Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_pilon, 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: 2373627
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 13
Found at i:171822 original size:12 final size:12
Alignment explanation
Indices: 171801--171834 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
171791 ACCACATTTC
*
171801 CAATACCAAACA
1 CAATATCAAACA
171813 CAATATCAAACA
1 CAATATCAAACA
*
171825 CAATCTCAAA
1 CAATATCAAA
171835 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:174282 original size:18 final size:18
Alignment explanation
Indices: 174259--174294 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
174249 AAGCAAAAGG
*
174259 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
174277 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
174295 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:174636 original size:20 final size:20
Alignment explanation
Indices: 174611--174654 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
174601 AAACCGAAAA
174611 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
*
174631 TCGCGTTGTGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
174651 TCGC
1 TCGC
174655 AACGCTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTT
Found at i:176526 original size:4 final size:4
Alignment explanation
Indices: 176494--176543 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
176484 GAACCGCTGA
* * * *
176494 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
176542 AA
1 AA
176544 TGCCGAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:176794 original size:21 final size:21
Alignment explanation
Indices: 176766--176815 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
176756 ACCATTATCT
*
176766 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
176787 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
176808 TCACGTAA
1 TCACGTAA
176816 TTCCCCTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:178539 original size:19 final size:19
Alignment explanation
Indices: 178488--178541 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
178478 AGAAGTTTCT
*
178488 GAAACTTAAATTCGCAACGC
1 GAAAC-TAAAATCGCAACGC
*
178508 GAAAATGAAAATCGCAACGC
1 GAAACT-AAAATCGCAACGC
178528 GAAACTAAAATCGC
1 GAAACTAAAATCGC
178542 GTTGCGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:179063 original size:20 final size:20
Alignment explanation
Indices: 179038--179222 Score: 121
Period size: 20 Copynumber: 9.2 Consensus size: 20
179028 GCGTAAAAAC
* *
179038 ATTTGACTTTCGCGTTGCAA
1 ATTTGACTATCGCGTTGCGA
*
179058 ATTTGACTATCGCGTTACGA
1 ATTTGACTATCGCGTTGCGA
*
179078 ATGTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
**
179098 ATTTGACT-TCTATGTTGCG-
1 ATTTGACTATC-GCGTTGCGA
* * *
179117 ATTT-ACAAATTTGAGTTGCGA
1 ATTTGAC-TA-TCGCGTTGCGA
* * * * * *
179138 ATTTTATTTTTGTGTTACGA
1 ATTTGACTATCGCGTTGCGA
179158 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
*
179178 ATTTGACTTAT-GTGTTGCG-
1 ATTTGAC-TATCGCGTTGCGA
*
179197 ATTT-ACATATTCGCGTTGTGA
1 ATTTGAC-TA-TCGCGTTGCGA
179218 ATTTG
1 ATTTG
179223 GAAAATCACA
Statistics
Matches: 127, Mismatches: 27, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
18 6 0.05
19 11 0.09
20 97 0.76
21 12 0.09
22 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:179135 original size:40 final size:40
Alignment explanation
Indices: 179087--179222 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
179077 AATGTGACTA
* * *
179087 TCGCGTTGCGAATTTGACTTCTATGTTGCGATTTACAAAT
1 TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATAT
* * * * * *
179127 TTGAGTTGCGAATTTTATTTTTGTGTTACGAATTTGAC-TA-
1 TCGCGTTGCGAATTTGACTTATGTGTTGCG-ATTT-ACATAT
179167 TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATAT
1 TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATAT
*
179207 TCGCGTTGTGAATTTG
1 TCGCGTTGCGAATTTG
179223 GAAAATCACA
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 2 0.03
39 6 0.08
40 62 0.81
41 5 0.06
42 2 0.03
ACGTcount: A:0.21, C:0.13, G:0.22, T:0.44
Consensus pattern (40 bp):
TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATAT
Found at i:179184 original size:80 final size:80
Alignment explanation
Indices: 179071--179221 Score: 239
Period size: 80 Copynumber: 1.9 Consensus size: 80
179061 TGACTATCGC
* *
179071 GTTACGAATGTGACTATCGCGTTGCGAATTTGACTTCTATGTTGCGATTTACAAATTTGAGTTGC
1 GTTACGAATGTGACTATCGCGTTGCGAATTTGACTTATATGTTGCGATTTACAAATTCGAGTTGC
179136 GAATTTTATTTTTGT
66 GAATTTTATTTTTGT
* * * * *
179151 GTTACGAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATATTCGCGTTGT
1 GTTACGAATGTGACTATCGCGTTGCGAATTTGACTTATATGTTGCGATTTACAAATTCGAGTTGC
179216 GAATTT
66 GAATTT
179222 GGAAAATCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (80 bp):
GTTACGAATGTGACTATCGCGTTGCGAATTTGACTTATATGTTGCGATTTACAAATTCGAGTTGC
GAATTTTATTTTTGT
Found at i:179257 original size:20 final size:20
Alignment explanation
Indices: 179191--179258 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
179181 TGACTTATGT
179191 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
* ** * * *
179211 GTTGTGAATTTGGAAAATCAC
1 GTTGCG-ATTTACATATTCGC
**
179232 AATGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
179252 GTTGCGA
1 GTTGCGA
179259 AATTGGAAAC
Statistics
Matches: 31, Mismatches: 16, Indels: 2
0.63 0.33 0.04
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:184029 original size:14 final size:14
Alignment explanation
Indices: 184010--184038 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
184000 TTACTCGTGG
184010 AATATACACTAATC
1 AATATACACTAATC
184024 AATATACACTAATC
1 AATATACACTAATC
184038 A
1 A
184039 CACCCTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (14 bp):
AATATACACTAATC
Found at i:185577 original size:11 final size:11
Alignment explanation
Indices: 185563--185589 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
185553 CTATATAGAG
185563 TTATGTCGTAC
1 TTATGTCGTAC
185574 TTATGTCGTAC
1 TTATGTCGTAC
185585 TTATG
1 TTATG
185590 CATATGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (11 bp):
TTATGTCGTAC
Found at i:188702 original size:157 final size:156
Alignment explanation
Indices: 188340--188727 Score: 377
Period size: 157 Copynumber: 2.5 Consensus size: 156
188330 TTAACTTCGT
* * * *
188340 ATGATTTCATTA-TTCATCCGATTCATCTTTCATTTTAAGT-TTATTTTTTTACCAAATTTGAAT
1 ATGATTTCCTTATTTC-TTCGATTCATCTTTCATTTTAAGTCCT-TTTTTTTACCAAATTTGAAC
* * * *
188403 CACATGCTCTTAAACCATTTTAAGATACCTTTGTGTCTTCAATTTCTATTTTTGATAACAAATGT
64 CACATGCTCCTAAACCATTTTAAGATAACTATGTATCTTCAATTTCTATTTTTGAT---AAATGT
** * * *
188468 TCTATTTTTTCAATTTAGTCCACAACTTTAA
126 TCTATACTGTCAATTTAATCCACAACTTCAA
* ** * *
188499 ATGATTTTCTTATCCCTTCAATTCAT-TGTTCATTTTAATTCC--TTTTTTACCAAATTTGAACC
1 ATGATTTCCTTATTTCTTCGATTCATCT-TTCATTTTAAGTCCTTTTTTTTACCAAATTTGAACC
188561 ACATGCTCCTAAACCATTTT-AGAATAACTATGTATCTTCAA-TTCT-TCATTTTGAT-AAT-TT
65 ACATGCTCCTAAACCATTTTAAG-ATAACTATGTATCTTCAATTTCTAT--TTTTGATAAATGTT
*
188621 TTATACTGTCAATTTAATCC-CTTAAC-TCAA
127 CTATACTGTCAATTTAATCCAC--AACTTCAA
* *
188651 CATGATTTCCTTATTTCTTCGATTAATCTTTCATTTTAAGTCCATTTTTTTTATCAAATTTGAAC
1 -ATGATTTCCTTATTTCTTCGATTCATCTTTCATTTTAAGTCC-TTTTTTTTACCAAATTTGAAC
*
188716 CACACGCTCCTA
64 CACATGCTCCTA
188728 TACAACTATA
Statistics
Matches: 189, Mismatches: 27, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
151 1 0.01
152 20 0.11
153 40 0.21
154 1 0.01
155 1 0.01
156 35 0.19
157 60 0.32
158 1 0.01
159 29 0.15
160 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (156 bp):
ATGATTTCCTTATTTCTTCGATTCATCTTTCATTTTAAGTCCTTTTTTTTACCAAATTTGAACCA
CATGCTCCTAAACCATTTTAAGATAACTATGTATCTTCAATTTCTATTTTTGATAAATGTTCTAT
ACTGTCAATTTAATCCACAACTTCAA
Found at i:190887 original size:2 final size:2
Alignment explanation
Indices: 190880--190952 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
190870 TTTGAGGTTA
190880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
190953 GTAAAATGTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:191759 original size:24 final size:25
Alignment explanation
Indices: 191731--191777 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
191721 AGAAACGTGC
*
191731 CACAAGAGCAGAGAAAAA-GTGTGA
1 CACAAGAGCAAAGAAAAACGTGTGA
191755 CACAAGAGCAAAGAAAAACGTGT
1 CACAAGAGCAAAGAAAAACGTGT
191778 TACAAGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.26, T:0.09
Consensus pattern (25 bp):
CACAAGAGCAAAGAAAAACGTGTGA
Found at i:211485 original size:31 final size:31
Alignment explanation
Indices: 211450--211572 Score: 86
Period size: 29 Copynumber: 4.3 Consensus size: 31
211440 TAAATATAAT
211450 TTATTTTTAACTTAAAAAATATATTTTATTC
1 TTATTTTTAACTTAAAAAATATATTTTATTC
*
211481 TTA-TTTTAAC-T--AAAA-ATA-TGT-TT-
1 TTATTTTTAACTTAAAAAATATATTTTATTC
* ** ** *
211504 TTATTTTCATTTTAAAATGTATATTTTCTTC
1 TTATTTTTAACTTAAAAAATATATTTTATTC
**
211535 TTA-TTTTAA-TTTTAAAATATATTTTATTC
1 TTATTTTTAACTTAAAAAATATATTTTATTC
*
211564 TTGTTTTTA
1 TTATTTTTA
211573 TAATATTATA
Statistics
Matches: 68, Mismatches: 15, Indels: 19
0.67 0.15 0.19
Matches are distributed among these distances:
23 3 0.04
24 6 0.09
25 3 0.04
26 3 0.04
27 6 0.09
28 3 0.04
29 20 0.29
30 18 0.26
31 6 0.09
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (31 bp):
TTATTTTTAACTTAAAAAATATATTTTATTC
Found at i:211489 original size:25 final size:25
Alignment explanation
Indices: 211441--211570 Score: 91
Period size: 25 Copynumber: 4.9 Consensus size: 25
211431 TTAAACTATT
* * **
211441 AAATATAATTTATTTTTAACTTAAA
1 AAATATATTTTATTCTTATTTTAAA
211466 AAATATATTTTATTCTTATTTTAACTAA
1 AAATATATTTTATTCTTATTTT-A--AA
*
211494 AAATATGTTTTTATT-TTCATTTTAAA
1 AAATAT-ATTTTATTCTT-ATTTTAAA
** *
211520 ATGTATATTTTCTTCTTATTTTAATTTTA
1 AAATATATTTTATTCTTATTTTAA----A
*
211549 AAATATATTTTATTCTTGTTTT
1 AAATATATTTTATTCTTATTTT
211571 TATAATATTA
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
25 31 0.38
26 9 0.11
28 11 0.13
29 31 0.38
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
AAATATATTTTATTCTTATTTTAAA
Found at i:211560 original size:54 final size:53
Alignment explanation
Indices: 211441--211562 Score: 136
Period size: 54 Copynumber: 2.3 Consensus size: 53
211431 TTAAACTATT
* *
211441 AAATATAATTTATTTTTAACTTAAAAAATATATTTTATTCTTATTTTAACTAA
1 AAATATATTTTATTTTCAACTTAAAAAATATATTTTATTCTTATTTTAACTAA
* ** ** * * *
211494 AAATATGTTTTTATTTTCATTTTAAAATGTATATTTTCTTCTTATTTTAATTTTA
1 AAATAT-ATTTTATTTTCAACTTAAAAAATATATTTTATTCTTATTTTAA-CTAA
211549 AAATATATTTTATT
1 AAATATATTTTATT
211563 CTTGTTTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
53 6 0.11
54 42 0.75
55 8 0.14
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (53 bp):
AAATATATTTTATTTTCAACTTAAAAAATATATTTTATTCTTATTTTAACTAA
Found at i:211565 original size:29 final size:29
Alignment explanation
Indices: 211465--211570 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
211455 TTTAACTTAA
*
211465 AAAATATATTTTATTCTTATTTTAA--CT
1 AAAATATATTTTATTCTTATTTTAATTTT
* *
211492 AAAA-ATA-TGT-TT-TTATTTTCATTTT
1 AAAATATATTTTATTCTTATTTTAATTTT
*
211517 AAAATGTATATTTTCTTCTTATTTTAATTTT
1 AAAA--TATATTTTATTCTTATTTTAATTTT
*
211548 AAAATATATTTTATTCTTGTTTT
1 AAAATATATTTTATTCTTATTTT
211571 TATAATATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
23 8 0.12
24 2 0.03
25 7 0.11
26 3 0.05
27 4 0.06
28 3 0.05
29 19 0.30
30 2 0.03
31 16 0.25
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (29 bp):
AAAATATATTTTATTCTTATTTTAATTTT
Found at i:211636 original size:30 final size:30
Alignment explanation
Indices: 211580--211690 Score: 116
Period size: 31 Copynumber: 3.6 Consensus size: 30
211570 TTATAATATT
* *
211580 ATAAGAATAAAATATAAATATTTAAGTTAAG
1 ATAAGAATAAAATAT-ATTTTTTAAGTTAAG
* *
211611 CTAAGAATAAATTATATTTTTTAAGTTAAG
1 ATAAGAATAAAATATATTTTTTAAGTTAAG
* *
211641 ATAA-AACTAAAGTATATTTTTTTAAGTTAAA
1 ATAAGAA-TAAAATATA-TTTTTTAAGTTAAG
* *
211672 ACAAGAATAAAATGTATTT
1 ATAAGAATAAAATATATTT
211691 AAGATAAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 2 0.03
30 27 0.40
31 36 0.54
32 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (30 bp):
ATAAGAATAAAATATATTTTTTAAGTTAAG
Found at i:214871 original size:22 final size:22
Alignment explanation
Indices: 214845--214896 Score: 95
Period size: 22 Copynumber: 2.3 Consensus size: 22
214835 ATCTCATATT
214845 CATTAATTTAAGGAGATATGTA
1 CATTAATTTAAGGAGATATGTA
214867 CATTAATTTAAGGAGATATGTA
1 CATTAATTTAAGGAGATATGTA
214889 CATATAAT
1 CAT-TAAT
214897 AATTATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (22 bp):
CATTAATTTAAGGAGATATGTA
Found at i:215320 original size:31 final size:31
Alignment explanation
Indices: 215276--215350 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
215266 AAAATTAATT
* *
215276 GATCGGATATTGATATGATCTGAAAATCAACC
1 GATCCGATATTGATATGATCCG-AAATCAACC
* **
215308 GATCCGAT-TTGATCTGATCCGAAATCAATT
1 GATCCGATATTGATATGATCCGAAATCAACC
*
215338 AATCCGATATTGA
1 GATCCGATATTGA
215351 CACGTCCCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 14 0.39
31 15 0.42
32 7 0.19
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (31 bp):
GATCCGATATTGATATGATCCGAAATCAACC
Found at i:233397 original size:20 final size:21
Alignment explanation
Indices: 233372--233410 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
233362 TTTTGGTGCA
*
233372 GAGGGAATCGAT-CCCCCCAT
1 GAGGGAACCGATACCCCCCAT
233392 GAGGGAACCGATACCCCCC
1 GAGGGAACCGATACCCCCC
233411 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.38, G:0.26, T:0.10
Consensus pattern (21 bp):
GAGGGAACCGATACCCCCCAT
Found at i:237256 original size:27 final size:28
Alignment explanation
Indices: 237199--237266 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
237189 CGGATTTGTC
*
237199 TTTTTATTTATTTTAATTTTTCATGCAA
1 TTTTTATTTATTTTAATTTGTCATGCAA
* *
237227 TTTTAATTTATTTTAATTTAGTC-T-CCA
1 TTTTTATTTATTTTAATTT-GTCATGCAA
237254 TTTTTATTTATTT
1 TTTTTATTTATTT
237267 CTATTCTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.40
28 19 0.54
29 2 0.06
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTATTTATTTTAATTTGTCATGCAA
Found at i:238071 original size:131 final size:130
Alignment explanation
Indices: 237864--238232 Score: 393
Period size: 131 Copynumber: 2.8 Consensus size: 130
237854 TTCGATATTG
* * * * *
237864 AGAATAGTAATATCTTTTCATTTCGGTTAGA-CTAATAAATAACTGCTTTAAGGCATGAGAGGTC
1 AGAATAGTAATATCTTTTCATTTCGATTGGAGC-AATAAATGATTGCTTTAAGGCATGAGAGGTT
* * * *
237928 ATTTATTCTCGATTGAAAATAATTTGACATTGTCGTTTTCTCTCGAATTGATATTGATTTTTAAG
65 ATTTATTCTCGATTGAAAATAATTTGATATTATCGTTTTCTCTCGAATCGATATTGA-ATTTAAG
*
237993 AT
129 AC
* * * * *
237995 AGAATAGTGATATCTCTTCATTTCGATCGGAGCAATAAATGATTGCTTCAAGGTATGAGAGGTTA
1 AGAATAGTAATATCTTTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTTA
* * * * * * * **
238060 TTCATTTTCGATTGGAAATCATCAT-ATATTATTGTTTTCACTATAATCGATATTGAATTTAAGA
66 TTTATTCTCGATTGAAAATAAT-TTGATATTATCGTTTTCTCTCGAATCGATATTGAATTTAAGA
238124 C
130 C
* * * * * *
238125 AAAATAGTAATATCTTTTCATTTCGATTGGAGTAATAAGTGATTGTTTTAAGACATGAAAGGTCT
1 AGAATAGTAATATCTTTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGT-T
* *
238190 -TTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTATCTC
65 ATTTATTCTCGATTGAAAATAATTTGATATTATCGTTTTCTCTC
238233 TTAAAATTAT
Statistics
Matches: 189, Mismatches: 45, Indels: 9
0.78 0.19 0.04
Matches are distributed among these distances:
130 91 0.48
131 96 0.51
132 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (130 bp):
AGAATAGTAATATCTTTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTTA
TTTATTCTCGATTGAAAATAATTTGATATTATCGTTTTCTCTCGAATCGATATTGAATTTAAGAC
Found at i:240568 original size:704 final size:694
Alignment explanation
Indices: 239191--240593 Score: 2072
Period size: 704 Copynumber: 2.0 Consensus size: 694
239181 GTCAACTTCA
* * * * *
239191 AAAATTCACTATAAATTGTATAAGATTAACTAGAAAAGGTTCTTTATATGGTTAGATTCTTATTC
1 AAAATTCACTATAAATTGTATAAGATGAACCAGAAAAGGTTCCTTATATAGTTAGATTCATATTC
* * * ** * * *
239256 GAGTCTAGTTTCTATTGGCATAAATGGAATAATTTTTAAGTGTGTATATTAATACATAATAATAT
66 GAGTATAATTTCTAGTGGCATAAACAGAATAATTTTTAAGTGTATAGATTAATACAGAATAATAT
*
239321 TTCTTTGCAAGTAGTGCATAATGTCAACATATAAAACTTGTCATAAATTATGTTTTCATATTACT
131 TTCTTTGCAAGTAGTGCATAATGCCAACATATAAAACTTGTCATAAATTATGTTTTCATATTACT
* *
239386 CCTATGTTATAGGTTATTTTAAATGCTCGAAATAAGTCAAATTTATTACAATAGTTATGATATTT
196 CCTATGTTATAGGTTATTATAAATGCTCAAAATAAGTCAAATTTATTACAATAGTTATGATATTT
* * *
239451 ATTACATGATGAATATGATGTTTATATGTTAAAGAAATATAATTGACGATGATTATGATATATAA
261 ATTACATGATGAATATGATGTTTATATGTTAAAGAAAGATAACTGACGATGATTACGATATATAA
* * * * *
239516 ATGTTATGTGGAAATGAAATGTTTAGGGTATGAAGTGCCCATTATGTTATGATATGAAGAGTTGG
326 ATGTTATATAGAAATGAAATGTTTAGAGTATGAACTACCCATTATGTTATGATATGAAGAGTTGG
* * *
239581 ATATGTTGATATATTTATATTTTTGATAATTGAATAATATATAATAATTAATGGAAAAATCCATT
391 ATATGTTGATATATTGATATCTTTGATAATTGAATAATATATAATAATTAATGGAAAAACCCATT
* * * ** * *
239646 GTATATTGCATTGAGATTCGTAGGTACATTTGGCATGCTGTTAAGTTGAGTGCTTTCCAGTTAAG
456 GTATATTGCATTGAGAGTCATAGGTACATTTGACATGCCATTAAATTGAGTACTTTCCAGTTAAG
* *
239711 TTATAGTACATTCGTGTACATTATGATCTGCATCATTGGAGCTCATGTTATGATTGCACTTGTAG
521 TTATAGTACATTCGTGTACATTATGATCTGCATCATTGGAGCTCATGTTATGATTGCACTTGGAA
*
239776 TGCATTATATGTTTCAGTTAAGATTGGCACCATGATGTGCCCTGTGGGCACCTTATGTTCTACTC
586 TGCATTATATGTTTCAGTTAAGATTGGCACCATGATGTGCCCTGTGCGCACCTTATGTTCTACTC
* *
239841 ACATACGTTGCATTCCCATAAATATGTATTGGCCTATGAATTCG
651 ACATACATTGCATTCCCATAAATATGAATTGGCCTATGAATTCG
*
239885 AAAATTCACTATAAATTGTATATGATGAACCAGGAAAA-GTTCCTTATATAGTTAGATTCATATT
1 AAAATTCACTATAAATTGTATAAGATGAACCA-GAAAAGGTTCCTTATATAGTTAGATTCATATT
* * *
239949 TGAGTATAATTTCTAGTGGTATAAACATAATAATTTTTAAGTGTATAGATTAATACAGAATAATA
65 CGAGTATAATTTCTAGTGGCATAAACAGAATAATTTTTAAGTGTATAGATTAATACAGAATAATA
* * * * *
240014 TTTCTTTGCATGTAGTGCATATTGCCATCATATAAAACTTGTCATAAATTATGTTTTCATGTTGC
130 TTTCTTTGCAAGTAGTGCATAATGCCAACATATAAAACTTGTCATAAATTATGTTTTCATATTAC
*
240079 TCCTATGTTATAGGTTATTATAAATGCTCAAAATAAGTCAACTTTATTACAATTGGTATGATAGT
195 TCCTATGTTATAGGTTATTATAAATGCTCAAAATAAGTCAAATTTATTAC-------A--ATAGT
*
240144 TATGATATTTATTACATGATGAATATGATGTTTATATGTTAAAGAAAGATAACTGACGGTGATTA
251 TATGATATTTATTACATGATGAATATGATGTTTATATGTTAAAGAAAGATAACTGACGATGATTA
240209 CGATATATAAATGTTATATAGAAATGAAATGTTTAGAGTATGAACTACCCATTATGTTATGATAT
316 CGATATATAAATGTTATATAGAAATGAAATGTTTAGAGTATGAACTACCCATTATGTTATGATAT
*
240274 GAATAGTTGGATATGTTGATATATTGATATCTTTGATAATTGAATAATATATAAATAATTAATGG
381 GAAGAGTTGGATATGTTGATATATTGATATCTTTGATAATTGAATAATATAT-AATAATTAATGG
* * *
240339 AAAAGCCCATTGTATGTTGTATTGAGAGTCATAGGTACATTTGACATGCCATTAAATTGAGTACT
445 AAAAACCCATTGTATATTGCATTGAGAGTCATAGGTACATTTGACATGCCATTAAATTGAGTACT
* * * * **
240404 TTCCAGTTAATTTATGGTATATTTGTGTACATTATGATCTGCATTGTTGGTA-CTCATGTTATGA
510 TTCCAGTTAAGTTATAGTACATTCGTGTACATTATGATCTGCATCATTGG-AGCTCATGTTATGA
** * *
240468 TTGCACTTGGAATGCATTATATGTTTCAGTTAAGATTGGCACTGTGGTGTGCCCTGTTCGCACCT
574 TTGCACTTGGAATGCATTATATGTTTCAGTTAAGATTGGCACCATGATGTGCCCTGTGCGCACCT
* * * *
240533 TATGTTCTACTCACGTACATTGCATTCTCATAAATATGAATTGGGCTATGAATTTG
639 TATGTTCTACTCACATACATTGCATTCCCATAAATATGAATTGGCCTATGAATTCG
240589 AAAAT
1 AAAAT
240594 AAGATATGAA
Statistics
Matches: 629, Mismatches: 68, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
694 212 0.34
695 5 0.01
701 1 0.00
703 175 0.28
704 235 0.37
705 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (694 bp):
AAAATTCACTATAAATTGTATAAGATGAACCAGAAAAGGTTCCTTATATAGTTAGATTCATATTC
GAGTATAATTTCTAGTGGCATAAACAGAATAATTTTTAAGTGTATAGATTAATACAGAATAATAT
TTCTTTGCAAGTAGTGCATAATGCCAACATATAAAACTTGTCATAAATTATGTTTTCATATTACT
CCTATGTTATAGGTTATTATAAATGCTCAAAATAAGTCAAATTTATTACAATAGTTATGATATTT
ATTACATGATGAATATGATGTTTATATGTTAAAGAAAGATAACTGACGATGATTACGATATATAA
ATGTTATATAGAAATGAAATGTTTAGAGTATGAACTACCCATTATGTTATGATATGAAGAGTTGG
ATATGTTGATATATTGATATCTTTGATAATTGAATAATATATAATAATTAATGGAAAAACCCATT
GTATATTGCATTGAGAGTCATAGGTACATTTGACATGCCATTAAATTGAGTACTTTCCAGTTAAG
TTATAGTACATTCGTGTACATTATGATCTGCATCATTGGAGCTCATGTTATGATTGCACTTGGAA
TGCATTATATGTTTCAGTTAAGATTGGCACCATGATGTGCCCTGTGCGCACCTTATGTTCTACTC
ACATACATTGCATTCCCATAAATATGAATTGGCCTATGAATTCG
Found at i:240603 original size:19 final size:19
Alignment explanation
Indices: 240577--240671 Score: 127
Period size: 19 Copynumber: 5.0 Consensus size: 19
240567 TATGAATTGG
*
240577 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
240596 GATATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
*
240615 GCTATGAATCTGACAATAA
1 GCTATGAATCTGAAAATAA
*
240634 GCTATGAGTCTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
240653 GTTATGAATCTGGAAATAA
1 GCTATGAATCTGAAAATAA
240672 TTTCTGATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:240742 original size:12 final size:12
Alignment explanation
Indices: 240725--240758 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
240715 TATGAACGTG
240725 GAATATGAAAAT
1 GAATATGAAAAT
**
240737 GAATATGTGAAT
1 GAATATGAAAAT
240749 GAATATGAAA
1 GAATATGAAA
240759 GTGGAAAATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (12 bp):
GAATATGAAAAT
Found at i:242204 original size:44 final size:44
Alignment explanation
Indices: 242109--242196 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
242099 TCCCTAGTTT
242109 GATTCCTTTAGACAACCTTTATTGTTCATTTCTTAATAATTTGA
1 GATTCCTTTAGACAACCTTTATTGTTCATTTCTTAATAATTTGA
**
242153 GATTCCTTTAGACCCCCTTTATTGTTCATTTCTTAATAATTTGA
1 GATTCCTTTAGACAACCTTTATTGTTCATTTCTTAATAATTTGA
242197 TTTTCCTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (44 bp):
GATTCCTTTAGACAACCTTTATTGTTCATTTCTTAATAATTTGA
Found at i:246995 original size:13 final size:13
Alignment explanation
Indices: 246977--247002 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
246967 AACTAAATTC
246977 GAATTAGATCGGA
1 GAATTAGATCGGA
246990 GAATTAGATCGGA
1 GAATTAGATCGGA
247003 TCTGGCCCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
GAATTAGATCGGA
Found at i:248085 original size:18 final size:18
Alignment explanation
Indices: 248062--248098 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
248052 ATGTTGCATT
248062 GATACGGATACGGGGACG
1 GATACGGATACGGGGACG
248080 GATACGGATACGGGGACG
1 GATACGGATACGGGGACG
248098 G
1 G
248099 GGACGGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.46, T:0.11
Consensus pattern (18 bp):
GATACGGATACGGGGACG
Found at i:248104 original size:18 final size:18
Alignment explanation
Indices: 248065--248104 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
248055 TTGCATTGAT
*
248065 ACGGATACGGGGACGGAT
1 ACGGATACGGGGACGGAG
*
248083 ACGGATACGGGGACGGGG
1 ACGGATACGGGGACGGAG
248101 ACGG
1 ACGG
248105 GAAACGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.50, T:0.07
Consensus pattern (18 bp):
ACGGATACGGGGACGGAG
Found at i:248187 original size:2 final size:2
Alignment explanation
Indices: 248175--248213 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
248165 ATTTTAAAAT
*
248175 TA TA AA 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
248214 CATAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:248365 original size:11 final size:12
Alignment explanation
Indices: 248338--248366 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
248328 TAACTCTAAA
248338 ATAATAAAATCC
1 ATAATAAAATCC
248350 ATAATAAAAT-C
1 ATAATAAAATCC
248361 ATAATA
1 ATAATA
248367 TTAAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAAATCC
Found at i:248367 original size:75 final size:75
Alignment explanation
Indices: 248234--248418 Score: 214
Period size: 75 Copynumber: 2.5 Consensus size: 75
248224 GTTAAAGATC
* * * * * *
248234 AAGACTCAAACAATAATATTAAGTTTAGAACATTAAAATCCATAAACAAACCACAATATTAAAAT
1 AAGACTAAAACCATAATATTAACTCTAGAAAAATAAAATCCATAAACAAACCACAATATTAAAAT
248299 GTCAAAT-TT
66 GTCAAATCTT
* * *
248308 CAAGATTAAAACCATAATATTAACTCTA-AAATAATAAAATCCATAATA-AAATCATAATATTAA
1 -AAGACTAAAACCATAATATTAACTCTAGAAA-AATAAAATCCATAA-ACAAACCACAATATTAA
*
248371 AGTGTCAAATCTT
63 AATGTCAAATCTT
* *
248384 AAGACTCAAACCATAATATTAAGTCTAGAAAAATA
1 AAGACTAAAACCATAATATTAACTCTAGAAAAATA
248419 TTAAACCCAA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
74 2 0.02
75 85 0.91
76 6 0.06
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (75 bp):
AAGACTAAAACCATAATATTAACTCTAGAAAAATAAAATCCATAAACAAACCACAATATTAAAAT
GTCAAATCTT
Found at i:255525 original size:15 final size:14
Alignment explanation
Indices: 255468--255526 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
255458 GTTTTTTCTC
255468 TAAAATAAAAT-AT
1 TAAAATAAAATAAT
*
255481 TAAAAGTAAAATACT
1 TAAAA-TAAAATAAT
* * *
255496 CAAAAAAAAAGAAT
1 TAAAATAAAATAAT
255510 TAATAATAAAATAAT
1 TAA-AATAAAATAAT
255525 TA
1 TA
255527 TTTAATTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 5 0.14
14 14 0.40
15 16 0.46
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (14 bp):
TAAAATAAAATAAT
Found at i:260672 original size:16 final size:16
Alignment explanation
Indices: 260651--260684 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
260641 TCATTTTGAG
*
260651 TTATGTGTTAATCATT
1 TTATGTCTTAATCATT
*
260667 TTATGTCTTAATTATT
1 TTATGTCTTAATCATT
260683 TT
1 TT
260685 CTTAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (16 bp):
TTATGTCTTAATCATT
Found at i:270769 original size:40 final size:39
Alignment explanation
Indices: 270713--270788 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
270703 AGATGAACCC
270713 TTCAGCTAGCCTGATAAAGGCAAATTACAATAAAGTTGAT
1 TTCAGCTAGCCTGATAAAGGCAAATTA-AATAAAGTTGAT
* *
270753 TTCAGCTAG-CTCGATAATGGCAAATTAAATCAAGTT
1 TTCAGCTAGCCT-GATAAAGGCAAATTAAATAAAGTT
270789 TATCTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 10 0.30
40 23 0.70
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (39 bp):
TTCAGCTAGCCTGATAAAGGCAAATTAAATAAAGTTGAT
Found at i:271984 original size:125 final size:124
Alignment explanation
Indices: 271688--271991 Score: 457
Period size: 124 Copynumber: 2.4 Consensus size: 124
271678 AAGTTGTGAT
* * * * * * *
271688 ATGTTGGGGCGCGACTGAACCCACATCATGTTGAGAAGACAAGATTCAGACCAAGGATGTATTAA
1 ATGTTGGGGCGAGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATAAA
* * *
271753 GAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTTGATGCCCGTACCAGTATAAGATA
66 GAATGAGCCTCACAATTTGAGGTGATGGGGCATTTTGAGGCCCGTACCAGTATAAGATA
271812 ATGTTGGGGC-ATGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATAA
1 ATGTTGGGGCGA-GACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATAA
* *
271876 AGAATGAGCCTCACAATTTGAGGTGATGGGGCATTTTGAAGGCCCTTACCAGTGTAAGATA
65 AGAATGAGCCTCACAATTTGAGGTGATGGGGCATTTTG-AGGCCCGTACCAGTATAAGATA
**
271937 ATGTTGGGGCGAGACCAAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAG
1 ATGTTGGGGCGAGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAG
271992 AAATTATTGA
Statistics
Matches: 163, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
124 92 0.56
125 70 0.43
126 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (124 bp):
ATGTTGGGGCGAGACTGAACCCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATAAA
GAATGAGCCTCACAATTTGAGGTGATGGGGCATTTTGAGGCCCGTACCAGTATAAGATA
Found at i:272871 original size:36 final size:36
Alignment explanation
Indices: 272716--272870 Score: 240
Period size: 36 Copynumber: 4.3 Consensus size: 36
272706 AGTCAATCCT
272716 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* *
272752 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
272788 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * *
272824 AAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
272860 AAGTCTTCACC
1 AAGCCTTCACC
272871 AAAAAGTAGT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
35 1 0.01
36 108 0.98
37 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:272879 original size:36 final size:36
Alignment explanation
Indices: 272716--272904 Score: 186
Period size: 36 Copynumber: 5.2 Consensus size: 36
272706 AGTCAATCCT
* *
272716 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTG
* * * *
272752 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTG
* *
272788 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATC-TG
* * *
272824 AAGTCTTCACC-AGAGAGTAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGA-AAAATAGTGAAGCAAACCATCTG
* * * *
272860 AAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTTT
1 AAGCCTTCACCGAAAAA-TAGTGAAGCA-AACCATCTG
272897 AAGCCTTC
1 AAGCCTTC
272905 TCAGAAGAGT
Statistics
Matches: 135, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
35 3 0.02
36 118 0.87
37 14 0.10
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (36 bp):
AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTG
Found at i:272881 original size:72 final size:72
Alignment explanation
Indices: 272716--272904 Score: 220
Period size: 72 Copynumber: 2.6 Consensus size: 72
272706 AGTCAATCCT
* * * *
272716 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAT
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
272781 CAATCTG
66 CAATCTG
* * * *
272788 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-AAGTCTTCACCAGAGAGTAGTGAAGCAA
1 AAGCCTTCACCGAAAAATAGTGAAGCAAACCATC-TGAAGCCTTCACCAGAGAATAGTGAAGCAA
*
272852 ACCATCTG
65 ACAATCTG
* * * *
272860 AAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTTTAAGCCTTC
1 AAGCCTTCACCGAAAAA-TAGTGAAGCA-AACCATCTGAAGCCTTC
272905 TCAGAAGAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
71 3 0.03
72 86 0.84
73 13 0.13
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (72 bp):
AAGCCTTCACCGAAAAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
CAATCTG
Found at i:273401 original size:51 final size:52
Alignment explanation
Indices: 273284--273631 Score: 350
Period size: 51 Copynumber: 6.6 Consensus size: 52
273274 TGAAGATATA
* * *
273284 CGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATG-T
1 CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTGAAGAGATGTT
*
273336 CTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TGAAGAGATGTT
1 C-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTGAAGAGATGTT
* * *
273388 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCACTTGAAGATTAT-TT
1 CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCC-GTTGAAGA-GATGTT
* * *
273441 -GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTG-A-AGATCTT
1 CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTGAAGAGATGTT
* ** *
273491 CGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATT
1 CGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTGAAG-AGAT-GTT
* * * *
273546 CGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTT
1 CGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGT-TGAAG-AGATGTT
* * *
273601 CGAGTTCCATAATCCCTAGAGAAATAGGGAG
1 CGAGTTCTATACTCCCTAGAGAAAGAGGGAG
273632 TAGACGCAAT
Statistics
Matches: 249, Mismatches: 31, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
49 2 0.01
50 4 0.02
51 82 0.33
52 41 0.16
53 42 0.17
54 18 0.07
55 35 0.14
56 25 0.10
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (52 bp):
CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTGAAGAGATGTT
Found at i:273493 original size:103 final size:101
Alignment explanation
Indices: 273274--273583 Score: 370
Period size: 103 Copynumber: 3.0 Consensus size: 101
273264 GTGAAGCAAA
* * * * *
273274 TGAAGATATACGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTCT
1 TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATCAT-T-T
273338 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG
64 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG
* * *
273376 TGAAGAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCACTTGAAGATTATTT
1 TG-A-AGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATCATTT
*
273441 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCG
64 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG
* * * *
273479 TTTGAAGATCTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCA
1 --TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-ATTT--GAAGATCA
* * * *
273544 TTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACC
61 TTTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACC
273584 TGTAAGAAGA
Statistics
Matches: 180, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
102 2 0.01
103 81 0.45
104 52 0.29
105 4 0.02
106 23 0.13
107 18 0.10
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (101 bp):
TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATCATTTGA
GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG
Found at i:273702 original size:53 final size:54
Alignment explanation
Indices: 273620--273899 Score: 264
Period size: 55 Copynumber: 5.2 Consensus size: 54
273610 TAATCCCTAG
* * * * * *
273620 AGAAATAGGGAGTAGACGCAATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTCGAGTCTTATACTCTCTGA
* * * *
273673 AGATATAGGGGGGAGACACGATAGTTGAAGATTTTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACACGATTGTTGAAGA-TTGTCGAGTCTTATACTCTCTGA
* * *
273728 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGT-GAGTCTTATACTCTCTGG
1 AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTCGAGTCTTATACTCTCTGA
* * * *
273781 AGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGGGCAGACACGATTGTTGAAGATTG-TCGAGTCTTATACTCTCTGA
* * * * * *
273836 AGGAATAAGGAGCAGACACG-TT-TTCAAAAGATTTTCGAGT-TCTATACTCCCTGA
1 AGAAATAGGGGGCAGACACGATTGTT--GAAGATTGTCGAGTCT-TATACTCTCTGA
*
273890 AGAAAGAGGG
1 AGAAATAGGG
273900 AGCGAACCCG
Statistics
Matches: 187, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
53 74 0.40
54 32 0.17
55 81 0.43
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (54 bp):
AGAAATAGGGGGCAGACACGATTGTTGAAGATTGTCGAGTCTTATACTCTCTGA
Found at i:273734 original size:108 final size:108
Alignment explanation
Indices: 273620--273852 Score: 340
Period size: 108 Copynumber: 2.2 Consensus size: 108
273610 TAATCCCTAG
* * * *
273620 AGAAATAGGGAGTAGACGCAATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGATATAGGGGG
1 AGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
* *
273685 GAGACACGATAGTTGAAGATTTTTCGAGTCTTATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* * *
273728 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGGAGAAATAGGGAG
1 AGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
* * *
273793 TAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* *
273836 AGGAATAAGGAGCAGAC
1 AGAAATAGGGAGCAGAC
273853 ACGTTTTCAA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (108 bp):
AGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
Found at i:273867 original size:108 final size:108
Alignment explanation
Indices: 273620--273901 Score: 298
Period size: 108 Copynumber: 2.6 Consensus size: 108
273610 TAATCCCTAG
* * * * * * * * *
273620 AGAAATAGGGAGTAGACGCAATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGATATAGGGGG
1 AGAAATAAGGAGCAGACACGATTCATAAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
* *
273685 GAGACACGATAGTTGAAGATTTTTCGAGTCTTATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* * * * * *
273728 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGGAGAAATAGGGAG
1 AGAAATAAGGAGCAGACACGATTCATAAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
* * *
273793 TAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
66 GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
* * * * *
273836 AGGAATAAGGAGCAGACACGTTTTCA-AAAGATTTTCGAGT-TCTATACTCCCTGAAGAAAGAGG
1 AGAAATAAGGAGCAGACACG-ATTCATAAAGATTGT-GAGTCT-TATACTCTCTGAAGAAATAGG
273899 GAG
63 GAG
273902 CGAACCCGTA
Statistics
Matches: 148, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
108 120 0.81
109 28 0.19
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (108 bp):
AGAAATAAGGAGCAGACACGATTCATAAAGATTGTGAGTCTTATACTCTCTGAAGAAATAGGGAG
GAGACACGATAGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
Found at i:280619 original size:91 final size:92
Alignment explanation
Indices: 280463--280637 Score: 280
Period size: 91 Copynumber: 1.9 Consensus size: 92
280453 GTGATAGGTC
*
280463 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAACT
*
280528 CTCCATTGAAAATGGTGATGCGAAGTT
66 CTCAATTGAAAATGGTGATGCGAAGTT
* * *
280555 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCGTT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAACT
* *
280619 CTCAATTGGAAATGTTGAT
66 CTCAATTGAAAATGGTGAT
280638 CCATCTCTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
91 41 0.54
92 35 0.46
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (92 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTCGGATGAGTTCTTCTCATTATGAACT
CTCAATTGAAAATGGTGATGCGAAGTT
Found at i:280867 original size:332 final size:331
Alignment explanation
Indices: 280222--280878 Score: 1045
Period size: 332 Copynumber: 2.0 Consensus size: 331
280212 CGTCGTTAGA
*
280222 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTGGATGAGTTCTTCTCTTTATGAACT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTGGATGAGTTCTTCTCATTATGAACT
*
280287 CTTCACTGAAAATGTTGAGTCACCTATTTCTGTGGTGGACTTGAAAGGAACAAGTTCTTCTCATT
66 CTTCACTGAAAATGTTGAGTCACCTATTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATT
* ** *
280352 ATGAACTTTCTCCTTTAAGACATGTTCTTCTCATTATGAACTCTTTTGGAAATGTCAATCCTTCT
131 ATGAACTTTCTCCTTTAAGACATGTTCTTCTCATTATGAACTCTTCTAAAAATGTCAATCCCTCT
280417 AACGAGACGTCACTGATTCGAAATATCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTA
196 AACGAGACGTCACTGATTCGAAATATCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTA
*
280482 TGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGAAAATGGTGAT
261 TGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGAAAATGGTGAT
280547 GCGAAG
326 GCGAAG
*
280553 TTGAACAAGTTCTTCTCATTATGAACTTTTTCT-TCCTCGTTGGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCT-CTCG-TGGATGAGTTCTTCTCATTATGAA
* * * *
280617 CTC-TCAATTGGAAATGTTGA-TCCATCTCTTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCT
64 CTCTTC-ACTGAAAATGTTGAGT-CACCTATTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCT
* *
280680 CATTATGAACTTTCTCCTTTAGGATGA-GTTCTTCTCATTATGAACTCTTCTAAAAATGTCAATC
127 CATTATGAACTTTCTCCTTTAAGA-CATGTTCTTCTCATTATGAACTCTTCTAAAAATGTCAATC
** *
280744 CCTC-AAGCGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGAACAAGCTCTTC
191 CCTCTAA-CGAGACGTCACTGATTCGAAATATCGTGAATCGAGTGATAGGTCGAACAAGCTCTTC
* *
280808 TCATTATGAACTTTTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
255 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGAAAAT
*
280873 GTTGAT
320 GGTGAT
280879 CTGTTTATCT
Statistics
Matches: 300, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
330 1 0.00
331 41 0.14
332 257 0.86
333 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (331 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTCGTGGATGAGTTCTTCTCATTATGAACT
CTTCACTGAAAATGTTGAGTCACCTATTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATT
ATGAACTTTCTCCTTTAAGACATGTTCTTCTCATTATGAACTCTTCTAAAAATGTCAATCCCTCT
AACGAGACGTCACTGATTCGAAATATCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTA
TGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGAAAATGGTGAT
GCGAAG
Found at i:281241 original size:76 final size:73
Alignment explanation
Indices: 281155--281307 Score: 207
Period size: 76 Copynumber: 2.1 Consensus size: 73
281145 TGTTTCGAAT
* **
281155 GAAAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGTGAGATTCAATTTC
1 GAAAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGGGAGA--CAAAAT-
281220 TTGTTTCAAGG
63 TTGTTTCAAGG
* * * **
281231 GAAAGTTGTCTCAAGCGAGACGAATTTGGTTTTAAGAAAAACCATCTCAAGGGAGACAAAATTTG
1 GAAAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGGGAGACAAAATTTG
281296 TTTCAAGG
66 TTTCAAGG
281304 GAAA
1 GAAA
281308 CTATCTCAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
73 15 0.22
74 4 0.06
76 50 0.72
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (73 bp):
GAAAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGGGAGACAAAATTTG
TTTCAAGG
Found at i:281281 original size:36 final size:36
Alignment explanation
Indices: 281239--281328 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
281229 GGGAAAGTTG
* *
281239 TCTCAAGCGAGAC-GAATTTGGTTTTAAGAAAAACCA
1 TCTCAAGCGAGACAAAATTT-GTTTCAAGAAAAACCA
* ** *
281275 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTA
1 TCTCAAGCGAGACAAAATTTGTTTCAAGAAAAACCA
*
281311 TCTCAAGCGAGATAAAAT
1 TCTCAAGCGAGACAAAAT
281329 CTTTTGTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
36 40 0.89
37 5 0.11
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTTGTTTCAAGAAAAACCA
Found at i:281367 original size:48 final size:48
Alignment explanation
Indices: 281295--281386 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
281285 GACAAAATTT
* * *
281295 GTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGG
1 GTTTCAAGGGAAACTATCTAAAGCGAGATAAAATATTCTGTTTCGAGG
*
281343 GTTTCGAGGGAAACTATCTAAAGCGAGATAAAATATTCTGTTTC
1 GTTTCAAGGGAAACTATCTAAAGCGAGATAAAATATTCTGTTTC
281387 AAGGAAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (48 bp):
GTTTCAAGGGAAACTATCTAAAGCGAGATAAAATATTCTGTTTCGAGG
Found at i:281512 original size:119 final size:120
Alignment explanation
Indices: 281367--281774 Score: 694
Period size: 119 Copynumber: 3.4 Consensus size: 120
281357 TATCTAAAGC
* *
281367 GAGATAAAATATTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTATGTTTCAAGGA
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGA
*
281432 AAAATAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGG-AAAACAATCTTGAAT
66 AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
281486 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAAACTTCTGTTTCAAGGA
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGA
*
281551 AAAACAATCTTGAATGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
66 AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* * *
281606 GAGATAAAATCTTCTGTTTCAAGG-AAAATAATCTTGAATGAGATAAAATCTTCTGTTACAAGGA
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGA
* *
281670 AAAACAATCTTGAGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
66 AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
281725 GAAATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAAATAAAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAAT
281775 GTCTTGTTTT
Statistics
Matches: 271, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
119 210 0.77
120 61 0.23
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (120 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGA
AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
Found at i:281718 original size:23 final size:23
Alignment explanation
Indices: 281692--281760 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
281682 AGCGAGATAA
281692 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
281715 AATC-T-TG-----AGTGAAATAA-
1 AATCTTCTGTTTCAAG-GAAA-AAC
281732 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
281755 AATCTT
1 AATCTT
281761 GAGTGAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 20
0.64 0.00 0.36
Matches are distributed among these distances:
16 2 0.06
17 8 0.22
18 3 0.08
19 2 0.06
21 2 0.06
22 3 0.08
23 14 0.39
24 2 0.06
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (23 bp):
AATCTTCTGTTTCAAGGAAAAAC
Found at i:281783 original size:40 final size:40
Alignment explanation
Indices: 281367--281774 Score: 685
Period size: 40 Copynumber: 10.2 Consensus size: 40
281357 TATCTAAAGC
*
281367 GAGATAAAATATTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
281407 GAGATAAAATCTTATGTTTCAAGGAAAAATAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
281447 GAGATAAAATCTTCTGTTTCAAGG-AAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
281486 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
281526 GAGATAAAAACTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
281566 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
281606 GAGATAAAATCTTCTGTTTCAAGG-AAAATAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
281645 GAGATAAAATCTTCTGTTACAAGGAAAAACAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
281685 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
281725 GAAATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
281765 GAAATAAAAT
1 GAGATAAAAT
281775 GTCTTGTTTT
Statistics
Matches: 348, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 74 0.21
40 274 0.79
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
Found at i:281783 original size:159 final size:159
Alignment explanation
Indices: 281364--281774 Score: 723
Period size: 159 Copynumber: 2.6 Consensus size: 159
281354 AACTATCTAA
* *
281364 AGCGAGATAAAATATTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTATGTTTCAA
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAA
*
281429 GGAAAAATAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAACAATCTTGAATGAGATAAA
66 GGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAACAATCTTGAATGAGATAAA
*
281494 ATCTTCTGTTTCAAGGAAAAACAATCTTG
131 ATCTTCTGTTACAAGGAAAAACAATCTTG
* * *
281523 AGTGAGATAAAAACTTCTGTTTCAAGGAAAAACAATCTTGAATGAGATAAAATCTTCTGTTTCAA
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAA
* *
281588 GGAAAAACAATCTTGAATGAGATAAAATCTTCTGTTTCAAGGAAAATAATCTTGAATGAGATAAA
66 GGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAACAATCTTGAATGAGATAAA
281653 ATCTTCTGTTACAAGGAAAAACAATCTTG
131 ATCTTCTGTTACAAGGAAAAACAATCTTG
*
281682 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAAATAAAATCTTCTGTTTCAA
1 AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAA
*
281747 GGAAAAACAATCTTGAGTGAAATAAAAT
66 GGAAAAACAATCTTGAGTGAGATAAAAT
281775 GTCTTGTTTT
Statistics
Matches: 237, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
159 237 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (159 bp):
AGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAA
GGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAACAATCTTGAATGAGATAAA
ATCTTCTGTTACAAGGAAAAACAATCTTG
Found at i:281851 original size:76 final size:76
Alignment explanation
Indices: 281748--281968 Score: 309
Period size: 76 Copynumber: 2.9 Consensus size: 76
281738 CTGTTTCAAG
* *
281748 GAAAAACAATCTTGAGTGAAATAAAATGTCTTGTTTTGAATAAAACATGTCTCCAACGATACAAA
1 GAAAAACAATCTTGAGTGAAATAAAATGTCTTGTTTTGAATAAAACATGTCTCCAGCGAGACAAA
*
281813 TCTTGTTTTGA
66 TCTTATTTTGA
* * * **
281824 GAAAAACAATCTTGAGTCAAATGAAATGTCTTCTTTTGAATAAAACATGTCTCCAGTAAGACAAA
1 GAAAAACAATCTTGAGTGAAATAAAATGTCTTGTTTTGAATAAAACATGTCTCCAGCGAGACAAA
281889 TCTTATTTTGA
66 TCTTATTTTGA
* * * * *
281900 -ATAAAACAATCTTCAATGAAATAAAATGTATTGTTTTAAATAAAACTTGTCTCCAGCGAGACAA
1 GA-AAAACAATCTTGAGTGAAATAAAATGTCTTGTTTTGAATAAAACATGTCTCCAGCGAGACAA
281964 ATCTT
65 ATCTT
281969 CCTTATTAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
75 1 0.01
76 125 0.99
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (76 bp):
GAAAAACAATCTTGAGTGAAATAAAATGTCTTGTTTTGAATAAAACATGTCTCCAGCGAGACAAA
TCTTATTTTGA
Found at i:282801 original size:20 final size:20
Alignment explanation
Indices: 282776--282821 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
282766 ATCGTAACAT
* *
282776 TGGTTCAGCACCATAATCGC
1 TGGTTCAACACCATAATCAC
282796 TGGTTCAACACCATAATCAC
1 TGGTTCAACACCATAATCAC
282816 TGGTTC
1 TGGTTC
282822 GTAAAGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
TGGTTCAACACCATAATCAC
Found at i:295211 original size:26 final size:27
Alignment explanation
Indices: 295181--295231 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
295171 AACTCAATCA
*
295181 AGAATTTAA-ATTTAATACAAATTAAT
1 AGAATTTAATATGTAATACAAATTAAT
*
295207 AGAATTTAATATGTAGTACAAATTA
1 AGAATTTAATATGTAATACAAATTA
295232 GGCGTGATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (27 bp):
AGAATTTAATATGTAATACAAATTAAT
Found at i:296647 original size:120 final size:121
Alignment explanation
Indices: 296414--296641 Score: 374
Period size: 120 Copynumber: 1.9 Consensus size: 121
296404 ACAATAGAGT
*
296414 TAGAACTCGTTATCTCGAGATGACGAGTTATAATAAAATATAATTTTTTTATTAAATTTTACCTC
1 TAGAACTCGTCATCTCGAGATGACGAGTTATAATAAAATATAA-TTTTTTATTAAATTTTACCTC
296479 ATCGAGGCAAAATGTTTAAATAAAAAAATATTTTTTATTGAAACTTCACAGTGGAGC
65 ATCGAGGCAAAATGTTTAAATAAAAAAATATTTTTTATTGAAACTTCACAGTGGAGC
*
296536 TAGAACTCGTCATCTCGAGGTGACGAGTT-TCAATAAAATATAA-TTTTTATTAAATTTTACCTC
1 TAGAACTCGTCATCTCGAGATGACGAGTTAT-AATAAAATATAATTTTTTATTAAATTTTACCTC
* *
296599 ATCGAGGTAAAATGTTTGAAT-AAAAAATA-TTTTTATTGAAACT
65 ATCGAGGCAAAATGTTTAAATAAAAAAATATTTTTTATTGAAACT
296642 CTTCACCTCG
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
118 14 0.14
119 8 0.08
120 39 0.39
121 1 0.01
122 39 0.39
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (121 bp):
TAGAACTCGTCATCTCGAGATGACGAGTTATAATAAAATATAATTTTTTATTAAATTTTACCTCA
TCGAGGCAAAATGTTTAAATAAAAAAATATTTTTTATTGAAACTTCACAGTGGAGC
Found at i:297054 original size:11 final size:11
Alignment explanation
Indices: 297025--297060 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
297015 TAATACTAAT
*
297025 TTAAATTTAAA
1 TTAATTTTAAA
297036 TT-ATTTTAAA
1 TTAATTTTAAA
297046 TTAATTTTAAA
1 TTAATTTTAAA
297057 TTAA
1 TTAA
297061 ATTGTCGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAATTTTAAA
Found at i:304633 original size:10 final size:10
Alignment explanation
Indices: 304618--304643 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
304608 AATTTTTAAT
304618 AAAATATTTA
1 AAAATATTTA
304628 AAAATATTTA
1 AAAATATTTA
304638 AAAATA
1 AAAATA
304644 ATATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATATTTA
Found at i:304637 original size:22 final size:22
Alignment explanation
Indices: 304607--304652 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
304597 AGTAAATTTT
* *
304607 AAATTTTTAATAA-AATATTTAA
1 AAATATTTAAAAATAATA-TTAA
304629 AAATATTTAAAAATAATATTAA
1 AAATATTTAAAAATAATATTAA
304651 AA
1 AA
304653 TTGCTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATATTTAAAAATAATATTAA
Found at i:305857 original size:27 final size:27
Alignment explanation
Indices: 305821--305877 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
305811 CTATTTTAAA
*
305821 TAAAATTTAAA-AATATTTTAATATTTT
1 TAAAAATTAAATAATATTTTAAT-TTTT
*
305848 TAAAAATTAAATAATATTTTCATTTTT
1 TAAAAATTAAATAATATTTTAATTTTT
305875 TAA
1 TAA
305878 TTTTTTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAAAATTAAATAATATTTTAATTTTT
Found at i:306638 original size:72 final size:72
Alignment explanation
Indices: 306521--306665 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
306511 GCAAACGAAA
* * *
306521 AGAATAGATGATTGTTCGATGATAATCCACGAAATTAATTTTTTTTGTTAATTATTCAAAGTATG
1 AGAATAGATGATTGTTCGATGATAATCCACAAAATTAATTTTTTTTGTTAACTATTCAAAATATG
306586 ACACGTG
66 ACACGTG
* * *
306593 AGAATAGATGATTGTTTGATGATAATCCGCAAAATTAATTTTTTTTGTTAACTATTTAAAATATG
1 AGAATAGATGATTGTTCGATGATAATCCACAAAATTAATTTTTTTTGTTAACTATTCAAAATATG
*
306658 AGACGTG
66 ACACGTG
306665 A
1 A
306666 TAGGCAAATG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (72 bp):
AGAATAGATGATTGTTCGATGATAATCCACAAAATTAATTTTTTTTGTTAACTATTCAAAATATG
ACACGTG
Found at i:306752 original size:83 final size:83
Alignment explanation
Indices: 306629--306799 Score: 227
Period size: 83 Copynumber: 2.1 Consensus size: 83
306619 CCGCAAAATT
* * * * ** *
306629 AATTTTTTTTGTTAACTATTTAAAATATGAGACGTGATAGGCAAATGACAAGAAATAGATGATTG
1 AATTATTTTTGTTAACTATTCAAAATATGACACGTAATAGGCAAACAACAAAAAATAGATGATTG
*
306694 CTCAGTT-ATAATCCACAA
66 CTC-GTTGATAACCCACAA
*
306712 AATTATTTTTGTTAACTATTCAAAATATGACACGTAATAGGCAAACAATAAAAAATAGATGATTG
1 AATTATTTTTGTTAACTATTCAAAATATGACACGTAATAGGCAAACAACAAAAAATAGATGATTG
* *
306777 TTCGTTGATAACCCACGA
66 CTCGTTGATAACCCACAA
306795 AATTA
1 AATTA
306800 AGGGTTTTAG
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
82 3 0.04
83 73 0.96
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (83 bp):
AATTATTTTTGTTAACTATTCAAAATATGACACGTAATAGGCAAACAACAAAAAATAGATGATTG
CTCGTTGATAACCCACAA
Found at i:309761 original size:6 final size:6
Alignment explanation
Indices: 309750--309780 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
309740 TATACAGTGC
309750 ATCATA ATCATA ATCATA ATCATA ACTCATA
1 ATCATA ATCATA ATCATA ATCATA A-TCATA
309781 GATATTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCATA
Found at i:314358 original size:20 final size:19
Alignment explanation
Indices: 314299--314359 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
314289 TCTCTATCGC
*
314299 ACATATAAATATCAATATT
1 ACATATAAATATCGATATT
* * * *
314318 ATATAAATAATATTGAAATT
1 ACATATA-AATATCGATATT
314338 ACATGATAAATATCGATATT
1 ACAT-ATAAATATCGATATT
314358 AC
1 AC
314360 CTTCTAAAAG
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
19 5 0.16
20 24 0.77
21 2 0.06
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (19 bp):
ACATATAAATATCGATATT
Found at i:324163 original size:24 final size:24
Alignment explanation
Indices: 324131--324179 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
324121 ATTAGCAAAT
*
324131 TTCACTTTTTATTCTCTCAGTTTC
1 TTCACTTTTTATTCTCTCAATTTC
*
324155 TTCATTTTTTATTCTCTCAATTTC
1 TTCACTTTTTATTCTCTCAATTTC
324179 T
1 T
324180 CAGATTATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.22, G:0.02, T:0.61
Consensus pattern (24 bp):
TTCACTTTTTATTCTCTCAATTTC
Found at i:328926 original size:55 final size:55
Alignment explanation
Indices: 328708--328972 Score: 182
Period size: 55 Copynumber: 4.8 Consensus size: 55
328698 CTGGGGTAAG
* * * * * *
328708 TAAGACTTGAAAAATCTTC-GGATAACATGTCTTCTCCCTATTCTTTCAGAGAGTA
1 TAAGACTCGAACAATCTTCAGCA-AACGTGTCTGCTCCCTATTCTTTCAGGGAGTA
* * * * * * * * * *
328763 TATGACTTGATCAATCTTCAATC-AGCGGGT-TCACTCCCTATTTTTTCAGGGTGCA
1 TAAGACTCGAACAATCTTC-AGCAAACGTGTCT-GCTCCCTATTCTTTCAGGGAGTA
* * * * * *
328818 T-GGAACTCGCACAATCTTCAACAAACGTCTATGCTCTCTATTCTTTCAGGGAGTA
1 TAAG-ACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTA
328873 TAAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTA
1 TAAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTA
* * * * * *
328928 T-AGAACTC-AAGAAATCTTCTGAAAATGGGTTTGCTCCCTATTCTT
1 TAAG-ACTCGAA-CAATCTTCAGCAAACGTGTCTGCTCCCTATTCTT
328973 CTGAGAAGTC
Statistics
Matches: 163, Mismatches: 38, Indels: 18
0.74 0.17 0.08
Matches are distributed among these distances:
54 8 0.05
55 153 0.94
56 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (55 bp):
TAAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTA
Found at i:329131 original size:42 final size:42
Alignment explanation
Indices: 329018--329139 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
329008 TCTTGGTGCA
* * *
329018 AAACATCATGCCCGAAGGTCTTA-TGGATGACCCGAAGGATTT
1 AAACATCATGCTCGAAAGACTTACT-GATGACCCGAAGGATTT
** * * * ** *
329060 -ATTATCTTGCTCGAGAGACTCACAAATGACCTGAAGGATTT
1 AAACATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTT
329101 AAACATCATGCTCGAAAGACTTACTGATGACCCGAAGGA
1 AAACATCATGCTCGAAAGACTTACTGATGACCCGAAGGA
329140 CTTATAAATT
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
41 29 0.49
42 30 0.51
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
AAACATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTT
Found at i:329195 original size:21 final size:21
Alignment explanation
Indices: 329155--329196 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
329145 AAATTGTGAA
*
329155 ATTTTTAAAATTGCATTCTTC
1 ATTTTTAAAATTCCATTCTTC
329176 ATTTTCTAAAATTCCA-TCTTC
1 ATTTT-TAAAATTCCATTCTTC
329197 TTAAAACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTTTTAAAATTCCATTCTTC
Found at i:329661 original size:172 final size:172
Alignment explanation
Indices: 329104--329657 Score: 903
Period size: 172 Copynumber: 3.2 Consensus size: 172
329094 AGGATTTAAA
* * * * * *
329104 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATAAATTGTGAAATTTTTAAAATTGC
1 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGC
* * * *
329169 ATTCTTCATTTTCTAAAATTCCATCTTCTTAAAACATCATTTTTTCTATTTTCAAATTCATTTGA
66 ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTC-ATTTCCAAATTCATATGA
* *
329234 AAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
129 AAACATCCTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTAT
329278 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGC
1 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGC
*
329343 ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATGTGAAA
66 ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATATGAAA
**
329408 ACATCCTACCTGAAGGTTTTATGGATGGCATGAAGGACTTAT
131 ACATCCTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTAT
*
329450 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTATAAATTGTGAAATTTTGAAAATCGC
1 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGC
*
329515 ATTCTTCGTTTTCAAAAAATT-CATCTTCTTAAAATATCATTTTTCATTTCCAAATTCATATGAA
66 ATTCTTCGTTTTC-AAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATATGAA
329579 AACATCCTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTAT
130 AACATCCTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTAT
* *
329622 CATCTTGCTCTGAAGGCTTACAGACGACCCGAAGGA
1 CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGA
329658 TTTAAGCATC
Statistics
Matches: 358, Mismatches: 21, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
172 249 0.70
173 13 0.04
174 96 0.27
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (172 bp):
CATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGC
ATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATATGAAA
ACATCCTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTAT
Found at i:329673 original size:42 final size:42
Alignment explanation
Indices: 329608--329725 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
329598 TTATGGATGG
* * *
329608 CCCGAAGGACTT-ATCATCTTGCTCTG-AAGGCTTACAGACGA
1 CCCGAAGGATTTAAGCATCATGCTC-GAAAGGCTTACAGACGA
*
329649 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAGATGA
1 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAGACGA
* *
329691 CCCAAAGGATTTAAGCATCATGCTCGAAAGACTTA
1 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTA
329726 TTGATGGCCC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 12 0.17
42 57 0.83
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (42 bp):
CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAGACGA
Found at i:329741 original size:42 final size:42
Alignment explanation
Indices: 329603--329741 Score: 156
Period size: 42 Copynumber: 3.3 Consensus size: 42
329593 AGGTTTTATG
* * * * *
329603 GATGGCCCGAAGGACTT-ATCATCTTGCTCTG-AAGGCTTACA
1 GATGACCCGAAGGATTTAAGCATCATGCTC-GAAAGACTTACA
* *
329644 GACGACCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACA
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACA
* **
329686 GATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTATT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACA
*
329728 GATGGCCCGAAGGA
1 GATGACCCGAAGGA
329742 CTTATAAATT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
41 15 0.18
42 69 0.82
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACA
Found at i:329930 original size:42 final size:41
Alignment explanation
Indices: 329868--329961 Score: 107
Period size: 42 Copynumber: 2.3 Consensus size: 41
329858 TGGATGGCCC
* * *
329868 GAAGGACTTATCATCTTGCTCTAAAGGCTTACTGATGACCT
1 GAAGGACTTATCATCATGCTCGAAAGACTTACTGATGACCT
* * * *
329909 GAAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCC
1 GAAGGACTT-ATCATCATGCTCGAAAGACTTACTGATGACCT
*
329951 GAATGACTTAT
1 GAAGGACTTAT
329962 AAACTATGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
41 10 0.23
42 33 0.77
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (41 bp):
GAAGGACTTATCATCATGCTCGAAAGACTTACTGATGACCT
Found at i:329932 original size:257 final size:256
Alignment explanation
Indices: 329472--329940 Score: 771
Period size: 257 Copynumber: 1.8 Consensus size: 256
329462 AAGGCTTACA
* * *
329472 GATGACCCGAAGGATTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAAATTC
1 GATGACCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCACATTCTTCGTTTTCAAAAAATTC
* * *
329537 ATCTTCTTAAAATATCATTTTTCATTTCCAAATTCATATGAAAACATCCTACCTGAAGGTTTTAT
66 ATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATATGAAAACATCCTACCCGAAGGTCTTAT
*
329602 GGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGACGACCCGAAGGATTTAAGCAT
131 GGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGACGACCCGAAGGATTTAAGCAT
*
329667 CATGCTCGAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTATT
196 CATGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTATT
*
329728 GATGGCCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCACATTCTTCGTTTT-AAAAAATTC
1 GATGACCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCACATTCTTCGTTTTCAAAAAATT-
*
329792 CATCTTCTTAAAACATCATTTTTTCA-TTCTCAAATTCATTTGAAAACATCCTACCCGAAGGTCT
65 CATCTTCTTAAAACATCA-TTTTTCATTTC-CAAATTCATATGAAAACATCCTACCCGAAGGTCT
* * * *
329856 TATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACTGATGACCTGAAGGATTTAAT
128 TATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGACGACCCGAAGGATTTAAG
329921 CATCATGCTCGAAAGACTTA
193 CATCATGCTCGAAAGACTTA
329941 TTGATGGCCC
Statistics
Matches: 196, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
255 8 0.04
256 71 0.36
257 117 0.60
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (256 bp):
GATGACCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCACATTCTTCGTTTTCAAAAAATTC
ATCTTCTTAAAACATCATTTTTCATTTCCAAATTCATATGAAAACATCCTACCCGAAGGTCTTAT
GGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGACGACCCGAAGGATTTAAGCAT
CATGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTATT
Found at i:330117 original size:34 final size:34
Alignment explanation
Indices: 330079--330211 Score: 178
Period size: 34 Copynumber: 3.9 Consensus size: 34
330069 ATGGATTTGT
* *
330079 TTCACTAGTCTTTGGTGAAGGCTTAAGATGGTGC
1 TTCACTACTCTCTGGTGAAGGCTTAAGATGGTGC
*
330113 TTCACTACTCCTCT-GTGAAGGCTTAAGATAGTGC
1 TTCACTACT-CTCTGGTGAAGGCTTAAGATGGTGC
330147 TTCACTACTCTCTGGTGAAGGCTTAAGATGGTTTGC
1 TTCACTACTCTCTGGTGAAGGCTTAAGATGG--TGC
* * *
330183 TTCACTCCTCTTTGGTGAATGCTTAAGAT
1 TTCACTACTCTCTGGTGAAGGCTTAAGAT
330212 TGACTTTACC
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 4 0.05
34 52 0.59
35 3 0.03
36 29 0.33
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (34 bp):
TTCACTACTCTCTGGTGAAGGCTTAAGATGGTGC
Found at i:336198 original size:6 final size:6
Alignment explanation
Indices: 336187--336251 Score: 130
Period size: 6 Copynumber: 10.8 Consensus size: 6
336177 TAAAAATAAG
336187 AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA
1 AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA AATGCA
336235 AATGCA AATGCA AATGC
1 AATGCA AATGCA AATGC
336252 GAGGTGTTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
AATGCA
Found at i:346156 original size:3 final size:3
Alignment explanation
Indices: 346148--346174 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
346138 TGATTCTTCC
346148 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
346175 TCCCTGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:347278 original size:21 final size:21
Alignment explanation
Indices: 347252--347300 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
347242 AACACTCACA
347252 CAAACAACTTTTATTGAAACT
1 CAAACAACTTTTATTGAAACT
347273 CAAACAACTTTTATTGAAACT
1 CAAACAACTTTTATTGAAACT
347294 CAAACAA
1 CAAACAA
347301 ATATTACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (21 bp):
CAAACAACTTTTATTGAAACT
Found at i:347279 original size:25 final size:24
Alignment explanation
Indices: 347245--347301 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 24
347235 GAAATAAAAC
347245 ACTCACACAAACAACTTTTATTGAA
1 ACTCA-ACAAACAACTTTTATTGAA
347270 ACT---CAAACAACTTTTATTGAA
1 ACTCAACAAACAACTTTTATTGAA
347291 ACTCAAACAAA
1 ACTC-AACAAA
347302 TATTACAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 21 0.75
25 7 0.25
ACGTcount: A:0.47, C:0.23, G:0.04, T:0.26
Consensus pattern (24 bp):
ACTCAACAAACAACTTTTATTGAA
Found at i:350936 original size:15 final size:15
Alignment explanation
Indices: 350916--350945 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
350906 CTTTCTCATA
350916 GTTGTTGTTGGAATT
1 GTTGTTGTTGGAATT
*
350931 GTTGTTGTTGTAATT
1 GTTGTTGTTGGAATT
350946 CTAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
GTTGTTGTTGGAATT
Found at i:352322 original size:45 final size:45
Alignment explanation
Indices: 352255--352344 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
352245 CAATGACATC
* *
352255 AATTTAGTTTGGGTTTGGGTTTAGGCTCCCATGATGGATAAAGTT
1 AATTTAGTTTGGGTTTGAGTTTAGACTCCCATGATGGATAAAGTT
* *
352300 AATTTAGTTTGGGTTTGAGTTTAGACTCTCATGATGGATCAAGTT
1 AATTTAGTTTGGGTTTGAGTTTAGACTCCCATGATGGATAAAGTT
352345 TATGATCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (45 bp):
AATTTAGTTTGGGTTTGAGTTTAGACTCCCATGATGGATAAAGTT
Found at i:356143 original size:15 final size:15
Alignment explanation
Indices: 356123--356152 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
356113 AAAAGAAAGC
356123 TAAAACCTGGCACAA
1 TAAAACCTGGCACAA
356138 TAAAACCTGGCACAA
1 TAAAACCTGGCACAA
356153 ATGCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
TAAAACCTGGCACAA
Found at i:360377 original size:17 final size:19
Alignment explanation
Indices: 360355--360389 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
360345 TTAGTGTAAA
360355 TGTTTTA-TTTAT-TTTTT
1 TGTTTTAGTTTATATTTTT
360372 TGTTTTAGTTTATATTTT
1 TGTTTTAGTTTATATTTT
360390 AATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (19 bp):
TGTTTTAGTTTATATTTTT
Found at i:362391 original size:44 final size:44
Alignment explanation
Indices: 362331--362499 Score: 248
Period size: 44 Copynumber: 3.8 Consensus size: 44
362321 AATAGACTTA
362331 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
* *
362375 TTTTTATTTATTTTGTTTCTTAACGTTTTTATTTAATTATGGATT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGA-C
* * * *
362420 TTTTTATTATTATTTTGTTTTTTTAATATTTTTATTTAATAATGAAC
1 TTTTTA-T-TTATTTTG-TTTCTTAATGTTTTTATTTAATTATGGAC
362467 TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
362500 ATTTAATTGT
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
44 58 0.52
45 14 0.13
46 2 0.02
47 14 0.13
48 23 0.21
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (44 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
Found at i:362406 original size:25 final size:25
Alignment explanation
Indices: 362331--362409 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
362321 AATAGACTTA
*
362331 TTTTTATTTATTTTGTTTCTTAATG
1 TTTTTATTTATTTTGTTTCTTAACG
* *
362356 TTTTTATTTAATTATG------GAC-
1 TTTTTATTT-ATTTTGTTTCTTAACG
362375 TTTTTATTTATTTTGTTTCTTAACG
1 TTTTTATTTATTTTGTTTCTTAACG
362400 TTTTTATTTA
1 TTTTTATTTA
362410 ATTATGGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
20 1 0.02
24 2 0.05
25 19 0.46
26 5 0.12
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (25 bp):
TTTTTATTTATTTTGTTTCTTAACG
Found at i:362484 original size:92 final size:89
Alignment explanation
Indices: 362331--362499 Score: 266
Period size: 92 Copynumber: 1.9 Consensus size: 89
362321 AATAGACTTA
* * *
362331 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGACTTTTTATTTATTTTGTTTCTT
1 TTTTTATTTATTTTGTTTCTTAATATTTTTATTTAATAATGAACTTTTTATTTATTTTGTTTCTT
362396 AACGTTTTTATTTAATTATGGATT
66 AACGTTTTTATTTAATTATGGATT
*
362420 TTTTTATTATTATTTTGTTTTTTTAATATTTTTATTTAATAATGAACTTTTTATTTATTTTGTTT
1 TTTTTA-T-TTATTTTG-TTTCTTAATATTTTTATTTAATAATGAACTTTTTATTTATTTTGTTT
*
362485 CTTAATGTTTTTATT
63 CTTAACGTTTTTATT
362500 ATTTAATTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
89 6 0.08
90 1 0.01
91 8 0.11
92 57 0.79
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (89 bp):
TTTTTATTTATTTTGTTTCTTAATATTTTTATTTAATAATGAACTTTTTATTTATTTTGTTTCTT
AACGTTTTTATTTAATTATGGATT
Found at i:363830 original size:20 final size:21
Alignment explanation
Indices: 363739--363850 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 21
363729 AAATGACCAA
363739 CAAATTCGCAACGCG-A-AGT
1 CAAATTCGCAACGCGAATAGT
* *
363758 CCAATTTCGCAACAC--AT-GTT
1 -CAAATTCGCAACGCGAATAG-T
363778 CCAAATTCGCAACGCGAATAGT
1 -CAAATTCGCAACGCGAATAGT
363800 CAAATTCGCAACGCGAATATGT
1 CAAATTCGCAACGCGAATA-GT
*
363822 -AAA-TCGCAACAC-AGA-AGT
1 CAAATTCGCAACGCGA-ATAGT
363840 CAAATTCGCAA
1 CAAATTCGCAA
363851 AGCGCGTTTA
Statistics
Matches: 78, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
18 2 0.03
19 7 0.09
20 41 0.53
21 22 0.28
22 5 0.06
23 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (21 bp):
CAAATTCGCAACGCGAATAGT
Found at i:365898 original size:21 final size:21
Alignment explanation
Indices: 365872--365966 Score: 172
Period size: 21 Copynumber: 4.5 Consensus size: 21
365862 CTCGACACCC
*
365872 AGAGCCATCATCTCCACAACG
1 AGAGCCATCACCTCCACAACG
365893 AGAGCCATCACCTCCACAACG
1 AGAGCCATCACCTCCACAACG
*
365914 AGAGACATCACCTCCACAACG
1 AGAGCCATCACCTCCACAACG
365935 AGAGCCATCACCTCCACAACG
1 AGAGCCATCACCTCCACAACG
365956 AGAGCCATCAC
1 AGAGCCATCAC
365967 ATCATCGAGC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.35, C:0.40, G:0.15, T:0.11
Consensus pattern (21 bp):
AGAGCCATCACCTCCACAACG
Found at i:366161 original size:21 final size:22
Alignment explanation
Indices: 366137--366232 Score: 58
Period size: 21 Copynumber: 4.5 Consensus size: 22
366127 AGGTGCATGG
*
366137 CGTGATAAGGTATGGT-CTTTA
1 CGTGATGAGGTATGGTACTTTA
* *
366158 CGTGGTGAGGTAGAGGT--TTTA
1 CGTGATGAGGTA-TGGTACTTTA
* ** *
366179 CGCGATGA-CAATGGTGCTTTA
1 CGTGATGAGGTATGGTACTTTA
* *
366200 CGTGGTGAGGTAT-CTACTTTA
1 CGTGATGAGGTATGGTACTTTA
*
366221 CGTGATAAGGTA
1 CGTGATGAGGTA
366233 GCCGCTCTAC
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
19 3 0.05
20 1 0.02
21 46 0.84
22 5 0.09
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.33
Consensus pattern (22 bp):
CGTGATGAGGTATGGTACTTTA
Found at i:366599 original size:21 final size:21
Alignment explanation
Indices: 366575--366645 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
366565 TCCATCATCT
* *
366575 TTCAGGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCTTCCCACCG
** *
366596 TTCAAGAGGCCCTTGTCATCG
1 TTCAAGAGGCCCTTCCCACCG
*
366617 TTCAAGAGGTCCTTCCCACCG
1 TTCAAGAGGCCCTTCCCACCG
366638 TTCAAGAG
1 TTCAAGAG
366646 CCCGATTCAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.20, C:0.35, G:0.23, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCTTCCCACCG
Found at i:367956 original size:20 final size:20
Alignment explanation
Indices: 367931--368000 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
367921 TTGAAGGTTC
*
367931 CGCGTTGCGATTTTGACTTT
1 CGCGTTGCGATTTTGATTTT
367951 CGCGTTGCGATTTTGATTTT
1 CGCGTTGCGATTTTGATTTT
367971 CGCGTTGCGATTTTGATTTT
1 CGCGTTGCGATTTTGATTTT
*
367991 CACGTTGCGA
1 CGCGTTGCGA
368001 ATTCAAGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.11, C:0.19, G:0.26, T:0.44
Consensus pattern (20 bp):
CGCGTTGCGATTTTGATTTT
Found at i:368188 original size:20 final size:20
Alignment explanation
Indices: 368147--368233 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
368137 TATACTTTCA
* *
368147 CAACGC-AAA-TCAAATTCA
1 CAACGCGAAAGTCAAAATCG
368165 CAACGCGAAAGTCAAAATCG
1 CAACGCGAAAGTCAAAATCG
*
368185 CAACTCGAAAGTCAAAATCG
1 CAACGCGAAAGTCAAAATCG
*
368205 CAACTCGAAAGTCAAAATCG
1 CAACGCGAAAGTCAAAATCG
*
368225 CAACACGAA
1 CAACGCGAA
368234 TTTGACTTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
18 6 0.10
19 3 0.05
20 54 0.86
ACGTcount: A:0.47, C:0.26, G:0.14, T:0.13
Consensus pattern (20 bp):
CAACGCGAAAGTCAAAATCG
Found at i:368253 original size:20 final size:20
Alignment explanation
Indices: 368230--368273 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
368220 AATCGCAACA
368230 CGAATTTGACTTT-CGCGTTG
1 CGAATTTGA-TTTCCGCGTTG
368250 CGAATTTGATTTCCGCGTTG
1 CGAATTTGATTTCCGCGTTG
368270 CGAA
1 CGAA
368274 AGTGTACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGAATTTGATTTCCGCGTTG
Found at i:371721 original size:14 final size:15
Alignment explanation
Indices: 371685--371722 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
371675 GAAATCATTG
371685 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
371700 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
371715 AAAAATTA
1 AAAAATTA
371723 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:371903 original size:20 final size:19
Alignment explanation
Indices: 371860--372108 Score: 80
Period size: 20 Copynumber: 12.6 Consensus size: 19
371850 CAAAACATTT
* *
371860 GTGTTGCGAAATAAAA-GC
1 GTGTTGCGAATTAAAATTC
371878 -TGTTGCGCAATTAAAATTC
1 GTGTTGCG-AATTAAAATTC
371897 GTGTTGCGAATTCGAAAA-TC
1 GTGTTGCGAATT--AAAATTC
* * *
371917 GAGTTGCAAAATCAAAATTC
1 GTGTTGC-GAATTAAAATTC
* *
371937 GTGTTGCGATTTAGAAAATC
1 GTGTTGCGAATTA-AAATTC
* *
371957 TTGTTGCGAA-AAGGAAACTT-
1 GTGTTGCGAATTA--AAA-TTC
** **
371977 GTGTTATGAAAAATAAATTC
1 GTGTTGCGAATTA-AAATTC
* *
371997 GCGTTGCGAATTTGAAATTCC
1 GTGTTGCGAA-TTAAAATT-C
* * *
372018 GTGTTGCGAATTTAACTTAT
1 GTGTTGCGAATTAAAATT-C
* *
372038 GTGTTGTGATTTACAAATTC
1 GTGTTGCGAATTA-AAATTC
* *
372058 GCGTTGCGATTTACAAATATC
1 GTGTTGCGAATTA-AAAT-TC
* *
372079 --GTTGCGATTTAACTATTC
1 GTGTTGCGAATTAA-AATTC
*
372097 GCGTTGCGAATT
1 GTGTTGCGAATT
372109 TGTTGGTCAT
Statistics
Matches: 174, Mismatches: 38, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
17 7 0.04
18 10 0.06
19 28 0.16
20 103 0.59
21 26 0.15
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (19 bp):
GTGTTGCGAATTAAAATTC
Found at i:371963 original size:40 final size:41
Alignment explanation
Indices: 371890--371968 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 41
371880 TTGCGCAATT
*
371890 AAAATTCGTGTTGCGAATTCGAAAATCGAGTTGC-AAAATC
1 AAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAAATC
* **
371930 AAAATTCGTGTTGCGATTTAGAAAATCTTGTTGCGAAAA
1 AAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAAA
371969 GGAAACTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 30 0.88
41 4 0.12
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (41 bp):
AAAATTCGTGTTGCGAATTAGAAAATCGAGTTGCGAAAATC
Found at i:372573 original size:20 final size:20
Alignment explanation
Indices: 372548--372640 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 20
372538 TTTTCCCAAT
372548 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
372568 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
*
372588 TTCGCATTGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
372609 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
372630 TCGCAATGCGA
1 TCGCAATGCGA
372641 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:372590 original size:41 final size:41
Alignment explanation
Indices: 372545--372640 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
372535 CGATTTTCCC
372545 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
372586 AATTCGCATTGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
372627 AAATCGCAATGCGA
1 AATTCGCAATGCGA
372641 TACTGACTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:372599 original size:21 final size:20
Alignment explanation
Indices: 372548--372640 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
372538 TTTTCCCAAT
** *
372548 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATTGGGAAA
*
372568 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATTGGGAAA
* ** *
372588 TTCGCATTGCGAATAAGTAAA
1 -TCGCAATGCGAATTGGGAAA
*
372609 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGG-AAA
372630 TCGCAATGCGA
1 TCGCAATGCGA
372641 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 28 0.50
21 28 0.50
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATTGGGAAA
Found at i:372653 original size:41 final size:41
Alignment explanation
Indices: 372567--372701 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 41
372557 GAATAAGTAA
* * * *
372567 ATCGCAACGCGAATTGGGAAATTCGCATTGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
372608 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
372649 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
372690 TTCGCAACGCGA
1 ATCGCAACGCGA
372702 TACTGACTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
40 4 0.05
41 72 0.92
42 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:372654 original size:20 final size:20
Alignment explanation
Indices: 372629--372723 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
372619 AATTGGGAAA
*
372629 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
372649 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
372670 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
372690 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
372710 TTCGCAACGCGATA
1 ATCGCAACGCGATA
372724 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:372939 original size:22 final size:22
Alignment explanation
Indices: 372911--372954 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
372901 CACTCTCTCA
372911 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
372933 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
372955 TATCTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:373244 original size:20 final size:20
Alignment explanation
Indices: 373219--373256 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
373209 CGATTCTCTC
373219 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
373239 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
373257 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:374597 original size:18 final size:18
Alignment explanation
Indices: 374576--374620 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
374566 TCCACTTCGG
*
374576 GAGCCATCACCTCGTCC-A
1 GAGCCATCACCTC-ACCTA
*
374594 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCTA
374612 GAGCCATCA
1 GAGCCATCA
374621 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.27, C:0.40, G:0.16, T:0.18
Consensus pattern (18 bp):
GAGCCATCACCTCACCTA
Found at i:375118 original size:20 final size:20
Alignment explanation
Indices: 375093--375138 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
375083 TAGTTTACTT
375093 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
375113 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
375133 TCGCAA
1 TCGCAA
375139 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:375154 original size:19 final size:19
Alignment explanation
Indices: 375132--375181 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
375122 GGAAATGGCT
375132 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATAAAA
* *
375151 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATAAAA
375170 ATCGCAATGCGA
1 ATCGCAATGCGA
375182 TTTGTGTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATAAAA
Found at i:375212 original size:14 final size:14
Alignment explanation
Indices: 375193--375250 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
375183 TTGTGTTTCG
375193 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
375207 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
375223 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
375239 CGTTGCGATTTT
1 CGTTGCGATTTT
375251 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:375227 original size:32 final size:33
Alignment explanation
Indices: 375188--375266 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
375178 GCGATTTGTG
375188 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
375220 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
375253 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
375267 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:375265 original size:19 final size:19
Alignment explanation
Indices: 375207--375324 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
375197 GCGATTTTGT
375207 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
375225 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
375239 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
375258 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
375278 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
375297 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
375317 TGTTGCGA
1 CGTTGCGA
375325 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:377347 original size:19 final size:19
Alignment explanation
Indices: 377325--377411 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
377315 ATCGCAACGA
377325 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
377344 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
377363 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
377382 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
377396 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
377412 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 49 0.75
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:377376 original size:38 final size:33
Alignment explanation
Indices: 377296--377411 Score: 151
Period size: 33 Copynumber: 3.4 Consensus size: 33
377286 AAAACAGACT
* ***
377296 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
377329 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAA
377367 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
377400 ATCGCAATGCGA
1 ATCGCAATGCGA
377412 TTTTCATTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 38 0.51
34 1 0.01
35 2 0.03
36 2 0.03
37 1 0.01
38 30 0.41
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:377455 original size:20 final size:20
Alignment explanation
Indices: 377430--377507 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
377420 TCGCATTGCG
* *
377430 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
377450 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
377470 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
377490 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
377508 TCAAATGAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:378594 original size:24 final size:24
Alignment explanation
Indices: 378567--378620 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
378557 GTATTCGAAA
* *
378567 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
378591 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
378615 TTTGAT
1 TTTGAT
378621 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:381154 original size:33 final size:33
Alignment explanation
Indices: 381112--381304 Score: 273
Period size: 33 Copynumber: 5.8 Consensus size: 33
381102 GGAAATTACT
381112 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
381145 ATCGCAATGCGAAATGAAAATCACAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
381177 TTTTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
381211 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
381243 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
381277 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
381305 TGAATTTAAT
Statistics
Matches: 139, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.01
33 135 0.97
34 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:381221 original size:66 final size:66
Alignment explanation
Indices: 381113--381311 Score: 353
Period size: 66 Copynumber: 3.0 Consensus size: 66
381103 GAAATTACTA
* * *
381113 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
381178 T
66 T
*
381179 TTGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
381244 T
66 T
*
381245 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGTGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
381310 T
66 T
381311 T
1 T
381312 AATTTCGCGT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 127 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:381506 original size:14 final size:14
Alignment explanation
Indices: 381487--381523 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
381477 CATCAATTAA
381487 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
381501 ACAAATCACCTTTT
1 ACAAATCAACTTTT
381515 ACAAATCAA
1 ACAAATCAA
381524 TTAATAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:382943 original size:21 final size:21
Alignment explanation
Indices: 382877--382943 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
382867 GTGAATCGGG
*
382877 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
382897 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
382919 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
382940 CTCT
1 CTCT
382944 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Done.