Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008932.1 Hibiscus syriacus cultivar Beakdansim tig00112243_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: 464758
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:202561 original size:20 final size:20
Alignment explanation
Indices: 202538--202610 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
202528 ACGTCCCATG
*
202538 CACAGCTCCCACATGCATCC
1 CACAACTCCCACATGCATCC
*
202558 CACAACTCCC-C---CAT-G
1 CACAACTCCCACATGCATCC
*
202573 CACAGCTCCCACATGCATCC
1 CACAACTCCCACATGCATCC
*
202593 CACAACTCCCCCATGCAT
1 CACAACTCCCACATGCAT
202611 GCTCCAGTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
15 9 0.21
16 4 0.10
19 4 0.10
20 25 0.60
ACGTcount: A:0.26, C:0.51, G:0.08, T:0.15
Consensus pattern (20 bp):
CACAACTCCCACATGCATCC
Found at i:202571 original size:35 final size:35
Alignment explanation
Indices: 202532--202609 Score: 156
Period size: 35 Copynumber: 2.2 Consensus size: 35
202522 GTTCCCACGT
202532 CCCATGCACAGCTCCCACATGCATCCCACAACTCC
1 CCCATGCACAGCTCCCACATGCATCCCACAACTCC
202567 CCCATGCACAGCTCCCACATGCATCCCACAACTCC
1 CCCATGCACAGCTCCCACATGCATCCCACAACTCC
202602 CCCATGCA
1 CCCATGCA
202610 TGCTCCAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.26, C:0.51, G:0.09, T:0.14
Consensus pattern (35 bp):
CCCATGCACAGCTCCCACATGCATCCCACAACTCC
Found at i:206375 original size:23 final size:23
Alignment explanation
Indices: 206345--206397 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
206335 TGGGATGGAT
206345 TGATTTTTTTTCCTCGGCAAATA
1 TGATTTTTTTTCCTCGGCAAATA
206368 TGATTTTTTTTCCTCGGCAAATA
1 TGATTTTTTTTCCTCGGCAAATA
206391 TGATTTT
1 TGATTTT
206398 ATTAAGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (23 bp):
TGATTTTTTTTCCTCGGCAAATA
Found at i:208651 original size:31 final size:31
Alignment explanation
Indices: 208616--208692 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
208606 CCATAAATAC
208616 AAACCGATTGTTTAGGTATTAAAATAGACTA
1 AAACCGATTGTTTAGGTATTAAAATAGACTA
208647 AAACCGATTGTTTAGGTATTAAAATAGACTA
1 AAACCGATTGTTTAGGTATTAAAATAGACTA
208678 AAACCGATTGTTTAG
1 AAACCGATTGTTTAG
208693 ATGCAAAACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.32
Consensus pattern (31 bp):
AAACCGATTGTTTAGGTATTAAAATAGACTA
Found at i:215078 original size:37 final size:37
Alignment explanation
Indices: 215028--215118 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
215018 ATGCTGCATC
*
215028 AAATGATCTACTCGTTTATAATGAAAGTAAGCGGAAA
1 AAATGTTCTACTCGTTTATAATGAAAGTAAGCGGAAA
215065 AAATGTTCTACTCGTTTATAATGAAAGTAAGCGGAAA
1 AAATGTTCTACTCGTTTATAATGAAAGTAAGCGGAAA
215102 AAATGTTCTACTCGTTT
1 AAATGTTCTACTCGTTT
215119 GTTGGATCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (37 bp):
AAATGTTCTACTCGTTTATAATGAAAGTAAGCGGAAA
Found at i:215487 original size:21 final size:20
Alignment explanation
Indices: 215461--215501 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
215451 ATGCAAAACA
*
215461 AAGTTTGGCACCGCACAATGG
1 AAGTTTGGCACC-CAAAATGG
215482 AAGTTTGGCACCCAAAATGG
1 AAGTTTGGCACCCAAAATGG
215502 GTTGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (20 bp):
AAGTTTGGCACCCAAAATGG
Found at i:218519 original size:76 final size:77
Alignment explanation
Indices: 218352--218561 Score: 289
Period size: 76 Copynumber: 2.7 Consensus size: 77
218342 CAAAGCCAAA
* * * **
218352 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTAAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
218417 TTTTGGCCCCGAG
65 TTTTGGCCCCGAG
*
218430 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
218495 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * * *
218506 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATA-GGAGGAACCGATTCCCCC
218562 TTGTACAACG
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
75 1 0.01
76 56 0.47
77 37 0.31
78 25 0.21
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:224355 original size:21 final size:22
Alignment explanation
Indices: 224331--224412 Score: 87
Period size: 21 Copynumber: 3.8 Consensus size: 22
224321 TTGGTACAGA
* *
224331 GGGAATCGATCCCCCCCCTGA-
1 GGGAATCGATTCCCCCCATGAG
**
224352 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCCATG-AG
*
224375 GGGAACCGATTCCCCCCAT-AG
1 GGGAATCGATTCCCCCCATGAG
*
224396 GGGAATCGATACCCCCC
1 GGGAATCGATTCCCCCC
224413 TGGGGTTCTG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 34 0.67
22 1 0.02
23 16 0.31
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.17
Consensus pattern (22 bp):
GGGAATCGATTCCCCCCATGAG
Found at i:226371 original size:17 final size:17
Alignment explanation
Indices: 226349--226396 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
226339 TTTCAACATT
226349 TTTGATATTTTGGATTG
1 TTTGATATTTTGGATTG
226366 TTTGAT-TTTGTGGATTG
1 TTTGATATTT-TGGATTG
*
226383 -TTG-GATTTTGGATT
1 TTTGATATTTTGGATT
226397 TATGAATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (17 bp):
TTTGATATTTTGGATTG
Found at i:227112 original size:76 final size:75
Alignment explanation
Indices: 226969--227174 Score: 281
Period size: 76 Copynumber: 2.7 Consensus size: 75
226959 CAAAGCCAAA
* * * **
226969 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
227034 TTTGGCCCCGAG
65 TTT-GCCCCGAG
* *
227046 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCTCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
*
227111 TTGCTCCGAG
66 TTGCCCCGAG
* * *
227121 AATTCCAGTATGCTCGGAGGGAACCGA-TCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
227175 CTTGTACAAC
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
73 17 0.15
74 7 0.06
75 32 0.28
76 35 0.30
77 25 0.22
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGCCCCGAG
Found at i:230016 original size:24 final size:24
Alignment explanation
Indices: 229984--230036 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
229974 TGATTGTGAA
* * *
229984 TATCGCGGTTTCGGACGATGTTGT
1 TATCACGGTTTCAGACGATATTGT
230008 TATCACGGTTTCAGACGATATTGT
1 TATCACGGTTTCAGACGATATTGT
230032 TATCA
1 TATCA
230037 TTGTTGTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.38
Consensus pattern (24 bp):
TATCACGGTTTCAGACGATATTGT
Found at i:231051 original size:18 final size:19
Alignment explanation
Indices: 231020--231066 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
231010 GTAATGAGAT
*
231020 ATTTAAAT-AATAAAAGCG
1 ATTTAAATAAATAAAAGCA
231038 A-TTAAATAAATAAAAGCA
1 ATTTAAATAAATAAAAGCA
231056 ATTTAAATAAA
1 ATTTAAATAAA
231067 AATGAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (19 bp):
ATTTAAATAAATAAAAGCA
Found at i:231690 original size:18 final size:18
Alignment explanation
Indices: 231658--231692 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
231648 GAAAACAAAG
*
231658 CTTGAAAAATGAAAAGAA
1 CTTGAAAAATAAAAAGAA
*
231676 CTTGAAAAGTAAAAAGA
1 CTTGAAAAATAAAAAGA
231693 GAAAGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (18 bp):
CTTGAAAAATAAAAAGAA
Found at i:236539 original size:190 final size:189
Alignment explanation
Indices: 236239--236586 Score: 527
Period size: 190 Copynumber: 1.8 Consensus size: 189
236229 TCAAAAGATA
* * *
236239 AAACTCCTTTTACCATTCAAAATTAAATATGTATTATTTTAATTTGAAATATACAAAACTATATA
1 AAACTCATTTTACCATTCAAAATTAAATATATATTATTTTAATGTGAAATATACAAAACTATATA
* * * * *
236304 ATTATCTTTAATATTCAAAGTTAAAAAAGTAACAAATATATTTTTAAATTGACATATTCAAAGAG
66 ATTATCTTTAATATTCAAAATTAAAAAAGTAACAAATACATTTTTAAATGGACATACTAAAAGAG
236369 TAATTATCCTACTAATATTCAAATTAAATAATATATTTAATTTGTAATGATAAAAAAGT
131 TAATTATCCTACTAATATTCAAATTAAATAATATATTTAATTTGTAATGATAAAAAAGT
* * * * *
236428 AAACTCATTTTACTATTTAAACTTAAATATATATTATTTTAATGTGAAATATACAAAAGTCTATA
1 AAACTCATTTTACCATTCAAAATTAAATATATATTATTTTAATGTGAAATATACAAAACTATATA
* *
236493 ATTATATTTTAATATTCAAAATT-AAAAAGATAACAAATACATTTTTAAATGGACTTACTAAAAG
66 ATTAT-CTTTAATATTCAAAATTAAAAAAG-TAACAAATACATTTTTAAATGGACATACTAAAAG
*
236557 AGTAATTCTCCTACTAATATTCAAATTAAA
129 AGTAATTATCCTACTAATATTCAAATTAAA
236587 AATTATCTTT
Statistics
Matches: 141, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
189 68 0.48
190 73 0.52
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (189 bp):
AAACTCATTTTACCATTCAAAATTAAATATATATTATTTTAATGTGAAATATACAAAACTATATA
ATTATCTTTAATATTCAAAATTAAAAAAGTAACAAATACATTTTTAAATGGACATACTAAAAGAG
TAATTATCCTACTAATATTCAAATTAAATAATATATTTAATTTGTAATGATAAAAAAGT
Found at i:238372 original size:14 final size:14
Alignment explanation
Indices: 238353--238379 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
238343 TTACCAGAGT
238353 TTAATTTAAAATTA
1 TTAATTTAAAATTA
238367 TTAATTTAAAATT
1 TTAATTTAAAATT
238380 GTGATCGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAATTTAAAATTA
Found at i:238910 original size:36 final size:36
Alignment explanation
Indices: 238870--239007 Score: 258
Period size: 36 Copynumber: 3.8 Consensus size: 36
238860 GAACACGAAT
238870 TCGAATTTTAACTATAACAAACGTCCATTAGTGAGA
1 TCGAATTTTAACTATAACAAACGTCCATTAGTGAGA
*
238906 TCGAATTTTAACTATAACAAACTTCCATTAGTGAGA
1 TCGAATTTTAACTATAACAAACGTCCATTAGTGAGA
238942 TCGAATTTTAACTATAACAAACGTCCATTAGTGAGA
1 TCGAATTTTAACTATAACAAACGTCCATTAGTGAGA
*
238978 TCGAATTTTAACTATAACAAACTTCCATTA
1 TCGAATTTTAACTATAACAAACGTCCATTA
239008 AGCTCGCTAG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 99 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (36 bp):
TCGAATTTTAACTATAACAAACGTCCATTAGTGAGA
Found at i:240494 original size:14 final size:14
Alignment explanation
Indices: 240469--240504 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
240459 ACCTTTCTAA
*
240469 ATTTTAATTTTTTTC
1 ATTTT-ATTTTTCTC
240484 ATTTTATTTTTCTC
1 ATTTTATTTTTCTC
240498 ATTTTAT
1 ATTTTAT
240505 ATTATTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTATTTTTCTC
Found at i:246930 original size:40 final size:40
Alignment explanation
Indices: 246864--246969 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
246854 AAACCCATGG
** * *
246864 AAGGCGCGATT-CCTGTAACACGCCTTCCCTCCACGTATGC
1 AAGGCGCG-TTCCCTGCCACACACCTTCCCTCCACATATGC
246904 AAGGCGCGTTCCCTGCCACACACCTTCCCTCCACATATGC
1 AAGGCGCGTTCCCTGCCACACACCTTCCCTCCACATATGC
* * *
246944 AAGGCGCATTCCCTACCACGCACCTT
1 AAGGCGCGTTCCCTGCCACACACCTT
246970 ATTATCACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.03
40 56 0.97
ACGTcount: A:0.21, C:0.42, G:0.17, T:0.21
Consensus pattern (40 bp):
AAGGCGCGTTCCCTGCCACACACCTTCCCTCCACATATGC
Found at i:249478 original size:24 final size:23
Alignment explanation
Indices: 249426--249479 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
249416 TAAGTATGAT
*
249426 TTTAAAAAAATCAAAACTTTAAA
1 TTTAAAAAAATCAAAACTATAAA
*
249449 TATTAAAACGAATCAAAACTA-ATAA
1 T-TTAAAA-AAATCAAAACTATA-AA
249474 TTTAAA
1 TTTAAA
249480 TACTAAACGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 12 0.46
25 13 0.50
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTAAAAAAATCAAAACTATAAA
Found at i:253071 original size:21 final size:19
Alignment explanation
Indices: 253035--253073 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
253025 GACTTCATTT
*
253035 TTTTAATATTAATTCATCG
1 TTTTAATATTACTTCATCG
253054 TTTTAATCATATACTTCATC
1 TTTTAAT-AT-TACTTCATC
253074 CGGCCTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTTAATATTACTTCATCG
Found at i:254780 original size:20 final size:20
Alignment explanation
Indices: 254757--254814 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
254747 TTAAAATCAC
254757 TAATAAATAATTATAATAAA
1 TAATAAATAATTATAATAAA
* *
254777 TAATATACAATTACT-ATAAA
1 TAATAAATAATTA-TAATAAA
*
254797 T-ATTAATAATATATAATA
1 TAATAAATAAT-TATAATA
254815 TAAATACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 7 0.23
20 22 0.73
21 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATAAATAATTATAATAAA
Found at i:254806 original size:33 final size:31
Alignment explanation
Indices: 254750--254824 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 31
254740 TACACAATTA
254750 AAATCACTAATAAATAATTATAATAAATAATAT
1 AAAT-ACT-ATAAATAATTATAATAAATAATAT
*
254783 ACAATTACTATAAAT-ATTAATAATATATAATAT
1 A-AA-TACTATAAATAATT-ATAATAAATAATAT
254816 AAATACTAT
1 AAATACTAT
254825 GTAATAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 6 0.16
32 5 0.13
33 21 0.55
34 5 0.13
35 1 0.03
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (31 bp):
AAATACTATAAATAATTATAATAAATAATAT
Found at i:254814 original size:16 final size:16
Alignment explanation
Indices: 254769--254835 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
254759 ATAAATAATT
*
254769 ATAATAAATAATATACA
1 ATAATATATAATATA-A
* *
254786 ATTACTATA-AATATTA
1 A-TAATATATAATATAA
254802 ATAATATATAATATAA
1 ATAATATATAATATAA
* *
254818 ATACTATGTAATA-AA
1 ATAATATATAATATAA
254833 ATA
1 ATA
254836 TAAATTAGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 11 0.27
16 19 0.46
17 6 0.15
18 5 0.12
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (16 bp):
ATAATATATAATATAA
Found at i:256561 original size:15 final size:15
Alignment explanation
Indices: 256541--256575 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
256531 GATCGAGTTT
256541 GGGTCGAGTAATTTC
1 GGGTCGAGTAATTTC
*
256556 GGGTCGAGTAATTTT
1 GGGTCGAGTAATTTC
256571 GGGTC
1 GGGTC
256576 TAGATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.37, T:0.34
Consensus pattern (15 bp):
GGGTCGAGTAATTTC
Found at i:257467 original size:18 final size:19
Alignment explanation
Indices: 257430--257467 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
257420 TCTTAAACTT
* *
257430 TCTATTATTTTATTATAAA
1 TCTAATATTTTATAATAAA
257449 TCTAATATTTT-TAATAAA
1 TCTAATATTTTATAATAAA
257467 T
1 T
257468 TATCAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTAATATTTTATAATAAA
Found at i:257590 original size:32 final size:33
Alignment explanation
Indices: 257544--257620 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
257534 TTCAATATGT
* * *
257544 TCGGTTTGCTTTTGGGTCGA-GTT-AAATTCGGC
1 TCGGATTGCTTTTGGATC-ATGTTAAAATTCGAC
*
257576 TCGGATTGCTTTTGGATCATGTTAAAATTCGAT
1 TCGGATTGCTTTTGGATCATGTTAAAATTCGAC
257609 TCGGATTGCTTT
1 TCGGATTGCTTT
257621 CTGTTCGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
31 1 0.03
32 19 0.49
33 19 0.49
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (33 bp):
TCGGATTGCTTTTGGATCATGTTAAAATTCGAC
Found at i:257637 original size:16 final size:16
Alignment explanation
Indices: 257618--257653 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
257608 TTCGGATTGC
* *
257618 TTTCTGTTCGGGTTAA
1 TTTCAGTTCAGGTTAA
257634 TTTCAGTTCAGGTTAA
1 TTTCAGTTCAGGTTAA
257650 TTTC
1 TTTC
257654 GATTATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCAGTTCAGGTTAA
Found at i:257788 original size:14 final size:14
Alignment explanation
Indices: 257771--257802 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
257761 GATAAATCGA
257771 TTCGGGTAATCGGG
1 TTCGGGTAATCGGG
257785 TTCGGGTAATCGGG
1 TTCGGGTAATCGGG
257799 TTCG
1 TTCG
257803 AGTCAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.41, T:0.31
Consensus pattern (14 bp):
TTCGGGTAATCGGG
Found at i:260199 original size:7 final size:7
Alignment explanation
Indices: 260183--260215 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
260173 ATCTATATCA
260183 TTTTTC-
1 TTTTTCT
260189 TTTTTCT
1 TTTTTCT
260196 TTTTTCT
1 TTTTTCT
*
260203 TTTATCT
1 TTTTTCT
260210 TTTTTC
1 TTTTTC
260216 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:260210 original size:14 final size:14
Alignment explanation
Indices: 260178--260220 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
260168 GTGTCATCTA
*
260178 TATCATTTTTCTTT
1 TATCTTTTTTCTTT
260192 T-TCTTTTTTCTTT
1 TATCTTTTTTCTTT
*
260205 TATCTTTTTTCCTT
1 TATCTTTTTTCTTT
260219 TA
1 TA
260221 AATATGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (14 bp):
TATCTTTTTTCTTT
Found at i:262089 original size:33 final size:33
Alignment explanation
Indices: 262050--262113 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
262040 TCTGTTTTGA
*
262050 GATACATCTGATATCACGTATTTGTACTCTTGG
1 GATACATCCGATATCACGTATTTGTACTCTTGG
*
262083 GATACATCCGATATCATGTATTTGTACTCTT
1 GATACATCCGATATCACGTATTTGTACTCTT
262114 TGTTTTCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (33 bp):
GATACATCCGATATCACGTATTTGTACTCTTGG
Found at i:268228 original size:15 final size:14
Alignment explanation
Indices: 268208--268243 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
268198 TAGGGAGGAG
268208 GGTATCCCTGAGCA
1 GGTATCCCTGAGCA
*
268222 GGATATCCCTGAGGA
1 GG-TATCCCTGAGCA
268237 GGTATCC
1 GGTATCC
268244 TTGTGGCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (14 bp):
GGTATCCCTGAGCA
Found at i:281808 original size:25 final size:25
Alignment explanation
Indices: 281768--281827 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
281758 TGGGAAGATA
* *
281768 AATTTTTTAAAATTATTTTTTTACT
1 AATTTTTTATAATTATTTTTATACT
* *
281793 AATTTTTTATATTTATTTTTATCCT
1 AATTTTTTATAATTATTTTTATACT
*
281818 TATTTTTTAT
1 AATTTTTTAT
281828 TATACTGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (25 bp):
AATTTTTTATAATTATTTTTATACT
Found at i:281810 original size:13 final size:13
Alignment explanation
Indices: 281769--281827 Score: 59
Period size: 12 Copynumber: 4.7 Consensus size: 13
281759 GGGAAGATAA
* *
281769 ATTTTTTAAAATT
1 ATTTTTTATACTT
*
281782 ATTTTTT-TACTA
1 ATTTTTTATACTT
*
281794 ATTTTTTATATTT
1 ATTTTTTATACTT
*
281807 A-TTTTTATCCTT
1 ATTTTTTATACTT
281819 ATTTTTTAT
1 ATTTTTTAT
281828 TATACTGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 19 0.51
13 18 0.49
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTATACTT
Found at i:287043 original size:13 final size:13
Alignment explanation
Indices: 287013--287104 Score: 97
Period size: 13 Copynumber: 7.5 Consensus size: 13
287003 TGACCGGTCA
287013 TGACCCGACCC--
1 TGACCCGACCCGT
287024 -GACCCGACCCGT
1 TGACCCGACCCGT
*
287036 TTACCCGACCCGT
1 TGACCCGACCCGT
* * *
287049 TTATCCGACCAGT
1 TGACCCGACCCGT
287062 TGACCCGACCC--
1 TGACCCGACCCGT
287073 -GACCCGACCCGT
1 TGACCCGACCCGT
*
287085 TGACCCGACCCAT
1 TGACCCGACCCGT
287098 TGACCCG
1 TGACCCG
287105 TTGACCGTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
10 20 0.29
13 48 0.71
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.15
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:287114 original size:7 final size:8
Alignment explanation
Indices: 287078--287130 Score: 62
Period size: 8 Copynumber: 7.2 Consensus size: 8
287068 GACCCGACCC
287078 GACCCGTT
1 GACCCGTT
287086 GACCC---
1 GACCCGTT
*
287091 GACCCATT
1 GACCCGTT
287099 GACCCGTT
1 GACCCGTT
287107 GA-CCGTT
1 GACCCGTT
287114 GACCCGTT
1 GACCCGTT
287122 GA-CCGTT
1 GACCCGTT
287129 GA
1 GA
287131 TTGGCGTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
5 5 0.12
7 14 0.35
8 21 0.52
ACGTcount: A:0.17, C:0.36, G:0.25, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:287117 original size:15 final size:15
Alignment explanation
Indices: 287097--287130 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
287087 ACCCGACCCA
287097 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
287112 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
287127 TTGA
1 TTGA
287131 TTGGCGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.29, G:0.26, T:0.29
Consensus pattern (15 bp):
TTGACCCGTTGACCG
Found at i:288442 original size:18 final size:18
Alignment explanation
Indices: 288416--288450 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
288406 TCGAAAGGAC
*
288416 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
288434 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
288451 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:289986 original size:29 final size:31
Alignment explanation
Indices: 289933--290011 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 31
289923 ATGTGACTCT
* * * *
289933 TAGGTAGGCTCTGCGGCCCTGAGAT-CATTC
1 TAGGTAGGCCCCGTGGCCCTAAGATGCATTC
* **
289963 TCGGTAGG-CCCGTGGCCCTAAGATGTGTTC
1 TAGGTAGGCCCCGTGGCCCTAAGATGCATTC
289993 TAGGTAGGCCCCGTGGCCC
1 TAGGTAGGCCCCGTGGCCC
290012 CGAACTTTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 12 0.31
30 17 0.44
31 10 0.26
ACGTcount: A:0.14, C:0.29, G:0.33, T:0.24
Consensus pattern (31 bp):
TAGGTAGGCCCCGTGGCCCTAAGATGCATTC
Found at i:292069 original size:13 final size:13
Alignment explanation
Indices: 292050--292130 Score: 96
Period size: 13 Copynumber: 6.5 Consensus size: 13
292040 GACCCGACCC
292050 GACCCGACCCGTT
1 GACCCGACCCGTT
*
292063 TACCCGACCCGTT
1 GACCCGACCCGTT
* * *
292076 TATCCGACCAGTT
1 GACCCGACCCGTT
292089 GACCCGACCC---
1 GACCCGACCCGTT
292099 GACCCGACCCGTT
1 GACCCGACCCGTT
*
292112 GACCCGACCCATT
1 GACCCGACCCGTT
292125 GACCCG
1 GACCCG
292131 TTGACCGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
10 10 0.17
13 48 0.83
ACGTcount: A:0.19, C:0.46, G:0.20, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:292073 original size:5 final size:5
Alignment explanation
Indices: 292036--292060 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
292026 ACCGGTCATA
292036 ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG
292061 TTTACCCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:292117 original size:8 final size:8
Alignment explanation
Indices: 292104--292168 Score: 68
Period size: 8 Copynumber: 8.5 Consensus size: 8
292094 GACCCGACCC
292104 GACCCGTT
1 GACCCGTT
292112 GACCC---
1 GACCCGTT
*
292117 GACCCATT
1 GACCCGTT
292125 GACCCGTT
1 GACCCGTT
292133 GA-CCGTT
1 GACCCGTT
292140 GACCCGTT
1 GACCCGTT
292148 GA-CCGTT
1 GACCCGTT
292155 GACCGGCGTT
1 GACC--CGTT
292165 GACC
1 GACC
292169 ATTGTTGACC
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
5 5 0.10
7 14 0.29
8 22 0.45
10 8 0.16
ACGTcount: A:0.15, C:0.37, G:0.26, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:292140 original size:7 final size:7
Alignment explanation
Indices: 292123--292159 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
292113 ACCCGACCCA
292123 TTGACCCG
1 TTGA-CCG
292131 TTGACCG
1 TTGACCG
292138 TTGACCCG
1 TTGA-CCG
292146 TTGACCG
1 TTGACCG
292153 TTGACCG
1 TTGACCG
292160 GCGTTGACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 17 0.61
8 11 0.39
ACGTcount: A:0.14, C:0.32, G:0.27, T:0.27
Consensus pattern (7 bp):
TTGACCG
Found at i:292143 original size:15 final size:15
Alignment explanation
Indices: 292123--292168 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
292113 ACCCGACCCA
292123 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
292138 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
292153 TTGACCGGCGTTGACC
1 TTGACC--CGTTGACC
292169 ATTGTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 21 0.72
17 8 0.28
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (15 bp):
TTGACCCGTTGACCG
Found at i:293474 original size:18 final size:18
Alignment explanation
Indices: 293448--293482 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
293438 TCGAAAGGAC
*
293448 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
293466 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
293483 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:296595 original size:7 final size:7
Alignment explanation
Indices: 296583--296619 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
296573 TGGTCAACGC
296583 CGGTCAA
1 CGGTCAA
296590 CGGTCAA
1 CGGTCAA
296597 CGGGTCAA
1 C-GGTCAA
296605 CGGTCAA
1 CGGTCAA
296612 CGGGTCAA
1 C-GGTCAA
296620 TGGGTCGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (7 bp):
CGGTCAA
Found at i:296604 original size:8 final size:8
Alignment explanation
Indices: 296574--296638 Score: 68
Period size: 8 Copynumber: 8.5 Consensus size: 8
296564 GGTAAACAAT
296574 GGTCAACG
1 GGTCAACG
296582 CCGGTCAAC-
1 --GGTCAACG
296591 GGTCAACG
1 GGTCAACG
296599 GGTCAAC-
1 GGTCAACG
296606 GGTCAACG
1 GGTCAACG
*
296614 GGTCAATG
1 GGTCAACG
296622 GGT---CG
1 GGTCAACG
296627 GGTCAACG
1 GGTCAACG
296635 GGTC
1 GGTC
296639 GGGTCGGGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
5 4 0.08
7 14 0.29
8 23 0.48
10 7 0.15
ACGTcount: A:0.22, C:0.26, G:0.37, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:296604 original size:15 final size:15
Alignment explanation
Indices: 296574--296619 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
296564 GGTAAACAAT
296574 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
296591 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
296606 GGTCAACGGGTCAA
1 GGTCAACGGGTCAA
296620 TGGGTCGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 21 0.72
17 8 0.28
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:296630 original size:13 final size:13
Alignment explanation
Indices: 296612--296692 Score: 96
Period size: 13 Copynumber: 6.5 Consensus size: 13
296602 CAACGGTCAA
*
296612 CGGGTCAATGGGT
1 CGGGTCAACGGGT
296625 CGGGTCAACGGGT
1 CGGGTCAACGGGT
296638 CGGGT---CGGGT
1 CGGGTCAACGGGT
*
296648 CGGGTCAACTGGT
1 CGGGTCAACGGGT
* *
296661 CGGATAAACGGGT
1 CGGGTCAACGGGT
*
296674 CGGGTAAACGGGT
1 CGGGTCAACGGGT
296687 CGGGTC
1 CGGGTC
296693 GGGTCGGGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
10 10 0.17
13 48 0.83
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.19
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:296690 original size:5 final size:5
Alignment explanation
Indices: 296682--296706 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
296672 GTCGGGTAAA
296682 CGGGT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT
296707 TATGACCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:298238 original size:32 final size:31
Alignment explanation
Indices: 298202--298277 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
298192 CGGGGCCGTG
*
298202 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
298234 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
298265 GAGCCTACCTAAG
1 GGGCCTACCTAAG
298278 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:298261 original size:63 final size:63
Alignment explanation
Indices: 298155--298277 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
298145 ACCTAAGGGA
* * ** *
298155 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
298218 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
298278 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:299787 original size:18 final size:18
Alignment explanation
Indices: 299764--299798 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
299754 TTCCATCCGG
*
299764 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
299782 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
299799 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:301126 original size:13 final size:13
Alignment explanation
Indices: 301121--301169 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
301111 GTCAACGGGT
*
301121 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
* *
301134 CTGGTCGGATAAA
1 CGGGTCGGGTAAA
301147 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
301160 CGGGTCGGGT
1 CGGGTCGGGT
301170 TATGACCGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.45, T:0.18
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:301139 original size:8 final size:8
Alignment explanation
Indices: 301077--301121 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
301067 GGTCAACAAT
301077 GGTCAACG
1 GGTCAACG
301085 CCGGTCAAC-
1 --GGTCAACG
301094 GGTCAACG
1 GGTCAACG
301102 GGTCAACG
1 GGTCAACG
301110 GGTCAACG
1 GGTCAACG
301118 GGTC
1 GGTC
301122 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
8 20 0.59
10 7 0.21
ACGTcount: A:0.22, C:0.29, G:0.36, T:0.13
Consensus pattern (8 bp):
GGTCAACG
Found at i:303713 original size:37 final size:37
Alignment explanation
Indices: 303624--303727 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
303614 CTTTTCGTCC
* * * *
303624 TACTAGGATTCAAACTCTTAAAAATATGATAGAATTT
1 TACTATGATTCAAACTCCTAAAAATAGGATAGAATTA
** *
303661 TGTTATGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTATGATTCAAACTCCTAAAAATAGGATAGAATTA
* * *
303698 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTATGATTCAAACTCCTAAAAATAGGAT
303728 CTACAAGCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (37 bp):
TACTATGATTCAAACTCCTAAAAATAGGATAGAATTA
Found at i:304446 original size:22 final size:22
Alignment explanation
Indices: 304411--304465 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
304401 CTATTTAGTA
*
304411 TTTTATTA-TATTATACATACAT
1 TTTTATTATTTTTATACATA-AT
* *
304433 TTTTA-TATTTTTATATATATT
1 TTTTATTATTTTTATACATAAT
304454 TTTTATTATTTT
1 TTTTATTATTTT
304466 ATTTATACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTATTTTTATACATAAT
Found at i:304458 original size:21 final size:21
Alignment explanation
Indices: 304432--304499 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
304422 TATACATACA
304432 TTTTTATATTTTTATATATAT
1 TTTTTATATTTTTATATATAT
*
304453 TTTTTATTATTTTATTTATACTAT
1 TTTTTA-TATTTT-TATATA-TAT
* *
304477 TTATT-TATTTTCAT-TATAT
1 TTTTTATATTTTTATATATAT
304496 TTTT
1 TTTT
304500 AATTTCTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 7 0.18
22 12 0.31
23 5 0.13
24 7 0.18
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATATTTTTATATATAT
Found at i:304495 original size:43 final size:43
Alignment explanation
Indices: 304411--304499 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
304401 CTATTTAGTA
*
304411 TTTTATTATATTATACATACATTTTTATATTTTTATATATATT
1 TTTTATTATATTATACATACATTTTTATATTTTCATATATATT
* **
304454 TTTTATTATTTTATTTATACTATTTATT-TATTTTCAT-TATATT
1 TTTTATTATATTATACATAC-ATTT-TTATATTTTCATATATATT
304497 TTT
1 TTT
304500 AATTTCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 26 0.65
44 12 0.30
45 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (43 bp):
TTTTATTATATTATACATACATTTTTATATTTTCATATATATT
Found at i:304500 original size:21 final size:21
Alignment explanation
Indices: 304358--304500 Score: 59
Period size: 22 Copynumber: 6.6 Consensus size: 21
304348 TTTAGTTAAT
* *
304358 ATTATATGTATATTTATTTTTC
1 ATTATATTTTTATTTA-TTTTC
304380 ATT-TATTTATTA-TTATTATTAC
1 ATTATATTT-TTATTTATT-TT-C
*
304402 TATT-TAGTATTTTATTATATTATAC
1 -ATTATA-T-TTTTATT-TATT-TTC
* *
304427 A-TACATTTTTA--TATTTTT
1 ATTATATTTTTATTTATTTTC
304445 ATATATATTTTT-TATTATTTT-
1 AT-TATATTTTTAT-TTATTTTC
*
304466 ATTTATACTATTTATTTATTTTC
1 A-TTATA-TTTTTATTTATTTTC
304489 ATTATATTTTTA
1 ATTATATTTTTA
304501 ATTTCTTTGC
Statistics
Matches: 94, Mismatches: 9, Indels: 37
0.67 0.06 0.26
Matches are distributed among these distances:
18 2 0.02
19 4 0.04
20 10 0.11
21 19 0.20
22 34 0.36
23 9 0.10
24 6 0.06
25 4 0.04
26 6 0.06
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTATATTTTTATTTATTTTC
Found at i:304612 original size:20 final size:19
Alignment explanation
Indices: 304585--304640 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
304575 TTTTATCTTC
304585 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
304604 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
304624 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
304641 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:316768 original size:60 final size:60
Alignment explanation
Indices: 316697--316831 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 60
316687 GTCAGGTGAC
* * * * *
316697 CATTTTGTAACTTTTAATAGTCGGGGGACTCAACAAGGCAACATCCTATAGTCGTA-GGAT
1 CATTTTATAACTTTTAATAGTCAGGGGACTCAACAAAGCAACACCCTATAATCG-AGGGAT
* * * * * *
316757 CATTTTATAACTTCTAATTGTTAGGGGACTTAACAAAGTAACACCCTATAATTGAGGGAT
1 CATTTTATAACTTTTAATAGTCAGGGGACTCAACAAAGCAACACCCTATAATCGAGGGAT
316817 CATTTTATAACTTTT
1 CATTTTATAACTTTT
316832 GATTGTCATA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 61 0.98
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTCAGGGGACTCAACAAAGCAACACCCTATAATCGAGGGAT
Found at i:317600 original size:26 final size:28
Alignment explanation
Indices: 317570--317632 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 28
317560 AAAAATTTTA
317570 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCAGCAGAGTTTTCGAGTCGAGTCG
*
317596 AGCTCAATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCTC-A--GCAGAGTTTTCGAGTCGAGTCG
317627 AGCTCA
1 AGCTCA
317633 ACAATACTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
30 2 0.06
31 24 0.77
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCTCAGCAGAGTTTTCGAGTCGAGTCG
Found at i:318100 original size:14 final size:14
Alignment explanation
Indices: 318081--318108 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
318071 GTTGGGGGAA
318081 TGTGAGATTCTCAT
1 TGTGAGATTCTCAT
318095 TGTGAGATTCTCAT
1 TGTGAGATTCTCAT
318109 GGGAATGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTGAGATTCTCAT
Found at i:320108 original size:115 final size:115
Alignment explanation
Indices: 319906--320142 Score: 474
Period size: 115 Copynumber: 2.1 Consensus size: 115
319896 AACCAGCAGA
319906 ATTAATAAAATGTTAACAAAAGGGTCAAAATGGAACGATATTGATAGGTTGGAGATTAATATAAA
1 ATTAATAAAATGTTAACAAAAGGGTCAAAATGGAACGATATTGATAGGTTGGAGATTAATATAAA
319971 ATATTTTAAAAGTTTATGGATCAATTTATAGTGAATATCATAGTTTGGGG
66 ATATTTTAAAAGTTTATGGATCAATTTATAGTGAATATCATAGTTTGGGG
320021 ATTAATAAAATGTTAACAAAAGGGTCAAAATGGAACGATATTGATAGGTTGGAGATTAATATAAA
1 ATTAATAAAATGTTAACAAAAGGGTCAAAATGGAACGATATTGATAGGTTGGAGATTAATATAAA
320086 ATATTTTAAAAGTTTATGGATCAATTTATAGTGAATATCATAGTTTGGGG
66 ATATTTTAAAAGTTTATGGATCAATTTATAGTGAATATCATAGTTTGGGG
320136 ATTAATA
1 ATTAATA
320143 CAGAATGATT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 122 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.34
Consensus pattern (115 bp):
ATTAATAAAATGTTAACAAAAGGGTCAAAATGGAACGATATTGATAGGTTGGAGATTAATATAAA
ATATTTTAAAAGTTTATGGATCAATTTATAGTGAATATCATAGTTTGGGG
Found at i:325295 original size:51 final size:51
Alignment explanation
Indices: 325238--325403 Score: 278
Period size: 51 Copynumber: 3.3 Consensus size: 51
325228 AGATGTACAT
* *
325238 ACTTACATCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTT
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
**
325289 ACTTACACCTTTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
325340 ATTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
325391 ACTTACACCGGTG
1 ACTTACACCGGTG
325404 CATTTACTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 106 1.00
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (51 bp):
ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
Found at i:325457 original size:69 final size:69
Alignment explanation
Indices: 325346--325538 Score: 284
Period size: 69 Copynumber: 2.8 Consensus size: 69
325336 ATTCATTTAC
*
325346 ACCGGTGTAAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTCACTTACACCGGTGCATTTAC
1 ACCGGTGTAAGTATGTGTTAAGTGTTACACTTGTTTATTTTATTCACTTACACCGGTGCATTTAC
325411 TTAT
66 TTAT
* * **
325415 ACCGGTGTAAGTATGTATTAAGTGTTACACTTGTTTATTTTATTTACTTACACCAATGCATTTAC
1 ACCGGTGTAAGTATGTGTTAAGTGTTACACTTGTTTATTTTATTCACTTACACCGGTGCATTTAC
*
325480 TTTT
66 TTAT
* * *
325484 ACCGTTGTAAGTATGTGTTAAGTGTTACAC---TTTGTTTTATTCACTTACACTGGTG
1 ACCGGTGTAAGTATGTGTTAAGTGTTACACTTGTTTATTTTATTCACTTACACCGGTG
325539 TAAATATGTG
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
66 20 0.18
69 91 0.82
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.44
Consensus pattern (69 bp):
ACCGGTGTAAGTATGTGTTAAGTGTTACACTTGTTTATTTTATTCACTTACACCGGTGCATTTAC
TTAT
Found at i:325598 original size:51 final size:48
Alignment explanation
Indices: 325484--325618 Score: 166
Period size: 51 Copynumber: 2.8 Consensus size: 48
325474 ATTTACTTTT
* * * *
325484 ACCGTTGTAAGTATGTGTTAAGTGTTACACTTTGTTTTATTCACTTAC
1 ACCGGTGTAAATATGTGTTAAGTGCTACACTTTATTTTATTCACTTAC
* *
325532 ACTGGTGTAAATATGTGTTAAGTGCTACACTTGTTTATTTTTTTCACTTAC
1 ACCGGTGTAAATATGTGTTAAGTGCTACAC---TTTATTTTATTCACTTAC
*
325583 ACCGGTGTAATTATGTGTTAAGTGCTACA-TTT-TTTT
1 ACCGGTGTAAATATGTGTTAAGTGCTACACTTTATTTT
325619 GTAGTATGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
46 4 0.05
47 3 0.04
48 26 0.34
51 43 0.57
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (48 bp):
ACCGGTGTAAATATGTGTTAAGTGCTACACTTTATTTTATTCACTTAC
Found at i:334966 original size:60 final size:58
Alignment explanation
Indices: 334895--335037 Score: 178
Period size: 60 Copynumber: 2.4 Consensus size: 58
334885 GTCAGGTGAC
* * * *
334895 CATTTTGTAACTTTTAATAGTCGGGGGACTCAACAAGGCAACATCCTATAGTCGGAGGAT
1 CATTTTGTAACTTTT-ATAGTCAGGGGACTCAACAAAGCAACACCCTATAATCGG-GGAT
* * *
334955 CATTTTATAACTTCTTATTGTTAGGGGACTCAACAAAGCAACACCCTATAATCGGGGAT
1 CATTTTGTAACTT-TTATAGTCAGGGGACTCAACAAAGCAACACCCTATAATCGGGGAT
*
335014 CATTTTGTAACTTTTGATTGTCAG
1 CATTTTGTAACTTTT-ATAGTCAG
335038 AAGAGACCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.03
59 23 0.32
60 45 0.62
61 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (58 bp):
CATTTTGTAACTTTTATAGTCAGGGGACTCAACAAAGCAACACCCTATAATCGGGGAT
Found at i:336150 original size:14 final size:14
Alignment explanation
Indices: 336131--336158 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
336121 GTTGGGGGAA
336131 TGTGAGATTCTCAT
1 TGTGAGATTCTCAT
336145 TGTGAGATTCTCAT
1 TGTGAGATTCTCAT
336159 GGGAATGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTGAGATTCTCAT
Found at i:336787 original size:20 final size:20
Alignment explanation
Indices: 336732--336780 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
336722 CATATTCCCT
336732 GGTAATCTTTTATTCCCACC
1 GGTAATCTTTTATTCCCACC
*
336752 GGTAATCTTTTATTCCTACC
1 GGTAATCTTTTATTCCCACC
336772 GGTAATCTT
1 GGTAATCTT
336781 ACATTCCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.43
Consensus pattern (20 bp):
GGTAATCTTTTATTCCCACC
Found at i:360557 original size:3 final size:3
Alignment explanation
Indices: 360549--360647 Score: 191
Period size: 3 Copynumber: 33.3 Consensus size: 3
360539 CAAAGTTGAC
360549 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
360597 ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
360644 ATT A
1 ATT A
360648 AGTGCAAGAG
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 93 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:362629 original size:24 final size:24
Alignment explanation
Indices: 362602--362655 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
362592 CCTGGTCACC
** *
362602 ACCACCTTGGGCACCCCCGGAAGA
1 ACCACCTTCAGCACCACCGGAAGA
*
362626 ACCACCTTCAGCACCACCGGATGA
1 ACCACCTTCAGCACCACCGGAAGA
362650 ACCACC
1 ACCACC
362656 AGACATGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.44, G:0.19, T:0.09
Consensus pattern (24 bp):
ACCACCTTCAGCACCACCGGAAGA
Found at i:365953 original size:17 final size:17
Alignment explanation
Indices: 365926--365968 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
365916 AATTCTCAGT
365926 ATTTAAATTTTT-TTATTA
1 ATTT-AATTTTTATT-TTA
*
365944 ATTTAATTTTTATTTTT
1 ATTTAATTTTTATTTTA
365961 ATTTAATT
1 ATTTAATT
365969 AAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTAATTTTTATTTTA
Found at i:366889 original size:16 final size:17
Alignment explanation
Indices: 366858--366890 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
366848 GGATATTATT
*
366858 TTAATATTTATTTTAAA
1 TTAATATTTATATTAAA
366875 TTAAT-TTTATATTAAA
1 TTAATATTTATATTAAA
366891 CAATAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATATTTATATTAAA
Found at i:367120 original size:65 final size:65
Alignment explanation
Indices: 367046--367177 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
367036 AGTTTATCCA
367046 TAAATTATATTTCAAACCCTTAAAAATAATAAAAGTATGATTTAGTCCTAAATGTTATAAAATTG
1 TAAATTATATTTCAAACCCTTAAAAATAATAAAAGTATGATTTAGTCCTAAATGTTATAAAATTG
*
367111 TAAATTATATTTCAACCCCTTAAAAATAATAAAAGTATGATTTAGTCCTAAATGTTATAAAATTG
1 TAAATTATATTTCAAACCCTTAAAAATAATAAAAGTATGATTTAGTCCTAAATGTTATAAAATTG
367176 TA
1 TA
367178 TTTTGAATCC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (65 bp):
TAAATTATATTTCAAACCCTTAAAAATAATAAAAGTATGATTTAGTCCTAAATGTTATAAAATTG
Found at i:380571 original size:6 final size:6
Alignment explanation
Indices: 380560--380584 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
380550 ATGGCTTTGC
380560 CTGATG CTGATG CTGATG CTGATG C
1 CTGATG CTGATG CTGATG CTGATG C
380585 ATTAGATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (6 bp):
CTGATG
Found at i:380763 original size:25 final size:25
Alignment explanation
Indices: 380735--380809 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
380725 AATTCTCAGC
*
380735 ATTTTCAGACCGACTTTGACGCATA
1 ATTTTCAGACCGTCTTTGACGCATA
380760 ATTTTCAGACCGTCTTTGACGCATA
1 ATTTTCAGACCGTCTTTGACGCATA
* *
380785 ATTTTCAGACTGTCTTTAACGCATA
1 ATTTTCAGACCGTCTTTGACGCATA
380810 CAATACAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (25 bp):
ATTTTCAGACCGTCTTTGACGCATA
Found at i:383300 original size:2 final size:2
Alignment explanation
Indices: 383287--383321 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
383277 TGTAGCCTAA
*
383287 AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
383322 GAGAGAGCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:384229 original size:12 final size:13
Alignment explanation
Indices: 384198--384229 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
384188 CCCTCATCAG
384198 ATTCATCATCTTC
1 ATTCATCATCTTC
384211 ATT-ATCATCTTC
1 ATTCATCATCTTC
384223 -TTCATCA
1 ATTCATCA
384230 ACACCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 13 0.72
13 3 0.17
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTCATCATCTTC
Found at i:389376 original size:15 final size:15
Alignment explanation
Indices: 389356--389386 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
389346 CATATATCTT
*
389356 ATCTATGAATTCTCA
1 ATCTATGAATCCTCA
389371 ATCTATGAATCCTCA
1 ATCTATGAATCCTCA
389386 A
1 A
389387 GGTTGAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (15 bp):
ATCTATGAATCCTCA
Found at i:402133 original size:40 final size:40
Alignment explanation
Indices: 402089--402166 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
402079 AGTTTTTGTG
*
402089 TTCGTTTAATTAAATGAACGAACATGAGCAGAGGGCTCAT
1 TTCGTTTAATTAAATGAACGAACATGAGCAAAGGGCTCAT
* *
402129 TTCGTTTAATTAAATGAATGGACATGAGCAAAGGGCTC
1 TTCGTTTAATTAAATGAACGAACATGAGCAAAGGGCTC
402167 GTTCGTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (40 bp):
TTCGTTTAATTAAATGAACGAACATGAGCAAAGGGCTCAT
Found at i:402227 original size:14 final size:14
Alignment explanation
Indices: 402208--402254 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
402198 AATATATTCG
402208 TTTATGTTTGTTCA
1 TTTATGTTTGTTCA
* *
402222 TTTATGTTCGTTCG
1 TTTATGTTTGTTCA
* *
402236 TTTATGTGTGTTTA
1 TTTATGTTTGTTCA
402250 TTTAT
1 TTTAT
402255 ATTTAGCTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.13, C:0.06, G:0.17, T:0.64
Consensus pattern (14 bp):
TTTATGTTTGTTCA
Found at i:407403 original size:21 final size:20
Alignment explanation
Indices: 407367--407443 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
407357 TGTCTAGCTC
*
407367 AAATGATCGAT-ACTTTAGCA
1 AAATGATCGATCCCTTT-GCA
*
407387 AAATGATCGATCCCTTTGACC
1 AAATGATCGATCCCTTTG-CA
* *
407408 AAATGATCGATCCCCTTGAA
1 AAATGATCGATCCCTTTGCA
* *
407428 AAATAATCAATCCCTT
1 AAATGATCGATCCCTT
407444 AGACAATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
20 25 0.53
21 22 0.47
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (20 bp):
AAATGATCGATCCCTTTGCA
Found at i:407512 original size:21 final size:21
Alignment explanation
Indices: 407461--407556 Score: 72
Period size: 21 Copynumber: 4.6 Consensus size: 21
407451 AATGAGTTTC
*
407461 AGATCGAT-CCTTCGAGGAAAA
1 AGATCGATCCCTTCGA-AAAAA
**
407482 AGATTAATCCCTTC-ATAAAAA
1 AGATCGATCCCTTCGA-AAAAA
*
407503 AGATCGATCCC-TCGAAGAAA
1 AGATCGATCCCTTCGAAAAAA
* * * *
407523 ATATCGGTCTCTTCCAAAAAA
1 AGATCGATCCCTTCGAAAAAA
*
407544 AGATCTATCCCTT
1 AGATCGATCCCTT
407557 TAGTATAACG
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
20 14 0.25
21 37 0.66
22 5 0.09
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (21 bp):
AGATCGATCCCTTCGAAAAAA
Found at i:410799 original size:23 final size:23
Alignment explanation
Indices: 410773--410820 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
410763 ATAAAGTACA
*
410773 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
410796 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
410819 AT
1 AT
410821 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:411331 original size:23 final size:23
Alignment explanation
Indices: 411296--411368 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
411286 ATACTTTACA
* *
411296 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
411319 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
411342 ATATAAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
411365 ATAT
1 ATAT
411369 TTTTACCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:411752 original size:21 final size:22
Alignment explanation
Indices: 411727--411778 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
411717 ATACTTTACA
*
411727 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
411750 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
411773 ATATAA
1 ATATAA
411779 GCGCTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:411763 original size:23 final size:23
Alignment explanation
Indices: 411737--411799 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
411727 ATATAACCAC
411737 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
411760 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
411783 TACATATTACATCATAT
1 TACCTATTACATTATAT
411800 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:411995 original size:430 final size:430
Alignment explanation
Indices: 411131--412422 Score: 2347
Period size: 430 Copynumber: 3.0 Consensus size: 430
411121 ATGTTTATTG
411131 TTTTTAATTTAATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
411195 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
411260 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
* *
411325 ACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
* *
411390 TGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAGGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
*
411455 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
411520 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
411561 TTTTTAATTTACTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
411626 AAATTAATATCTTAAAACTTACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
411691 TATAAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
*
411756 ACGATACCTATTACATTATATAAGCGCTACATATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
411821 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
411886 TTTTAATAGTGTTTAATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
411951 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
411991 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
412056 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
412121 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
412186 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
412251 TGTTCATACTTTTTATAAAAAGGATCGATACTT-TGTTT-AA---A-G----TTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
412306 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
412371 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
412412 -TTTAAATTTAA
1 TTTTTAATTTAA
412423 CAACATTAAC
Statistics
Matches: 840, Mismatches: 20, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
420 10 0.01
421 118 0.14
425 1 0.00
426 1 0.00
429 3 0.00
430 428 0.51
431 279 0.33
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (430 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
Found at i:412193 original size:23 final size:23
Alignment explanation
Indices: 412167--412229 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
412157 ATATAACCAC
412167 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
412190 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
412213 TACCTATTACATCATAT
1 TACCTATTACATTATAT
412230 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:412521 original size:25 final size:25
Alignment explanation
Indices: 412493--412557 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
412483 ACTCAAAAGA
*
412493 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
412518 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
412543 TGTACATACCTAAAT
1 TGTACATACCTAAAT
412558 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:415422 original size:183 final size:183
Alignment explanation
Indices: 415026--415510 Score: 868
Period size: 183 Copynumber: 2.7 Consensus size: 183
415016 TTACCGACAT
*
415026 TTTTTAAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGA
1 TTTTTGAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGA
* *
415091 AAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTAT--TGGTTATATTA
66 AAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTA
*
415154 CAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGACAC
131 CAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCAACAC
* *
415207 TTTTTTAAATGGTATCGACACATTTTTCTTCCAATTTGGACATAAAGTACCGACACAATATTAGA
1 TTTTTGAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGA
415272 AAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTA
66 AAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTA
*
415337 CAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCAACAC
131 CAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCAACAC
*
415390 TTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAA
1 TTTTTGA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAG
415454 AAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
65 AAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
415511 ATAGCATTGC
Statistics
Matches: 292, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
181 114 0.39
183 175 0.60
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TTTTTGAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGA
AAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTA
CAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCAACAC
Found at i:417828 original size:199 final size:200
Alignment explanation
Indices: 417381--418202 Score: 1514
Period size: 199 Copynumber: 4.1 Consensus size: 200
417371 GATGTTTTTG
417381 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
417446 TAAAAAAGTGTCGACACATTATTTATACATATTCTCTCAT-AAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTA
417510 GATTG--AAATTACATATTACATTATACTTTTGGG-TTCGAT-TTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
417571 TATAT
196 TATAT
* *
417576 GGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGATACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
417641 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACTGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTA
417706 GATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
417770 TATAT
196 TATAT
417775 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
417840 T-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTA
417904 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
*
417969 TACAT
196 TATAT
417974 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
418039 TAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTA
418104 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
418169 TATAT
196 TATAT
*
418174 GGTTCGACACTTTATGGTTGCACCCTGTT
1 GGATCGACACTTTATGGTTGCACCCTGTT
418203 GGCCATATTG
Statistics
Matches: 608, Mismatches: 13, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
195 102 0.17
196 27 0.04
198 131 0.22
199 190 0.31
200 158 0.26
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
TATAT
Found at i:418367 original size:19 final size:19
Alignment explanation
Indices: 418321--418369 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
418311 TTATATTCAC
*
418321 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
418340 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
418359 ATACAAAATTA
1 ATACAAAATTA
418370 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:420278 original size:21 final size:21
Alignment explanation
Indices: 420253--420296 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
420243 CCCCTTATGC
420253 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
420274 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
420295 CT
1 CT
420297 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:421432 original size:228 final size:228
Alignment explanation
Indices: 421034--421527 Score: 893
Period size: 228 Copynumber: 2.2 Consensus size: 228
421024 ACATACTTTT
421034 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
421099 ATTATTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 ATTATTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTCATTTACACAA
421164 AAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
421229 CAAATATAATAATAAATATGTTTTCCACAGTGAA
196 CAAAGATAATAATAAATATATTTT-CACAGTGAA
421263 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
421328 ATT-TTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTCATTTACACAA
66 ATTATTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTCATTTACACAA
*
421392 AAAATTATTTGATTGTTTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
131 AAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
421456 CCAAAGATAATAATAAATATATTTTCACAGTGAA
195 CCAAAGATAATAATAAATATATTTTCACAGTGAA
* * *
421490 ATAAGTATGAACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
421528 ACAATATAAC
Statistics
Matches: 257, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
227 44 0.17
228 138 0.54
229 75 0.29
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTATTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTCATTTACACAA
AAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:428777 original size:2 final size:2
Alignment explanation
Indices: 428770--428795 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
428760 AATAAATTTA
428770 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
428796 GTATGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:428863 original size:25 final size:25
Alignment explanation
Indices: 428817--428906 Score: 62
Period size: 25 Copynumber: 3.5 Consensus size: 25
428807 TTAAAATGAA
* *
428817 AATAAAATAT-TTAAATTGAGTTAAT
1 AATAAAATATATTTAA-TAAGTTAAT
428842 AATAAAATATATTTAATAAGTTATTAT
1 AATAAAATATATTTAATAAGTTA--AT
* *
428869 AA-AAGAATATTTTTTA-AAGTTAAT
1 AATAA-AATATATTTAATAAGTTAAT
428893 ATATATAAA-ATATT
1 A-ATA-AAATATATT
428907 ATGAATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.06
25 21 0.40
26 15 0.28
27 14 0.26
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (25 bp):
AATAAAATATATTTAATAAGTTAAT
Found at i:428870 original size:27 final size:26
Alignment explanation
Indices: 428840--428905 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
428830 AATTGAGTTA
*
428840 ATAATAAAATATATTTAATAAGTTATT
1 ATAATAAAATATATTTAA-AAGTTAAT
* *
428867 ATAA-AAGAATATTTTTTAAAGTTAAT
1 ATAATAA-AATATATTTAAAAGTTAAT
428893 ATATATAAAATAT
1 ATA-ATAAAATAT
428906 TATGAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 12 0.36
27 19 0.58
28 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (26 bp):
ATAATAAAATATATTTAAAAGTTAAT
Found at i:429144 original size:2 final size:2
Alignment explanation
Indices: 429139--429165 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
429129 CATTGAGAGA
429139 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
429166 ACAGGGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:429807 original size:29 final size:30
Alignment explanation
Indices: 429768--429826 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
429758 TCAAACAAAT
*
429768 TTGGGTACCTG-TTTTCAAAAAAATAAAAA
1 TTGGGTACCTGATTTTCAAAAAAAGAAAAA
429797 TTGGGTACCTGATTTTCAAAAAAAGAAAAA
1 TTGGGTACCTGATTTTCAAAAAAAGAAAAA
429827 GAAACGGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (30 bp):
TTGGGTACCTGATTTTCAAAAAAAGAAAAA
Found at i:435537 original size:55 final size:55
Alignment explanation
Indices: 435459--435935 Score: 486
Period size: 55 Copynumber: 8.8 Consensus size: 55
435449 CCACTGGGTT
* * * * * **
435459 TGCTCCCTTTTGCTTCAGGGAGTATAAAACTCAAACAATCTTCATA-AAACAAGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAAACGTGTC
* * * *
435514 TGTTCTCTATTCCTTCAGAGAGTATAGGACT---A-AATCTTCAACAAATGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC
* * *
435565 CGCTCCCCATTCCTTCAGAGAGTATAGGACT----CAATCTTCAATCAAACGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-CAAACGTGTC
* ** * * *
435617 CGCTCCCTATTTTTTCAGAGAGTATATGACTTGAACAACCTTCAACAAACGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC
* * *
435672 TGCTCCCTATTCCTTCAGAGAGTATATGACTTGAACAACCTTCAACAAACGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC
* * * **
435727 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCAAATAATTTTCAACATTCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC
* * * * ** *
435782 TGCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATTTTCAATATTCATGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC
* * * * *
435837 TGCTCCCTATTGCTTAAGAGAGTATGAGACTTGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC
* **
435892 TGCTCTCTATTTGTTCAGAGAGTATAAGACTCGAACAATCTTCA
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCA
435936 TTTGCTTCAC
Statistics
Matches: 364, Mismatches: 51, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.00
51 50 0.14
52 37 0.10
55 267 0.73
56 9 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (55 bp):
TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTC
Found at i:454096 original size:834 final size:831
Alignment explanation
Indices: 452314--453985 Score: 2827
Period size: 834 Copynumber: 2.0 Consensus size: 831
452304 AAGCTTTGAA
* * * * * * *
452314 ATGAATGGGAAAACATTGAGCACCAAAATGCCCTTATAGACTATACTAAGTAAATGTCTTGGATT
1 ATGAATGGAAAAACAGTGAGCACCAAAATGCCCTGATAGACGATA-TAAGTAAATGTATTCGATC
* ** * **
452379 AATTAAGAAATTGTAATAAACATGAATGTTGTACTTCTTTTTAATGTTATGAAACGCAATTTAAG
65 AATTAAGAAATTGTAATAAACAT-AATGATCAAATTCACTTTAATGTTATGAAACGCAATTTAAG
452444 CCGGTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTT
129 CCGGTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTT
452509 CGTCTCCTCAAGTTTGGATTGATAATTTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCAT
194 CGTCTCCTCAAGTTTGGATTGATAATTTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCAT
452574 TCGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATA
259 TCGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATA
* *
452639 TGATGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTTAGAAGTGTCTGAATTAATCT
324 TGAAGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTCAGAAGTGTCTGAATTAATCT
452704 GGAAAACTCTGAAGTAACCGGGATAGCTTGCGTGCTAAATGAACTAAGTAACCTCTACTGAGGAT
389 GGAAAACTCTGAAGTAACCGGGATAGCTTGCGTGCTAAATGAACTAAGTAACCTCTACTGAGGAT
*
452769 TTAATAGGTGATTGGATGAGTTTGGAAACACTGATAATATATATGATGAATTGTCTTATGGGTCA
454 TTAATAGGTGATTGGATGAGTTTGAAAACACTGATAATATATATGATGAATTGTCTTATGGGTCA
452834 TGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTGAAACGTAGAAATGAAATAAAGAC
519 TGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTGAAACGTAGAAATGAAATAAAGAC
*
452899 CATAGGAAGATCTATTCAGCAATGGTTACGAAGATGATTTATGTACAAGAATTGTTAGTATTAAA
584 CATAGGAAGATCTATTCAGCAATGGTTACGAAAATGATTTATGTACAAGAATTGTTAGTATTAAA
* *
452964 GAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCGACACGCATTAGTTCTGAGAGTTGTTCAG
649 GAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCAACACGCATTAGTTCTAAGAGTTGTTCAG
*
453029 TTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAAGTCTGGAATCTCTGTTTTCTTTT
714 TTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAAGTCTGGAATCTCCGTTTTCTTTT
453094 ATTAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATGTATATGAATC
779 ATTAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATG-ATATGAATC
* * * * * *
453148 ATGAATGGAAAAACATTGAGCACCAAAATGCCCTTATAGACTATACTAAGTAAATGTCTTGGATT
1 ATGAATGGAAAAACAGTGAGCACCAAAATGCCCTGATAGACGATA-TAAGTAAATGTATTCGATC
* ** * **
453213 AATTAAGAAATTGTAATAAACATGAATGTTGTACTTCTTTTTAATGTTATGAAACGCAATTTAAG
65 AATTAAGAAATTGTAATAAACAT-AATGATCAAATTCACTTTAATGTTATGAAACGCAATTTAAG
453278 CCGGTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTT
129 CCGGTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTT
453343 CGTCTCCTCAAGTTTGGATTGATAATAATTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGC
194 CGTCTCCTCAAGTTTGGATTGATAAT--TTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGC
453408 ATTCGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTA
257 ATTCGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTA
*
453473 TATGAAGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTCAGAAGTTTCTGAATTAAT
322 TATGAAGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTCAGAAGTGTCTGAATTAAT
453538 CTGGAAAACTCTGAAGTAACCGGGATAGACTTGCGTGCTAAATGAACTAAGTAACCTCAATGACT
387 CTGGAAAACTCTGAAGTAACCGGGATAG-CTTGCGTGCTAAATGAACTAAGTAACCTC--T-ACT
453603 GAGGATTTAATAGGTGATTGGATGAGTTTGAAAACACTGATAAATATATATGATGAATTGTCTTT
448 GAGGATTTAATAGGTGATTGGATGAGTTTGAAAACACTGAT-AATATATATGATGAATTGTC-TT
* *
453668 ATGGGTCATGAACCATGAATTAAGTACGTCTGTATTTTCTTATATTGTTGAAACGTGGAAATGAA
511 ATGGGTCATGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTGAAACGTAGAAATGAA
*
453733 ATAAAGCCCATAGGAAGATCTATTCAGCAATGGTTACGAAAATGATTTATGTACAAGAATTGTTA
576 ATAAAGACCATAGGAAGATCTATTCAGCAATGGTTACGAAAATGATTTATGTACAAGAATTGTTA
453798 GTATTAAAGAGTGAATACTTGGAAAGGCAATAAATTGAC-GGTCAACACGCATTAGTTCTAAGAG
641 GTATTAAAGAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCAACACGCATTAGTTCTAAGAG
453862 TTGTTCAGTTCAAATAGTACGAT-AACCGATCGATC-A-ATGAATTGTAATGTCTGGAATCTCCG
706 TTGTTCAGTTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAA-GTCTGGAATCTCCG
*
453924 TTTT-TCTTTATT-GCTCAAATCACTCAGGTTATTCCTGAACGCTTTCCTGATG-TATGAATC
770 TTTTCT-TTTATTAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATGATATGAATC
453984 AT
1 AT
453986 AGTGGAATTC
Statistics
Matches: 815, Mismatches: 13, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
834 220 0.27
836 202 0.25
837 29 0.04
838 51 0.06
839 25 0.03
840 55 0.07
841 66 0.08
842 167 0.20
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (831 bp):
ATGAATGGAAAAACAGTGAGCACCAAAATGCCCTGATAGACGATATAAGTAAATGTATTCGATCA
ATTAAGAAATTGTAATAAACATAATGATCAAATTCACTTTAATGTTATGAAACGCAATTTAAGCC
GGTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTTCG
TCTCCTCAAGTTTGGATTGATAATTTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCATTC
GATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATATG
AAGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTCAGAAGTGTCTGAATTAATCTGG
AAAACTCTGAAGTAACCGGGATAGCTTGCGTGCTAAATGAACTAAGTAACCTCTACTGAGGATTT
AATAGGTGATTGGATGAGTTTGAAAACACTGATAATATATATGATGAATTGTCTTATGGGTCATG
AACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTGAAACGTAGAAATGAAATAAAGACCA
TAGGAAGATCTATTCAGCAATGGTTACGAAAATGATTTATGTACAAGAATTGTTAGTATTAAAGA
GTGAATACTTGGAAAGGCAATAAATTGACGGGTCAACACGCATTAGTTCTAAGAGTTGTTCAGTT
CAAATAGTACGATAAACCGATCGATCAACATGAATTGTAAGTCTGGAATCTCCGTTTTCTTTTAT
TAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATGATATGAATC
Found at i:460536 original size:21 final size:21
Alignment explanation
Indices: 460510--460553 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
460500 TGGATAGACT
460510 TGAACGTTGGTTGCATGTCGA
1 TGAACGTTGGTTGCATGTCGA
460531 TGAACGTTGGTTGCATGTCGA
1 TGAACGTTGGTTGCATGTCGA
460552 TG
1 TG
460554 GACTGAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (21 bp):
TGAACGTTGGTTGCATGTCGA
Found at i:460648 original size:32 final size:36
Alignment explanation
Indices: 460587--460661 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 36
460577 ATTTTTAAAT
460587 TTTTATATACTTTAAATATTTTACTATTAA-TTT-A
1 TTTTATATACTTTAAATATTTTACTATTAACTTTGA
460621 TTTT-TAT-CTTTAAA-ATTTTA-TAAATTAACTTTGA
1 TTTTATATACTTTAAATATTTTACT--ATTAACTTTGA
460655 TTTTATA
1 TTTTATA
460662 AACTCAATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
30 1 0.03
31 6 0.17
32 12 0.33
33 6 0.17
34 9 0.25
35 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTTATATACTTTAAATATTTTACTATTAACTTTGA
Found at i:461545 original size:17 final size:17
Alignment explanation
Indices: 461508--461554 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
461498 TTCACGGAAT
*
461508 ATAAGATTATCAGCAGGA
1 ATAAGATTA-CTGCAGGA
*
461526 ATAAGATTACTGCGGGA
1 ATAAGATTACTGCAGGA
461543 ATAAGATTACTG
1 ATAAGATTACTG
461555 AGAATGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (17 bp):
ATAAGATTACTGCAGGA
Found at i:463882 original size:17 final size:20
Alignment explanation
Indices: 463839--463922 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
463829 TCACAGAATT
463839 AAGATTATCAGTAGGAATAA
1 AAGATTATCAGTAGGAATAA
463859 AAGATTATCAGTAGG-A-AA
1 AAGATTATCAGTAGGAATAA
463877 AA-ATTATCAGTAGGAATAA
1 AAGATTATCAGTAGGAATAA
* *
463896 AAGATTATCAGTGGGAATGA
1 AAGATTATCAGTAGGAATAA
463916 AAGATTA
1 AAGATTA
463923 CCAGGGAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 12 0.20
18 5 0.08
19 5 0.08
20 37 0.63
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.25
Consensus pattern (20 bp):
AAGATTATCAGTAGGAATAA
Found at i:463892 original size:37 final size:37
Alignment explanation
Indices: 463842--463912 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
463832 CAGAATTAAG
463842 ATTATCAGTAGGAATAAAAGATTATCAGTAGGAAAAA
1 ATTATCAGTAGGAATAAAAGATTATCAGTAGGAAAAA
*
463879 ATTATCAGTAGGAATAAAAGATTATCAGTGGGAA
1 ATTATCAGTAGGAATAAAAGATTATCAGTAGGAA
463913 TGAAAGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.25
Consensus pattern (37 bp):
ATTATCAGTAGGAATAAAAGATTATCAGTAGGAAAAA
Done.