Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015234.1 Kokia drynarioides strain JFW-HI SEQ_130279, 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: 325792
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 53 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:905 original size:433 final size:427
Alignment explanation
Indices: 28--1282 Score: 1400
Period size: 433 Copynumber: 2.9 Consensus size: 427
18 ACTATTTCTG
* * ** * * * * *
28 TTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCGTTTCTTCGAGCAATTTTGCTAAC---C
1 TTATAACTTAGGTTCCTTAAAGCATTCAAGACCATCCATTCCTACGAGCAATTTTCCAAACATTC
* * *
90 -ATGCTCGGGAAATTGCATCACTTGGA-CTAAATAGTTTGTCATTTTGTAAACAACTTTTGGCCT
66 AATGCTCGGAAAATTGCATCA-TTTGATCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * *
153 TTGAATTGAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACTTCTGAACT
130 TTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACTTCTGAACT
* * * * * *
218 TTTCAAGCTTTTACGACTTCTTTTATAACATTGATTCCTCAAAGTATGAAGACGATTCATTCTTT
195 TGTCAAGCTTTTACGAGTTCTTTTATAAC-TTGGTTCCTTAAAGTATTAAGACGATCCATTC-TT
* * * * * *
283 CAAGCAATATTCTAAACATTCCATGCT-CGAGAAATTGCATCATTCGGTCTAAATATTTTGTCAT
258 CGAGCAATTTTC-GAACATTCCATGCTCCGA-AAATAGAAT-ATTCGGTCTAAATAGTTTGTCAT
* *
347 TTTGTAAACAAATTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT-AT
320 TTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGA-
* * * * *
411 TTCTTGGATGAACTCCCGAACTTGTCAAACATTTACGAGTTCTT
384 TTCTTGGACGAACTACCGAACTTGTAAAACATTTACGAATTATT
* * * * * * * *
455 TTATAACTTATGTTCCTTAAAGCATTCTATG-CGATTCATTCCTTCTA-CAAATTTTTCGAACAT
1 TTATAACTTAGGTTCCTTAAAGCATTC-AAGACCATCCATTCCTACGAGC-AATTTTCCAAACAT
* *
518 TCAATGTTCGGAAAATTGCATCATTTGATCTAAATAGATTGTCATTTTGTAAACAACTTTTGGTC
64 TCAATGCTCGGAAAATTGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * * * * *
583 TTTAAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTTGGTTCTTGGATGAACCTCCGAAC
129 TTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACTTCTGAAC
* * * * * *
648 TTGTCAAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATTATAAATGATCCACT
194 TTGTCAAGCTTTTACGAGTTCTTTTATAACTT-GGTTCCTT-AA-AGTATTA-AGACGATCCA-T
* * * *
713 TCTTCGAGCAATTTTCGAACATTCCATTCTCCGAAAATCGAATATTTTGGTTTAAATAGTTTGTC
254 TCTTCGAGCAATTTTCGAACATTCCATGCTCCGAAAATAGAATA-TTCGGTCTAAATAGTTTGTC
* * *
778 ATTTTGTAAACAACTTTTGGCCTTTGAATTAAAAACTTACTTATGTGAAAATTGTTTCTCTCTTG
318 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTG
* *
843 GTTCTTGGACGAACTACCGAACTTGTAAAACTTTTACGAATTATT
383 ATTCTTGGACGAACTACCGAACTTGTAAAACATTTACGAATTATT
* * *
888 TTATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCATTTCTACGAGCAATTTTCCAAACATTC
1 TTATAACTTAGGTTCCTTAAAGCATTCAAGACCATCCATTCCTACGAGCAATTTTCCAAACATTC
** * * * * *
953 CTTGCTC-GAGAAGTTGCATCTTTTGGTCTAAATAGTTTGTCATTTTGAAAACCAAGTTTTGGTC
66 AATGCTCGGA-AAATTGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAA-CAACTTTTGGTC
* *
1017 TTCAAATTAAAAACTTATTTACGTGAGAATTGTTTCTC-CTTTGGTTATTAGACGAACTTCTGAA
129 TTTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TTGGTTCTTAGACGAACTTCTGAA
* *
1081 CTAGTCAAGTTTTTACGAGTTCTTTTATAACTGTGGTTCCTTAAAGTATTCAAGACGATCCATTC
193 CTTGTCAAGCTTTTACGAGTTCTTTTATAACT-TGGTTCCTTAAAGTATT-AAGACGATCCATT-
* * * * **
1146 CTTCGATCAATATTCCGAACATTCCATGCTCGGGAAATAGCACCATTCGGTCTAAATAGTTTGTC
255 CTTCGAGCAAT-TTTCGAACATTCCATGCTCCGAAAATAG-AATATTCGGTCTAAATAGTTTGTC
* * *
1211 ATTTTGCAAACAACTTTTTGGTCTTTGAATTAAAAA-TATATTTATGTGAGAATTATTTCTCTTT
318 ATTTTGTAAACAAC-TTTTGGTCTTTGAATTAAAAACT-TATTTATGTGAGAATTGTTTCTCTCT
1275 TGATTCTT
381 TGATTCTT
1283 ACACAAACTT
Statistics
Matches: 688, Mismatches: 113, Indels: 47
0.81 0.13 0.06
Matches are distributed among these distances:
426 1 0.00
427 45 0.07
428 2 0.00
430 7 0.01
431 140 0.20
432 30 0.04
433 286 0.42
434 173 0.25
435 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (427 bp):
TTATAACTTAGGTTCCTTAAAGCATTCAAGACCATCCATTCCTACGAGCAATTTTCCAAACATTC
AATGCTCGGAAAATTGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
TAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTAGACGAACTTCTGAACTT
GTCAAGCTTTTACGAGTTCTTTTATAACTTGGTTCCTTAAAGTATTAAGACGATCCATTCTTCGA
GCAATTTTCGAACATTCCATGCTCCGAAAATAGAATATTCGGTCTAAATAGTTTGTCATTTTGTA
AACAACTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGATTCTTGG
ACGAACTACCGAACTTGTAAAACATTTACGAATTATT
Found at i:1294 original size:217 final size:216
Alignment explanation
Indices: 10--1311 Score: 1419
Period size: 217 Copynumber: 6.0 Consensus size: 216
1 GAACTAGGA
* * * * * *
10 AAACTTTTACTATTTCTGTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCGTTTCTTCGA
1 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA
* * * *
75 GCAATTTTGC-TA-A--CCATGCTCGGGAAATTGCATCACTTGGACTAAATAGTTTGTCATTTTG
66 GCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTG
* * *
136 TAAACAACTTTTGGCCTTTGAATTGAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTT
131 TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT
* *
201 AGACGAACTTCTGAACTTTTC
196 AGACGAACTTCCGAACTTGTC
* * * * * * * *
222 AAGCTTTTACGACTTCTTTTATAACATT-GATTCCTCAAAGTA-TGAAGACGATTCATTCTTTCA
1 AAACTTTTACGAGTTCTTTTATAAC-TTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
* ** * * *
285 AGCAATATTCTAAACATTCCATGCTCGAGAAATTGCATCATTCGGTCTAAATATTTTGTCATTTT
65 AGCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTT
* **
350 GTAAACAAATTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTATTTCT
130 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT
* * *
415 TGGATGAACTCCCGAACTTGTC
195 TAGACGAACTTCCGAACTTGTC
* ** * * * *
437 AAACATTTACGAGTTCTTTTATAACTTATGTTCCTTAAAGCATTCTATG-CGATTCATTCCTTCT
1 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC-AAGACGATCCATTCCTTCG
* * * * * *
501 A-CAAATTTTTCGAACATTCAATGTTCGGAAAATTGCATCATTTGATCTAAATAGATTGTCATTT
65 AGC-AATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTT
* * * *
565 TGTAAACAACTTTTGGTCTTTAAATTAAAAACTTATTGACGTGGGATTTGTTTCTCTCTTGGTTC
129 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * *
630 TTGGATGAACCTCCGAACTTGTC
194 TTAGACGAACTTCCGAACTTGTC
* * * * *
653 AAACTTTTACAAGTTCTTTTAAAACTTCGGTTCCTTGAAGTGTATT-ATAAATGATCCACTT-CT
1 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTT-AA-AGTATTCA-AGACGATCCA-TTCCT
* * * * * *
716 TCGAGCAATTTT-CGAACATTCCATTCTCCGAAAATCGAAT-ATTTTGGTTTAAATAGTTTGTCA
62 TCGAGCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCA-TTTGGTCTAAATAGTTTGTCA
* * * *
779 TTTTGTAAACAACTTTTGGCCTTTGAATTAAAAACTTACTTATGTGAAAATTGTTTCTCTCTTGG
126 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* * *
844 TTCTTGGACGAACTACCGAACTTGTA
191 TTCTTAGACGAACTTCCGAACTTGTC
* * * * *
870 AAACTTTTACGAATTATTTTATAACTTCGGTTCCTTAAAGTATTCAAGACCATCCATTTCTACGA
1 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA
* * * * *
935 GCAATTTTCCAAACATTCCTTGCTCGAGAAGTTGCATCTTTTGGTCTAAATAGTTTGTCATTTTG
66 GCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTG
* * ** *
1000 AAAACCAAGTTTTGGTCTTCAAATTAAAAACTTATTTACGTGAGAATTGTTTCTC-CTTTGGTTA
131 TAAA-CAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TTGGTTC
* *
1064 TTAGACGAACTTCTGAACTAGTC
194 TTAGACGAACTTCCGAACTTGTC
**
1087 AAGTTTTTACGAGTTCTTTTATAACTGT-GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
1 AAACTTTTACGAGTTCTTTTATAACT-TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
* * * * *
1151 ATCAATATTCCGAACATTCCATGCTCGGGAAATAGCACCATTCGGTCTAAATAGTTTGTCATTTT
65 AGCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTT
* * * * *
1216 GCAAACAACTTTTTGGTCTTTGAATTAAAAA-TATATTTATGTGAGAATTATTTCTCTTTTGATT
130 GTAAACAAC-TTTTGGTCTTTGAATTAAAAACT-TATTTACGTGAGAATTGTTTCTCTCTTGGTT
* * * *
1280 CTTACACAAACTTCTGAACTTATC
193 CTTAGACGAACTTCCGAACTTGTC
*
1304 AAGCTTTT
1 AAACTTTT
1312 TTTTTTTCTT
Statistics
Matches: 901, Mismatches: 163, Indels: 47
0.81 0.15 0.04
Matches are distributed among these distances:
211 22 0.02
212 34 0.04
213 3 0.00
214 4 0.00
215 176 0.20
216 231 0.26
217 407 0.45
218 21 0.02
219 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (216 bp):
AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA
GCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTG
TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT
AGACGAACTTCCGAACTTGTC
Found at i:41082 original size:14 final size:15
Alignment explanation
Indices: 41065--41093 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41055 AAATGCTAAA
41065 ATAAACAA-AAAAAT
1 ATAAACAATAAAAAT
41079 ATAAACAATAAAAAT
1 ATAAACAATAAAAAT
41094 TATCGGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
ATAAACAATAAAAAT
Found at i:42909 original size:20 final size:19
Alignment explanation
Indices: 42873--42918 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
42863 TTAATCTTTT
42873 TATTTTTTTTTAAAAATGTA
1 TATTTTTTTTTAAAAAT-TA
42893 TATTTTTATTTT-AAAATTA
1 TATTTTT-TTTTAAAAATTA
42912 -ATTTTTT
1 TATTTTTT
42919 CATTAATTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 6 0.24
19 2 0.08
20 12 0.48
21 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTTTTTAAAAATTA
Found at i:50756 original size:2 final size:2
Alignment explanation
Indices: 50749--50774 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50739 AAACCCTAAA
50749 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
50775 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:53650 original size:43 final size:43
Alignment explanation
Indices: 53587--53676 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
53577 TTTAACCATA
** *
53587 CTAATATATGCATAGAACAAACTAGAGGAAAGATTATTATTTT
1 CTAATATATGCATAGAACAAACTAGAGGAAAGACAATAATTTT
* *
53630 CTAATATATGCATAGTACAAACTAGAGGGAAGACAATAATTTT
1 CTAATATATGCATAGAACAAACTAGAGGAAAGACAATAATTTT
53673 CTAA
1 CTAA
53677 AACAAATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (43 bp):
CTAATATATGCATAGAACAAACTAGAGGAAAGACAATAATTTT
Found at i:59622 original size:20 final size:20
Alignment explanation
Indices: 59597--59642 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
59587 CGATGATGAT
59597 GGTAGTATAGTAGTTGTTAC
1 GGTAGTATAGTAGTTGTTAC
59617 GGTAGTATAGTAGTTGTTAC
1 GGTAGTATAGTAGTTGTTAC
59637 GGTAGT
1 GGTAGT
59643 TGAAATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.39
Consensus pattern (20 bp):
GGTAGTATAGTAGTTGTTAC
Found at i:65243 original size:87 final size:87
Alignment explanation
Indices: 65136--65402 Score: 320
Period size: 87 Copynumber: 3.1 Consensus size: 87
65126 GAAATGTAAT
* * * * *
65136 CCTTTGTGGCGAACCTCTCAAAAGAAAGGAAGCCTTTGTGGCTATATCTGTTAAAAGACGCCTTT
1 CCTTTATGGCGAACCTCTCAAAAGAAAGGAAGACTTTATGGCTATATCTGTTAAAGGAAGCCTTT
*
65201 GTGGAGAGTCTTTGAAAGGAAG
66 GTGGCGAGTCTTTGAAAGGAAG
* * *
65223 CCTTTATGG-GAAACCTCTCAAAAGAAAGGAAGACTTTATGGTTATTTCTGTTAAAGGATGCCTT
1 CCTTTATGGCG-AACCTCTCAAAAGAAAGGAAGACTTTATGGCTATATCTGTTAAAGGAAGCCTT
*
65287 TATGGCGAGTCTTTGAAAGGAAG
65 TGTGGCGAGTCTTTGAAAGGAAG
* * * * * * * * *
65310 CCTTTGTGGCGAACCTCTTAAAAGAAAAGAAGTCATTATGGCTATCTTTGTTAAAGGAATCATTT
1 CCTTTATGGCGAACCTCTCAAAAGAAAGGAAGACTTTATGGCTATATCTGTTAAAGGAAGCCTTT
* *
65375 GTGGCGAGTCTATGAAATGAACG
66 GTGGCGAGTCTTTGAAAGGAA-G
65398 CCTTT
1 CCTTT
65403 GTGGTGTACT
Statistics
Matches: 154, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
86 1 0.01
87 146 0.95
88 7 0.05
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (87 bp):
CCTTTATGGCGAACCTCTCAAAAGAAAGGAAGACTTTATGGCTATATCTGTTAAAGGAAGCCTTT
GTGGCGAGTCTTTGAAAGGAAG
Found at i:67238 original size:93 final size:93
Alignment explanation
Indices: 67156--67326 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
67146 CTTTTATTTA
67156 TATAAATAAAATAATAAATATGTAATTATATAATAAAAA-ATATATATTTTGTATA-TATCATTA
1 TATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATA-ATTTT-TATATTATCATTA
67219 TGTTAAAAATATTTTTAATTAATAACTCAC
64 TGTTAAAAATATTTTTAATTAATAACTCAC
* * * * * *
67249 TTTATATAAATTAATAAATATGTAATTATATAATAAAATTATATAATTTTTATATTTATTATTGT
1 TATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATAATTTTTATA-TTATCATTAT
*
67314 GTTAAATATATTT
65 GTTAAAAATATTT
67327 ATTTTAAACT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 4 0.06
93 40 0.59
94 24 0.35
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (93 bp):
TATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATAATTTTTATATTATCATTATG
TTAAAAATATTTTTAATTAATAACTCAC
Found at i:67650 original size:17 final size:16
Alignment explanation
Indices: 67628--67702 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
67618 TTATTATGTT
*
67628 ATTTATATAAATAAAAG
1 ATTTAT-TAAATAAAAA
*
67645 ATTTATTAATTAAAAA
1 ATTTATTAAATAAAAA
* *
67661 ATTTGA--AAATAATAT
1 ATTT-ATTAAATAAAAA
*
67676 ATTTATTAATTAAAAA
1 ATTTATTAAATAAAAA
*
67692 CATTAATTAAA
1 -ATTTATTAAA
67703 AATTAAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 1 0.02
15 10 0.23
16 18 0.41
17 15 0.34
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (16 bp):
ATTTATTAAATAAAAA
Found at i:67698 original size:13 final size:13
Alignment explanation
Indices: 67680--67704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67670 TAATATATTT
67680 ATTAATTAAAAAC
1 ATTAATTAAAAAC
67693 ATTAATTAAAAA
1 ATTAATTAAAAA
67705 TTAAAAAAAG
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:76211 original size:36 final size:35
Alignment explanation
Indices: 76171--76251 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
76161 ATTATCATTA
*
76171 TTCGTGAACAAGTTCAATTATATGTT-CATAAACATG
1 TTCGTGAACAAGTTCAATTA-A-GTTAAATAAACATG
* * * *
76207 TTCGTGAATATGTTCGATTAAGTTAAATGAACATG
1 TTCGTGAACAAGTTCAATTAAGTTAAATAAACATG
76242 TTCGTGAACA
1 TTCGTGAACA
76252 TTAAACCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 3 0.08
35 18 0.47
36 17 0.45
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (35 bp):
TTCGTGAACAAGTTCAATTAAGTTAAATAAACATG
Found at i:82540 original size:18 final size:18
Alignment explanation
Indices: 82513--82548 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
82503 TTCTAGCATA
*
82513 GAAGAACAAGATGAAGAT
1 GAAGAACAAGATCAAGAT
*
82531 GAAGATCAAGATCAAGAT
1 GAAGAACAAGATCAAGAT
82549 AGAGGTAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.08, G:0.25, T:0.14
Consensus pattern (18 bp):
GAAGAACAAGATCAAGAT
Found at i:84019 original size:48 final size:48
Alignment explanation
Indices: 83967--84081 Score: 158
Period size: 48 Copynumber: 2.4 Consensus size: 48
83957 AAAAATGTAT
* *
83967 AGTGGTTGACGAGCATAAATGTAAAGTGGCTAGTGAGCATAAACATAA
1 AGTGGCTGACGAGCATAAATGTAAAGTGGCTAATGAGCATAAACATAA
* * * * *
84015 AGTGGCTGACGGGCATAAATTTAAAGTTGCTAATGAGCATAAACGTAT
1 AGTGGCTGACGAGCATAAATGTAAAGTGGCTAATGAGCATAAACATAA
*
84063 AGTGACTGACGAGCATAAA
1 AGTGGCTGACGAGCATAAA
84082 CATACATTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.23
Consensus pattern (48 bp):
AGTGGCTGACGAGCATAAATGTAAAGTGGCTAATGAGCATAAACATAA
Found at i:84076 original size:24 final size:24
Alignment explanation
Indices: 83906--84082 Score: 133
Period size: 24 Copynumber: 7.4 Consensus size: 24
83896 TTAATTCGAA
*
83906 AGCATAAACATAAAGTGGCTGACG
1 AGCATAAACGTAAAGTGGCTGACG
** * * *
83930 ATAAAAAACGTATAA-TGGTTGACA
1 AGCATAAACGTA-AAGTGGCTGACG
* * * *
83954 AGCAAAAATGTATAGTGGTTGACG
1 AGCATAAACGTAAAGTGGCTGACG
* *
83978 AGCATAAATGTAAAGTGGCT-AGTG
1 AGCATAAACGTAAAGTGGCTGA-CG
*
84002 AGCATAAACATAAAGTGGCTGACG
1 AGCATAAACGTAAAGTGGCTGACG
* ** * * *
84026 GGCATAAATTTAAAGTTGCTAATG
1 AGCATAAACGTAAAGTGGCTGACG
* *
84050 AGCATAAACGTATAGTGACTGACG
1 AGCATAAACGTAAAGTGGCTGACG
84074 AGCATAAAC
1 AGCATAAAC
84083 ATACATTAGT
Statistics
Matches: 117, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
23 2 0.02
24 112 0.96
25 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (24 bp):
AGCATAAACGTAAAGTGGCTGACG
Found at i:84785 original size:71 final size:71
Alignment explanation
Indices: 84649--84808 Score: 187
Period size: 71 Copynumber: 2.3 Consensus size: 71
84639 TAAATTTCAA
* * * *
84649 TACTGACTTGAGTTGTTTCGGAATAACTCAACAAAGTATCGATAGAAGTACATGGAATAACAGAC
1 TACTGACTTGAGTTGTTTCGGAACAACTCAACAAAGTATCGATAGAACTAAAAGGAATAACAGAC
*
84714 CTTGGC
66 CTGGGC
* ** * * * * *
84720 TATTGACTTGAGTTGTTTCGGAACAACTCAACAGTGTATTGGTAGATCTATAAAGG-ATGAGAGA
1 TACTGACTTGAGTTGTTTCGGAACAACTCAACAAAGTATCGATAGAACTA-AAAGGAATAACAGA
84784 CCTGGGC
65 CCTGGGC
84791 TACTGACTTGAGTTGTTT
1 TACTGACTTGAGTTGTTT
84809 TGATAGTAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
71 71 0.96
72 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (71 bp):
TACTGACTTGAGTTGTTTCGGAACAACTCAACAAAGTATCGATAGAACTAAAAGGAATAACAGAC
CTGGGC
Found at i:91114 original size:24 final size:24
Alignment explanation
Indices: 91085--91261 Score: 201
Period size: 24 Copynumber: 7.4 Consensus size: 24
91075 ATTCGTAAGT
* *
91085 ATAAACATAAAGTGGCTAACGAGC
1 ATAAACGTAAAGTGGCTGACGAGC
91109 ATAAACGTAAAGTGGCTGACGAGC
1 ATAAACGTAAAGTGGCTGACGAGC
* * *
91133 ATAAGCCTAAAGTGGCTGACAAGC
1 ATAAACGTAAAGTGGCTGACGAGC
* * * *
91157 ATAAACATAAAGAGGTTGGCGAGC
1 ATAAACGTAAAGTGGCTGACGAGC
* * *
91181 ATGAACCTAAAGTGGCTAACGAGC
1 ATAAACGTAAAGTGGCTGACGAGC
* *
91205 ACAAACGTAAAGTGGCTGACAAGC
1 ATAAACGTAAAGTGGCTGACGAGC
* * *
91229 ATAAATGTATAGTGGCTGACAAGC
1 ATAAACGTAAAGTGGCTGACGAGC
91253 ATAAACGTA
1 ATAAACGTA
91262 CCTTAGCTGA
Statistics
Matches: 127, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 127 1.00
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.18
Consensus pattern (24 bp):
ATAAACGTAAAGTGGCTGACGAGC
Found at i:91254 original size:72 final size:72
Alignment explanation
Indices: 91085--91258 Score: 222
Period size: 72 Copynumber: 2.4 Consensus size: 72
91075 ATTCGTAAGT
* * * * *
91085 ATAAACATAAAGTGGCTAACGAGCATAAACGTAAAGTGGCTGACGAGCATAAGCCTAAAGTGGCT
1 ATAAACATAAAGTGGCTGACGAGCATAAACCTAAAGTGGCTAACGAGCACAAACCTAAAGTGGCT
91150 GACAAGC
66 GACAAGC
* * * * *
91157 ATAAACATAAAGAGGTTGGCGAGCATGAACCTAAAGTGGCTAACGAGCACAAACGTAAAGTGGCT
1 ATAAACATAAAGTGGCTGACGAGCATAAACCTAAAGTGGCTAACGAGCACAAACCTAAAGTGGCT
91222 GACAAGC
66 GACAAGC
** * *
91229 ATAAATGTATAGTGGCTGACAAGCATAAAC
1 ATAAACATAAAGTGGCTGACGAGCATAAAC
91259 GTACCTTAGC
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 84 1.00
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (72 bp):
ATAAACATAAAGTGGCTGACGAGCATAAACCTAAAGTGGCTAACGAGCACAAACCTAAAGTGGCT
GACAAGC
Found at i:93030 original size:9 final size:9
Alignment explanation
Indices: 93016--93055 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
93006 AATAAAGTAA
93016 AATTAAATT
1 AATTAAATT
*
93025 AATTAATTT
1 AATTAAATT
*
93034 AATTAGATT
1 AATTAAATT
93043 AATTAAAATT
1 AATT-AAATT
93053 AAT
1 AAT
93056 ATGATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (9 bp):
AATTAAATT
Found at i:93428 original size:13 final size:13
Alignment explanation
Indices: 93402--93435 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
93392 TGAAGAGCAT
93402 AAAAT-AAAAGAG
1 AAAATAAAAAGAG
*
93414 AAAATAAAAATAG
1 AAAATAAAAAGAG
93427 AAAATAAAA
1 AAAATAAAA
93436 GCAAAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAGAG
Found at i:109577 original size:13 final size:13
Alignment explanation
Indices: 109551--109584 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
109541 AGAAGATCAT
109551 AAAAT-AAAAGAG
1 AAAATAAAAAGAG
*
109563 AAAATAAAAATAG
1 AAAATAAAAAGAG
109576 AAAATAAAA
1 AAAATAAAA
109585 CCAAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAGAG
Found at i:111971 original size:23 final size:23
Alignment explanation
Indices: 111922--112070 Score: 99
Period size: 23 Copynumber: 6.3 Consensus size: 23
111912 CTAGCGCGCT
* * *
111922 CTCTGATT-AGCACTGTATGTACT
1 CTCTG-TTCAGCACTGTGTGTGCC
111945 CTCTGTTCAGCACTGTGTGTGCC
1 CTCTGTTCAGCACTGTGTGTGCC
* * *
111968 CTCTGTTTAGTAC-GTTTCGTGCC
1 CTCTGTTCAGCACTGTGT-GTGCC
*
111991 CTCTATTCAGCACTGTGTGTGCC
1 CTCTGTTCAGCACTGTGTGTGCC
* * *
112014 CTCTATTATTAGCACT-TCGTTTGCC
1 CTCT-GT-TCAGCACTGT-GTGTGCC
*
112039 CTCTGTTACCCAGCACT-TATGTGCC
1 CTCTGTT---CAGCACTGTGTGTGCC
112064 CTCTGTT
1 CTCTGTT
112071 AAGTACTTTG
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
22 5 0.05
23 53 0.53
24 6 0.06
25 29 0.29
26 7 0.07
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (23 bp):
CTCTGTTCAGCACTGTGTGTGCC
Found at i:112033 original size:46 final size:46
Alignment explanation
Indices: 111945--112070 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 46
111935 TGTATGTACT
* *
111945 CTCTGTTCAGCACTGTGTGTGCCCTCTGTTTAGTACGTTTCG-TGCC
1 CTCTATTCAGCACTGTGTGTGCCCTCTGTTTAGCACG-TTCGTTGCC
*
111991 CTCTATTCAGCACTGTGTGTGCCCTCTATTATTAGCAC-TTCGTTTGCC
1 CTCTATTCAGCACTGTGTGTGCCCTCT-GT-TTAGCACGTTCG-TTGCC
* *
112039 CTCTGTTACCCAGCACT-TATGTGCCCTCTGTT
1 CTCTATT---CAGCACTGTGTGTGCCCTCTGTT
112071 AAGTACTTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
46 30 0.45
47 1 0.01
48 17 0.25
49 1 0.01
50 11 0.16
51 7 0.10
ACGTcount: A:0.12, C:0.30, G:0.19, T:0.39
Consensus pattern (46 bp):
CTCTATTCAGCACTGTGTGTGCCCTCTGTTTAGCACGTTCGTTGCC
Found at i:114375 original size:201 final size:202
Alignment explanation
Indices: 114022--114438 Score: 730
Period size: 201 Copynumber: 2.1 Consensus size: 202
114012 ATTGATGATT
*
114022 TATTTGATCAGTTGAAGGGAGCACGTATGTTTTCAAAGATTGATCTCAGATATGGATACTATCAG
1 TATTTGATCAGTTGAAGGGAGCAAGTATGTTTTCAAAGATTGATCTCAGATATGGATACTATCAG
*
114087 TTGAAAGTAAAAGAGTCGGATGTGCTAAAGACTGCTTTCAGAACCCGATATGGTCAATATGAGTT
66 TTGAAAGTAAAAGAGTCGGATGTGCCAAAGACTGCTTTCAGAACCCGATATGGTCAATATGAGTT
* * * *
114152 TTTGGTCATCCATTCGGATTGACTAATGCTCCAGCTGCTTTTATAGATCTTATGGATAGAATTTT
131 TTTGGTCATCCATTCGGATTGACTAATGCTCCAGCTACTTTTATAGATATTATGAATAAAATTTT
114217 TCAACCA
196 TCAACCA
114224 T-TTTGATCAGTTGAAGGGAGCAAGTATGTTTTCAAAGATTGATCTCAGATATGGATACTATCAG
1 TATTTGATCAGTTGAAGGGAGCAAGTATGTTTTCAAAGATTGATCTCAGATATGGATACTATCAG
* *
114288 TTGAAAGTAAAAGAGTCGGATGTGCCAAAGACTGTTTTCAGAACCCGATATGGTCATTATGAGTT
66 TTGAAAGTAAAAGAGTCGGATGTGCCAAAGACTGCTTTCAGAACCCGATATGGTCAATATGAGTT
114353 TTTGGTCATGCCATTC-GATTGACTAATGCTCCAGCTACTTTTATAGATATTATGAATAAAATTT
131 TTTGGTCAT-CCATTCGGATTGACTAATGCTCCAGCTACTTTTATAGATATTATGAATAAAATTT
114417 TTCAACCA
195 TTCAACCA
114425 TATTTGGATCAGTT
1 TATTT-GATCAGTT
114439 CGTGGTGGTA
Statistics
Matches: 204, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
201 186 0.91
202 10 0.05
203 8 0.04
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (202 bp):
TATTTGATCAGTTGAAGGGAGCAAGTATGTTTTCAAAGATTGATCTCAGATATGGATACTATCAG
TTGAAAGTAAAAGAGTCGGATGTGCCAAAGACTGCTTTCAGAACCCGATATGGTCAATATGAGTT
TTTGGTCATCCATTCGGATTGACTAATGCTCCAGCTACTTTTATAGATATTATGAATAAAATTTT
TCAACCA
Found at i:118595 original size:23 final size:23
Alignment explanation
Indices: 118569--118670 Score: 109
Period size: 23 Copynumber: 4.3 Consensus size: 23
118559 ACACTAGCGC
118569 GCTCTCTGATTAGCA-TTGTGTGT
1 GCTCTCTGATTAGCACTT-TGTGT
*
118592 GCTCTCTG-TTCAGCACTGTGTGT
1 GCTCTCTGATT-AGCACTTTGTGT
* *
118615 GCCCTCTCTTATTAGCACTTCGTGT
1 G--CTCTCTGATTAGCACTTTGTGT
*
118640 GCCCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
*
118663 GCCCTCTG
1 GCTCTCTG
118671 TTACCCAGCG
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
22 2 0.03
23 45 0.67
24 1 0.01
25 17 0.25
26 2 0.03
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTTGTGT
Found at i:118641 original size:48 final size:48
Alignment explanation
Indices: 118570--118669 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
118560 CACTAGCGCG
* *
118570 CTCTCTGATTAGCATTGTGTGTGCTCTCTG-TTCAGCACTGTGTGTGCC
1 CTCTCTGATTAGCATTGCGTGTGCCCTCTGATT-AGCACTGTGTGTGCC
* *
118618 CTCTCTTATTAGCACTT-CGTGTGCCCTCTGATTAGCACTTTGTGTGCC
1 CTCTCTGATTAGCA-TTGCGTGTGCCCTCTGATTAGCACTGTGTGTGCC
118666 CTCT
1 CTCT
118670 GTTACCCAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
48 42 0.91
49 4 0.09
ACGTcount: A:0.11, C:0.28, G:0.21, T:0.40
Consensus pattern (48 bp):
CTCTCTGATTAGCATTGCGTGTGCCCTCTGATTAGCACTGTGTGTGCC
Found at i:120835 original size:48 final size:48
Alignment explanation
Indices: 120764--120863 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
120754 CACTAGCGCG
* *
120764 CTCTCTGATTAGCATTGTGTGTGCTCTCTG-TTCAGCACTGTGTGTGCC
1 CTCTCTGATTAGCATTGCGTGTGCCCTCTGATT-AGCACTGTGTGTGCC
* * *
120812 CTCTCTTATTAGCACTT-CGTGTGCCCTCTGATTAGCACTTTGTGTGTC
1 CTCTCTGATTAGCA-TTGCGTGTGCCCTCTGATTAGCACTGTGTGTGCC
120860 CTCT
1 CTCT
120864 GTTACCCAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.41
Consensus pattern (48 bp):
CTCTCTGATTAGCATTGCGTGTGCCCTCTGATTAGCACTGTGTGTGCC
Found at i:120864 original size:23 final size:24
Alignment explanation
Indices: 120764--120863 Score: 109
Period size: 23 Copynumber: 4.2 Consensus size: 24
120754 CACTAGCGCG
120764 CTCTCTGATTAGCA-TTGTGTGTG-
1 CTCTCTGATTAGCACTT-TGTGTGC
*
120787 CTCTCTG-TTCAGCACTGTGTGTGCC
1 CTCTCTGATT-AGCACTTTGTGTG-C
* *
120812 CTCTCTTATTAGCACTTCGTGTGC
1 CTCTCTGATTAGCACTTTGTGTGC
120836 C-CTCTGATTAGCACTTTGTGTGTC
1 CTCTCTGATTAGCACTTTGTGTG-C
120860 CTCT
1 CTCT
120864 GTTACCCAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.03
23 36 0.56
24 5 0.08
25 19 0.30
26 2 0.03
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.41
Consensus pattern (24 bp):
CTCTCTGATTAGCACTTTGTGTGC
Found at i:123375 original size:68 final size:72
Alignment explanation
Indices: 123322--123454 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
123312 AATAGTTTTG
* * *
123322 ATATTAAATTTAATTTAATATTTATC-T-TA-AT-ATTATTTTATTAATTTAATATTAAAGTGAT
1 ATATTAAATTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATATTAAAGTAAT
123383 CATCTTA
66 CATCTTA
*
123390 ATATTAAATTTAATTTATTATTTATCTTGTAGATAAGTATTCTATTAATTTAATATTAAAGTAAT
1 ATATTAAATTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATATTAAAGTAAT
123455 TAAGTTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 25 0.44
69 1 0.02
70 2 0.04
71 2 0.04
72 27 0.47
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.52
Consensus pattern (72 bp):
ATATTAAATTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATATTAAAGTAAT
CATCTTA
Found at i:126470 original size:20 final size:20
Alignment explanation
Indices: 126441--126497 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
126431 TTGAAGTGTC
*
126441 AAAATGATTTTGACTTGGTT
1 AAAATCATTTTGACTTGGTT
* **
126461 GAAATCATTTTGACTTATTT
1 AAAATCATTTTGACTTGGTT
*
126481 AAAATCATTTTAACTTG
1 AAAATCATTTTGACTTG
126498 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (20 bp):
AAAATCATTTTGACTTGGTT
Found at i:127489 original size:25 final size:25
Alignment explanation
Indices: 127455--127509 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
127445 CATGAAAAAG
127455 ATTGGATGGGATGTGTCAATTTTAT
1 ATTGGATGGGATGTGTCAATTTTAT
127480 ATTGGATGGGATGTGTCAATTTTAT
1 ATTGGATGGGATGTGTCAATTTTAT
*
127505 CTTGG
1 ATTGG
127510 GATTTTCGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.05, G:0.29, T:0.44
Consensus pattern (25 bp):
ATTGGATGGGATGTGTCAATTTTAT
Found at i:127792 original size:20 final size:20
Alignment explanation
Indices: 127767--127804 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
127757 AATTGTACCA
*
127767 TTTTTTCATTTT-CTTTACT
1 TTTTTTTATTTTCCTTTACT
127786 TTTTTTTATTTTCCTTTAC
1 TTTTTTTATTTTCCTTTAC
127805 AATTATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTTTATTTTCCTTTACT
Found at i:127881 original size:11 final size:11
Alignment explanation
Indices: 127867--127891 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
127857 AAATTGGACA
127867 TAAAATATATT
1 TAAAATATATT
127878 TAAAATATATT
1 TAAAATATATT
127889 TAA
1 TAA
127892 GGCAAGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAAATATATT
Found at i:138101 original size:17 final size:16
Alignment explanation
Indices: 138070--138114 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
138060 CAAAAATTAC
*
138070 TTTTGAGATAAATATAT
1 TTTTAAGATAAA-ATAT
*
138087 TATTAA-ATAAAATAT
1 TTTTAAGATAAAATAT
138102 TTTTAAGATAAAA
1 TTTTAAGATAAAA
138115 AAAAGCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 9 0.38
16 11 0.46
17 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (16 bp):
TTTTAAGATAAAATAT
Found at i:138115 original size:17 final size:17
Alignment explanation
Indices: 138051--138115 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
138041 GTGTTTAGCA
*
138051 ATTTTT-AGACAAAAATT
1 ATTTTTAAGATAAAAA-T
* * *
138068 ACTTTTGAGATAAATAT
1 ATTTTTAAGATAAAAAT
*
138085 ATTATTAA-AT-AAAAT
1 ATTTTTAAGATAAAAAT
138100 ATTTTTAAGATAAAAA
1 ATTTTTAAGATAAAAA
138116 AAAGCTTTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 11 0.30
16 4 0.11
17 15 0.41
18 7 0.19
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (17 bp):
ATTTTTAAGATAAAAAT
Found at i:139143 original size:20 final size:22
Alignment explanation
Indices: 139112--139152 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
139102 ATATACATAT
139112 TACTTCAATAAA-ATAGTAAAA
1 TACTTCAATAAATATAGTAAAA
139133 TACTT-AATAAATATAGTAAA
1 TACTTCAATAAATATAGTAAA
139153 CTTTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (22 bp):
TACTTCAATAAATATAGTAAAA
Found at i:142387 original size:95 final size:96
Alignment explanation
Indices: 142224--142430 Score: 384
Period size: 95 Copynumber: 2.2 Consensus size: 96
142214 AAAAAAAGAC
142224 AAAAATGAGAAAAATATTTGTTAGATCACCAAATTTTTAAAAACAAGTCGCGTAAAATTATTTGA
1 AAAAATGAG-AAAATATTTGTTAGATCACCAAATTTTTAAAAACAAGTCGCGTAAAATTATTTGA
142289 TGGAATTTTAAAATATAAATATATA-TTTTTA
65 TGGAATTTTAAAATATAAATATATATTTTTTA
142320 AAAAATGAGAAAATATTTGTTAGATCACCAAATTTTTAAAAACAAGTCGCGTAAAATTATTTGAT
1 AAAAATGAGAAAATATTTGTTAGATCACCAAATTTTTAAAAACAAGTCGCGTAAAATTATTTGAT
142385 GGAATTTTAAAATATAAATATATATTTTTTA
66 GGAATTTTAAAATATAAATATATATTTTTTA
142416 AAAAAT-A-AAAATATT
1 AAAAATGAGAAAATATT
142431 AACAATGATT
Statistics
Matches: 110, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
94 8 0.07
95 81 0.74
96 21 0.19
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (96 bp):
AAAAATGAGAAAATATTTGTTAGATCACCAAATTTTTAAAAACAAGTCGCGTAAAATTATTTGAT
GGAATTTTAAAATATAAATATATATTTTTTA
Found at i:143682 original size:18 final size:18
Alignment explanation
Indices: 143659--143695 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
143649 TATAGTTTGA
*
143659 TATTTGATTTATTAGAAT
1 TATTTGAGTTATTAGAAT
*
143677 TATTTGAGTTATTCGAAT
1 TATTTGAGTTATTAGAAT
143695 T
1 T
143696 CTAAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGAGTTATTAGAAT
Found at i:146849 original size:33 final size:33
Alignment explanation
Indices: 146807--146879 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
146797 AATTTTGTAA
*
146807 CTTTAATTATGTCTTGCATTATATA-TCTGCAT
1 CTTTAATTATGGCTTGCATTATATATTCTGCAT
*
146839 CTTTAAATTATGGCTTGCATTATGTATTCTGCA-
1 CTTT-AATTATGGCTTGCATTATATATTCTGCAT
146872 -TTTAATTA
1 CTTTAATTA
146880 AGTCATGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.14
32 7 0.19
33 19 0.51
34 6 0.16
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (33 bp):
CTTTAATTATGGCTTGCATTATATATTCTGCAT
Found at i:148176 original size:47 final size:47
Alignment explanation
Indices: 148106--148200 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
148096 AATAGGTAAA
*
148106 TTAACCTATGACATTTTAATGGGTGGATTATTATGAGTTAAATTGAT
1 TTAACCTATGACATTTTAATGGGTAGATTATTATGAGTTAAATTGAT
* *
148153 TTAACCTATGGCATTTTAGTGGGTAGATTATTATGAGTTAAATTGAT
1 TTAACCTATGACATTTTAATGGGTAGATTATTATGAGTTAAATTGAT
148200 T
1 T
148201 ATAATTAGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (47 bp):
TTAACCTATGACATTTTAATGGGTAGATTATTATGAGTTAAATTGAT
Found at i:149459 original size:24 final size:24
Alignment explanation
Indices: 149368--149450 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
149358 TTAAACTCTG
*
149368 TTTGGGCTAGTAAGAGCTAACCAT
1 TTTGGGCTCGTAAGAGCTAACCAT
* *
149392 TTTGGGCTCATAAGAGCTAATCAT
1 TTTGGGCTCGTAAGAGCTAACCAT
149416 TTTGGGCTCGTAAGAGCTAACCAT
1 TTTGGGCTCGTAAGAGCTAACCAT
*
149440 TCTGGGCTCGT
1 TTTGGGCTCGT
149451 GTGGGCTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
TTTGGGCTCGTAAGAGCTAACCAT
Found at i:153228 original size:31 final size:31
Alignment explanation
Indices: 153185--153250 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
153175 CATACGGTTT
*
153185 GAGGGCCTAAAATGTAATTTTTCA-AAAGTTC
1 GAGGGCCCAAAATGTAATTTTT-AGAAAGTTC
*
153216 GAGGGCCCAAAATGTAATTTTTAGAAAGTTT
1 GAGGGCCCAAAATGTAATTTTTAGAAAGTTC
153247 GAGG
1 GAGG
153251 TTGAATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (31 bp):
GAGGGCCCAAAATGTAATTTTTAGAAAGTTC
Found at i:155104 original size:42 final size:42
Alignment explanation
Indices: 155050--155179 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
155040 CTTCTATAAG
* * * *
155050 ATGGTAGCTTCAATTTGCCTCATGATTGTGGTAAGAGATTGA
1 ATGGTATCTTCAATCTGCCCCATGATTGAGGTAAGAGATTGA
* * * * * *
155092 ATGAG-GTCTTCAATCTACCCCATGATCGGGGTAAGTGATTGG
1 ATG-GTATCTTCAATCTGCCCCATGATTGAGGTAAGAGATTGA
* * *
155134 ATGGTATCTTCAATCTGCCCCTTGAATGAGGTAAGAGATTGG
1 ATGGTATCTTCAATCTGCCCCATGATTGAGGTAAGAGATTGA
155176 ATGG
1 ATGG
155180 CTTTAACCTA
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
ATGGTATCTTCAATCTGCCCCATGATTGAGGTAAGAGATTGA
Found at i:155245 original size:40 final size:39
Alignment explanation
Indices: 155201--155679 Score: 280
Period size: 38 Copynumber: 12.3 Consensus size: 39
155191 CCTGTGATCG
* *
155201 GGGTAAAAGATTAGTTTGTTATCAATTTGCCCTCTGATTA
1 GGGTAAAAGATTAGTGTGTT-TCAATCTGCCCTCTGATTA
* * *
155241 GGGTAAAATATTA--GAGTTTCAATCTGCCC-CATGA-TC
1 GGGTAAAAGATTAGTGTGTTTCAATCTGCCCTC-TGATTA
* * *
155277 GAGGTGAGAGATT-GATGTGTCTTCAATCTGCCCTTTGATTA
1 G-GGTAAAAGATTAG-TGTGT-TTCAATCTGCCCTCTGATTA
* *
155318 GGGTAAAAGATT-G-GATACTTT-AATCTGCCTTCTGATTA
1 GGGTAAAAGATTAGTG-T-GTTTCAATCTGCCCTCTGATTA
* *
155356 GGGTAAAAGATTAGTGTCTCTTCAATCTGCCCTTTGATTA
1 GGGTAAAAGATTAGTGTGT-TTCAATCTGCCCTCTGATTA
* * *
155396 GCGTAAAAGATT-G-GATGCTTCAATCTGCCC-CATGA-TC
1 GGGTAAAAGATTAGTG-TGTTTCAATCTGCCCTC-TGATTA
* * * * *
155433 GAGGTAAAATATTGGTGTGTCTTCAATTTGCCATCTAATTA
1 G-GGTAAAAGATTAGTGTGT-TTCAATCTGCCCTCTGATTA
* **
155474 GGGTAAAAGATT-G-GATGCTTCAATCTGCCC-CATGATCG
1 GGGTAAAAGATTAGTG-TGTTTCAATCTGCCCTC-TGATTA
* * * * *
155512 GGGTAAGAGATTAGTGTGTATTTAATCTGCCTTTTAATTA
1 GGGTAAAAGATTAGTGTGT-TTCAATCTGCCCTCTGATTA
* **
155552 GGGTAAAAGATT-G-GATGCTTCAATCTGCCC-CATGATCG
1 GGGTAAAAGATTAGTG-TGTTTCAATCTGCCCTC-TGATTA
* * * *
155590 GGGTAAGAGATTAG-ATGCTTCAATTTG-CCTCATGATT-
1 GGGTAAAAGATTAGTGTGTTTCAATCTGCCCTC-TGATTA
** * *
155627 GGGATATGAGATTGGTGTGTCTTCAATCTACCCTCTGATTA
1 GGG-TAAAAGATTAGTGTGT-TTCAATCTGCCCTCTGATTA
155668 GGGTAAAAGATT
1 GGGTAAAAGATT
155680 GGATGCTTTA
Statistics
Matches: 337, Mismatches: 65, Indels: 74
0.71 0.14 0.16
Matches are distributed among these distances:
36 3 0.01
37 29 0.09
38 134 0.40
39 27 0.08
40 132 0.39
41 12 0.04
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (39 bp):
GGGTAAAAGATTAGTGTGTTTCAATCTGCCCTCTGATTA
Found at i:155380 original size:78 final size:78
Alignment explanation
Indices: 155099--155679 Score: 465
Period size: 78 Copynumber: 7.4 Consensus size: 78
155089 TGAATGAGGT
* ** * * * *
155099 CTTCAATCTACCCCATGA-TCGGGGTAAGTGATTGGATGGTATCTTCAATCTGCCCCTTGAAT-G
1 CTTCAATCTGCCCCATGATTC-GGGTAAAAGATTAG-T-GTGTCTTCAATCTGCCCTTTGATTAG
*
155162 AGGTAAGAGATTGGATGG
63 -GGTAAAAGATTGGAT-G
* * * ** * * *
155180 CTTTAACCTACCCTGTGA-TCGGGGTAAAAGATTAGTTTGT-TATCAATTTGCCCTCTGATTAGG
1 CTTCAATCTGCCCCATGATTC-GGGTAAAAGATTAGTGTGTCT-TCAATCTGCCCTTTGATTAGG
* *
155243 GTAAAATATTAGA-G
64 GTAAAAGATTGGATG
* * *
155257 TTTCAATCTGCCCCATGA-TCGAGGTGAGAGATT-GATGTGTCTTCAATCTGCCCTTTGATTAGG
1 CTTCAATCTGCCCCATGATTCG-GGTAAAAGATTAG-TGTGTCTTCAATCTGCCCTTTGATTAGG
*
155320 GTAAAAGATTGGATA
64 GTAAAAGATTGGATG
* * * * *
155335 CTTTAATCTGCCTTC-TGATTAGGGTAAAAGATTAGTGTCTCTTCAATCTGCCCTTTGATTAGCG
1 CTTCAATCTGCC-CCATGATTCGGGTAAAAGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGG
155399 TAAAAGATTGGATG
65 TAAAAGATTGGATG
* * * * * *
155413 CTTCAATCTGCCCCATGA-TCGAGGTAAAATATTGGTGTGTCTTCAATTTGCCATCTAATTAGGG
1 CTTCAATCTGCCCCATGATTCG-GGTAAAAGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGG
155477 TAAAAGATTGGATG
65 TAAAAGATTGGATG
* * * * *
155491 CTTCAATCTGCCCCATGA-TCGGGGTAAGAGATTAGTGTGTATTTAATCTGCCTTTTAATTAGGG
1 CTTCAATCTGCCCCATGATTC-GGGTAAAAGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGG
155555 TAAAAGATTGGATG
65 TAAAAGATTGGATG
* * * *
155569 CTTCAATCTGCCCCATGA-TCGGGGTAAGAGATTAG-ATG-CTTCAATTTG-CCTCATGATT-GG
1 CTTCAATCTGCCCCATGATTC-GGGTAAAAGATTAGTGTGTCTTCAATCTGCCCT-TTGATTAGG
** *
155629 GATATGAGATTGGTGTG
64 G-TAAAAGATTGG-ATG
* *
155646 TCTTCAATCTACCCTC-TGATTAGGGTAAAAGATT
1 -CTTCAATCTGCCC-CATGATTCGGGTAAAAGATT
155680 GGATGCTTTA
Statistics
Matches: 411, Mismatches: 71, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
75 5 0.01
76 22 0.05
77 65 0.16
78 255 0.62
79 34 0.08
80 2 0.00
81 28 0.07
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (78 bp):
CTTCAATCTGCCCCATGATTCGGGTAAAAGATTAGTGTGTCTTCAATCTGCCCTTTGATTAGGGT
AAAAGATTGGATG
Found at i:155435 original size:156 final size:155
Alignment explanation
Indices: 155099--155606 Score: 574
Period size: 156 Copynumber: 3.2 Consensus size: 155
155089 TGAATGAGGT
* * * * * * *
155099 CTTCAATCTACCCCATGATCGGGGTAAGTGATTGGATGGTATCTTCAATCTGCCCCTTGAAT-GA
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTAGAT-GTGTCTTCAATCTGCCCTTTGATTAG-
* * * * * *
155163 GGTAAGAGATTGGATGGCTTTAACCTACCCTGTGATCGGGGTAAAAGATTAGTTTGTTATCAATT
64 GGTAAAAGATTGGAT-GCTTTAATCT-GCCTCTGATCGGGGTAAAAGATTAGTGTGTT-TCAATC
* * *
155228 TGCCCTCTGATTAGGGTAAAATATTAGA-G
126 TGCCCTTTGATTAGGGTAAAAGATTGGATG
* *
155257 TTTCAATCTGCCCCATGATCGAGGTGAGAGATT-GATGTGTCTTCAATCTGCCCTTTGATTAGGG
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTAGATGTGTCTTCAATCTGCCCTTTGATTAGGG
* ** *
155321 TAAAAGATTGGATACTTTAATCTGCCTTCTGATTAGGGTAAAAGATTAGTGTCTCTTCAATCTGC
66 TAAAAGATTGGATGCTTTAATCTGCC-TCTGATCGGGGTAAAAGATTAGTGTGT-TTCAATCTGC
*
155386 CCTTTGATTAGCGTAAAAGATTGGATG
129 CCTTTGATTAGGGTAAAAGATTGGATG
* * * * * * *
155413 CTTCAATCTGCCCCATGATCGAGGTAAAATATT-GGTGTGTCTTCAATTTGCCATCTAATTAGGG
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTAGATGTGTCTTCAATCTGCCCTTTGATTAGGG
* * * *
155477 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGTGTATTTAATCTGC
66 TAAAAGATTGGATGCTTTAATCTGCCTC-TGATCGGGGTAAAAGATTAGTGTGT-TTCAATCTGC
* *
155542 CTTTTAATTAGGGTAAAAGATTGGATG
129 CCTTTGATTAGGGTAAAAGATTGGATG
*
155569 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATG
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTAGATG
155607 CTTCAATTTG
Statistics
Matches: 297, Mismatches: 47, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
154 2 0.01
155 60 0.20
156 200 0.67
157 7 0.02
158 28 0.09
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (155 bp):
CTTCAATCTGCCCCATGATCGAGGTAAGAGATTAGATGTGTCTTCAATCTGCCCTTTGATTAGGG
TAAAAGATTGGATGCTTTAATCTGCCTCTGATCGGGGTAAAAGATTAGTGTGTTTCAATCTGCCC
TTTGATTAGGGTAAAAGATTGGATG
Found at i:155601 original size:116 final size:115
Alignment explanation
Indices: 155474--155717 Score: 317
Period size: 116 Copynumber: 2.1 Consensus size: 115
155464 CATCTAATTA
* * *
155474 GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGTGTATTTAATC
1 GGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGATAAGAGATTAGTGTGTATTCAATC
* * * *
155539 TGCCTTTTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCG
66 TACCCTCTAATTAGGGTAAAAGATTGGATGCTTCAATC-GCCCCACGATCG
* * * * * * *
155590 GGGTAAGAGATTAGATGCTTCAATTTGCCTCATGATTGGGATATGAGATTGGTGTGTCTTCAATC
1 GGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGATAAGAGATTAGTGTGTATTCAATC
* * *
155655 TACCCTCTGATTAGGGTAAAAGATTGGATGCTTTAATCGCCCTACGATCG
66 TACCCTCTAATTAGGGTAAAAGATTGGATGCTTCAATCGCCCCACGATCG
*
155705 GGGTATGAGATTG
1 GGGTAAGAGATTG
155718 AATGGTAGCT
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
115 21 0.19
116 88 0.81
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (115 bp):
GGGTAAGAGATTGGATGCTTCAATCTGCCCCATGATCGGGATAAGAGATTAGTGTGTATTCAATC
TACCCTCTAATTAGGGTAAAAGATTGGATGCTTCAATCGCCCCACGATCG
Found at i:155603 original size:234 final size:236
Alignment explanation
Indices: 155099--155606 Score: 625
Period size: 234 Copynumber: 2.2 Consensus size: 236
155089 TGAATGAGGT
* * *
155099 CTTCAATCTACCCCATGATCGGGGTAAGTGATTGGATGGTATCTTCAATCTGCCCCTTGAATGAG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGGTATCTTCAATCTGCCCCTTGAATGAG
* * ** * *
155164 GTAAGAGATTGGATGGCTTTAACCTACCCTGTGATCGGGGTAAAAGATTAGTTTGTTATCAATTT
66 GTAAAAGATTGGATGGCTTCAACCTACCCCATGATCGAGGTAAAAGATTAGTGTGTTATCAATTT
* * * * *
155229 GCCCTCTGATTAGGGTAAAATATTAGAGTTTCAATCTGCCCCATGATCGAGGTGAGAGATTGATG
131 GCCATCTAATTAGGGTAAAAGATTAGAGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGATG
* *
155294 TGTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTGGATA
196 TGTATTCAATCTGCCCTTTAATTAGGGTAAAAGATTGGATA
* * ** * * * *
155335 CTTTAATCTGCCTTC-TGATTAGGGTAAAAGATTAG-T-GTCTCTTCAATCTGCCCTTTG-ATTA
1 CTTCAATCTGCC-CCATGATCGGGGTAAGAGATTAGATGGTATCTTCAATCTGCCCCTTGAATGA
* * * *
155396 GCGTAAAAGATTGGAT-GCTTCAATCTGCCCCATGATCGAGGTAAAATATTGGTGTGTCT-TCAA
65 G-GTAAAAGATTGGATGGCTTCAACCTACCCCATGATCGAGGTAAAAGATTAGTGTGT-TATCAA
* *
155459 TTTGCCATCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATT
128 TTTGCCATCTAATTAGGGTAAAAGATTAGA-GCTTCAATCTGCCCCATGATCGAGGTAAGAGATT
* * *
155524 -AGTGTGTATTTAATCTGCCTTTTAATTAGGGTAAAAGATTGGATG
192 GA-TGTGTATTCAATCTGCCCTTTAATTAGGGTAAAAGATTGGATA
155569 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATG
155607 CTTCAATTTG
Statistics
Matches: 226, Mismatches: 38, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
233 68 0.30
234 130 0.58
235 2 0.01
236 25 0.11
237 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (236 bp):
CTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGGTATCTTCAATCTGCCCCTTGAATGAG
GTAAAAGATTGGATGGCTTCAACCTACCCCATGATCGAGGTAAAAGATTAGTGTGTTATCAATTT
GCCATCTAATTAGGGTAAAAGATTAGAGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGATG
TGTATTCAATCTGCCCTTTAATTAGGGTAAAAGATTGGATA
Found at i:155651 original size:156 final size:153
Alignment explanation
Indices: 155099--155679 Score: 546
Period size: 156 Copynumber: 3.7 Consensus size: 153
155089 TGAATGAGGT
* * * * *
155099 CTTCAATCTACCCCATGATCGGGGTAAGTGATTGGATGGTATCTTCAATCTGCCCCTTGAAT-GA
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGAT-G--TCTTCAATCTGCCTCTTGATTAG-
* * * * * * *
155163 GGTAAGAGATTGGATGGCTTTAACCTACCCTGTGATCGGGGTAAAAGATTAGTTTGTTATCAATT
62 GGTAAAAGATTGGAT-GCTTCAATCTGCCC-CTGATCGGGGTAAAAGATTAGTGTGTT-TCAATC
* * *
155228 TGCCCTCTGATTAGGGTAAAATATTAGA-G
124 TGCCCTTTGATTAGGGTAAAAGATTGGATG
* *
155257 TTTCAATCTGCCCCATGATCGAGGTGAGAGATT-GATGTGTCTTCAATCTGCC-CTTTGATTAGG
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGA--TGTCTTCAATCTGCCTC-TTGATTAGG
* * * ** *
155320 GTAAAAGATTGGATACTTTAATCTGCCTTCTGATTAGGGTAAAAGATTAGTGTCTCTTCAATCTG
63 GTAAAAGATTGGATGCTTCAATCTGCC-CCTGATCGGGGTAAAAGATTAGTGTGT-TTCAATCTG
*
155385 CCCTTTGATTAGCGTAAAAGATTGGATG
126 CCCTTTGATTAGGGTAAAAGATTGGATG
* * * * *
155413 CTTCAATCTGCCCCATGATCGAGGTAAAATATTGGTGTGTCTTCAATTTGCCATC-TAATTAGGG
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGG-ATGTCTTCAATCTGCC-TCTTGATTAGGG
* *
155477 TAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGTGTATTTAATCTGC
64 TAAAAGATTGGATGCTTCAATCTGCCCC-TGATCGGGGTAAAAGATTAGTGTGT-TTCAATCTGC
* *
155542 CTTTTAATTAGGGTAAAAGATTGGATG
127 CCTTTGATTAGGGTAAAAGATTGGATG
* * * *
155569 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATG-CTTCAATTTGCCTCATGATT-GGGAT
1 CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGTCTTCAATCTGCCTCTTGATTAGGG-T
** * * **
155632 ATGAGATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGATT
65 AAAAGATTGG-ATG-CTTCAATCTGCCC-CTGATCGGGGTAAAAGATT
155680 GGATGCTTTA
Statistics
Matches: 353, Mismatches: 53, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
153 5 0.01
154 25 0.07
155 66 0.19
156 221 0.63
157 5 0.01
158 30 0.08
159 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (153 bp):
CTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGATGTCTTCAATCTGCCTCTTGATTAGGGTA
AAAGATTGGATGCTTCAATCTGCCCCTGATCGGGGTAAAAGATTAGTGTGTTTCAATCTGCCCTT
TGATTAGGGTAAAAGATTGGATG
Found at i:156003 original size:92 final size:92
Alignment explanation
Indices: 155906--156075 Score: 261
Period size: 92 Copynumber: 1.8 Consensus size: 92
155896 AACTTTGAGA
* * * *
155906 TTCGTCGTTGCGACTTCAACCTTTCCCTCCATATCTTCA-GAGTATAAGATTTATCGTTGCGGCT
1 TTCGTCGTTGCGACTTCAAACTTTCCCTCCATATCTCCATG-GTACAAGATTTATCGTTACGGCT
*
155970 TCAATCTTTTCCTCTGTAAGGTACAAGG
65 TCAATCTTTCCCTCTGTAAGGTACAAGG
* *
155998 TTCGTCGTTGCGGCTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTGTCGTTACGGCTT
1 TTCGTCGTTGCGACTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTATCGTTACGGCTT
156063 CAATCTTTCCCTC
66 CAATCTTTCCCTC
156076 CGTATCTCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 69 0.99
93 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (92 bp):
TTCGTCGTTGCGACTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTATCGTTACGGCTT
CAATCTTTCCCTCTGTAAGGTACAAGG
Found at i:156061 original size:49 final size:49
Alignment explanation
Indices: 155903--156315 Score: 322
Period size: 49 Copynumber: 8.6 Consensus size: 49
155893 TACAACTTTG
* * * *
155903 AGATTCGTCGTTGCGACTTCAACCTTTCCCTCCATATCTTCA-GAGTATA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCCTCCATATCTCCATG-GTACA
** ** *
155952 AGATTTATCGTTGCGGCTTCAATCTTT---TCC---TCTGTAAGGTACA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCCTCCATATCTCCATGGTACA
* *
155995 AGGTTCGTCGTTGCGGCTTCAAACTTTCCCTCCATATCTCCATGGTACA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCCTCCATATCTCCATGGTACA
* * *
156044 AGATTTGTCGTTACGGCTTCAATCTTTCCCTCCGTATCTCCATGGTACA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCCTCCATATCTCCATGGTACA
*** * * * ** *
156093 AGATTAACCGTTGCGGCTTGAATCCTT-CCTATCACGTCTCCAAGGTACA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCCT-CCATATCTCCATGGTACA
* *** * * *
156142 AGGTTTACCGTTGCGACTTTAACCTTTCCCTCCATATCTCCATGGTACA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCCTCCATATCTCCATGGTACA
* * ** ** * *
156191 AGATTTGTCGTTACAACTTCAATCTTTCCCAT-CACGTCTCTAAGGTACA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCC-TCCATATCTCCATGGTACA
* * * *
156240 AGGTTCGCCGTTGTGGCTTCAACCTTTCCCTCCATATCTCCATGGTACA
1 AGATTCGTCGTTGCGGCTTCAATCTTTCCCTCCATATCTCCATGGTACA
* ** *
156289 ATATTCACCGTTACGGCTTCAATCTTT
1 AGATTCGTCGTTGCGGCTTCAATCTTT
156316 TCCATTACGT
Statistics
Matches: 284, Mismatches: 69, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
43 31 0.11
44 1 0.00
46 6 0.02
48 4 0.01
49 238 0.84
50 4 0.01
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (49 bp):
AGATTCGTCGTTGCGGCTTCAATCTTTCCCTCCATATCTCCATGGTACA
Found at i:156140 original size:98 final size:97
Alignment explanation
Indices: 156003--156377 Score: 426
Period size: 98 Copynumber: 3.8 Consensus size: 97
155993 CAAGGTTCGT
* * * ** * * * * *
156003 CGTTGCGGCTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTGTCGTTACGGCTTCAATC
1 CGTTACGGCTTCAATCTTTCCAT-CACGTCTCCAAGGTACAAGGTTTGCCGTTGCGGCTTCAACC
*
156068 TTTCCCTCCGTATCTCCATGGTACAAGATTAAC
65 TTTCCCTCCATATCTCCATGGTACAAGATTAAC
* * * * * *
156101 CGTTGCGGCTTGAATCCTTCCTATCACGTCTCCAAGGTACAAGGTTTACCGTTGCGACTTTAACC
1 CGTTACGGCTTCAATCTTTCC-ATCACGTCTCCAAGGTACAAGGTTTGCCGTTGCGGCTTCAACC
***
156166 TTTCCCTCCATATCTCCATGGTACAAGATTTGT
65 TTTCCCTCCATATCTCCATGGTACAAGATTAAC
** * * *
156199 CGTTACAACTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTGTGGCTTCAACC
1 CGTTACGGCTTCAATCTTT-CCATCACGTCTCCAAGGTACAAGGTTTGCCGTTGCGGCTTCAACC
* *
156264 TTTCCCTCCATATCTCCATGGTACAATATTCAC
65 TTTCCCTCCATATCTCCATGGTACAAGATTAAC
* * * * *
156297 CGTTACGGCTTCAATCTTTTCCATTACGTCTCTAAGGTACAAGGTTTGCTGGTGCAGCTTCAACC
1 CGTTACGGCTTCAATC-TTTCCATCACGTCTCCAAGGTACAAGGTTTGCCGTTGCGGCTTCAACC
156362 TTTCCCTCCATATCTC
65 TTTCCCTCCATATCTC
156378 TAGGGTATTA
Statistics
Matches: 233, Mismatches: 41, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
98 227 0.97
99 6 0.03
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (97 bp):
CGTTACGGCTTCAATCTTTCCATCACGTCTCCAAGGTACAAGGTTTGCCGTTGCGGCTTCAACCT
TTCCCTCCATATCTCCATGGTACAAGATTAAC
Found at i:156188 original size:147 final size:141
Alignment explanation
Indices: 155903--156220 Score: 395
Period size: 147 Copynumber: 2.2 Consensus size: 141
155893 TACAACTTTG
* * * * * * *
155903 AGATTCGTCGTTGCGACTTCAACCTTTCCCTCCATATCTTCAGAGTATAAGATTTATCGTTGCGG
1 AGATTTGTCGTTACGACTTCAATCTTTCCCTCCATATCTCCAGAGTACAAGATTAACCGTTGCGG
** ** *
155968 CTTCAATCTTTTCCTCTGTAAGGTACAAGGTTCGTCGTTGCGGCTTCAAACTTTCCCTCCATATC
66 CTTCAATCTTTTCCTCTCCAAGGTACAAGGTTCACCGTTGCGACTTCAAACTTTCCCTCCATATC
156033 TCCATGGTACA
131 TCCATGGTACA
* *
156044 AGATTTGTCGTTACGGCTTCAATCTTTCCCTCCGTATCTCCATG-GTACAAGATTAACCGTTGCG
1 AGATTTGTCGTTACGACTTCAATCTTTCCCTCCATATCTCCA-GAGTACAAGATTAACCGTTGCG
* * * *
156108 GCTTGAATCCTTCCTATCACGTCTCCAAGGTACAAGGTTTACCGTTGCGACTTTAACCTTTCCCT
65 GCTTCAAT-CTT--T-TC-C-TCTCCAAGGTACAAGGTTCACCGTTGCGACTTCAAACTTTCCCT
156173 CCATATCTCCATGGTACA
124 CCATATCTCCATGGTACA
*
156191 AGATTTGTCGTTACAACTTCAATCTTTCCC
1 AGATTTGTCGTTACGACTTCAATCTTTCCC
156221 ATCACGTCTC
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
141 60 0.40
142 4 0.03
144 1 0.01
145 2 0.01
146 1 0.01
147 82 0.55
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (141 bp):
AGATTTGTCGTTACGACTTCAATCTTTCCCTCCATATCTCCAGAGTACAAGATTAACCGTTGCGG
CTTCAATCTTTTCCTCTCCAAGGTACAAGGTTCACCGTTGCGACTTCAAACTTTCCCTCCATATC
TCCATGGTACA
Found at i:156280 original size:147 final size:146
Alignment explanation
Indices: 155987--156315 Score: 376
Period size: 147 Copynumber: 2.2 Consensus size: 146
155977 TTTCCTCTGT
** *
155987 AAGGTACAAGGTTCGTCGTTGCGGCTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTGT
1 AAGGTACAAGGTTCACCGTTGCGACTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTGT
** * *
156052 CGTTACGGCTTCAATCTTTCCCTCCGTATCTCCATGGTACAAGATTAACCGTTGCGGCTTGAATC
66 CGTTACAACTTCAATCTTTCCCTCCG-ATCTCCAAGGTACAAGATTAACCGTTGCGGCTTCAATC
* *
156117 CTTCCTATCACGTCTCC
130 CTTCCTACCACATCTCC
* * *
156134 AAGGTACAAGGTTTACCGTTGCGACTTTAACCTTTCCCTCCATATCTCCATGGTACAAGATTTGT
1 AAGGTACAAGGTTCACCGTTGCGACTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTGT
* * ** *
156199 CGTTACAACTTCAATCTTTCCCATCACG-TCTCTAAGGTACAAGGTTCGCCGTTGTGGCTTCAA-
66 CGTTACAACTTCAATCTTTCCC-TC-CGATCTCCAAGGTACAAGATTAACCGTTGCGGCTTCAAT
*
156262 CCTTTCCCT-CCATATCTCC
129 CC-TT-CCTACCACATCTCC
* ** * * *
156281 ATGGTACAATATTCACCGTTACGGCTTCAATCTTT
1 AAGGTACAAGGTTCACCGTTGCGACTTCAAACTTT
156316 TCCATTACGT
Statistics
Matches: 152, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
146 2 0.01
147 143 0.94
148 5 0.03
149 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (146 bp):
AAGGTACAAGGTTCACCGTTGCGACTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTGT
CGTTACAACTTCAATCTTTCCCTCCGATCTCCAAGGTACAAGATTAACCGTTGCGGCTTCAATCC
TTCCTACCACATCTCC
Found at i:156379 original size:49 final size:49
Alignment explanation
Indices: 155911--156377 Score: 321
Period size: 49 Copynumber: 9.7 Consensus size: 49
155901 TGAGATTCGT
* * * **
155911 CGTTGCGACTTCAACCTTTCCCTCCATATCTTC-AGAGTATAAGATTTAT
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCCAAG-GTACAAGATTTGC
* ** * * *
155960 CGTTGCGGCTTCAATCTTT---TCC---TCTGTAAGGTACAAGGTTCGT
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCCAAGGTACAAGATTTGC
* * *
156003 CGTTGCGGCTTCAAACTTTCCCTCCATATCTCCATGGTACAAGATTTGT
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCCAAGGTACAAGATTTGC
* * * * **
156052 CGTTACGGCTTCAATCTTTCCCTCCGTATCTCCATGGTACAAGATTAAC
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCCAAGGTACAAGATTTGC
* * ** * *
156101 CGTTGCGGCTTGAATCC-TT-CCTATCACGTCTCCAAGGTACAAGGTTTAC
1 CGTTGCGGCTTCAA-CCTTTCCCT-CCATATCTCCAAGGTACAAGATTTGC
* * * *
156150 CGTTGCGACTTTAACCTTTCCCTCCATATCTCCATGGTACAAGATTTGT
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCCAAGGTACAAGATTTGC
* ** * ** * * *
156199 CGTTACAACTTCAATCTTTCCCAT-CACGTCTCTAAGGTACAAGGTTCGC
1 CGTTGCGGCTTCAACCTTTCCC-TCCATATCTCCAAGGTACAAGATTTGC
* * * **
156248 CGTTGTGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAATATTCAC
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCCAAGGTACAAGATTTGC
* * * *
156297 CGTTACGGCTTCAATCTTT---TCCATTACGTCTCTAAGGTACAAGGTTTGC
1 CGTTGCGGCTTCAACCTTTCCCTCCA-TA--TCTCCAAGGTACAAGATTTGC
* * *
156346 TGGTGCAGCTTCAACCTTTCCCTCCATATCTC
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTC
156378 TAGGGTATTA
Statistics
Matches: 323, Mismatches: 76, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
43 30 0.09
44 2 0.01
46 10 0.03
47 2 0.01
48 6 0.02
49 262 0.81
50 5 0.02
51 2 0.01
52 4 0.01
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (49 bp):
CGTTGCGGCTTCAACCTTTCCCTCCATATCTCCAAGGTACAAGATTTGC
Found at i:156411 original size:98 final size:97
Alignment explanation
Indices: 156038--156415 Score: 398
Period size: 98 Copynumber: 3.9 Consensus size: 97
156028 ATATCTCCAT
* * * * * * *
156038 GGTACAAGATTTGTCGTTACGGCTTCAATCTTTCCCTCCGTATCTCCATGGTACAAGATTAACCG
1 GGTACAAGGTTTGCCGTTGC-GCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTTACTG
* * * * * *
156103 TTGCGGCTTGAATCCTTCCTATCACGTCTCCAA
65 TTACGACTTCAATCTTTCCCATCACGTCTCTAA
* * *
156136 GGTACAAGGTTTACCGTTGCGACTTTAACCTTTCCCTCCATATCTCCATGGTACAAGATTT-GTC
1 GGTACAAGGTTTGCCGTTGCG-CTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTTACT-
*
156200 GTTACAACTTCAATCTTTCCCATCACGTCTCTAA
64 GTTACGACTTCAATCTTTCCCATCACGTCTCTAA
* * * * *
156234 GGTACAAGGTTCGCCGTTGTGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAATATTCACCG
1 GGTACAAGGTTTGCCGTTG-CGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTTACTG
* * *
156299 TTACGGCTTCAATCTTTTCCATTACGTCTCTAA
65 TTACGACTTCAATCTTTCCCATCACGTCTCTAA
* * * * ** *
156332 GGTACAAGGTTTGCTGGTGCAGCTTCAACCTTTCCCTCCATATCTCTAGGGTATTAGATTTACTA
1 GGTACAAGGTTTGCCGTTGC-GCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTTACTG
* *
156397 TTATGACTTTAATCTTTCC
65 TTACGACTTCAATCTTTCC
156416 TTTCAAACCT
Statistics
Matches: 230, Mismatches: 45, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
97 1 0.00
98 228 0.99
99 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.35
Consensus pattern (97 bp):
GGTACAAGGTTTGCCGTTGCGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTTACTGT
TACGACTTCAATCTTTCCCATCACGTCTCTAA
Found at i:156413 original size:196 final size:196
Alignment explanation
Indices: 156058--156415 Score: 470
Period size: 196 Copynumber: 1.8 Consensus size: 196
156048 TTGTCGTTAC
* * * *
156058 GGCTTCAATCTTTCCCTCCGTATCTCCATGGTACAAGATTAACCGTTGCGGCTTGAATCCTTCCT
1 GGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTAACCGTTACGGCTTCAATCCTTCCT
* * *
156123 ATCACGTCTCCAAGGTACAAGGTTTACCGTTGCGACTTTAACCTTTCCCTCCATATCTCCATGGT
66 ATCACGTCTCCAAGGTACAAGGTTTACCGGTGCGACTTCAACCTTTCCCTCCATATCTCCAGGGT
* *
156188 ACAAGATTTGTCGTTACAACTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTG
131 ACAAGATTTCTCATTACAACTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTG
156253 T
196 T
* * *
156254 GGCTTCAACCTTTCCCTCCATATCTCCATGGTACAATATTCACCGTTACGGCTTCAATCTTTTCC
1 GGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTAACCGTTACGGCTTCAATC-CTTCC
* * * * *
156319 -ATTACGTCTCTAAGGTACAAGGTTTGCTGGTGC-AGCTTCAACCTTTCCCTCCATATCTCTAGG
65 TATCACGTCTCCAAGGTACAAGGTTTACCGGTGCGA-CTTCAACCTTTCCCTCCATATCTCCAGG
** ** *
156382 GTATTAGATTTACT-ATTATGACTTTAATCTTTCC
129 GTACAAGATTT-CTCATTACAACTTCAATCTTTCC
156416 TTTCAAACCT
Statistics
Matches: 137, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
195 1 0.01
196 131 0.96
197 5 0.04
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (196 bp):
GGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTAACCGTTACGGCTTCAATCCTTCCT
ATCACGTCTCCAAGGTACAAGGTTTACCGGTGCGACTTCAACCTTTCCCTCCATATCTCCAGGGT
ACAAGATTTCTCATTACAACTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTG
T
Found at i:157014 original size:112 final size:112
Alignment explanation
Indices: 156808--157026 Score: 348
Period size: 112 Copynumber: 2.0 Consensus size: 112
156798 CCTTATATCG
* * *
156808 TTAGACCACTAACCATCATTTCAATGCAAAAATGTTTGAACAGGGTTGTAAGGTGGATAAAATTG
1 TTAGACCACTAACCATCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGCGGATAAAATTG
*
156873 AATTTTATTGGAGGCAAAGCTCGCGTGAATGAAAAGATTAAAGATCA
66 AATTTTATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAGATCA
* * * **
156920 TTAGTCCACTAACTATTATTTCAATGCAAACGTGCTTGAACAAGGTTGTAAGGCGGATAAAATTG
1 TTAGACCACTAACCATCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGCGGATAAAATTG
*
156985 AATTTTATTGGAGGCAAAGTTCGCATGAATGAAAAGATTAAA
66 AATTTTATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAA
157027 AATAACAAAC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 97 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (112 bp):
TTAGACCACTAACCATCATTTCAATGCAAAAATGCTTGAACAAGGTTGTAAGGCGGATAAAATTG
AATTTTATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAGATCA
Found at i:157347 original size:6 final size:6
Alignment explanation
Indices: 157333--157396 Score: 60
Period size: 6 Copynumber: 10.8 Consensus size: 6
157323 TCTCTTGACC
* * * * *
157333 TTTCCT TTTCTT TTTCCT TCT-TT TTTCTT TTTCTT TTCCTTT TTTCCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT
157381 TTT-TT TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCT
157397 CTTCCTTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
5 7 0.15
6 34 0.74
7 5 0.11
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:157348 original size:12 final size:12
Alignment explanation
Indices: 157333--157375 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
157323 TCTCTTGACC
157333 TTTCCTTTTCTT
1 TTTCCTTTTCTT
*
157345 TTTCCTTCT-TT
1 TTTCCTTTTCTT
*
157356 TTTCTTTTTC-T
1 TTTCCTTTTCTT
157367 TTTCCTTTT
1 TTTCCTTTT
157376 TTCCTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCCTTTTCTT
Found at i:157362 original size:7 final size:7
Alignment explanation
Indices: 157350--157432 Score: 50
Period size: 7 Copynumber: 12.3 Consensus size: 7
157340 TTCTTTTTCC
157350 TTCTTTT
1 TTCTTTT
157357 TTC-TTT
1 TTCTTTT
157363 TTC-TTT
1 TTCTTTT
*
157369 TCCTTTT
1 TTCTTTT
*
157376 TTC--CT
1 TTCTTTT
157381 TT-TTTT
1 TTCTTTT
157387 TTCTTTT
1 TTCTTTT
**
157394 TCTCTTCC
1 T-TCTTTT
157402 TTCTTTTT
1 TTC-TTTT
*
157410 TTATTTT
1 TTCTTTT
*
157417 TTATTTT
1 TTCTTTT
*
157424 TTATTTT
1 TTCTTTT
157431 TT
1 TT
157433 TAGGGTGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.05
6 14 0.23
7 35 0.57
8 9 0.15
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.81
Consensus pattern (7 bp):
TTCTTTT
Found at i:157379 original size:30 final size:30
Alignment explanation
Indices: 157343--157408 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
157333 TTTCCTTTTC
*
157343 TTTTTCCTTCTTTTTTCTTTTTCTTTTCCT
1 TTTTTCCTTCTTTTTTCTTTTTCTCTTCCT
*
157373 TTTTTCCTTTTTTTTTCTTTTTCTCTTCCT
1 TTTTTCCTTCTTTTTTCTTTTTCTCTTCCT
157403 TCTTTT
1 T-TTTT
157409 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTTTCCTTCTTTTTTCTTTTTCTCTTCCT
Found at i:157417 original size:30 final size:29
Alignment explanation
Indices: 157342--157424 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
157332 CTTTCCTTTT
* * *
157342 CTTTTTCCTTCTTTTTTCTTTTTCTTTTC
1 CTTTTTTCTTTTTTTTTCTTTTTCTCTTC
157371 CTTTTTTCCTTTTTTTTTCTTTTTCTCTTC
1 CTTTTTT-CTTTTTTTTTCTTTTTCTCTTC
*
157401 CTTCTTTT-TTTATTTTTTATTTTT
1 CTT-TTTTCTTT-TTTTTTCTTTTT
157425 TATTTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 9 0.19
30 34 0.72
31 4 0.09
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.78
Consensus pattern (29 bp):
CTTTTTTCTTTTTTTTTCTTTTTCTCTTC
Found at i:157424 original size:47 final size:47
Alignment explanation
Indices: 157338--157433 Score: 106
Period size: 47 Copynumber: 2.0 Consensus size: 47
157328 TGACCTTTCC
* * * *
157338 TTTTCTTTTTCCTTCTTTTTTCTTTTTCTTTTCCTTTTTTCCTTTTT
1 TTTTCTTTTTCCTTCCTTCTTCTTTTTATTTTCCTTTTTTCATTTTT
* *
157385 TTTTCTTTTTCTCTTCCTTCTT-TTTTTATTTT-TTATTTTTTATTTTT
1 TTTTCTTTTTC-CTTCCTTCTTCTTTTTATTTTCCT-TTTTTCATTTTT
157432 TT
1 TT
157434 AGGGTGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
46 1 0.02
47 32 0.78
48 8 0.20
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (47 bp):
TTTTCTTTTTCCTTCCTTCTTCTTTTTATTTTCCTTTTTTCATTTTT
Found at i:157434 original size:8 final size:7
Alignment explanation
Indices: 157406--157432 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
157396 TCTTCCTTCT
157406 TTTTTTA
1 TTTTTTA
157413 TTTTTTA
1 TTTTTTA
157420 TTTTTTA
1 TTTTTTA
157427 TTTTTT
1 TTTTTT
157433 TAGGGTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:158243 original size:12 final size:12
Alignment explanation
Indices: 158226--158250 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
158216 TGCCCTTGAC
158226 TTTTTCTTTCTT
1 TTTTTCTTTCTT
158238 TTTTTCTTTCTT
1 TTTTTCTTTCTT
158250 T
1 T
158251 GGGTTTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:158319 original size:16 final size:16
Alignment explanation
Indices: 158298--158348 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
158288 CCTTTTTTTC
* *
158298 TTTTTTCTGTCACCTT
1 TTTTTTCGGCCACCTT
*
158314 TTTTTTGGGCCACCTT
1 TTTTTTCGGCCACCTT
* *
158330 TTTTTTGGGCCTCCTT
1 TTTTTTCGGCCACCTT
158346 TTT
1 TTT
158349 AATAGCGCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.04, C:0.24, G:0.14, T:0.59
Consensus pattern (16 bp):
TTTTTTCGGCCACCTT
Found at i:158331 original size:15 final size:16
Alignment explanation
Indices: 158308--158348 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
158298 TTTTTTCTGT
158308 CACCTTTTTTTTGGGC
1 CACCTTTTTTTTGGGC
158324 CACCTTTTTTTTGGGC
1 CACCTTTTTTTTGGGC
*
158340 CTCCTTTTT
1 CACCTTTTT
158349 AATAGCGCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.27, G:0.15, T:0.54
Consensus pattern (16 bp):
CACCTTTTTTTTGGGC
Found at i:162652 original size:31 final size:30
Alignment explanation
Indices: 162560--162664 Score: 149
Period size: 30 Copynumber: 3.5 Consensus size: 30
162550 CAAACAAAAA
162560 TTTTAGAAAGTTT-AGGGGTCAAAATGTAAT
1 TTTTAGAAAGTTTGA-GGGTCAAAATGTAAT
* * *
162590 TTTTAGAAAGTTTAAGGGTTAAAATATAAT
1 TTTTAGAAAGTTTGAGGGTCAAAATGTAAT
*
162620 TTTTAGAAAGTTTGAGGGTACAAAATGCAAT
1 TTTTAGAAAGTTTGAGGGT-CAAAATGTAAT
162651 TTTTAGAAAGTTTG
1 TTTTAGAAAGTTTG
162665 GAGGCTGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
30 44 0.66
31 23 0.34
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
TTTTAGAAAGTTTGAGGGTCAAAATGTAAT
Found at i:164789 original size:2 final size:2
Alignment explanation
Indices: 164782--164820 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
164772 AATTATAAAC
164782 TA TA TA TA TA TA 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 TA TA TA T
164821 GNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:165157 original size:2 final size:2
Alignment explanation
Indices: 165150--165181 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
165140 TTATTAACTA
165150 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
165182 AAAGAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:165671 original size:17 final size:18
Alignment explanation
Indices: 165649--165684 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
165639 TAAATAAGTT
165649 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
165666 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
165684 A
1 A
165685 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:168462 original size:52 final size:51
Alignment explanation
Indices: 168384--168521 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 51
168374 ATGCATTTTT
* * * * ***
168384 TATACTCACGACGACATAGAGTCATCGGACCTTTAATCCATTTTGGGAATCA
1 TATACTCACGATGACACATAGTCATCGGACCTTTAATCC-GTAAAGGAATCA
* * *
168436 TATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCT-TTAATCCGTAAAGGAATCA
*
168488 TATACTCACGATGACACATAATCATCGGACCTTT
1 TATACTCACGATGACACATAGTCATCGGACCTTT
168522 TTCATTTACG
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
51 1 0.01
52 67 0.92
53 5 0.07
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (51 bp):
TATACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAAAGGAATCA
Found at i:180638 original size:12 final size:12
Alignment explanation
Indices: 180611--180648 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
180601 GCTTTTTTTA
180611 TTTTCTTCTA--
1 TTTTCTTCTATT
180621 TTTTCTTCTATT
1 TTTTCTTCTATT
*
180633 TTTTCTGCTATT
1 TTTTCTTCTATT
180645 TTTT
1 TTTT
180649 ATTTCCTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.40
12 15 0.60
ACGTcount: A:0.08, C:0.16, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTCTTCTATT
Found at i:180646 original size:10 final size:10
Alignment explanation
Indices: 180609--180638 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
180599 TTGCTTTTTT
180609 TATTTTCTTC
1 TATTTTCTTC
180619 TATTTTCTTC
1 TATTTTCTTC
180629 TATTTT-TTC
1 TATTTTCTTC
180638 T
1 T
180639 GCTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTCTTC
Found at i:186737 original size:3 final size:3
Alignment explanation
Indices: 186729--186773 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
186719 CATGACTCTG
* * * *
186729 CAT CAT CAT CAC CAC CAC CAC CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
186774 GGTTAATAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.24
Consensus pattern (3 bp):
CAT
Found at i:188036 original size:15 final size:15
Alignment explanation
Indices: 188016--188046 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
188006 AAGAAAAGTG
*
188016 AAAAAAAACAAACAA
1 AAAAAAAAAAAACAA
188031 AAAAAAAAAAAACAA
1 AAAAAAAAAAAACAA
188046 A
1 A
188047 GGTTGATGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAACAA
Found at i:189678 original size:17 final size:17
Alignment explanation
Indices: 189658--189692 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
189648 ATATTTTGAA
*
189658 ATTAAATTAATTTTTAC
1 ATTAAATTAATTTCTAC
*
189675 ATTATATTAATTTCTAC
1 ATTAAATTAATTTCTAC
189692 A
1 A
189693 AAATTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAAATTAATTTCTAC
Found at i:190699 original size:19 final size:20
Alignment explanation
Indices: 190646--190685 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
190636 ATAGAAATAT
190646 TAAATTAAAAA--TAAAAAG
1 TAAATTAAAAATGTAAAAAG
190664 TAAATTAAAAATGTAAAAAG
1 TAAATTAAAAATGTAAAAAG
190684 TA
1 TA
190686 TATAAGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
TAAATTAAAAATGTAAAAAG
Found at i:190970 original size:29 final size:30
Alignment explanation
Indices: 190911--190983 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
190901 AAATTTTAAA
*
190911 TTAATAATAATAAAATTACATTATAA-CTT
1 TTAAAAATAATAAAATTACATTATAATCTT
** *
190940 TTAAAAATAATAAAATTTTGATT-TAATTTT
1 TTAAAAATAATAAAA-TTACATTATAATCTT
*
190970 TTAAAAATTATAAA
1 TTAAAAATAATAAA
190984 TATATAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (30 bp):
TTAAAAATAATAAAATTACATTATAATCTT
Found at i:190994 original size:15 final size:15
Alignment explanation
Indices: 190971--191008 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
190961 TTTAATTTTT
190971 TAAAAATTA-TAAATA
1 TAAAAATTATTAAA-A
*
190986 TATAAATTATTAAAA
1 TAAAAATTATTAAAA
191001 TAAAAATT
1 TAAAAATT
191009 TTACATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAAATTATTAAAA
Found at i:191866 original size:31 final size:31
Alignment explanation
Indices: 191823--191881 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
191813 CTAAAACAAG
191823 AGTGAACAAAACA-AGAAATTTAACTAACGAA
1 AGTGAACAAAACAGA-AAATTTAACTAACGAA
*
191854 AGTGGACAAAACAGAAAATTTAACTAAC
1 AGTGAACAAAACAGAAAATTTAACTAAC
191882 AAGAATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (31 bp):
AGTGAACAAAACAGAAAATTTAACTAACGAA
Found at i:199655 original size:18 final size:18
Alignment explanation
Indices: 199634--199673 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
199624 TATAATTAGT
199634 ATAAAAAT-AATAACAATA
1 ATAAAAATAAAT-ACAATA
*
199652 ATAAAATTAAATACAATA
1 ATAAAAATAAATACAATA
199670 ATAA
1 ATAA
199674 TATTATAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAATAAATACAATA
Found at i:205884 original size:21 final size:21
Alignment explanation
Indices: 205854--205894 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
205844 AATTGGTATT
205854 AATGGCATATTAGTTGAATGA
1 AATGGCATATTAGTTGAATGA
*
205875 AATGGGATATTAGTTGAATG
1 AATGGCATATTAGTTGAATG
205895 TTTATAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (21 bp):
AATGGCATATTAGTTGAATGA
Found at i:213298 original size:31 final size:31
Alignment explanation
Indices: 213263--213321 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
213253 AACGAAATGG
213263 ACATTAAAACCAAA-TTCAAGTATTAAATTAA
1 ACATTAAAACCAAACTT-AAGTATTAAATTAA
* * *
213294 ACATTTAAATCAAACTTGAGTATTAAAT
1 ACATTAAAACCAAACTTAAGTATTAAAT
213322 AGCGTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (31 bp):
ACATTAAAACCAAACTTAAGTATTAAATTAA
Found at i:215776 original size:13 final size:14
Alignment explanation
Indices: 215753--215785 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
215743 ATTTAAAATA
215753 AAAATAGAAAATTT
1 AAAATAGAAAATTT
215767 AAAATA-AAAATTT
1 AAAATAGAAAATTT
*
215780 ATAATA
1 AAAATA
215786 TTAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAAATAGAAAATTT
Found at i:215802 original size:15 final size:15
Alignment explanation
Indices: 215760--215807 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
215750 ATAAAAATAG
215760 AAAATTTAAA-A-TA
1 AAAATTTAAATATTA
215773 AAAATTTATAATATTA
1 AAAATTTA-AATATTA
*
215789 AATATTTAAATATTA
1 AAAATTTAAATATTA
215804 AAAA
1 AAAA
215808 ATATTATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.27
14 2 0.07
15 11 0.37
16 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTTAAATATTA
Found at i:215998 original size:33 final size:33
Alignment explanation
Indices: 215932--216013 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 33
215922 TTTTTGTAAT
*
215932 ATCATATATATTATATTTTTATTC-AAAAAAAAA
1 ATCATATATATTATA-TTTGATTCAAAAAAAAAA
*
215965 ATCATATATATTATA-TTGATTAAAAATGTAAAAAA
1 ATCATATATATTATATTTGATTCAAAA---AAAAAA
216000 ATTCATATATATTA
1 A-TCATATATATTA
216014 AATATTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 5 0.12
32 3 0.07
33 15 0.36
35 7 0.17
36 12 0.29
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (33 bp):
ATCATATATATTATATTTGATTCAAAAAAAAAA
Found at i:216026 original size:36 final size:35
Alignment explanation
Indices: 215958--216026 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
215948 TTTTATTCAA
*
215958 AAAAAAAATCATATATATTATATTGATTAAAAATGT
1 AAAAAAAATCATATATATTATATT-ATAAAAAATGT
*
215994 AAAAAAATTCATATATATTAAATATT-TAAAAAA
1 AAAAAAAATCATATATATT--ATATTATAAAAAA
216027 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 24 0.83
38 5 0.17
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (35 bp):
AAAAAAAATCATATATATTATATTATAAAAAATGT
Found at i:218295 original size:23 final size:23
Alignment explanation
Indices: 218261--218323 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
218251 CAAATTACCA
* *
218261 TGCTATAGAAGCAGACATAATCG
1 TGCTATAAAAGCAGACATAACCG
*
218284 TGCTATACAAGCAGACATAACCG
1 TGCTATAAAAGCAGACATAACCG
*
218307 TGCCATAAAAGCAGACA
1 TGCTATAAAAGCAGACA
218324 AAACTGTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.17
Consensus pattern (23 bp):
TGCTATAAAAGCAGACATAACCG
Found at i:219445 original size:21 final size:22
Alignment explanation
Indices: 219419--219459 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
219409 TTTGTGGAAT
219419 AATATTCAAAG-ATTTTTTTAC
1 AATATTCAAAGAATTTTTTTAC
*
219440 AATATTCAGAGAATTTTTTT
1 AATATTCAAAGAATTTTTTT
219460 GAGATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (22 bp):
AATATTCAAAGAATTTTTTTAC
Found at i:219468 original size:24 final size:24
Alignment explanation
Indices: 219400--219468 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 24
219390 ATTTGTTCAA
219400 AGAGAATTTTTTGTG-GAATAATATTC
1 AGAGAATTTTTT-TGAG-AT-ATATTC
* *
219426 AAAG-ATTTTTTT-ACA-ATATTC
1 AGAGAATTTTTTTGAGATATATTC
219447 AGAGAATTTTTTTGAGATATAT
1 AGAGAATTTTTTTGAGATATAT
219469 ATTCAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
21 9 0.26
22 8 0.23
23 3 0.09
24 5 0.14
25 7 0.20
26 3 0.09
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.45
Consensus pattern (24 bp):
AGAGAATTTTTTTGAGATATATTC
Found at i:219837 original size:17 final size:16
Alignment explanation
Indices: 219811--219848 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
219801 TTATTTTAGC
219811 ATTTAATTTTTATTTTT
1 ATTT-ATTTTTATTTTT
*
219828 ATTTATTTTT-TGTTT
1 ATTTATTTTTATTTTT
219843 ATTTAT
1 ATTTAT
219849 CTCTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 6 0.30
17 4 0.20
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
ATTTATTTTTATTTTT
Found at i:219879 original size:32 final size:32
Alignment explanation
Indices: 219843--219905 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
219833 TTTTTTGTTT
*
219843 ATTTATCTCTT-TTAT-TTTTTTATTTAATTTAC
1 ATTTAT-TCTTATTATCTTGTTTATTT-ATTTAC
*
219875 ATTTATTGTTATTATCTTGTTTATTTATTTA
1 ATTTATTCTTATTATCTTGTTTATTTATTTA
219906 TTATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 3 0.11
32 15 0.56
33 9 0.33
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.68
Consensus pattern (32 bp):
ATTTATTCTTATTATCTTGTTTATTTATTTAC
Found at i:220171 original size:23 final size:24
Alignment explanation
Indices: 220145--220205 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 24
220135 TATATTATTA
220145 ATTAATTAATATT-TATTGTCATT
1 ATTAATTAATATTATATTGTCATT
*
220168 ATT-ATT-ATGATTATATTGTTATT
1 ATTAATTAAT-ATTATATTGTCATT
* *
220191 -TTATTTAATACTATA
1 ATTAATTAATATTATA
220206 ATTATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 2 0.06
22 8 0.26
23 19 0.61
24 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (24 bp):
ATTAATTAATATTATATTGTCATT
Found at i:220230 original size:23 final size:24
Alignment explanation
Indices: 220204--220264 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
220194 TTTAATACTA
*
220204 TAATTATATTTTTATTGTGTT-AT
1 TAATTATATTTTTATTGTCTTCAT
*
220227 TAATTATA-TTTGATTGTCTTCAT
1 TAATTATATTTTTATTGTCTTCAT
*
220250 TAATT-TATTTATATT
1 TAATTATATTTTTATT
220265 TATGTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (24 bp):
TAATTATATTTTTATTGTCTTCAT
Found at i:220234 original size:29 final size:28
Alignment explanation
Indices: 220139--220234 Score: 69
Period size: 29 Copynumber: 3.4 Consensus size: 28
220129 GTTGCTTATA
*
220139 TTATTAA-T-TAATTA-ATATTTATTGT
1 TTATTAATTATAATTATATTTTTATTGT
* *
220164 CATTATT-ATTATGATTATATTGTTA-T-T
1 --TTATTAATTATAATTATATTTTTATTGT
220191 TTATTTAATACTATAATTATATTTTTATTGT
1 TTA-TTAAT--TATAATTATATTTTTATTGT
220222 GTTATTAATTATA
1 -TTATTAATTATA
220235 TTTGATTGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
25 3 0.06
26 3 0.06
27 9 0.17
28 6 0.11
29 23 0.43
30 1 0.02
31 6 0.11
32 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.59
Consensus pattern (28 bp):
TTATTAATTATAATTATATTTTTATTGT
Found at i:220258 original size:22 final size:22
Alignment explanation
Indices: 220204--220259 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
220194 TTTAATACTA
* *
220204 TAATTATATTTTTATTGTGTTAT
1 TAATTATA-TTTGATTGTCTTAT
220227 TAATTATATTTGATTGTCTTCAT
1 TAATTATATTTGATTGTCTT-AT
220250 TAATT-TATTT
1 TAATTATATTT
220260 ATATTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (22 bp):
TAATTATATTTGATTGTCTTAT
Found at i:221896 original size:2 final size:2
Alignment explanation
Indices: 221891--221922 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
221881 GAGAAATTTA
*
221891 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
221923 TTTTTTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:223764 original size:20 final size:19
Alignment explanation
Indices: 223732--223769 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
223722 ATATAATTTT
*
223732 TAAAAATTTAAAACATATA
1 TAAAAATTAAAAACATATA
223751 TAAAAATTAAAAA-ATATA
1 TAAAAATTAAAAACATATA
223769 T
1 T
223770 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATTAAAAACATATA
Found at i:223774 original size:20 final size:21
Alignment explanation
Indices: 223730--223774 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
223720 AAATATAATT
*
223730 TTTAAAAATTTAAAACATATA
1 TTTAAAAATTTAAAAAATATA
223751 --TAAAAA-TTAAAAAATATA
1 TTTAAAAATTTAAAAAATATA
223769 TTTAAA
1 TTTAAA
223775 TTTTAAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTAAAAATTTAAAAAATATA
Found at i:224674 original size:20 final size:20
Alignment explanation
Indices: 224630--224676 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
224620 TAAATCGAGT
** *
224630 AAATAAATAACTAAACAAAT
1 AAATAAATAAAGAAACAAAC
*
224650 GAATAAATAAAGAAACAAAC
1 AAATAAATAAAGAAACAAAC
224670 AAATAAA
1 AAATAAA
224677 ATAATATACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.15
Consensus pattern (20 bp):
AAATAAATAAAGAAACAAAC
Found at i:224912 original size:30 final size:30
Alignment explanation
Indices: 224793--224897 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
224783 TTAAAATCGA
** **
224793 GTCAAATTTGAATTT-TTGAAAAGTTCAAGG
1 GTCAAATTTGAATTTACAG-AAAGTTTGAGG
224823 GTCAAATTTGAATTTACAGAAAGTTTGAGG
1 GTCAAATTTGAATTTACAGAAAGTTTGAGG
224853 GTCAAATTTGAATTTACAGAAAGTTTGAGG
1 GTCAAATTTGAATTTACAGAAAGTTTGAGG
* *
224883 GTTAAATTGGAATTT
1 GTCAAATTTGAATTT
224898 TTGGAAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 67 0.99
31 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (30 bp):
GTCAAATTTGAATTTACAGAAAGTTTGAGG
Found at i:224957 original size:30 final size:29
Alignment explanation
Indices: 224796--224959 Score: 125
Period size: 30 Copynumber: 5.5 Consensus size: 29
224786 AAATCGAGTC
** *
224796 AAATTTGAATTTTT-GAAAAGTTCAAGGGTC
1 AAATTTGAATTTTTAG-AAAGTT-TGGGGTA
** *
224826 AAATTTGAATTTACAGAAAGTTTGAGGGTC
1 AAATTTGAATTTTTAGAAAGTTTG-GGGTA
** *
224856 AAATTTGAATTTACAGAAAGTTTGAGGGTT
1 AAATTTGAATTTTTAGAAAGTTTG-GGGTA
* * * *
224886 AAATTGGAATTTTTGGAAATTTTGAGGTA
1 AAATTTGAATTTTTAGAAAGTTTGGGGTA
*
224915 AAGTTT-ATATTTTTAGAAAGTTTAGGGGTA
1 AAATTTGA-ATTTTTAGAAAGTTT-GGGGTA
*
224945 AAATTAGAATTTTTA
1 AAATTTGAATTTTTA
224960 AAATTTTTTG
Statistics
Matches: 110, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.01
29 20 0.18
30 87 0.79
31 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (29 bp):
AAATTTGAATTTTTAGAAAGTTTGGGGTA
Found at i:226129 original size:17 final size:17
Alignment explanation
Indices: 226109--226143 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
226099 ATTTGGTTTG
*
226109 TATTTGTTTAATTTTAT
1 TATTTATTTAATTTTAT
*
226126 TATTTATTTATTTTTAT
1 TATTTATTTAATTTTAT
226143 T
1 T
226144 TGTGTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TATTTATTTAATTTTAT
Found at i:226151 original size:16 final size:16
Alignment explanation
Indices: 226113--226160 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
226103 GGTTTGTATT
* *
226113 TGTTTAATTTTATTATT
1 TGTTTATTTTTATT-TG
*
226130 TATTTATTTTTATTTG
1 TGTTTATTTTTATTTG
*
226146 TGTTTATTTATATTT
1 TGTTTATTTTTATTT
226161 ATAAAGAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TGTTTATTTTTATTTG
Found at i:226194 original size:20 final size:20
Alignment explanation
Indices: 226169--226208 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
226159 TTATAAAGAG
226169 ATAAATAAATAAAAATAAAA
1 ATAAATAAATAAAAATAAAA
*
226189 ATAAATAAATAAAATTAAAA
1 ATAAATAAATAAAAATAAAA
226209 CGGAATTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
ATAAATAAATAAAAATAAAA
Found at i:226322 original size:22 final size:22
Alignment explanation
Indices: 226289--226330 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
226279 TTACATTTAT
226289 AAAATGATAAATAAATAAAATA
1 AAAATGATAAATAAATAAAATA
226311 AAAAT-ATAAAATAAATAAAA
1 AAAATGAT-AAATAAATAAAA
226331 CTGGGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATGATAAATAAATAAAATA
Found at i:227025 original size:16 final size:16
Alignment explanation
Indices: 227001--227036 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
226991 ATTTTTTATT
* *
227001 TTAATATTAAATAATC
1 TTAAAATTAAATAATA
227017 TTAAAATTAAATAATA
1 TTAAAATTAAATAATA
227033 TTAA
1 TTAA
227037 TTAACTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAATTAAATAATA
Found at i:229265 original size:30 final size:29
Alignment explanation
Indices: 229200--229450 Score: 227
Period size: 30 Copynumber: 8.4 Consensus size: 29
229190 AAAAAGATTG
* * *
229200 AGGGTAAAAACGTGATTTTGGAGAAGTTT-
1 AGGGTCAAAATGTAATTTTGGA-AAGTTTA
* *
229229 AGGGTCAAAATATGATTTTAGGAAAGTTTA
1 AGGGTCAAAATGTAATTTT-GGAAAGTTTA
229259 AGGGTCAAAATGTAATTTTGGAGAAGTTTA
1 AGGGTCAAAATGTAATTTTGGA-AAGTTTA
* * *
229289 AGGGTTAAAATGTGATTTTAGAAAAGTTTA
1 AGGGTCAAAATGTAATTTT-GGAAAGTTTA
* **
229319 GGGGTCAAAACATAATTTTGGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTGG-AAAGTTTA
* * *
229349 GGGGTTAAAATGCAA-TTTGGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTGG-AAAGTTTA
* *
229378 GGGGTTAAAATGTAATTTTGGTAAAGTTTA
1 AGGGTCAAAATGTAATTTTGG-AAAGTTTA
** * * *
229408 AGTATTAAAATGTAATTTTAGAAAAGTTTG
1 AGGGTCAAAATGTAATTTT-GGAAAGTTTA
229438 AGGGTCAAAATGT
1 AGGGTCAAAATGT
229451 GTTTTTTTAA
Statistics
Matches: 187, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
29 54 0.29
30 130 0.70
31 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (29 bp):
AGGGTCAAAATGTAATTTTGGAAAGTTTA
Found at i:229293 original size:89 final size:87
Alignment explanation
Indices: 229191--229450 Score: 279
Period size: 89 Copynumber: 2.9 Consensus size: 87
229181 TAATTTTAAA
* * * * *
229191 AAAAGATTGAGGGTAAAAACGTGATTTTGGAGAAGTTTAGGGTCAAAATATGATTTTAGGAAAGT
1 AAAAGTTTAAGGGTTAAAATGTGATTTTGGA-AAGTTTAGGGTCAAAATATAATTTTAGGAAAGT
229256 TTAAGGGTCAAAATGTAATTTTGG
65 TTAAGGGTCAAAATGTAA-TTTGG
* * *
229280 AGAAGTTTAAGGGTTAAAATGTGATTTTAGAAAAGTTTAGGGGTCAAAACATAATTTT-GGAAAA
1 AAAAGTTTAAGGGTTAAAATGTGATTTT-GGAAAGTTTA-GGGTCAAAATATAATTTTAGG-AAA
* * *
229344 GTTTAGGGGTTAAAATGCAATTTGG
63 GTTTAAGGGTCAAAATGTAATTTGG
* * ** * * *
229369 AAAAGTTTAGGGGTTAAAATGTAATTTTGGTAAAGTTTAAGTATTAAAATGTAATTTTAGAAAAG
1 AAAAGTTTAAGGGTTAAAATGTGATTTTGG-AAAGTTT-AGGGTCAAAATATAATTTTAGGAAAG
*
229434 TTTGAGGGTCAAAATGT
64 TTTAAGGGTCAAAATGT
229451 GTTTTTTTAA
Statistics
Matches: 140, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
88 1 0.01
89 99 0.71
90 40 0.29
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (87 bp):
AAAAGTTTAAGGGTTAAAATGTGATTTTGGAAAGTTTAGGGTCAAAATATAATTTTAGGAAAGTT
TAAGGGTCAAAATGTAATTTGG
Found at i:229305 original size:60 final size:60
Alignment explanation
Indices: 229191--229450 Score: 292
Period size: 60 Copynumber: 4.4 Consensus size: 60
229181 TAATTTTAAA
* * * * * * *
229191 AAAAGATTGAGGGTAAAAACGTGATTTTGGAGAAGTTT-AGGGTCAAAATATGATTTTAG
1 AAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAATGTGATTTTAG
*
229250 GAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAATGTGATTTTAG
1 AAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAATGTGATTTTAG
* ** * * * * *
229310 AAAAGTTTAGGGGTCAAAACATAATTTTGGAAAAGTTTAGGGGTTAAAATG-CAATTTGG
1 AAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAATGTGATTTTAG
* * ** *
229369 AAAAGTTTAGGGGTTAAAATGTAATTTTGGTA-AAGTTTAAGTATTAAAATGTAATTTTAG
1 AAAAGTTTAAGGGTCAAAATGTAATTTTGG-AGAAGTTTAAGGGTTAAAATGTGATTTTAG
*
229429 AAAAGTTTGAGGGTCAAAATGT
1 AAAAGTTTAAGGGTCAAAATGT
229451 GTTTTTTTAA
Statistics
Matches: 169, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
59 80 0.47
60 89 0.53
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (60 bp):
AAAAGTTTAAGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTTAAAATGTGATTTTAG
Found at i:230163 original size:21 final size:20
Alignment explanation
Indices: 230138--230192 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
230128 AAGATATTTT
230138 TATTTTTTTATTTTTCAAATC
1 TATTTTTTTATTTTT-AAATC
** * *
230159 TATTTTCGTACTTTTAAATT
1 TATTTTTTTATTTTTAAATC
230179 TGATTTTTTTATTT
1 T-ATTTTTTTATTT
230193 CCTTTTTTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTTTTTATTTTTAAATC
Found at i:231556 original size:48 final size:47
Alignment explanation
Indices: 231464--231556 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 47
231454 TGGTGTTGTG
* * * *
231464 ACTTCATCTCTTGGTCCACTTCTCTGTATCTCATCAATAGGATGACC
1 ACTTCATATCTTGATCCACTTCTCTGTATCTCATCAAGAAGATGACC
* *
231511 ACTTCATTATCTTGATCCACTTCTCTGTATCTCATTAGGAAGATGA
1 ACTTCA-TATCTTGATCCACTTCTCTGTATCTCATCAAGAAGATGA
231557 ATTTGGTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 6 0.15
48 33 0.85
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.38
Consensus pattern (47 bp):
ACTTCATATCTTGATCCACTTCTCTGTATCTCATCAAGAAGATGACC
Found at i:231656 original size:86 final size:85
Alignment explanation
Indices: 231474--231724 Score: 306
Period size: 86 Copynumber: 2.9 Consensus size: 85
231464 ACTTCATCTC
* * * * *
231474 TTGGTCCACTTCTCTGTATCTCATCA-ATAGGATGACCACTTCATTATCTTGATCCACTTCTCTG
1 TTGGTCCACTTCTCTGTATCTCATCAGA-AAGATGACCTCTTCATTGTTTTAATCCACTTCTCTG
* *
231538 TATCTCATTAGGAAGATGAAT
65 TATCTCATCAGGAAGACGAAT
* * * ** *
231559 TTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCTCTTCACTTGTTTTAATCCGTTTTTCTG
1 TTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACCTCTTCA-TTGTTTTAATCCACTTCTCTG
* *
231624 TATCTTATCAGGAAGACGGAT
65 TATCTCATCAGGAAGACGAAT
* * * *
231645 TTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACCTCTTTATTGTTTTGACCCACTTCTCAGT
1 TTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACCTCTTCATTGTTTTAATCCACTTCTCTGT
231710 ATCTCATCAGGAAGA
66 ATCTCATCAGGAAGA
231725 TGGGGGTTCG
Statistics
Matches: 138, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
85 67 0.49
86 71 0.51
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (85 bp):
TTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACCTCTTCATTGTTTTAATCCACTTCTCTGT
ATCTCATCAGGAAGACGAAT
Found at i:231933 original size:85 final size:86
Alignment explanation
Indices: 231766--231934 Score: 216
Period size: 86 Copynumber: 2.0 Consensus size: 86
231756 TGACTTCATC
* * * *
231766 GATTTGGTCTATTTCTCTGTATCTCATCAGGATGATGACCGCATCACTTGCTTTAATCCACTTCT
1 GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCATCACTTGCTTTAATCCACTTCT
* *
231831 CTGTATTTCATCAGGAAGACG
66 CAGTATCTCATCAGGAAGACG
* * * * *
231852 GATTTGGTCCACTTCTTTATATCTCATCAGGAAGATTACCGCTTTA-TTGCTTT-GTCCCACTTC
1 GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCATCACTTGCTTTAAT-CCACTTC
231915 TCAGTATCTCATCAGGAAGA
65 TCAGTATCTCATCAGGAAGA
231935 TGGGGTTTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
84 1 0.01
85 32 0.45
86 38 0.54
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (86 bp):
GATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACCGCATCACTTGCTTTAATCCACTTCT
CAGTATCTCATCAGGAAGACG
Found at i:232068 original size:209 final size:209
Alignment explanation
Indices: 231554--232778 Score: 1111
Period size: 209 Copynumber: 5.9 Consensus size: 209
231544 ATTAGGAAGA
* * * * **
231554 TGAATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCTCTTCACTTGTTTTAATCCGTTT
1 TGAA-TTGGTCTACTTCTCTGTACCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTT
* * *
231619 TTCTGTATCTTATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACCTC
65 CTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTC
*
231684 TTTATTGTTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGGTTCGAAGTTTCACTCACA
130 TTTATTGTTTTGACCCACTTCTCAGTATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCACA
*
231749 TTGAGCTTGACTTCAT
194 TTGAGCTTCACTTCAT
* * * * * *
231765 CGATTTGGTCTATTTCTCTGTATCTCATCAGGATGATGACCGCATCACTTGCTTTAATCCACTTC
1 TGAATTGGTCTACTTCTCTGTACCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTC
* * * * *
231830 TCTGTATTTCATCAGGAAGACGGATTTGGTCCACTTCTTTATATCTCATCAGGAAGATTACCGCT
66 TCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCT
* * *
231895 TTATTGCTTTGTCCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTTACTCACATT
131 TTATTGTTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATT
* *
231960 GAGCTTTACTTCGT
196 GAGCTTCACTTCAT
* * ** * *
231974 TGAATTGGTCCACTTCTTTGTACCTCATCAGGAAGATGATTGCATCACTTATTTTAATCCATTTC
1 TGAATTGGTCTACTTCTCTGTACCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTC
*
232039 TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCT
66 TCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCT
*
232104 TTATTGTTTTGACCCACTTCTCAGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATT
131 TTATTGTTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATT
*
232169 GAGCTTCGCTTCAT
196 GAGCTTCACTTCAT
*
232183 TGAATTGGTTTACTTCTCTGTACCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTC
1 TGAATTGGTCTACTTCTCTGTACCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTC
* * * * *
232248 TTTGTATCTCATTAGG-A-A---A-----TCCACTTCTTTGTATCTCATTAGGAAGACGA-----
66 TCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCT
* * * * * * * *
232298 --A----TTTGATCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTT-ATTGCTTTGACCCA
131 TTATTGTTTTGACCCACTTCTCAGTATCTCATCAGGAAGATG--GGGTTTGA-AG-TTTCACTCA
* * * *
232356 CTTCTTAG-TATCTCATCA-
192 CAT-TGAGCT-TCACTTCAT
* * * * ** * * * **
232374 AGAAGATGG---A-GT-T-TGAAGTTTCACTCA--CA-TTGA--GCTTCACTTCGTTGAATTGGT
1 TGAA-TTGGTCTACTTCTCTGTA-CCTCA-TCAGGAAGATGACCGCATCACTT-GTT---TTAAT
** * * * * **
232428 TTACTTTTTTGTACCTCATCAGGAGGATGACCGCACCACTTGTTTTAATCCACTTCTCTGTATCT
59 CCACTTCTCTGTATCTCATCAGGA--A-GA-CG--------GATTTGGTCCACTTCTCTGTATCT
* * * * * **
232493 CATCAGGAAGATGATCGCTTTATTGCTTTGTCCCACTTCTCCGTATCTCATCAGGAAGATGAAGT
112 CATCAGGAAGATGACCTCTTTATTGTTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGT
* *
232558 TTGAAGTTTCACTCACATTGAGCTTTACTCCAT
177 TTGAAGTTTCACTCACATTGAGCTTCACTTCAT
* * *
232591 TGAATTGATATACTTCTCTGTACCTCATCAGGAAGATGATCGCATCACTTGTTTTAATCCACTTC
1 TGAATTGGTCTACTTCTCTGTACCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTC
* * *
232656 TCTGTATCTCATCAAGAAGACGGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCTCT
66 TCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCT
**
232721 TTATTGCTTTT-ACCCACTTCT-ATGTATCTCATCAGGAAGATGTAGTTTGGAAGTTTCA
131 TTATTG-TTTTGACCCACTTCTCA-GTATCTCATCAGGAAGATGGGGTTT-GAAGTTTCA
232779 ATTTTTCCCT
Statistics
Matches: 812, Mismatches: 139, Indels: 127
0.75 0.13 0.12
Matches are distributed among these distances:
183 8 0.01
184 3 0.00
185 3 0.00
186 4 0.00
187 25 0.03
188 35 0.04
189 2 0.00
190 6 0.01
191 13 0.02
192 14 0.02
199 28 0.03
204 1 0.00
207 1 0.00
208 1 0.00
209 393 0.48
210 161 0.20
211 2 0.00
216 10 0.01
217 15 0.02
218 6 0.01
219 3 0.00
220 35 0.04
221 25 0.03
222 4 0.00
223 3 0.00
224 3 0.00
225 8 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (209 bp):
TGAATTGGTCTACTTCTCTGTACCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTC
TCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCTCT
TTATTGTTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATT
GAGCTTCACTTCAT
Found at i:232276 original size:27 final size:27
Alignment explanation
Indices: 232238--232292 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
232228 CACTTGTTTT
232238 AATCCACTTCTTTGTATCTCATTAGGA
1 AATCCACTTCTTTGTATCTCATTAGGA
232265 AATCCACTTCTTTGTATCTCATTAGGA
1 AATCCACTTCTTTGTATCTCATTAGGA
232292 A
1 A
232293 GACGAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (27 bp):
AATCCACTTCTTTGTATCTCATTAGGA
Found at i:232318 original size:236 final size:236
Alignment explanation
Indices: 232029--232501 Score: 793
Period size: 236 Copynumber: 2.0 Consensus size: 236
232019 CACTTATTTT
* *
232029 AATCCATTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAA
1 AATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCACTTCTCTGTATCTCATCAGGAA
* * *
232094 GATGACCTCTTTATTGTTTTGACCCACTTCTCAGTATCTCATCAAGAAGATGGGGTTTGAAGTTT
66 GATGACCGCTTTATTGCTTTGACCCACTTCTCAGTATCTCATCAAGAAGATGGAGTTTGAAGTTT
*
232159 CACTCACATTGAGCTTCGCTTCATTGAATTGGTTTACTTCTCTGTACCTCATCAGGAAGATGACC
131 CACTCACATTGAGCTTCACTTCATTGAATTGGTTTACTTCTCTGTACCTCATCAGGAAGATGACC
* * *
232224 GCATCACTTGTTTTAATCCACTTCTTTGTATCTCATTAGGA
196 GCACCACTTGTTTTAATCCACTTCTCTGTATCTCATCAGGA
* * *
232265 AATCCACTTCTTTGTATCTCATTAGGAAGACGAATTTGATCTACTTCTCTGTATCTCATCAGGAA
1 AATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCACTTCTCTGTATCTCATCAGGAA
*
232330 GATGACCGCTTTATTGCTTTGACCCACTTCTTAGTATCTCATCAAGAAGATGGAGTTTGAAGTTT
66 GATGACCGCTTTATTGCTTTGACCCACTTCTCAGTATCTCATCAAGAAGATGGAGTTTGAAGTTT
* * * *
232395 CACTCACATTGAGCTTCACTTCGTTGAATTGGTTTACTTTTTTGTACCTCATCAGGAGGATGACC
131 CACTCACATTGAGCTTCACTTCATTGAATTGGTTTACTTCTCTGTACCTCATCAGGAAGATGACC
232460 GCACCACTTGTTTTAATCCACTTCTCTGTATCTCATCAGGA
196 GCACCACTTGTTTTAATCCACTTCTCTGTATCTCATCAGGA
232501 A
1 A
232502 GATGATCGCT
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
236 220 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (236 bp):
AATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCACTTCTCTGTATCTCATCAGGAA
GATGACCGCTTTATTGCTTTGACCCACTTCTCAGTATCTCATCAAGAAGATGGAGTTTGAAGTTT
CACTCACATTGAGCTTCACTTCATTGAATTGGTTTACTTCTCTGTACCTCATCAGGAAGATGACC
GCACCACTTGTTTTAATCCACTTCTCTGTATCTCATCAGGA
Found at i:232499 original size:49 final size:48
Alignment explanation
Indices: 232437--232554 Score: 130
Period size: 48 Copynumber: 2.4 Consensus size: 48
232427 TTTACTTTTT
* * *
232437 TGTACCTCATCAGGAGGATGACCGCACCACTTGTTTTAAT-CCACTTCTC
1 TGTATCTCATCAGGAAGATGACCGCACCA-TTGCTTT-ATCCCACTTCTC
* *** *
232486 TGTATCTCATCAGGAAGATGATCGCTTTATTGCTTTGTCCCACTTCTC
1 TGTATCTCATCAGGAAGATGACCGCACCATTGCTTTATCCCACTTCTC
*
232534 CGTATCTCATCAGGAAGATGA
1 TGTATCTCATCAGGAAGATGA
232555 AGTTTGAAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.02
48 35 0.59
49 23 0.39
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (48 bp):
TGTATCTCATCAGGAAGATGACCGCACCATTGCTTTATCCCACTTCTC
Done.