATTT-TTAAACTACTTTTGGTCT
** * * * * * * *
1262 TCGAATTAAAATTTTATTTAGGTGAGGATTGTTTCTCTTTTGGTTCTCGGTCGAACTTCCGAACT
1 T-GAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAACT
* * * *
1327 TGAAAAACTTTTACGAGTTAC-TTTATAACTTTGATTCCCTAAATTATTCAAGACGATCCATTCC
65 TGAAAAACTTTTACGAGTT-CTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGAACCATTCC
** * * * * * * * * *
1391 -TTCAAGCAATTTTA-GGAAAATTGCATGCTCTAG-AAATCGCATCATTTAGTCTGAATAATTGC
129 GTTC-AG-AATTTTATTTAACATTACAAGCT-TAGTAAATCTCATCTTTTGGTCTAAATAGTTGT
* * * * *
1453 CATTATGCAAACAACTTTTGGTCTTTGAATTAA-AAACTTTTTTAGGTGAGAATAG-TTCTCTCT
191 CATTTTGTAAACAACTTTTGGTCTTTGAATTAATAAA-TTTTTTATGTGAGAATTGTTTCTTTCT
** * * * ** ** *
1516 TATTTCTAGGCCGAACTTTCGAAGTTGACAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTT
255 TGGTTCTCGGCCGAACTTT-AAACTTGACAAACTTTTATAAGTTCTTTTATAACTTTTGTTCATT
* *
1581 AAAGTAATCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGCA
319 AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCA
* * *
1646 TCATTTGGTCTAAATAGTTGTTATTTTGTAAACCACTTTTGGTCATTGAATTAAAAACTAATTTA
384 TCA-TTGGTCTAAATAGTTGTCATTTTGTAAA-CACTTTTGGT--TT-AATTAAAAAGTTATTTA
** * *
1711 GGTGAGAATAATTTCTCTCTTGGTTCTGGGCTGAACTTTCGAAGTTGACAAACTTTTACGAGTTC
444 GGTGAGAATTGTTTCTCTCTTCGTTCT---C--AAC-TT-GAACTTGACAAACTTTTACGAGTTC
* * * * *
1776 TTTTATAACTTTGGTTCCTTAAAGTATTTAAGACGATCCATTCCTTC-AATCATTTTTTCGAACA
502 TTTTATAACTTTTGTTCATTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTT-GAACA
* * ** * *
1840 TTCCATGCTTGGAAATGGCATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAACTTTTGGTCT
566 GTCCATGCTTGGGAATCACATCATTAGGTCTAAATAGTTGTCATTTT-TAAACTACTTTTGGTC-
1905 T
629 T
* * * ** * * * * *** *
1906 TGAATT-AAAATTTTTTTATATGAGAATTGTTTCTTTCTTGGTTCTCA-ACCAAAC-TTTAAACG
1 TGAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCT-AGGCCGAACATCCGAACT
* * * * *
1968 TGACAAAA-TTTT-CAAGTTCTTTTATAAATTTTGTTCATTAAAGTATTCAAGACGATCCATTCC
65 TGA-AAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGAACCATTCC
* * * * * * * *
2031 -TTCAGCAA-TTTA-TTATACAGTCCATGCTTGGGAAATCACAT-TATTAGGTCTAAATTGTTGT
129 GTTCAG-AATTTTATTTA-ACATTACAAGCTTAGTAAATCTCATCT-TTTGGTCTAAATAGTTGT
* * * * * *
2092 CATTCTGCAAACTACTTTTCGTTTTTCAATTAA
191 CATTTTGTAAACAACTTTTGGTCTTTGAATTAA
2125 AAACTTAGGG
Statistics
Matches: 1267, Mismatches: 178, Indels: 92
0.82 0.12 0.06
Matches are distributed among these distances:
624 2 0.00
625 372 0.29
630 2 0.00
632 4 0.00
634 2 0.00
635 34 0.03
636 478 0.38
637 20 0.02
638 8 0.01
639 68 0.05
640 45 0.04
641 13 0.01
642 44 0.03
643 65 0.05
644 107 0.08
645 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (629 bp):
TGAATTAAAAACTTATTCAGGTGAGAATAGTTTCTCTCTTGGTTCTAGGCCGAACATCCGAACTT
GAAAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGAACCATTCCGT
TCAGAATTTTATTTAACATTACAAGCTTAGTAAATCTCATCTTTTGGTCTAAATAGTTGTCATTT
TGTAAACAACTTTTGGTCTTTGAATTAATAAATTTTTTATGTGAGAATTGTTTCTTTCTTGGTTC
TCGGCCGAACTTTAAACTTGACAAACTTTTATAAGTTCTTTTATAACTTTTGTTCATTAAAGTAT
TCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCATCATTGG
TCTAAATAGTTGTCATTTTGTAAACACTTTTGGTTTAATTAAAAAGTTATTTAGGTGAGAATTGT
TTCTCTCTTCGTTCTCAACTTGAACTTGACAAACTTTTACGAGTTCTTTTATAACTTTTGTTCAT
TAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTTGAACAGTCCATGCTTGGGAATCACA
TCATTAGGTCTAAATAGTTGTCATTTTTAAACTACTTTTGGTCT
Found at i:9807 original size:29 final size:29
Alignment explanation
Indices: 9767--9928 Score: 100
Period size: 28 Copynumber: 5.6 Consensus size: 29
9757 ATCAGTATCA
*
9767 AAAAATAG-AATTTTTGGACATCCGGGGG
1 AAAAATGGTAATTTTTGGACATCCGGGGG
* * * *
9795 AAAAAGGGTAATTTTT-GAAAGTTTCGGGGTT
1 AAAAATGGTAATTTTTGGACA--TCCGGGG-G
*
9826 AAAAATGG-AATTTTTGGACATCC-GAGG
1 AAAAATGGTAATTTTTGGACATCCGGGGG
* * ** * *
9853 CAAAATGGTAATTTTTGAATGTTTCGGGGTC
1 AAAAATGGTAATTTTTGGA-CATCCGGGG-G
* * *
9884 AAAAATGG-AATTTTTGGACGTTCGAGGG
1 AAAAATGGTAATTTTTGGACATCCGGGGG
*
9912 CAAAATGGTAATTTTTG
1 AAAAATGGTAATTTTTG
9929 AAAGTTTTGA
Statistics
Matches: 100, Mismatches: 24, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
27 7 0.07
28 27 0.27
29 25 0.25
30 24 0.24
31 17 0.17
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAAATGGTAATTTTTGGACATCCGGGGG
Found at i:9956 original size:29 final size:30
Alignment explanation
Indices: 9795--10113 Score: 257
Period size: 29 Copynumber: 10.8 Consensus size: 30
9785 CATCCGGGGG
* * * *
9795 AAAAAGGGTAATTTTTGAAAGTTTCGGGGTT
1 AAAAATGG-AATTTTTGGAAGTTTCGAGGTC
*
9826 AAAAATGGAATTTTTGGACA--TCCGAGG-C
1 AAAAATGGAATTTTTGGA-AGTTTCGAGGTC
*
9854 -AAAATGGTAATTTTT-GAATGTTTCGGGGTC
1 AAAAATGG-AATTTTTGGAA-GTTTCGAGGTC
* *
9884 AAAAATGGAATTTTTGGACG-TTCGAGGGC
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
* *
9913 -AAAATGGTAATTTTTGAAAGTTTTGAGGTC
1 AAAAATGG-AATTTTTGGAAGTTTCGAGGTC
* *
9943 AAAAATGGAATTTTTAGAAGTTT-AAGGGT-
1 AAAAATGGAATTTTTGGAAGTTTCGA-GGTC
* *
9972 AAAATTGTAATTTTTGGAAGTTTC-AGGGTC
1 AAAAATGGAATTTTTGGAAGTTTCGA-GGTC
* * * * *
10002 AAAATTGGGATTTTGGGAAGTTTAGCGGT-
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
* *
10031 AAAAATGTAATTTTTGGAAGTTTCGATGTC
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
* * *
10061 AAAAATGGAATTTTTGGATGTTTGGGGGT-
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
*
10090 AAAAATGTAATTTTTGGACAGTTT
1 AAAAATGGAATTTTTGGA-AGTTT
10114 AGGGATCTTC
Statistics
Matches: 232, Mismatches: 39, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.00
27 9 0.04
28 14 0.06
29 92 0.40
30 92 0.40
31 24 0.10
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAGTTTCGAGGTC
Found at i:10046 original size:118 final size:118
Alignment explanation
Indices: 9792--10117 Score: 367
Period size: 118 Copynumber: 2.8 Consensus size: 118
9782 GGACATCCGG
* * * ** *
9792 GGGAAAAAGGGTAATTTTTGAAAGTTTCGGGGTTAAAAATGGAATTTTTGGACA-TCCGA-GGCA
1 GGGAAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGA-AGTTTGAGGGTA
* * * *
9855 AAATGGTAATTTTT-GAATGTTTCGGGGTCAAAAATGGAATTTTTGGACGTTCGA
65 AAATTGTAATTTTTGGAA-GTTTCAGGGTCAAAAATGGAATTTTGGGAAGTTCGA
* * * *
9909 GGGCAAAATGGTAATTTTTGAAAGTTTTGAGGTCAAAAATGGAATTTTTAGAAGTTTAAGGGTAA
1 GGGAAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAA
* * *
9974 AATTGTAATTTTTGGAAGTTTCAGGGTCAAAATTGGGATTTTGGGAAGTT-TA
66 AATTGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTGGGAAGTTCGA
* * * *
10026 GCGGTAAAAAT-GTAATTTTTGGAAGTTTCGATGTCAAAAATGGAATTTTTGGATGTTTGGGGGT
1 G-GG-AAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGT
*
10090 AAAAATGTAATTTTTGGACAGTTT-AGGG
64 AAAATTGTAATTTTTGGA-AGTTTCAGGG
10118 ATCTTCAAGG
Statistics
Matches: 177, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
116 1 0.01
117 50 0.28
118 113 0.64
119 13 0.07
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (118 bp):
GGGAAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAA
AATTGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTGGGAAGTTCGA
Found at i:10091 original size:59 final size:58
Alignment explanation
Indices: 9767--10113 Score: 299
Period size: 59 Copynumber: 5.9 Consensus size: 58
9757 ATCAGTATCA
* * * * * *
9767 AAAAATAGAATTTTTGGACA-TCCGGGGGAAAAAGGGTAATTTTTGAAAGTTTCGGGGTT
1 AAAAATGGAATTTTTGGA-AGTTCGGGGGAAAAA-TGTAATTTTTGGAAGTTTCGAGGTC
* * * *
9826 AAAAATGGAATTTTTGGACA--TCCGAGGCAAAATGGTAATTTTT-GAATGTTTCGGGGTC
1 AAAAATGGAATTTTTGGA-AGTTCGGGGGAAAAAT-GTAATTTTTGGAA-GTTTCGAGGTC
* * * * *
9884 AAAAATGGAATTTTTGGACGTTCGAGGGCAAAATGGTAATTTTTGAAAGTTTTGAGGTC
1 AAAAATGGAATTTTTGGAAGTTCGGGGGAAAAAT-GTAATTTTTGGAAGTTTCGAGGTC
* ** * *
9943 AAAAATGGAATTTTTAGAAGTTTAAGGGTAAAATTGTAATTTTTGGAAGTTTC-AGGGTC
1 AAAAATGGAATTTTTGGAAG-TTCGGGGGAAAAATGTAATTTTTGGAAGTTTCGA-GGTC
* * * * * * *
10002 AAAATTGGGATTTTGGGAAGTTTAGCGGTAAAAATGTAATTTTTGGAAGTTTCGATGTC
1 AAAAATGGAATTTTTGGAAG-TTCGGGGGAAAAATGTAATTTTTGGAAGTTTCGAGGTC
* *
10061 AAAAATGGAATTTTTGGATGTTTGGGGGTAAAAATGTAATTTTTGGACAGTTT
1 AAAAATGGAATTTTTGGAAGTTCGGGGG-AAAAATGTAATTTTTGGA-AGTTT
10114 AGGGATCTTC
Statistics
Matches: 238, Mismatches: 40, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
57 2 0.01
58 51 0.21
59 169 0.71
60 16 0.07
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGAAGTTCGGGGGAAAAATGTAATTTTTGGAAGTTTCGAGGTC
Found at i:11139 original size:10 final size:10
Alignment explanation
Indices: 11124--11165 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
11114 TTTTTATTTG
11124 TATTATTAAT
1 TATTATTAAT
11134 TATTATTAAT
1 TATTATTAAT
* *
11144 TATTAATAGT
1 TATTATTAAT
11154 TATTATTAAT
1 TATTATTAAT
11164 TA
1 TA
11166 CCATTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TATTATTAAT
Found at i:11939 original size:18 final size:18
Alignment explanation
Indices: 11904--11962 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
11894 TTATAATAGT
*
11904 TTTAAAT-TTAAATTTAAA
1 TTTAAATCTTAAA-ATAAA
* *
11922 TTTAAATTTTAGAATAAA
1 TTTAAATCTTAAAATAAA
11940 TTT-AATCTTAAAATAAA
1 TTTAAATCTTAAAATAAA
11957 TTTAAA
1 TTTAAA
11963 ACGAGTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.43
18 16 0.46
19 4 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTAAATCTTAAAATAAA
Found at i:11956 original size:17 final size:17
Alignment explanation
Indices: 11918--11961 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
11908 AATTTAAATT
* *
11918 TAAATTTAAATTTTAGAA
1 TAAATTT-AATCTTAAAA
11936 TAAATTTAATCTTAAAA
1 TAAATTTAATCTTAAAA
11953 TAAATTTAA
1 TAAATTTAA
11962 AACGAGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTTAATCTTAAAA
Found at i:11962 original size:6 final size:6
Alignment explanation
Indices: 11904--11930 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11894 TTATAATAGT
11904 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
11931 TAGAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:12871 original size:26 final size:27
Alignment explanation
Indices: 12842--12898 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
12832 TGATCCATTG
*
12842 CATTTTATTTTATATATGTTGT-TTTA
1 CATTTTATTGTATATATGTTGTATTTA
*
12868 CATTTTATTGTATGTATGTTGTATTTA
1 CATTTTATTGTATATATGTTGTATTTA
12895 -ATTT
1 CATTT
12899 GTAATGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.23, C:0.04, G:0.11, T:0.63
Consensus pattern (27 bp):
CATTTTATTGTATATATGTTGTATTTA
Found at i:17946 original size:158 final size:158
Alignment explanation
Indices: 17658--17980 Score: 484
Period size: 158 Copynumber: 2.0 Consensus size: 158
17648 ATTTATGGAT
* * *
17658 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGATTCGGCATATGTTGCG
1 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGATCCGACATATGTTGCG
* * * * *
17723 GATTCTCCACAGCTCGTGTAAGCAACATCGTGTAGCCTAACATCTTGACCTACAACTCGTGTGAG
66 GATTCTCAACAGCTCATGTAAGCAACATCATGTAGCCTAACATCTAGACCCACAACTCGTGTGAG
** *
17788 CAGGCCCACTTCACAGCTCGTGTGAGCA
131 CAAACCCACTTCACAGCTCGTGTAAGCA
*
17816 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACTGATGGCTGAGATCCGACATATGTTGCG
1 TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGATCCGACATATGTTGCG
* * * *
17881 GATTCTCAACAGCTCATGTGAGTATCATCATGTAGCCTAACATCTAGACCCACAGCTCGTGTGAG
66 GATTCTCAACAGCTCATGTAAGCAACATCATGTAGCCTAACATCTAGACCCACAACTCGTGTGAG
*
17946 CAAACCCATTTCACAGCTCGTGTAAGCA
131 CAAACCCACTTCACAGCTCGTGTAAGCA
*
17974 CTACATG
1 TTACATG
17981 ATACAGAGAT
Statistics
Matches: 147, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 147 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (158 bp):
TTACATGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGATCCGACATATGTTGCG
GATTCTCAACAGCTCATGTAAGCAACATCATGTAGCCTAACATCTAGACCCACAACTCGTGTGAG
CAAACCCACTTCACAGCTCGTGTAAGCA
Found at i:27287 original size:33 final size:33
Alignment explanation
Indices: 27250--27313 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
27240 CTGTTGGAAG
27250 GAAAATATTGTTGGACATCACAAAGCTAGAAAA
1 GAAAATATTGTTGGACATCACAAAGCTAGAAAA
*
27283 GAAAATATTGTTGGACATCACAGAGCTAGAA
1 GAAAATATTGTTGGACATCACAAAGCTAGAA
27314 GAAATTCGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (33 bp):
GAAAATATTGTTGGACATCACAAAGCTAGAAAA
Found at i:35951 original size:158 final size:158
Alignment explanation
Indices: 35663--35985 Score: 495
Period size: 158 Copynumber: 2.0 Consensus size: 158
35653 ATTTCAGGAT
*
35663 TTACATGTTATATGGGTGTTGGTCTTAGATGTCCTACTGATGGCTGAGATCCAGCATATGTTACG
1 TTACATGTTATATGGGTGTTGGTCTTAGATGTCCTACCGATGGCTGAGATCCAGCATATGTTACG
* * * *
35728 GATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTTATGTGAG
66 GATTCTACACAGCTCATGTGAGCAGCATCGTATAGCCTAACATCTCGACCCACAGCTCATGTGAG
*
35793 CAGGCCCACTTCACAGCTCGTGTGAGCA
131 CAGACCCACTTCACAGCTCGTGTGAGCA
* * *
35821 TTACATGTTATATGGGT-TCTGGTCTTAGATGTTCTACCGATGGCTGAGATCCGGCATATGTTGC
1 TTACATGTTATATGGGTGT-TGGTCTTAGATGTCCTACCGATGGCTGAGATCCAGCATATGTTAC
* * * *
35885 GGATTCTACATAGCTCATGTGAGCAGCATTGTATAGCCTAACATCTCGACCCACATCTCGTGTGA
65 GGATTCTACACAGCTCATGTGAGCAGCATCGTATAGCCTAACATCTCGACCCACAGCTCATGTGA
*
35950 GCAGACCCATTTCACAGCTCGTGTGAGCA
130 GCAGACCCACTTCACAGCTCGTGTGAGCA
*
35979 CTACATG
1 TTACATG
35986 ATACAAAGAT
Statistics
Matches: 149, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
157 1 0.01
158 148 0.99
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (158 bp):
TTACATGTTATATGGGTGTTGGTCTTAGATGTCCTACCGATGGCTGAGATCCAGCATATGTTACG
GATTCTACACAGCTCATGTGAGCAGCATCGTATAGCCTAACATCTCGACCCACAGCTCATGTGAG
CAGACCCACTTCACAGCTCGTGTGAGCA
Found at i:38053 original size:28 final size:29
Alignment explanation
Indices: 37990--38055 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
37980 TCGTGGGTCC
* *
37990 CCTATTTTTCAGATTTTATAATCTTGTCT
1 CCTATTTTTTAGATTTTACAATCTTGTCT
38019 CCT-TTTTTTAGATTTTACAAT-TT-TACT
1 CCTATTTTTTAGATTTTACAATCTTGT-CT
38046 CCTATTTTTT
1 CCTATTTTTT
38056 TAATTTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 1 0.03
27 7 0.21
28 22 0.67
29 3 0.09
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.59
Consensus pattern (29 bp):
CCTATTTTTTAGATTTTACAATCTTGTCT
Found at i:38619 original size:13 final size:13
Alignment explanation
Indices: 38601--38646 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
38591 ACATGAAAAA
38601 AAAATTATTTAAT
1 AAAATTATTTAAT
38614 AAAATTATTTAAT
1 AAAATTATTTAAT
*
38627 AAAATAATTATACAT
1 AAAATTATT-TA-AT
38642 AAAAT
1 AAAAT
38647 AAAAATAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 21 0.70
14 2 0.07
15 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATTATTTAAT
Found at i:38733 original size:13 final size:13
Alignment explanation
Indices: 38715--38739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38705 ATTTTTCTTT
38715 TAATAAAAATAAG
1 TAATAAAAATAAG
38728 TAATAAAAATAA
1 TAATAAAAATAA
38740 CAAAATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
TAATAAAAATAAG
Found at i:43311 original size:6 final size:6
Alignment explanation
Indices: 43286--43330 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
43276 ACAATTCATA
* * *
43286 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
43331 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:52785 original size:18 final size:19
Alignment explanation
Indices: 52762--52811 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
52752 TTATCAAAAA
*
52762 TTTCTTTCTTTTTTTC-TT
1 TTTCTTTCTTTTTCTCATT
*
52780 TTTCTTCCTTTTTCTCATT
1 TTTCTTTCTTTTTCTCATT
52799 TTT-TTTCTTTTTC
1 TTTCTTTCTTTTTC
52812 AAATGACTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCTTTCTTTTTCTCATT
Found at i:54134 original size:23 final size:23
Alignment explanation
Indices: 54104--54148 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
54094 TCTGTAGCAC
54104 TTCGGCATGACGTTATAATGCCT
1 TTCGGCATGACGTTATAATGCCT
54127 TTCGGCATGACGTTATAATGCC
1 TTCGGCATGACGTTATAATGCC
54149 CTTCCTACTC
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:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (23 bp):
TTCGGCATGACGTTATAATGCCT
Found at i:57353 original size:41 final size:41
Alignment explanation
Indices: 57300--57439 Score: 140
Period size: 41 Copynumber: 3.3 Consensus size: 41
57290 AGTGTTGTTG
57300 AAGTGTTG-AGAATTTAAATGCATAAAAGTAAAAGTGTGATC
1 AAGTG-TGAAGAATTTAAATGCATAAAAGTAAAAGTGTGATC
** * * * * *
57341 AAGTGTGAAGAATTGGAGTGGATCACTAAA-TCAAAGTGTTGTTG
1 AAGTGTGAAGAATTTAAATGCAT-A--AAAGTAAAAGTG-TGATC
* *
57385 AAGTGTTAAGAATTTAAATGCATAAAAGGAAAAGTGTGATC
1 AAGTGTGAAGAATTTAAATGCATAAAAGTAAAAGTGTGATC
57426 AAGTGTGAAGAATT
1 AAGTGTGAAGAATT
57440 GGAGTGGATC
Statistics
Matches: 76, Mismatches: 17, Indels: 12
0.72 0.16 0.11
Matches are distributed among these distances:
40 2 0.03
41 35 0.46
42 7 0.09
43 8 0.11
44 24 0.32
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (41 bp):
AAGTGTGAAGAATTTAAATGCATAAAAGTAAAAGTGTGATC
Found at i:57396 original size:44 final size:42
Alignment explanation
Indices: 57282--57408 Score: 123
Period size: 44 Copynumber: 3.0 Consensus size: 42
57272 CAACTGAAAG
* *
57282 TAAATCAAAGTGTTGTTGAAGTGTTGAGAATTTAAATGCATA
1 TAAATCAAAGTGTTGTTGAAGTGTTAAGAATTGAAATGCATA
* * * * * * *
57324 -AAAGTAAAAGTG-TGATCAAGTGTGAAGAATTGGAGTGGATCA
1 TAAA-TCAAAGTGTTGTTGAAGTGTTAAGAATTGAAATGCAT-A
*
57366 CTAAATCAAAGTGTTGTTGAAGTGTTAAGAATTTAAATGCATA
1 -TAAATCAAAGTGTTGTTGAAGTGTTAAGAATTGAAATGCATA
57409 AAAGGAAAAG
Statistics
Matches: 63, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
41 23 0.37
42 8 0.13
43 8 0.13
44 24 0.38
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAATCAAAGTGTTGTTGAAGTGTTAAGAATTGAAATGCATA
Found at i:57425 original size:85 final size:85
Alignment explanation
Indices: 57282--57452 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
57272 CAACTGAAAG
* *
57282 TAAATCAAAGTGTTGTTGAAGTGTTGAGAATTTAAATGCATAAAAGTAAAAGTGTGATCAAGTGT
1 TAAATCAAAGTGTTGTTGAAGTGTTAAGAATTTAAATGCATAAAAGGAAAAGTGTGATCAAGTGT
57347 GAAGAATTGGAGTGGATCAC
66 GAAGAATTGGAGTGGATCAC
57367 TAAATCAAAGTGTTGTTGAAGTGTTAAGAATTTAAATGCATAAAAGGAAAAGTGTGATCAAGTGT
1 TAAATCAAAGTGTTGTTGAAGTGTTAAGAATTTAAATGCATAAAAGGAAAAGTGTGATCAAGTGT
57432 GAAGAATTGGAGTGGATCAC
66 GAAGAATTGGAGTGGATCAC
57452 T
1 T
57453 GACTTCTCTA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (85 bp):
TAAATCAAAGTGTTGTTGAAGTGTTAAGAATTTAAATGCATAAAAGGAAAAGTGTGATCAAGTGT
GAAGAATTGGAGTGGATCAC
Found at i:73264 original size:12 final size:12
Alignment explanation
Indices: 73243--73271 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
73233 ATAAACTAAG
73243 AAGA-GAATAAC
1 AAGAGGAATAAC
73254 AAGAGGAATAAC
1 AAGAGGAATAAC
73266 AAGAGG
1 AAGAGG
73272 CCACAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.59, C:0.07, G:0.28, T:0.07
Consensus pattern (12 bp):
AAGAGGAATAAC
Found at i:78270 original size:13 final size:13
Alignment explanation
Indices: 78248--78287 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
78238 ACCATTATTA
78248 TTTTTCTTAAAAG
1 TTTTTCTTAAAAG
* *
78261 TTTTTTTTAATA-
1 TTTTTCTTAAAAG
78273 TTTTTCTTAAAAG
1 TTTTTCTTAAAAG
78286 TT
1 TT
78288 AAATATGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (13 bp):
TTTTTCTTAAAAG
Found at i:81774 original size:24 final size:24
Alignment explanation
Indices: 81743--81794 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
81733 CCGATTCATA
*
81743 TTTTTCTATT-ACTTTTGGACTACT
1 TTTTTCTATTGA-TTTTGAACTACT
*
81767 TTTTTCTATTGATTTTGAACTGCT
1 TTTTTCTATTGATTTTGAACTACT
81791 TTTT
1 TTTT
81795 CTTTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.62
Consensus pattern (24 bp):
TTTTTCTATTGATTTTGAACTACT
Found at i:82817 original size:23 final size:24
Alignment explanation
Indices: 82791--82842 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
82781 CCGATTCATA
82791 TTTTTCTATT-ACTTTTAGACTGCT
1 TTTTTCTATTGA-TTTTAGACTGCT
* *
82815 TTTTTCTGTTGATTTTGGACTGCT
1 TTTTTCTATTGATTTTAGACTGCT
82839 TTTT
1 TTTT
82843 CATTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.12, C:0.13, G:0.13, T:0.62
Consensus pattern (24 bp):
TTTTTCTATTGATTTTAGACTGCT
Found at i:83455 original size:58 final size:58
Alignment explanation
Indices: 83379--83494 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 58
83369 AAAAGTTCCC
* *
83379 TAAACCCCCTCAACCCCTTCTTATTCTATCGTGAGGTAGAGAGCCAAAAACAAAAGAG
1 TAAACCCCCTCAACCCCTTCTTATTCTATCGTGAGGTAAAGAACCAAAAACAAAAGAG
* *
83437 TAAACCCCCTCAAGCCCTTCTTATTCTATTGTGAGGTAAAGAACCAAAAACAAAAGAG
1 TAAACCCCCTCAACCCCTTCTTATTCTATCGTGAGGTAAAGAACCAAAAACAAAAGAG
83495 GAAAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.22
Consensus pattern (58 bp):
TAAACCCCCTCAACCCCTTCTTATTCTATCGTGAGGTAAAGAACCAAAAACAAAAGAG
Found at i:84817 original size:10 final size:11
Alignment explanation
Indices: 84788--84817 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
84778 TTAGAGATTT
84788 TTGTGATTTTG
1 TTGTGATTTTG
84799 TTGTGATTTTG
1 TTGTGATTTTG
84810 TT-TGATTT
1 TTGTGATTT
84818 GGAGTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (11 bp):
TTGTGATTTTG
Found at i:84935 original size:23 final size:23
Alignment explanation
Indices: 84909--84961 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
84899 CCGATTCAGA
* *
84909 TTTTTCTATTGCTTTTGAATTGC
1 TTTTTCTATTGATTTTGAACTGC
* * *
84932 TTTTTTTGTTGATTTTGGACTGC
1 TTTTTCTATTGATTTTGAACTGC
84955 TTTTTCT
1 TTTTTCT
84962 TTTTTTGATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.11, G:0.15, T:0.64
Consensus pattern (23 bp):
TTTTTCTATTGATTTTGAACTGC
Found at i:85930 original size:23 final size:23
Alignment explanation
Indices: 85878--85932 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
85868 AACCGATTCA
*
85878 TATTTTTTCTATTGCTTTTAGAC
1 TATTTTTTCTATTGATTTTAGAC
*
85901 TACTTTTTCTATTGATTTT-GAAC
1 TATTTTTTCTATTGATTTTAG-AC
*
85924 TGTTTTTTC
1 TATTTTTTC
85933 CATTTTTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.16, C:0.13, G:0.09, T:0.62
Consensus pattern (23 bp):
TATTTTTTCTATTGATTTTAGAC
Found at i:91864 original size:56 final size:56
Alignment explanation
Indices: 91804--91915 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
91794 TATATAAAGA
91804 GTGCAAAATACAAATGAATGCTAGCAACAATTACATAAGAAACTTAATAAAAAAAC
1 GTGCAAAATACAAATGAATGCTAGCAACAATTACATAAGAAACTTAATAAAAAAAC
*
91860 GTGCAAAATACAAATGAATGCTAGCTACAATTACATAAGAAACTTAATAAAAAAAC
1 GTGCAAAATACAAATGAATGCTAGCAACAATTACATAAGAAACTTAATAAAAAAAC
91916 AATCTTAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (56 bp):
GTGCAAAATACAAATGAATGCTAGCAACAATTACATAAGAAACTTAATAAAAAAAC
Found at i:93771 original size:6 final size:6
Alignment explanation
Indices: 93762--93805 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
93752 TTTTGTTTTA
* * *
93762 AAATTT AAATTT -AATAT AAATTT AGATTT ATATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
93806 AACTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:93781 original size:18 final size:17
Alignment explanation
Indices: 93732--93805 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
93722 AAACTCAAAC
*
93732 AAATTTATTTTAAATTT
1 AAATTTATATTAAATTT
* * *
93749 AATTTTTGTTTTAAAATTT
1 AA-ATTTATATT-AAATTT
93768 AAATTTA-ATATAAATTT
1 AAATTTATAT-TAAATTT
*
93785 AGATTTATATTTAAATTT
1 AAATTTATA-TTAAATTT
93803 AAA
1 AAA
93806 AACTTATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
17 15 0.33
18 21 0.47
19 9 0.20
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AAATTTATATTAAATTT
Found at i:93798 original size:36 final size:35
Alignment explanation
Indices: 93732--93805 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
93722 AAACTCAAAC
* * * *
93732 AAATTTATTTTAAATTTAATTTTTGTTTTAAAATTT
1 AAATTTAATATAAATTTAATTTATGATTT-AAATTT
93768 AAATTTAATATAAATTTAGATTTAT-ATTTAAATTT
1 AAATTTAATATAAATTTA-ATTTATGATTTAAATTT
93803 AAA
1 AAA
93806 AACTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.27
36 19 0.58
37 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (35 bp):
AAATTTAATATAAATTTAATTTATGATTTAAATTT
Found at i:94638 original size:3 final size:3
Alignment explanation
Indices: 94632--94664 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
94622 ATAACAGTTT
94632 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94665 ATAACAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:95745 original size:30 final size:29
Alignment explanation
Indices: 95690--95874 Score: 180
Period size: 30 Copynumber: 6.4 Consensus size: 29
95680 TCGAAAATCA
** * *
95690 CATTTTTACCCC-CCACTTCCCAAAATTT
1 CATTTTTACCCCAAAACTTCCAAAAATTC
* *
95718 TATTTTTGACCTCAAAACTTCCAAAAATTC
1 CATTTTT-ACCCCAAAACTTCCAAAAATTC
* *
95748 CA-TTTT-CCCCCAAACTT-TAAAAATTC
1 CATTTTTACCCCAAAACTTCCAAAAATTC
* * *
95774 CATTTTTAACCTCGAAACTTTCAAAAATTC
1 CATTTTT-ACCCCAAAACTTCCAAAAATTC
**
95804 CATTTTTACCCCCGAACTTCCAAAAATTC
1 CATTTTTACCCCAAAACTTCCAAAAATTC
* *
95833 CATTTTTGACCCCAAAACTTACAAAACTTC
1 CATTTTT-ACCCCAAAACTTCCAAAAATTC
95863 CATTTTTACCCC
1 CATTTTTACCCC
95875 TGAATGTGTA
Statistics
Matches: 129, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.08
27 13 0.10
28 6 0.05
29 47 0.36
30 53 0.41
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.35
Consensus pattern (29 bp):
CATTTTTACCCCAAAACTTCCAAAAATTC
Found at i:95851 original size:59 final size:59
Alignment explanation
Indices: 95673--95897 Score: 237
Period size: 59 Copynumber: 3.9 Consensus size: 59
95663 GGAGGTCCCT
* * * **
95673 AAACTATTCGAAAA-TCACATTTTTACCCCC-CACTTCCCAAAATTTTATTTTTGACCTCA
1 AAACT-TTCAAAAATTC-CATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCA
* * * * *
95732 AAACTTCCAAAAATTCCA-TTTT-CCCCCAAACTT-TAAAAATTCCATTTTTAACCTCG
1 AAACTTTCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCA
*
95788 AAACTTTCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCCCA
1 AAACTTTCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCA
* * * **
95847 AAACTTACAAAACTTCCATTTTTACCCCTGAA-TGTGTAAAAATTCCATTTT
1 AAACTTTCAAAAATTCCATTTTTACCCCCGAACT-TCCAAAAATTCCATTTT
95898 AACCCCGAAT
Statistics
Matches: 140, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
56 39 0.28
57 12 0.09
58 19 0.14
59 70 0.50
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (59 bp):
AAACTTTCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCA
Found at i:95916 original size:29 final size:28
Alignment explanation
Indices: 95733--95925 Score: 160
Period size: 29 Copynumber: 6.7 Consensus size: 28
95723 TTGACCTCAA
* * *
95733 AACTTCCAAAAATTCCATTTT-CCCCCA
1 AACTTTCAAAAATTCCATTTTAACCCCG
*
95760 AACTTT-AAAAATTCCATTTTTAACCTCG
1 AACTTTCAAAAATTCCA-TTTTAACCCCG
*
95788 AAACTTTCAAAAATTCCATTTTTACCCCCG
1 -AACTTTCAAAAATTCCA-TTTTAACCCCG
* * *
95818 AACTTCCAAAAATTCCATTTTTGACCCCAA
1 AACTTTCAAAAATTCCA-TTTTAACCCC-G
* * *
95848 AACTTACAAAACTTCCATTTTTACCCCTG
1 AACTTTCAAAAATTCCATTTTAACCCC-G
95877 AA-TGTGT-AAAAATTCCATTTTAACCCCG
1 AACT-T-TCAAAAATTCCATTTTAACCCCG
* *
95905 AATTTTCCAAAATTACCATTT
1 AACTTTCAAAAATT-CCATTT
95926 GCCCCTAAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
26 10 0.07
27 10 0.07
28 14 0.10
29 68 0.50
30 35 0.26
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (28 bp):
AACTTTCAAAAATTCCATTTTAACCCCG
Found at i:108044 original size:116 final size:115
Alignment explanation
Indices: 107800--108124 Score: 375
Period size: 116 Copynumber: 2.8 Consensus size: 115
107790 GAGGCTCAAA
* * *
107800 GCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGATAAGCAGGTTGAAATAATAAAAT
1 GCGAACAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAATAATAAAAC
* * * * *
107865 GGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGGCTCGAT
66 GGTCAGCTTCCTAATGAGATACAGAGAAGAATACCAACTCAGGGCCCAAT
* * * * * *
107915 GTGATCAAGTCTTCGAATCCCAGCTTCCTGATGAGATACAGAGAAGC-GGATTG-AATCAGGTAA
1 GCGAACAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGG-TTGAAAT-A-ATAA
** *
107978 GGCGGTCATCTTCCTAATGAGATACAGAGAAGAATACCAACTCAGGGCCCAAT
63 AACGGTCAGCTTCCTAATGAGATACAGAGAAGAATACCAACTCAGGGCCCAAT
* * ** *
108031 GCGAACAAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAAT
1 GCGAACAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAATAATAAAAC
* * * *
108096 GGTTAGCTTCCTGATGCGATACTGAGAAG
66 GGTCAGCTTCCTAATGAGATACAGAGAAG
108125 TGAACCAAAT
Statistics
Matches: 171, Mismatches: 34, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
114 5 0.03
115 72 0.42
116 91 0.53
117 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (115 bp):
GCGAACAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAATAATAAAAC
GGTCAGCTTCCTAATGAGATACAGAGAAGAATACCAACTCAGGGCCCAAT
Found at i:108293 original size:205 final size:202
Alignment explanation
Indices: 107938--108428 Score: 601
Period size: 205 Copynumber: 2.4 Consensus size: 202
107928 CGAATCCCAG
* * ** *
107938 CTTCCTGATGAGATACAGAGAAGCGGATTGAATCAGGTAAGGCGGTCATCTTCCTAATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTGGATTGAA-CAAGCGATGCGGTCATCTTCCTAATGAGATAC
* * * ** * * *
108003 AGAGAAGAATACCAACTC--AGGGCCCAATGCGAACAAATCTTCGAACCCCAGCTTCCTGATGAG
65 TGAGAAGAAGACCAAATCAAAACGCCCAATACGAAAAAATCTTCGAACCCCAACTTCCTGATGAG
* * * *
108066 ATATTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGCGATACTGAGAAGTGAACC
130 ATACTGAGAAGCAGGGCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACC
* *
108131 AAATTCGT
195 AAATCCAT
* *
108139 CTTCCTGATGAGATACAGAGAAGTGGATTGGAACAAGCGATGCGGTCACCTTCC-CATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTGGATT-GAACAAGCGATGCGGTCATCTTCCTAATGAGATAC
*
108203 TGAGAAGAAGACCAAATCAAACCCACGCTCAATACGAAAAAATCTTCGAACCCCAACTTCCTGAT
65 TGAGAAGAAGACCAAATCAAA---ACGCCCAATACGAAAAAATCTTCGAACCCCAACTTCCTGAT
*
108268 GAGATACTGAGAAGTAGGGCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGA
127 GAGATACTGAGAAGCAGGGCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGA
108333 ACCAAATCCAT
192 ACCAAATCCAT
* * * * ** * * *
108344 CTTCCTGATGAAACACAAATAAGTGGATCAAGACAAGCGATGCGGTCTTCTTCCTGATGAAATAC
1 CTTCCTGATGAGATACAGAGAAGTGGATTGA-ACAAGCGATGCGGTCATCTTCCTAATGAGATAC
* *
108409 TAAGAAGTAGACCAAATCAA
65 TGAGAAGAAGACCAAATCAA
108429 CGACATCAAA
Statistics
Matches: 247, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
200 24 0.10
201 44 0.18
202 4 0.02
204 1 0.00
205 148 0.60
206 26 0.11
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (202 bp):
CTTCCTGATGAGATACAGAGAAGTGGATTGAACAAGCGATGCGGTCATCTTCCTAATGAGATACT
GAGAAGAAGACCAAATCAAAACGCCCAATACGAAAAAATCTTCGAACCCCAACTTCCTGATGAGA
TACTGAGAAGCAGGGCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCA
AATCCAT
Found at i:108786 original size:6 final size:6
Alignment explanation
Indices: 108748--108839 Score: 66
Period size: 6 Copynumber: 15.8 Consensus size: 6
108738 TATTTTAAGG
* * * * **
108748 TTAAAT TT-ATT TTGAAT ATAAAT TT-ATT TTAAAT TTAAAT TT-GTT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
108793 TTAAAAT TTAAAT TT-AAT ATAAAT TTAGAT TTATAT TTAAAT TTAAA
1 TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
108840 AACTTATTAT
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 15 0.23
6 47 0.72
7 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:108801 original size:18 final size:17
Alignment explanation
Indices: 108733--108839 Score: 124
Period size: 17 Copynumber: 6.2 Consensus size: 17
108723 AAACTCAAAC
**
108733 AAATTTATTTTAAGGTT
1 AAATTTATTTTAAATTT
* *
108750 AAATTTATTTTGAATAT
1 AAATTTATTTTAAATTT
108767 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
*
108784 AAATTTGTTTTAAAATTT
1 AAATTTATTTT-AAATTT
* *
108802 AAATTTAATATAAATTT
1 AAATTTATTTTAAATTT
*
108819 AGATTTATATTTAAATTT
1 AAATTTAT-TTTAAATTT
108837 AAA
1 AAA
108840 AACTTATTAT
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
17 50 0.68
18 24 0.32
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:108815 original size:29 final size:29
Alignment explanation
Indices: 108766--108838 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
108756 ATTTTGAATA
* * *
108766 TAAATTT-ATTTTAAATTTAAATTT-GTTT
1 TAAATTTAAATTT-AATATAAATTTAGATT
108794 TAAAATTTAAATTTAATATAAATTTAGATT
1 T-AAATTTAAATTTAATATAAATTTAGATT
*
108824 TATATTTAAATTTAA
1 TAAATTTAAATTTAA
108839 AAACTTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 1 0.03
29 29 0.76
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
TAAATTTAAATTTAATATAAATTTAGATT
Found at i:108816 original size:35 final size:34
Alignment explanation
Indices: 108748--108839 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 34
108738 TATTTTAAGG
* * * *
108748 TTAAATTTATTTTGAATATAAATTTATTTTAAAT
1 TTAAATTTATTTTAAATTTAAATTTAATATAAAT
*
108782 TTAAATTTGTTTTAAAATTTAAATTTAATATAAAT
1 TTAAATTTATTTT-AAATTTAAATTTAATATAAAT
*
108817 TTAGATTTATATTTAAATTTAAA
1 TTAAATTTAT-TTTAAATTTAAA
108840 AACTTATTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 12 0.24
35 34 0.69
36 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (34 bp):
TTAAATTTATTTTAAATTTAAATTTAATATAAAT
Found at i:109612 original size:3 final size:3
Alignment explanation
Indices: 109594--109678 Score: 116
Period size: 3 Copynumber: 28.0 Consensus size: 3
109584 ACATTGTTTG
* * * **
109594 TAA TAAA TAC TAA TAA TAA TAA CAG TTT TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109640 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109679 ATAACAAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:109697 original size:36 final size:34
Alignment explanation
Indices: 109594--109752 Score: 126
Period size: 33 Copynumber: 4.6 Consensus size: 34
109584 ACATTGTTTG
* *
109594 TAATAAATACTAATAATAATAAC-AGTTTTAATAA
1 TAAT-AATAATAATAATAATAACAAATTTTAATAA
* **
109628 TAATAATAATAATAATAATAA-TAATAATAATAA
1 TAATAATAATAATAATAATAACAAATTTTAATAA
*
109661 TAATAATAATAATAATAAATAACAAATTTGTGATAA
1 TAATAATAATAATAAT-AATAACAAATTT-TAATAA
* * * *
109697 TGATAGTAATAAGTATTAATAAC-AATAATTAATAA
1 TAATAATAATAA-TAATAATAACAAAT-TTTAATAA
* *
109732 TACCTACTAATAATTAATAAT
1 TA-ATAATAATAA-TAATAAT
109753 TAATATTTAG
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
33 40 0.40
34 9 0.09
35 12 0.12
36 36 0.36
37 3 0.03
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (34 bp):
TAATAATAATAATAATAATAACAAATTTTAATAA
Found at i:110790 original size:29 final size:29
Alignment explanation
Indices: 110758--110976 Score: 214
Period size: 29 Copynumber: 7.4 Consensus size: 29
110748 AAACTGTTTG
* *
110758 AAAATTACATTTTTACCCTCGAACTTCCA
1 AAAATTCCATTTTTACCCTCAAACTTCCA
110787 AAAATTCCATTTTTGACCC-CAAAACTTCCA
1 AAAATTCCATTTTT-ACCCTC-AAACTTCCA
* *
110817 AAACTTCCATTTTTACCCTCGAACTTCCA
1 AAAATTCCATTTTTACCCTCAAACTTCCA
* **
110846 AAAATTCCATTTTGACCCAAAAACTTCCA
1 AAAATTCCATTTTTACCCTCAAACTTCCA
*
110875 AAAATTCCAATTTTGACCCT-AAACTTCCA
1 AAAATTCC-ATTTTTACCCTCAAACTTCCA
* *
110904 AAAATTCCATTTTTACCGC-CGAA-TATCTA
1 AAAATTCCATTTTTACC-CTCAAACT-TCCA
* * *
110933 AAAAATCCATTTTTAACCCT-AAATTTTCCC
1 AAAATTCCATTTTT-ACCCTCAAA-CTTCCA
110963 AAAATTACCATTTT
1 AAAATT-CCATTTT
110977 GCGCCCAAAA
Statistics
Matches: 160, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
28 9 0.06
29 97 0.61
30 46 0.29
31 8 0.05
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCAAACTTCCA
Found at i:110857 original size:59 final size:59
Alignment explanation
Indices: 110758--110917 Score: 252
Period size: 59 Copynumber: 2.7 Consensus size: 59
110748 AAACTGTTTG
* *
110758 AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCAAAAACTTCCA
*
110817 AAACTTCCATTTTTACCCTCGAACTTCCAAAAATTCCA-TTTTGACCCAAAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCAAAAACTTCCA
* *
110875 AAAATTCCAATTTTGACCCT-AAACTTCCAAAAATTCCATTTTT
1 AAAATTCC-ATTTTTACCCTCGAACTTCCAAAAATTCCATTTTT
110918 ACCGCCGAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
58 43 0.46
59 50 0.54
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (59 bp):
AAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCAAAAACTTCCA
Found at i:113162 original size:12 final size:11
Alignment explanation
Indices: 113135--113164 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
113125 CTATAATCTT
*
113135 CTTTTTCATTC
1 CTTTTTAATTC
113146 CTTTTTAATTC
1 CTTTTTAATTC
113157 CTTTTTAA
1 CTTTTTAA
113165 AATAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (11 bp):
CTTTTTAATTC
Found at i:128225 original size:58 final size:57
Alignment explanation
Indices: 128068--128236 Score: 142
Period size: 58 Copynumber: 2.9 Consensus size: 57
128058 AATATTTAAT
* * ** * * *
128068 AAATTTAGGTACCAAATTGAATTAAAAAAAGCTTAGGTACCAAATTAAGAAAAACGTC
1 AAATTCAGGTACCAAATT-AAATAAAAAAAATTTAAGTATCAAATTAAGAAAAACGTA
* * *** * * * *
128126 AAGTTCAAGTACCAAATTGGGTCCAAAAAAATTT-AGAATCAAATTAGGAAAAAATGTA
1 AAATTCAGGTACCAAATTAAAT-AAAAAAAATTTAAGTATCAAATTAAG-AAAAACGTA
* *
128184 AAATTCAGGTACCAAATTAAATAAAAAAAATTTAAGTATCAATTTAAAAAAAA
1 AAATTCAGGTACCAAATTAAATAAAAAAAATTTAAGTATCAAATTAAGAAAAA
128237 TATTAAATTT
Statistics
Matches: 83, Mismatches: 25, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
57 26 0.31
58 57 0.69
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (57 bp):
AAATTCAGGTACCAAATTAAATAAAAAAAATTTAAGTATCAAATTAAGAAAAACGTA
Found at i:129430 original size:28 final size:28
Alignment explanation
Indices: 129375--129438 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
129365 TATTTTAGAA
129375 TTTTATAAAT-TTTTAAAAAAATTCAAT
1 TTTTATAAATATTTTAAAAAAATTCAAT
**
129402 TTTTATATAATATTTT-AAAATTTTCAAT
1 TTTTATA-AATATTTTAAAAAAATTCAAT
*
129430 TTGTATAAA
1 TTTTATAAA
129439 ATAATTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.28
28 19 0.59
29 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (28 bp):
TTTTATAAATATTTTAAAAAAATTCAAT
Found at i:130563 original size:96 final size:96
Alignment explanation
Indices: 130380--130566 Score: 215
Period size: 96 Copynumber: 1.9 Consensus size: 96
130370 GGGAAAAGGA
** *
130380 TATTCGATTATCTTGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGTGCAATATTTCAGAATT
1 TATTCGATTATCTTGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCACAATATTTCAGAATC
* *
130445 GAAGATAAGGAAACATTGCCTCGATTAAGAG
66 GAAGATAAAGAAACATTACCTCGATTAAGAG
*
130476 TATTCGATTAT-TTCGATTTGGAGGAAAA-TTGCACCTAGTAAGTTAAGGCACAA-ATTTTC-GA
1 TATTCGATTATCTT-GATTT-GAAGAAAAGTTGCACCTAGTAAGTTAAGGCACAATA-TTTCAG-
*
130537 AACTCGAA-ATAAA-AGAATATTACCTCGATT
62 AA-TCGAAGATAAAGA-AACATTACCTCGATT
130567 TTAAAGTCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
95 5 0.06
96 62 0.79
97 11 0.14
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (96 bp):
TATTCGATTATCTTGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCACAATATTTCAGAATC
GAAGATAAAGAAACATTACCTCGATTAAGAG
Found at i:130902 original size:30 final size:30
Alignment explanation
Indices: 130861--131268 Score: 464
Period size: 30 Copynumber: 13.9 Consensus size: 30
130851 TAGACATTCG
* *
130861 GGGGT-AAAAATGGAATTTTTGAAAATTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
*
130890 GGGGTCAAAAATGGAA-ATTTGGAAGTTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
130919 GGGGTC-AAAATGGAATTTTTGGAAG-TTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
* * *
130947 GAGGGTC-AAAATGAAATTTTTTGAAGTTTC
1 G-GGGTCAAAAATGGAATTTTTGGAAGTTTT
* * *
130977 GAGGTCAAAAATAGAATTTTTGGAAGTTTG
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
*
131007 GGGGTC-AAAATGGAATTTTTAGAAGTTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
*
131036 GGGGTCAAAAATGGAATTTTTAGAAGTTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
* *
131066 GGGGTCAAAAATGGAATTTTTTGAAGCTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
* * **
131096 ----T-AAAAATAGATTTTTTGGAAGCTTCG
1 GGGGTCAAAAATGGAATTTTTGGAAG-TTTT
* * *
131122 GGGGTAAAAAATGTAATTTTTGGAAGTTTA
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
* * *
131152 GAGGTTAAAAATTGAATTTTTGGAAGTTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
*
131182 GGGGTCAAAAATGGAATTTTTGGAAGTTTC
1 GGGGTCAAAAATGGAATTTTTGGAAGTTTT
131212 GAGGGT--AAAATGGAATTTTTGGAAGTTTT
1 G-GGGTCAAAAATGGAATTTTTGGAAGTTTT
* *
131241 GAGGTCAAAAATGGAATTTTTTGAAGTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTT
131269 CGAGGGTAAA
Statistics
Matches: 323, Mismatches: 41, Indels: 29
0.82 0.10 0.07
Matches are distributed among these distances:
25 17 0.05
26 2 0.01
28 16 0.05
29 104 0.32
30 163 0.50
31 21 0.07
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAAATGGAATTTTTGGAAGTTTT
Found at i:130905 original size:59 final size:59
Alignment explanation
Indices: 130841--131290 Score: 386
Period size: 59 Copynumber: 7.7 Consensus size: 59
130831 AGGCTATAAG
* *
130841 ATGGAATTTTTAGACA-TTCGGGGGTAAAAATGGAATTTTTGAAAATTTTGGGGTCAAAA
1 ATGGAATTTTTGGA-AGTTCGGGGGTAAAAATGGAATTTTTGAAAGTTTTGGGGTCAAAA
* ** * *
130900 ATGGAA-ATTTGGAAGTTTTGGGGTCAAAATGGAATTTTTGGAAG-TTTGAGGGTC-AAA
1 ATGGAATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGAAAGTTTTG-GGGTCAAAA
* * * * * *
130957 ATGAAATTTTTTGAAGTTTC-GAGGTCAAAAATAGAATTTTTGGAAGTTTGGGGGTC-AAA
1 ATGGAATTTTTGGAAG-TTCGGGGGT-AAAAATGGAATTTTTGAAAGTTTTGGGGTCAAAA
* **
131016 ATGGAATTTTTAGAAGTTTTGGGGTCAAAAATGGAATTTTT-AGAAGTTTTGGGGTCAAAA
1 ATGGAATTTTTGGAAGTTCGGGGGT-AAAAATGGAATTTTTGA-AAGTTTTGGGGTCAAAA
* * * * * ** *
131076 ATGGAATTTTTTGAAGCTT-----TTAAAAATAGATTTTTTGGAAGCTTCGGGGGTAAAAA
1 ATGGAATTTTTGGAAG-TTCGGGGGTAAAAATGGAATTTTTGAAAG-TTTTGGGGTCAAAA
* * * * * *
131132 ATGTAATTTTTGGAAGTTTAGAGGTTAAAAATTGAATTTTTGGAAGTTTTGGGGTCAAAA
1 ATGGAATTTTTGGAAG-TTCGGGGGTAAAAATGGAATTTTTGAAAGTTTTGGGGTCAAAA
* * *
131192 ATGGAATTTTTGGAAGTTTCGAGGGT-AAAATGGAATTTTTGGAAGTTTTGAGGTCAAAA
1 ATGGAATTTTTGGAAG-TTCGGGGGTAAAAATGGAATTTTTGAAAGTTTTGGGGTCAAAA
* * * *
131251 ATGGAATTTTTTGAAGTTCGAGGGTAAAAAAGAAATTTTT
1 ATGGAATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTT
131291 AGACAATTTA
Statistics
Matches: 327, Mismatches: 46, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
55 16 0.05
56 28 0.09
57 13 0.04
58 56 0.17
59 137 0.42
60 55 0.17
61 22 0.07
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (59 bp):
ATGGAATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGAAAGTTTTGGGGTCAAAA
Found at i:131108 original size:24 final size:26
Alignment explanation
Indices: 131072--131119 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
131062 TTTTGGGGTC
*
131072 AAAAATGGAATTTTTT-GAAGCTTTT
1 AAAAATAGAATTTTTTGGAAGCTTTT
131097 AAAAATAG-ATTTTTTGGAAGCTT
1 AAAAATAGAATTTTTTGGAAGCTT
131120 CGGGGGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.42
Consensus pattern (26 bp):
AAAAATAGAATTTTTTGGAAGCTTTT
Found at i:131178 original size:116 final size:114
Alignment explanation
Indices: 130866--131268 Score: 393
Period size: 116 Copynumber: 3.4 Consensus size: 114
130856 ATTCGGGGGT
* * * ** * * *
130866 AAAAATGGAATTTTTGAAAATTTTGGGGTCAAAAATGGAA-ATTTGGAAGTTTTGGGGTCAAAAT
1 AAAAATAGAATTTTTGGAAGTTCGGGGGT-AAAAATGGAATTTTTGGAAGTTTTGGGTTAAAAAT
*
130930 GGAATTTTTGGAAG-TTTGAGGGTC-AAAATGAAATTTTTTGAAGTTTCGAGGTC
65 GGAATTTTTGGAAGTTTTG-GGGTCAAAAATGGAATTTTTTGAAGTTT----GTC
* * * *
130983 AAAAATAGAATTTTTGGAAGTTTGGGGGTCAAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAAT
1 AAAAATAGAATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTT-GGGTTAAAAAT
*
131048 GGAATTTTTAGAAGTTTTGGGGTCAAAAATGGAATTTTTTGAAGCTTT-T-
65 GGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTTGAAG-TTTGTC
* * *
131097 AAAAATAGATTTTTTGGAAGCTTCGGGGGTAAAAAATGTAATTTTTGGAAGTTTAGAGGTTAAAA
1 AAAAATAGAATTTTTGGAAG-TTCGGGGGT-AAAAATGGAATTTTTGGAAGTTTTG-GGTTAAAA
* * **
131162 ATTGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGG
63 ATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTTGAAGTTT---GTC
* * ** * *
131217 TAAAATGGAATTTTTGGAAGTTTTGAGGTCAAAAATGGAATTTTTTGAAGTT
1 AAAAATAGAATTTTTGGAAGTTCGGGGGT-AAAAATGGAATTTTTGGAAGTT
131269 CGAGGGTAAA
Statistics
Matches: 241, Mismatches: 32, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
114 19 0.08
115 13 0.05
116 79 0.33
117 36 0.15
118 26 0.11
119 48 0.20
120 20 0.08
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (114 bp):
AAAAATAGAATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGTTAAAAATG
GAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTTGAAGTTTGTC
Found at i:131281 original size:30 final size:31
Alignment explanation
Indices: 131097--131290 Score: 204
Period size: 30 Copynumber: 6.5 Consensus size: 31
131087 TGAAGCTTTT
* * * * * *
131097 AAAAATAGATTTTTTGGAAGCTTCGGGGGTA
1 AAAAATGGAATTTTTGGAAGTTTTGAGGGTC
* * *
131128 AAAAATGTAATTTTTGGAAGTTTAGA-GGTT
1 AAAAATGGAATTTTTGGAAGTTTTGAGGGTC
*
131158 AAAAATTGAATTTTTGGAAGTTTTG-GGGTC
1 AAAAATGGAATTTTTGGAAGTTTTGAGGGTC
*
131188 AAAAATGGAATTTTTGGAAGTTTCGAGGGT-
1 AAAAATGGAATTTTTGGAAGTTTTGAGGGTC
131218 -AAAATGGAATTTTTGGAAGTTTTGA-GGTC
1 AAAAATGGAATTTTTGGAAGTTTTGAGGGTC
* *
131247 AAAAATGGAATTTTTTGAAG-TTCGAGGGT-
1 AAAAATGGAATTTTTGGAAGTTTTGAGGGTC
* *
131276 AAAAAAGAAATTTTT
1 AAAAATGGAATTTTT
131291 AGACAATTTA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.02
29 41 0.29
30 72 0.51
31 24 0.17
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (31 bp):
AAAAATGGAATTTTTGGAAGTTTTGAGGGTC
Found at i:132492 original size:3 final size:3
Alignment explanation
Indices: 132486--132522 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
132476 CATCATCATC
132486 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
132523 ATCGTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:133170 original size:17 final size:17
Alignment explanation
Indices: 133136--133224 Score: 108
Period size: 17 Copynumber: 5.2 Consensus size: 17
133126 GTTTTGGACT
*
133136 TTTAATTTTGAAATTAAA
1 TTTAAATTT-AAATTAAA
*
133154 TTTAAATTTACATTAAA
1 TTTAAATTTAAATTAAA
133171 TTTAAATTTAAGATT-AA
1 TTTAAATTTAA-ATTAAA
*
133188 TTTAAATTTAAAATAAA
1 TTTAAATTTAAATTAAA
* *
133205 TCTAAATTTAAAATAAA
1 TTTAAATTTAAATTAAA
133222 TTT
1 TTT
133225 TAAAAAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
16 2 0.03
17 50 0.79
18 11 0.17
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
TTTAAATTTAAATTAAA
Found at i:133176 original size:23 final size:23
Alignment explanation
Indices: 133150--133199 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
133140 ATTTTGAAAT
133150 TAAATTTAA-ATTTACA-TTAAATT
1 TAAATTTAAGA-TTA-ATTTAAATT
133173 TAAATTTAAGATTAATTTAAATT
1 TAAATTTAAGATTAATTTAAATT
133196 TAAA
1 TAAA
133200 ATAAATCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.04
23 23 0.92
24 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TAAATTTAAGATTAATTTAAATT
Found at i:133218 original size:7 final size:6
Alignment explanation
Indices: 133136--133216 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
133126 GTTTTGGACT
* *
133136 TTTAAT TTTGAAA -TTAAA TTTAAA TTTACA -TTAAA TTTAAA TTTAAGA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
* *
133184 -TT-AA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
133217 ATAAATTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
4 1 0.02
5 14 0.23
6 44 0.71
7 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:133944 original size:205 final size:205
Alignment explanation
Indices: 133637--134855 Score: 1891
Period size: 205 Copynumber: 5.9 Consensus size: 205
133627 GGTTTTGATT
* * * * * * * * *
133637 CACTTCCCCGTATTTCATCAGGAAGCTAACCGTTTTAATACTTCGACCTACTTCTCAGTATCGCA
1 CACTTCTCAGTATCTCATCAGGAAGCTAACC-TCTTATTGCTTCGACCTGCTTCTCAGTGTCTCA
* * * * * * *
133702 TCAGGAAGATAGGGTTCGAAGATTTGCTCATATCGAGCGTAGGTTTGATTTGATTTTC-TCTTCT
65 TCAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTT-A
* * * * * *
133766 GTGTCTCATCAGGAAGATGATCGCGTCGTTTGTTTTAATCCGCTTCTTTGTACCTCATCAGGAAG
129 GTATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAG
133831 ACGAATTTGGTC
194 ACGAATTTGGTC
*
133843 CACTTCTTAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
1 CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
* *
133908 CAAGAAGCTAGGGTTCAAAGATTTGCTCACATCGAGCTTGGGTTTGATTTGGTCTTCTTCTTAGT
66 CAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGT
*
133973 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTTTGTATCTCATCAGGAAGAC
131 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGAC
134038 GAATTTGGTC
196 GAATTTGGTC
* * * * *
134048 TACTTCTTAGTATCTTATTAGGAAGCTAAACTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
1 CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
* * * * * *
134113 CAAAAAGCTAGGATTTGAAGATTTACTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGT
66 CAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGT
* * *
134178 ATCTCATTAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAAGAAGAC
131 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGAC
134243 GAATTTGGTC
196 GAATTTGGTC
*
134253 CACTTCTCAGTATCTCATCAAGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
1 CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
* * * *
134318 CAAGAAGCTAGGATTCGAAGATTTGCTCACACCAAGCGTGGTTTTGATTTGGTCTTCTTCTTAGT
66 CAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGT
* *
134383 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAAGAAGAC
131 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGAC
134448 GAATTTGGTC
196 GAATTTGGTC
134458 CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
1 CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
134523 CAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGT
66 CAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGT
* * *
134588 ATATCATTAGGAAGACGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGAC
131 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGAC
*
134653 GAATTTAGTC
196 GAATTTGGTC
*
134663 CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAATGTCTCAT
1 CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
* *
134728 CAAGAAGCTAGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGT
66 CAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGT
* * * *
134793 ATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCGCTTCTCTGTATCTTATCAGGAAG
131 ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAG
134856 CTAACCTCTT
Statistics
Matches: 934, Mismatches: 78, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
205 903 0.97
206 31 0.03
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (205 bp):
CACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCAT
CAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGT
ATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGAC
GAATTTGGTC
Found at i:134947 original size:373 final size:373
Alignment explanation
Indices: 134460--135228 Score: 1376
Period size: 373 Copynumber: 2.1 Consensus size: 373
134450 ATTTGGTCCA
*
134460 CTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCTGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
* * * *
134525 AGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTTAGTAT
66 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
* *
134590 ATCATTAGGAAGACGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGA
131 ATCATCAGGAAGACGACCACGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGA
134655 ATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAA
196 ATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAA
134720 TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTC
261 TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTC
134785 TTCTCAGTATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
326 TTCTCAGTATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
*
134833 CTTCTCTGTATCTTATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCTGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
134898 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
66 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
* * *
134963 CTCATCAGGAAGATGACCACGTCGTTTGTTTCAATTTGCTTCTCTGTATCTCATCAGGAAGACGA
131 ATCATCAGGAAGACGACCACGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGA
* * *
135028 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACTTGCTTCTCAG
196 ATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAA
*
135093 TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTTCTCACCTCGAGCGTGGGTTTGATTTGGTCTTC
261 TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTC
* *
135158 TTCTCAGTATCTCATCAGGAAGATGACCACGTTGTATGTTTCAATTCG
326 TTCTCAGTATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
*
135206 CTTCTCTGTATCTCATCTGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
135229 ACGAATTTGG
Statistics
Matches: 377, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
373 377 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (373 bp):
CTTCTCTGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
ATCATCAGGAAGACGACCACGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGA
ATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAA
TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTC
TTCTCAGTATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
Found at i:134957 original size:168 final size:168
Alignment explanation
Indices: 134665--135023 Score: 628
Period size: 168 Copynumber: 2.1 Consensus size: 168
134655 ATTTAGTCCA
*
134665 CTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAATGTCTCATCA
1 CTTCTCTGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAATGTCTCATCA
* * * *
134730 AGAAGCTAGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTAT
66 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
134795 CTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
131 CTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
* *
134833 CTTCTCTGTATCTTATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCTGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAATGTCTCATCA
134898 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
66 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
* * *
134963 CTCATCAGGAAGATGACCACGTCGTTTGTTTCAATTTG
131 CTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
135001 CTTCTCTGTATCTCATCAGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
135024 ACGAATTTGG
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 180 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (168 bp):
CTTCTCTGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAATGTCTCATCA
AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
CTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
Found at i:134990 original size:578 final size:578
Alignment explanation
Indices: 134255--135336 Score: 1914
Period size: 578 Copynumber: 1.9 Consensus size: 578
134245 ATTTGGTCCA
134255 CTTCTCAGTATCTCATCAAGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAAGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
* *
134320 AGAAGCTAGGATTCGAAGATTTGCTCACACCAAGCGTGGTTTTGATTTGGTCTTCTTCTTAGTAT
66 AGAAGCTAGGATTCGAAGATTTGCTCACACCAAGCGTGGTTTTGATTTGGTCTTCTTCTCAATAT
*
134385 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAAGAAGACGA
131 CTCATCAGGAAGATGACCACGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAAGAAGACGA
134450 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAG
196 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAG
134515 TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTC
261 TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTC
* * * *
134580 TTCTTAGTATATCATTAGGAAGACGACCGCGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATC
326 TTCTCAGTATATCATCAGGAAGACGACCACGTCGTATGTTTCAATTCGCTTCTCTGTATCTCATC
134645 AGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACC
391 AGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACC
*
134710 TGCTTCTCAATGTCTCATCAAGAAGCTAGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTTGA
456 TGCTTCTCAATGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGA
134775 TTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
521 TTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
* * *
134833 CTTCTCTGTATCTTATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAAGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
* *
134898 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAG-TTTGATTTGGTCTTCTTCTCAATA
66 AGAAGCTAGGATTCGAAGATTTGCTCACACCAAGCGTG-GTTTTGATTTGGTCTTCTTCTCAATA
* * *
134962 TCTCATCAGGAAGATGACCACGTCGTTTGTTTCAATTTGCTTCTCTGTATCTCATCAGGAAGACG
130 TCTCATCAGGAAGATGACCACGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAAGAAGACG
*
135027 AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACTTGCTTCTCA
195 AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCA
* *
135092 GTGTCTCATCAAGAAGCTAGGGTTCGAAGATTTTCTCACCTCGAGCGTGGGTTTGATTTGGTCTT
260 GTGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTT
* * *
135157 CTTCTCAGTATCTCATCAGGAAGATGACCACGTTGTATGTTTCAATTCGCTTCTCTGTATCTCAT
325 CTTCTCAGTATATCATCAGGAAGACGACCACGTCGTATGTTTCAATTCGCTTCTCTGTATCTCAT
* * *
135222 CTGGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCTCTTATTGCTTCGAC
390 CAGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGAC
*
135287 CTGCTTCTCAGTGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACA
455 CTGCTTCTCAATGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACA
135337 NNNNNNNNNN
Statistics
Matches: 477, Mismatches: 26, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
578 476 1.00
579 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (578 bp):
CTTCTCAGTATCTCATCAAGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
AGAAGCTAGGATTCGAAGATTTGCTCACACCAAGCGTGGTTTTGATTTGGTCTTCTTCTCAATAT
CTCATCAGGAAGATGACCACGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATAAAGAAGACGA
ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAG
TGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTC
TTCTCAGTATATCATCAGGAAGACGACCACGTCGTATGTTTCAATTCGCTTCTCTGTATCTCATC
AGGAAGACGAATTTAGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACC
TGCTTCTCAATGTCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGA
TTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCACATCGTATGTTTCAATTCG
Found at i:135089 original size:205 final size:205
Alignment explanation
Indices: 134833--135336 Score: 891
Period size: 205 Copynumber: 2.5 Consensus size: 205
134823 TTTCAATTCG
* *
134833 CTTCTCTGTATCTTATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
134898 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
66 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
* *
134963 CTCATCAGGAAGATGACCACGTCGTTTGTTTCAATTTGCTTCTCTGTATCTCATCAGGAAGACGA
131 CTCATCAGGAAGATGACCACGTCGTATGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGA
135028 ATTTGGTCCA
196 ATTTGGTCCA
*
135038 CTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
* * * * *
135103 AGAAGCTAGGGTTCGAAGATTTTCTCACCTCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTAT
66 AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
* *
135168 CTCATCAGGAAGATGACCACGTTGTATGTTTCAATTCGCTTCTCTGTATCTCATCTGGAAGACGA
131 CTCATCAGGAAGATGACCACGTCGTATGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGA
135233 ATTTGGTCCA
196 ATTTGGTCCA
*
135243 CTTCTCAGTGTCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
135308 AGAAGCTAGGGTTCGAAGATTTGCTCACA
66 AGAAGCTAGGGTTCGAAGATTTGCTCACA
135337 NNNNNNNNNN
Statistics
Matches: 283, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 283 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (205 bp):
CTTCTCAGTATCTCATCAGGAAGCTAACCTCTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCA
AGAAGCTAGGGTTCGAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAATAT
CTCATCAGGAAGATGACCACGTCGTATGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGA
ATTTGGTCCA
Found at i:136962 original size:6 final size:6
Alignment explanation
Indices: 136951--137001 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
136941 AATTGAATTT
* * *
136951 ATTTAA ATTTAA GTTT-A TTTTAA ATTTAA ATTT-A TTTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
136997 ATTTA
1 ATTTA
137002 TTATAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
5 8 0.21
6 30 0.79
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (6 bp):
ATTTAA
Found at i:136974 original size:17 final size:17
Alignment explanation
Indices: 136946--137018 Score: 105
Period size: 17 Copynumber: 4.4 Consensus size: 17
136936 TTGGAAATTG
136946 AATTTA-TTTAAATTTA
1 AATTTATTTTAAATTTA
*
136962 AGTTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
136979 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
136996 AATTTATTATAAGA-TTA
1 AATTTATTTTAA-ATTTA
137013 AATTTA
1 AATTTA
137019 GAAAGTCCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.10
17 46 0.88
18 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:136977 original size:23 final size:23
Alignment explanation
Indices: 136952--137001 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
136942 ATTGAATTTA
*
136952 TTTAAATTTAAGTTT-ATTTTAAA
1 TTTAAATTT-AGTTTAAATTTAAA
*
136975 TTTAAATTTATTTTAAATTTAAA
1 TTTAAATTTAGTTTAAATTTAAA
136998 TTTA
1 TTTA
137002 TTATAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAATTTAGTTTAAATTTAAA
Found at i:137075 original size:15 final size:15
Alignment explanation
Indices: 137051--137121 Score: 97
Period size: 15 Copynumber: 4.7 Consensus size: 15
137041 AAAACAAAGT
137051 CCAATTACAAATGGC
1 CCAATTACAAATGGC
* *
137066 CCAATAACAAATGAC
1 CCAATTACAAATGGC
* *
137081 CCAGTTACAGATGGC
1 CCAATTACAAATGGC
*
137096 CCAAATACAAATGGC
1 CCAATTACAAATGGC
137111 CCAATTACAAA
1 CCAATTACAAA
137122 AGCCCAAACT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.17
Consensus pattern (15 bp):
CCAATTACAAATGGC
Found at i:137095 original size:30 final size:30
Alignment explanation
Indices: 137051--137134 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
137041 AAAACAAAGT
137051 CCAATTACAAATGGCCC-AATAACAAATGAC
1 CCAATTACAAATGGCCCAAAT-ACAAATGAC
* * *
137081 CCAGTTACAGATGGCCCAAATACAAATGGC
1 CCAATTACAAATGGCCCAAATACAAATGAC
*
137111 CCAATTACAAA-AGCCCAAACTACA
1 CCAATTACAAATGGCCCAAA-TACA
137135 GTTTACTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.15
30 36 0.78
31 3 0.07
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (30 bp):
CCAATTACAAATGGCCCAAATACAAATGAC
Found at i:138913 original size:29 final size:29
Alignment explanation
Indices: 138876--139208 Score: 164
Period size: 30 Copynumber: 11.3 Consensus size: 29
138866 GTCCCCAAAC
*
138876 CTTCTAAAAAATACAATTTTACCCCTGAA
1 CTTCCAAAAAATACAATTTTACCCCTGAA
* *
138905 CTTCC-AAAAATCCCATTTTTGACCCC-GAA
1 CTTCCAAAAAAT-ACAATTTT-ACCCCTGAA
* *
138934 CCTTCCAAAAATTACTATTTTA-CCCTCGAA
1 -CTTCCAAAAAATACAATTTTACCCCT-GAA
* *
138964 CTTCC-AAAAATCCCATTTTAGCCCC-GAA
1 CTTCCAAAAAATACAATTTTA-CCCCTGAA
* * * *
138992 CCTTCTAAAAATTACCATTTTACCCCTAAA
1 -CTTCCAAAAAATACAATTTTACCCCTGAA
* * * *
139022 CTTCC-AAAAATCTCATTTTTAACCCTAAA
1 CTTCCAAAAAAT-ACAATTTTACCCCTGAA
* * * **
139051 CCTTCTAAAAATTACCATTTTACCCCCAAA
1 -CTTCCAAAAAATACAATTTTACCCCTGAA
* * *
139081 CTTTC-AAAAATCCCATTTTTAGCCCC-GAA
1 CTTCCAAAAAAT-ACAATTTTA-CCCCTGAA
** * *
139110 CCTTTTAAAAATTACCATTTTA-CCCTCGAA
1 -CTTCCAAAAAATACAATTTTACCCCT-GAA
* * *
139140 CTTCC-AAAAATCCCATTTTTAGCCCTGAA
1 CTTCCAAAAAAT-ACAATTTTACCCCTGAA
* * * *
139169 CCTTCTAAAAATTACCATTTTACCCCCGAA
1 -CTTCCAAAAAATACAATTTTACCCCTGAA
139199 CTTCCAAAAA
1 CTTCCAAAAA
139209 TCCCATTTTT
Statistics
Matches: 227, Mismatches: 53, Indels: 48
0.69 0.16 0.15
Matches are distributed among these distances:
28 42 0.19
29 76 0.33
30 89 0.39
31 20 0.09
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (29 bp):
CTTCCAAAAAATACAATTTTACCCCTGAA
Found at i:138965 original size:59 final size:59
Alignment explanation
Indices: 138868--139397 Score: 653
Period size: 59 Copynumber: 9.0 Consensus size: 59
138858 ACCCAGAGGT
* * *
138868 CCCCAAACCTTCTAAAAAATACAATTTTACCC-CTGAACTTCCAAAAATCCCATTTTTGA
1 CCCCGAACCTTCTAAAAATTACCATTTTACCCTC-GAACTTCCAAAAATCCCATTTTTGA
* * *
138927 CCCCGAACCTTCCAAAAATTACTATTTTACCCTCGAACTTCCAAAAATCCCATTTTAG-
1 CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
* * *
138985 CCCCGAACCTTCTAAAAATTACCATTTTACCC-CTAAACTTCCAAAAATCTCATTTTTAA
1 CCCCGAACCTTCTAAAAATTACCATTTTACCCTC-GAACTTCCAAAAATCCCATTTTTGA
** * * *
139044 CCCTAAACCTTCTAAAAATTACCATTTTACCCCCAAACTTTCAAAAATCCCATTTTT-A
1 CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
*
139102 GCCCCGAACCTTTTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTT-A
1 -CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
* *
139161 GCCCTGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGA
1 -CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
** *
139221 CCCCGAATATTCTAAAAATTACTATTTTACCCTCGAAC-TCCTAAAAATCCCATTTTT-A
1 CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAACTTCC-AAAAATCCCATTTTTGA
* *** * *
139279 GCCCCGAACCTTCCAAAAATTATTGTTTTACCC-CCAAGCTCCCAAAAATCCCATTTTTGA
1 -CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAA-CTTCCAAAAATCCCATTTTTGA
* * * * * *
139339 CCTCGGATCTTCTAAAAATTACCATTTTACCCTCGAACTTCCCAAGATCCTATTTTTGA
1 CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
139398 TTCCGGACAT
Statistics
Matches: 411, Mismatches: 48, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
57 1 0.00
58 58 0.14
59 343 0.83
60 9 0.02
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.32
Consensus pattern (59 bp):
CCCCGAACCTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
Found at i:139799 original size:96 final size:97
Alignment explanation
Indices: 139666--139852 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 97
139656 TCTAATATCA
* **
139666 AGGCAATATTCTTTTATTTCGAGTTCCGAAAATTTGCGCCTTAACTCACTAGGTTCAATTTTTCT
1 AGGCAATATTCTTTTATTTCGAGTTCCGAAAATTTGCGCCTTAACTCACTAGGTGCAACCTTTCT
*
139731 TCAAATCGA-AGTAATCGAATA-CCTTTAATCG
66 TCAAATCGAGA-TAATCAAATATCCTTTAATCG
* *
139762 AGGCAATGTT-TTCTTATCTTCGA-TTCCG-AAATATTGCGCCTTAACTTACTAGGTGCAACCTT
1 AGGCAATATTCTT-TTAT-TTCGAGTTCCGAAAAT-TTGCGCCTTAACTCACTAGGTGCAACCTT
139824 TCTTCAAATCGAGATAATCAAATATCCTT
63 TCTTCAAATCGAGATAATCAAATATCCTT
139853 CTCACAAAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
95 6 0.08
96 64 0.80
97 10 0.12
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (97 bp):
AGGCAATATTCTTTTATTTCGAGTTCCGAAAATTTGCGCCTTAACTCACTAGGTGCAACCTTTCT
TCAAATCGAGATAATCAAATATCCTTTAATCG
Found at i:144022 original size:32 final size:32
Alignment explanation
Indices: 143984--144047 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
143974 AAAATATTTG
143984 TTTTTAAATTTACCATAATAAAATTGGGTTTA
1 TTTTTAAATTTACCATAATAAAATTGGGTTTA
*
144016 TTTTTAAGTTTACCATAATAAAATTGGGTTTA
1 TTTTTAAATTTACCATAATAAAATTGGGTTTA
144048 GCTTAAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (32 bp):
TTTTTAAATTTACCATAATAAAATTGGGTTTA
Found at i:146152 original size:13 final size:13
Alignment explanation
Indices: 146134--146167 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
146124 TGAAGCAGCT
*
146134 AGTTTTGTGATAC
1 AGTTTTATGATAC
*
146147 AGTTTTATTATAC
1 AGTTTTATGATAC
146160 AGTTTTAT
1 AGTTTTAT
146168 TCTAACTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (13 bp):
AGTTTTATGATAC
Found at i:146168 original size:13 final size:13
Alignment explanation
Indices: 146143--146168 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
146133 TAGTTTTGTG
146143 ATACAGTTTTATT
1 ATACAGTTTTATT
146156 ATACAGTTTTATT
1 ATACAGTTTTATT
146169 CTAACTGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
ATACAGTTTTATT
Found at i:165152 original size:6 final size:6
Alignment explanation
Indices: 165141--165200 Score: 120
Period size: 6 Copynumber: 10.0 Consensus size: 6
165131 GTTTTCATTG
165141 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
165189 ATACAT ATACAT
1 ATACAT ATACAT
165201 GTGGGTGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:169598 original size:159 final size:159
Alignment explanation
Indices: 169304--169616 Score: 558
Period size: 159 Copynumber: 2.0 Consensus size: 159
169294 CCTGTTTTTC
169304 GTGATCCTGATCCCCTGACACCACCTGCGAACATTATCAAACTCAATCAGCAATTTTTTTTTTCT
1 GTGATCCTGATCCCCTGACACCACCTGCGAACATTATCAAACTCAATCAGCAATTTTTTTTTTCT
*
169369 TTTTTAACTAAGATATAACATAAGAAATCAAAGATCAGAGGAAGAAATCCAAACTAACCTGCGCC
66 TTTTTAACTAAGATATAACATAAGAAATCAAAGATCAGAGGAAGAAATCCAAACTAACCTGCGAC
169434 CAACTGGATCTGGAGCGTTCATCTCGTTG
131 CAACTGGATCTGGAGCGTTCATCTCGTTG
* *
169463 GTGATCTTGATCCCCTGACACCGCCTGCGAACATTATCAAACTCAATCAGCAA-TTTTTTTTTCT
1 GTGATCCTGATCCCCTGACACCACCTGCGAACATTATCAAACTCAATCAGCAATTTTTTTTTTCT
169527 TTTTTAACTAAGATATAACATAAGAAATCAAAAGATCAG-GAGAAGAAATCCAAACTAACCTGCG
66 TTTTTAACTAAGATATAACATAAGAAATC-AAAGATCAGAG-GAAGAAATCCAAACTAACCTGCG
*
169591 ACGAACTGGATCTGGAGCGTTCATCT
129 ACCAACTGGATCTGGAGCGTTCATCT
169617 TGAGACTCAT
Statistics
Matches: 148, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
158 41 0.28
159 107 0.72
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (159 bp):
GTGATCCTGATCCCCTGACACCACCTGCGAACATTATCAAACTCAATCAGCAATTTTTTTTTTCT
TTTTTAACTAAGATATAACATAAGAAATCAAAGATCAGAGGAAGAAATCCAAACTAACCTGCGAC
CAACTGGATCTGGAGCGTTCATCTCGTTG
Found at i:177075 original size:2 final size:2
Alignment explanation
Indices: 177068--177092 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
177058 TCTTCCTTAA
177068 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
177093 ATTTTAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:187165 original size:2 final size:2
Alignment explanation
Indices: 187158--187201 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
187148 GATAATTCTA
187158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
187200 AT
1 AT
187202 GCAGCAGTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:189593 original size:3 final size:3
Alignment explanation
Indices: 189585--189613 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
189575 CCTTGGATTA
189585 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
189614 AAAGAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:190575 original size:14 final size:15
Alignment explanation
Indices: 190558--190586 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
190548 TTACTTGTCA
190558 ATTTTTTAT-TTTTT
1 ATTTTTTATATTTTT
190572 ATTTTTTATATTTTT
1 ATTTTTTATATTTTT
190587 CCCCTTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTATATTTTT
Found at i:193937 original size:15 final size:16
Alignment explanation
Indices: 193917--193946 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
193907 AAAAACAATC
193917 CAATAT-TTTAAAAAT
1 CAATATATTTAAAAAT
193932 CAATATATTTAAAAA
1 CAATATATTTAAAAA
193947 AAAATGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (16 bp):
CAATATATTTAAAAAT
Found at i:209068 original size:14 final size:14
Alignment explanation
Indices: 209051--209080 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
209041 AGGGTTTAAA
209051 AATTTTAATTAATT
1 AATTTTAATTAATT
*
209065 AATTTTATTTAATT
1 AATTTTAATTAATT
209079 AA
1 AA
209081 ATATTTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTAATTAATT
Found at i:214887 original size:14 final size:14
Alignment explanation
Indices: 214868--214894 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
214858 TGAGAACATA
214868 ATATATGGAAGACC
1 ATATATGGAAGACC
214882 ATATATGGAAGAC
1 ATATATGGAAGAC
214895 TGTGTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (14 bp):
ATATATGGAAGACC
Found at i:215541 original size:49 final size:49
Alignment explanation
Indices: 215482--215621 Score: 244
Period size: 49 Copynumber: 2.9 Consensus size: 49
215472 AAGAAAAAAG
* *
215482 CATGTAGAAGTCTAATATCTTTGAAAGGCAACCTACAAAGAATCACTAT
1 CATGTAGAAGTCTAATATCTTTCAACGGCAACCTACAAAGAATCACTAT
* *
215531 CATGTAGAAGTCTAATATCCTTCAACGGAAACCTACAAAGAATCACTAT
1 CATGTAGAAGTCTAATATCTTTCAACGGCAACCTACAAAGAATCACTAT
215580 CATGTAGAAGTCTAATATCTTTCAACGGCAACCTACAAAGAA
1 CATGTAGAAGTCTAATATCTTTCAACGGCAACCTACAAAGAA
215622 ATACTGTCAT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 85 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (49 bp):
CATGTAGAAGTCTAATATCTTTCAACGGCAACCTACAAAGAATCACTAT
Found at i:239399 original size:12 final size:12
Alignment explanation
Indices: 239382--239413 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
239372 GGAAAGAGCA
239382 TCAGGTTCGGGT
1 TCAGGTTCGGGT
239394 TCAGGTTCGGGT
1 TCAGGTTCGGGT
*
239406 TCGGGTTC
1 TCAGGTTC
239414 TTCACTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.41, T:0.34
Consensus pattern (12 bp):
TCAGGTTCGGGT
Found at i:266365 original size:59 final size:59
Alignment explanation
Indices: 266289--266472 Score: 208
Period size: 59 Copynumber: 3.1 Consensus size: 59
266279 TTAATATAAC
* * * *
266289 ATTTGGTATTTTAACTTGACATTTTTTTTAATTTGGTACTTAAACTTTTTTTTGACTCA
1 ATTTGGTACTTGAACTTGACATTTTTTCTAATTTGGTACATAAACTTTTTTTTGACTCA
* * *
266348 ATTTGGTACTTGAACTTGACATTTTTCCTAATTTGGAACATAAAC-TTTTTTTGAACCCA
1 ATTTGGTACTTGAACTTGACATTTTTTCTAATTTGGTACATAAACTTTTTTTTG-ACTCA
* * ** * * *
266407 ATTTGATACCTGAACTTGGTATTTTTTCCTAATTTGATACCTAAACTTTTTTTTAGATTCA
1 ATTTGGTACTTGAACTTGACATTTTTT-CTAATTTGGTACATAAACTTTTTTTT-GACTCA
266468 ATTTG
1 ATTTG
266473 TTACCTAAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
58 8 0.08
59 65 0.62
60 15 0.14
61 15 0.14
62 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (59 bp):
ATTTGGTACTTGAACTTGACATTTTTTCTAATTTGGTACATAAACTTTTTTTTGACTCA
Found at i:266383 original size:30 final size:30
Alignment explanation
Indices: 266289--266394 Score: 92
Period size: 30 Copynumber: 3.6 Consensus size: 30
266279 TTAATATAAC
* * **
266289 ATTTGGTATTTTAACTTGACATTTTTTTTA
1 ATTTGGTACTTAAACTTGACATTTTTACTA
*
266319 ATTTGGTACTTAAACTT---TTTTTTGACTCA
1 ATTTGGTACTTAAACTTGACATTTTT-ACT-A
* *
266348 ATTTGGTACTTGAACTTGACATTTTTCCTA
1 ATTTGGTACTTAAACTTGACATTTTTACTA
* *
266378 ATTTGGAACATAAACTT
1 ATTTGGTACTTAAACTT
266395 TTTTTGAACC
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
27 5 0.08
28 1 0.02
29 17 0.28
30 30 0.50
31 2 0.03
32 5 0.08
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.50
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTGACATTTTTACTA
Found at i:266690 original size:27 final size:27
Alignment explanation
Indices: 266652--266753 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 27
266642 AAAAAGAGTC
*
266652 AAGTTTAAGTACCAAATTGGATCCAAA
1 AAGTTTAAGTACCAAATTGGATCAAAA
* * *
266679 AAGTTTAAGTACCAACTT-TA-AAAAA
1 AAGTTTAAGTACCAAATTGGATCAAAA
*
266704 GTGTCAAGTTTAGGTACCAAATTGGATCAAAA
1 -----AAGTTTAAGTACCAAATTGGATCAAAA
266736 AAGTTTAAGTACCAAATT
1 AAGTTTAAGTACCAAATT
266754 AAGAAAAAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 34 0.58
30 16 0.27
31 1 0.02
32 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGTTTAAGTACCAAATTGGATCAAAA
Found at i:266710 original size:57 final size:58
Alignment explanation
Indices: 266625--266784 Score: 259
Period size: 57 Copynumber: 2.8 Consensus size: 58
266615 ATTAAAAAAA
* * *
266625 TTAAGTACCAAATTAAGAAAAAGAGTCAAGTTTAAGTACCAAATTGGATCCAAAAAGT
1 TTAAGTACCAAATTAAGAAAAAGTGTCAAGTTTAGGTACCAAATTGGATCAAAAAAGT
* *
266683 TTAAGTACCAACTTTA-AAAAAGTGTCAAGTTTAGGTACCAAATTGGATCAAAAAAGT
1 TTAAGTACCAAATTAAGAAAAAGTGTCAAGTTTAGGTACCAAATTGGATCAAAAAAGT
*
266740 TTAAGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACCAAATT
1 TTAAGTACCAAATTAAGAAAAAGTGTCAAGTTTAGGTACCAAATT
266785 TTATATTAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
57 52 0.56
58 41 0.44
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (58 bp):
TTAAGTACCAAATTAAGAAAAAGTGTCAAGTTTAGGTACCAAATTGGATCAAAAAAGT
Found at i:272940 original size:16 final size:17
Alignment explanation
Indices: 272919--272951 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
272909 AAATGGTACC
*
272919 CCAAAATTAT-TATTTA
1 CCAAAATGATATATTTA
272935 CCAAAATGATATATTTA
1 CCAAAATGATATATTTA
272952 GTTAAGTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (17 bp):
CCAAAATGATATATTTA
Found at i:273381 original size:4 final size:4
Alignment explanation
Indices: 273372--273436 Score: 69
Period size: 4 Copynumber: 16.0 Consensus size: 4
273362 AAATAAACGG
* * *
273372 GAAA GAAA GAAA GAAAA GAAA GAAA GAAA GGAA GAAG GAGAG GAAA GAAA
1 GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA
*
273422 G-AA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA
273437 AGTAATGTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
3 3 0.06
4 41 0.79
5 8 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:273394 original size:17 final size:16
Alignment explanation
Indices: 273372--273436 Score: 69
Period size: 17 Copynumber: 4.0 Consensus size: 16
273362 AAATAAACGG
273372 GAAAGAAAGAAAGAAAA
1 GAAAGAAAGAAAG-AAA
*
273389 GAAAGAAAGAAAGGAA
1 GAAAGAAAGAAAGAAA
* *
273405 GAAGGAGAGGAAAGAAA
1 GAAAGA-AAGAAAGAAA
*
273422 G-AAGAAGGAAAGAAA
1 GAAAGAAAGAAAGAAA
273437 AGTAATGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
15 10 0.24
16 10 0.24
17 22 0.52
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
GAAAGAAAGAAAGAAA
Found at i:273401 original size:25 final size:25
Alignment explanation
Indices: 273372--273438 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
273362 AAATAAACGG
273372 GAAAGAAAGAAAGAAAAGAAAGAAA
1 GAAAGAAAGAAAGAAAAGAAAGAAA
* * * *
273397 GAAAGGAAGAAGGAGAGGAAAGAAA
1 GAAAGAAAGAAAGAAAAGAAAGAAA
*
273422 G-AAGAAGGAAAGAAAAG
1 GAAAGAAAGAAAGAAAAG
273439 TAATGTGTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 11 0.33
25 22 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (25 bp):
GAAAGAAAGAAAGAAAAGAAAGAAA
Found at i:273505 original size:20 final size:19
Alignment explanation
Indices: 273477--273522 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
273467 GTATGATATC
*
273477 TTTTTAAAATTATATTTTA
1 TTTTTAAAATTATATTTAA
*
273496 TTTATTAAAATTTTATTTAA
1 TTT-TTAAAATTATATTTAA
273516 TTTTTAA
1 TTTTTAA
273523 CAGATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTAAAATTATATTTAA
Found at i:276870 original size:20 final size:21
Alignment explanation
Indices: 276845--276885 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
276835 GTCCATTTGC
*
276845 CCCGG-AGGAGTAGAGTATTG
1 CCCGGAAGGAATAGAGTATTG
276865 CCCGGAAGGAATAGAGTATTG
1 CCCGGAAGGAATAGAGTATTG
276886 TGATGGCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.29, C:0.15, G:0.37, T:0.20
Consensus pattern (21 bp):
CCCGGAAGGAATAGAGTATTG
Found at i:277013 original size:45 final size:45
Alignment explanation
Indices: 276889--277014 Score: 171
Period size: 45 Copynumber: 2.8 Consensus size: 45
276879 AGTATTGTGA
* * ** *
276889 TGGCTCGTCAAACTCAGCCTGATATCCTTCCCTTAAGTATTGCAG
1 TGGCTCGTCAAACTGAGGCTGATATCCTTAGCTTGAGTATTGCAG
* * *
276934 TGGCTCGTTAAATTGAAGCTGATATCCTTAGCTTGAGTATTGCAG
1 TGGCTCGTCAAACTGAGGCTGATATCCTTAGCTTGAGTATTGCAG
*
276979 TGGCTCGTCAAACTGAGGCTGATATCCTTGGCTTGA
1 TGGCTCGTCAAACTGAGGCTGATATCCTTAGCTTGA
277015 TGAGCTATGC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (45 bp):
TGGCTCGTCAAACTGAGGCTGATATCCTTAGCTTGAGTATTGCAG
Found at i:277661 original size:43 final size:43
Alignment explanation
Indices: 277578--277667 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
277568 AACTTCACAA
* *
277578 TTAATAACATGTCAAGATAGTAATAAGAGTAAAGTAATATAAT
1 TTAATAACATGTCAACATAGTAACAAGAGTAAAGTAATATAAT
* * * *
277621 TTAATAACATG-CAATCATATTAACACGAGTCAAGTGATATAAT
1 TTAATAACATGTCAA-CATAGTAACAAGAGTAAAGTAATATAAT
277664 TTAA
1 TTAA
277668 CATGTTAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
42 3 0.08
43 37 0.93
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (43 bp):
TTAATAACATGTCAACATAGTAACAAGAGTAAAGTAATATAAT
Found at i:278933 original size:16 final size:16
Alignment explanation
Indices: 278912--278960 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
278902 TGATAGAGAT
278912 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
278928 ATTATTTTTAT-ATT-
1 ATTATTTTGATAATTA
278942 A-TATTTTGATAATTA
1 ATTATTTTGATAATTA
278957 ATTA
1 ATTA
278961 GCTAGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 4 0.14
16 12 0.43
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:279245 original size:20 final size:21
Alignment explanation
Indices: 279220--279262 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
279210 TACTTACTAC
279220 TACTAAC-AACAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
* *
279240 TACTAACTAGCAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
279261 TA
1 TA
279263 AAATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:279437 original size:12 final size:12
Alignment explanation
Indices: 279420--279445 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
279410 AAATTTAAAT
279420 ATTTTAAAATTA
1 ATTTTAAAATTA
279432 ATTTTAAAATTA
1 ATTTTAAAATTA
279444 AT
1 AT
279446 CATACTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTTAAAATTA
Found at i:279654 original size:4 final size:4
Alignment explanation
Indices: 279647--279686 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
279637 TTCTTCCTTC
* *
279647 TTCT TTCT TTCT TTCT TTCT TT-T TTTT TTCT TTTT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
279687 CAATTTTCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (4 bp):
TTCT
Found at i:279664 original size:12 final size:11
Alignment explanation
Indices: 279647--279682 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
279637 TTCTTCCTTC
279647 TTCTTTCTTTCT
1 TTCTTTCTTT-T
279659 TTCTTTCTTTT
1 TTCTTTCTTTT
*
279670 TTTTTTCTTTT
1 TTCTTTCTTTT
279681 TT
1 TT
279683 TCTTCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTCTTTCTTTT
Found at i:279666 original size:19 final size:19
Alignment explanation
Indices: 279644--279687 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
279634 CCCTTCTTCC
279644 TTCTTCTTTCTTTCTTTCT
1 TTCTTCTTTCTTTCTTTCT
* * *
279663 TTCTTTTTTTTTTCTTTTT
1 TTCTTCTTTCTTTCTTTCT
279682 TTCTTC
1 TTCTTC
279688 AATTTTCGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTTCTTTCTTTCTTTCT
Found at i:279683 original size:12 final size:12
Alignment explanation
Indices: 279647--279686 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
279637 TTCTTCCTTC
*
279647 TTCTTTCTTTCT
1 TTCTTTCTTTTT
279659 TTCTTTCTTTTT
1 TTCTTTCTTTTT
279671 TT-TTTCTTTTT
1 TTCTTTCTTTTT
279682 TTCTT
1 TTCTT
279687 CAATTTTCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (12 bp):
TTCTTTCTTTTT
Found at i:283161 original size:25 final size:25
Alignment explanation
Indices: 283097--283161 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
283087 TTGTAAACAT
* **
283097 TTTTATATT-TTTTATGTTTTTGTAA
1 TTTTATATTCTTTT-TATTTTTAAAA
283122 TTTTATA-TCATTTTTATTTTTAAAA
1 TTTTATATTC-TTTTTATTTTTAAAA
283147 TTTTATATTCTTTTT
1 TTTTATATTCTTTTT
283162 TGCATAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 1 0.03
25 27 0.79
26 6 0.18
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (25 bp):
TTTTATATTCTTTTTATTTTTAAAA
Found at i:283192 original size:23 final size:23
Alignment explanation
Indices: 283115--283208 Score: 70
Period size: 23 Copynumber: 4.0 Consensus size: 23
283105 TTTTTATGTT
*
283115 TTTGTAA-TTTTATATCATTTTTA
1 TTTGTAATTTTTA-ATAATTTTTA
* *
283138 TTTTTAAAATTTT-AT-ATTCTTT-
1 TTTGT-AATTTTTAATAATT-TTTA
283160 TTTGCATAATTTTTAATAATTTTTA
1 TTTG--TAATTTTTAATAATTTTTA
*
283185 TTTGTAATTTTTTATAATATTTTA
1 TTTGTAATTTTTAATAAT-TTTTA
283209 GTTAATTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
22 6 0.10
23 28 0.48
24 13 0.22
25 11 0.19
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (23 bp):
TTTGTAATTTTTAATAATTTTTA
Found at i:283292 original size:28 final size:28
Alignment explanation
Indices: 283235--283304 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
283225 TTAAACATTT
283235 TTTTTTCATAATTT-T-TACATTCTCTA
1 TTTTTTCATAATTTATATACATTCTCTA
*
283261 -TTTTTCATAATTTATATA-ATTTTCATA
1 TTTTTTCATAATTTATATACATTCTC-TA
* *
283288 TTTTTTTATTATTTATA
1 TTTTTTCATAATTTATA
283305 ATTTTTGCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 13 0.35
26 6 0.16
27 4 0.11
28 14 0.38
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTTTCATAATTTATATACATTCTCTA
Found at i:283357 original size:20 final size:20
Alignment explanation
Indices: 283334--283405 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
283324 TTTTTATGTT
283334 TTTTATGATTTTTAAAAATA
1 TTTTATGATTTTTAAAAATA
* *
283354 TTTTTTTAATTTTATAAAAA-A
1 -TTTTATGATTTT-TAAAAATA
*
283375 -GTTATGATTTTTATAAAAT-
1 TTTTATGATTTTTA-AAAATA
*
283394 TTTAATGATTTT
1 TTTTATGATTTT
283406 AAAGGTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
18 2 0.05
19 12 0.30
20 9 0.22
21 11 0.28
22 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTATGATTTTTAAAAATA
Found at i:283371 original size:22 final size:22
Alignment explanation
Indices: 283332--283373 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
283322 TTTTTTTATG
*
283332 TTTTTTATGATTTTTAAAAATA
1 TTTTTTATAATTTTTAAAAATA
283354 TTTTTT-TAATTTTATAAAAA
1 TTTTTTATAATTTT-TAAAAA
283374 AGTTATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTTATAATTTTTAAAAATA
Found at i:285707 original size:21 final size:20
Alignment explanation
Indices: 285647--285721 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
285637 TACATTACAC
* *
285647 CTTAAACTCTGAACTTCAAT
1 CTTAAACTTTGAATTTCAAT
* *
285667 C-TAAAC-TCGAATCTCAAAT
1 CTTAAACTTTGAATTTC-AAT
285686 CTTAAACTTTGAATTTCGAAT
1 CTTAAACTTTGAATTTC-AAT
*
285707 CTTGAACTTTGAATT
1 CTTAAACTTTGAATT
285722 CCAAAGTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 5 0.11
19 9 0.20
20 6 0.14
21 24 0.55
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (20 bp):
CTTAAACTTTGAATTTCAAT
Found at i:286313 original size:6 final size:6
Alignment explanation
Indices: 286302--286328 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
286292 CCATAGAGTT
286302 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
286329 CAATGGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:292446 original size:2 final size:2
Alignment explanation
Indices: 292437--292468 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
292427 TCTCAAATAG
292437 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
292469 GGCATAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:293221 original size:4 final size:4
Alignment explanation
Indices: 293207--293258 Score: 86
Period size: 4 Copynumber: 13.0 Consensus size: 4
293197 CTCTCAATCT
* *
293207 TGTA CGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
293255 TGTA
1 TGTA
293259 AAGCTCAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (4 bp):
TGTA
Done.