Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005203.1 Hibiscus syriacus cultivar Beakdansim tig00011761_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: 1490345
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:704597 original size:37 final size:37
Alignment explanation
Indices: 704547--704706 Score: 137
Period size: 37 Copynumber: 4.6 Consensus size: 37
704537 AGTGTTTATA
*
704547 TTTCAAGAGAAACTATCTCAATGGAGACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAATGGAGACAAAATTTTG
**
704584 TTTCAAGGGAAACTATCTCAA-GAGAGACAAAA-TTCA
1 TTTCAAGGGAAACTATCTCAATG-GAGACAAAATTTTG
* *
704620 TTTCAAGGGAAA-TGTTTTCAAT---G------TTTATG
1 TTTCAAGGGAAACT-ATCTCAATGGAGACAAAATTT-TG
* * *
704649 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAATGGAGACAAAATTTTG
704686 TTTCAAGGGAAACTATCTCAA
1 TTTCAAGGGAAACTATCTCAA
704707 AAATTCATTT
Statistics
Matches: 95, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
28 2 0.02
29 16 0.17
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 20 0.21
37 50 0.53
38 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (37 bp):
TTTCAAGGGAAACTATCTCAATGGAGACAAAATTTTG
Found at i:704686 original size:102 final size:102
Alignment explanation
Indices: 704510--705205 Score: 1098
Period size: 94 Copynumber: 7.0 Consensus size: 102
704500 AACTATCTCA
* * * *
704510 AAAATTCATTTCAAGGGAAATGTTTTCAGTGTTTATATTTCAAGAGAAACTATCTCAATGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
704575 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
704612 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
704677 AAAATTTTGTTTCAAGGGAAACTATCTC-------A-
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
704706 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
* *
704771 AAAATTTTGTTTCAAGAGAAACTATCT-------TA-
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
704800 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
* *
704865 AAAATTTTGTTTCAATGGAAACTAACTCAAGAGAGAC
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
704902 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
*
704967 ACAATTTTGTTTCAAGGGAAACTATCTC-------A-
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* *
704996 AAAATTCATTTTAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
705061 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
705098 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
*
705163 AAAATTTTGTTTTAAGGGAAACTATCTCAAGCGAGAGAC
66 AAAATTTTGTTTCAAGGGAAACTATCTCAA--GAGAGAC
705202 AAAA
1 AAAA
705206 ATTTTGTTTT
Statistics
Matches: 557, Mismatches: 18, Indels: 36
0.91 0.03 0.06
Matches are distributed among these distances:
94 271 0.49
95 2 0.00
101 2 0.00
102 271 0.49
104 11 0.02
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (102 bp):
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
Found at i:704886 original size:37 final size:37
Alignment explanation
Indices: 704835--704907 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
704825 TCAATGTTTA
** *
704835 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTAACTCAAGAGAGACAAAATTT
704872 TGTTTCAATG-GAAACTAACTCAAGAGAGACAAAATT
1 TGTTTCAA-GAGAAACTAACTCAAGAGAGACAAAATT
704908 CATTTCAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTAACTCAAGAGAGACAAAATTT
Found at i:704913 original size:290 final size:290
Alignment explanation
Indices: 704487--705205 Score: 1231
Period size: 290 Copynumber: 2.4 Consensus size: 290
704477 GTCTCAAAGG
* * *
704487 TTGTTTCAAGGGGAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAGTGTTTATATTTCA
1 TTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
* *
704552 AGAGAAACTATCTCAATGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
66 AGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
704617 TCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
131 TCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
*
704682 TTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTC
196 TTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTA
704747 AAGAGAAACTGTCTCAAGGGAGACAAAATT
261 AAGAGAAACTGTCTCAAGGGAGACAAAATT
* *
704777 TTGTTTCAAGAGAAACTATCTTAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
1 TTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
* *
704842 AGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAATGGAAACTAACTCAAGAGAGACAAAAT
66 AGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
*
704907 TCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACACAAT
131 TCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
*
704972 TTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTTAAGGGAAATGTTTTCAATGTTTATGTTTA
196 TTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTA
705037 AAGAGAAACTGTCTCAAGGGAGACAAAATT
261 AAGAGAAACTGTCTCAAGGGAGACAAAATT
705067 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTT
1 TTGTTTCAAGGGAAACTATCTC-------A-AAAATTCATTTCAAGGGAAATGTTTTCAATGTTT
*
705132 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAGGGAAACTATCTCAAGCGA
58 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAA--GA
705197 GAGACAAAA
121 GAGACAAAA
705206 ATTTTGTTTT
Statistics
Matches: 402, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
290 298 0.74
297 1 0.00
298 92 0.23
300 11 0.03
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (290 bp):
TTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
AGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
TCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
TTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTA
AAGAGAAACTGTCTCAAGGGAGACAAAATT
Found at i:704921 original size:36 final size:37
Alignment explanation
Indices: 704837--704921 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
704827 AATGTTTATG
* ** * **
704837 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTAACTCAAGAGAGACAAAATTTCA
*
704874 TTTCAATGGAAACTAACTCAAGAGAGACAAAA-TTCA
1 TTTCAAGGGAAACTAACTCAAGAGAGACAAAATTTCA
704910 TTTCAAGGGAAA
1 TTTCAAGGGAAA
704922 TGTTTTCAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 13 0.32
37 27 0.68
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (37 bp):
TTTCAAGGGAAACTAACTCAAGAGAGACAAAATTTCA
Found at i:705082 original size:37 final size:37
Alignment explanation
Indices: 705031--705247 Score: 177
Period size: 37 Copynumber: 6.0 Consensus size: 37
705021 TCAATGTTTA
* * *
705031 TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
*
705068 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
** * * *
705104 CATTTCAAGGGAAA-TGTTTTCAA---TG------TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGGGAGACAAAATTT
* *
705132 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
*
705170 TGTTTTAAGGGAAACTATCTCAAGCGAGAGACAAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAG-G-GAGAC-AAAATTT
* * *
705210 TGTTTTAAGGGAAACTATCTCAAGCGAGATAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
705247 T
1 T
705248 CTTTAAAAAC
Statistics
Matches: 144, Mismatches: 20, Indels: 32
0.73 0.10 0.16
Matches are distributed among these distances:
28 2 0.01
29 16 0.11
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 19 0.13
37 59 0.41
38 8 0.06
39 5 0.03
40 31 0.22
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
Found at i:705191 original size:196 final size:196
Alignment explanation
Indices: 704510--705192 Score: 1130
Period size: 196 Copynumber: 3.5 Consensus size: 196
704500 AACTATCTCA
* * * *
704510 AAAATTCATTTCAAGGGAAATGTTTTCAGTGTTTATATTTCAAGAGAAACTATCTCAATGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
704575 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCA
66 AAAATTTTGTTTCAAGGGAAACTATCTC-------A-AAAATTCATTTCAAGGGAAATGTTTTCA
704640 ATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTC
123 ATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTC
704705 -------A-
188 AAGAGAGAC
704706 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
* *
704771 AAAATTTTGTTTCAAGAGAAACTATCTTAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
* *
704836 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAATGGAAACTAACTCAAGAGAGA
131 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
704901 C
196 C
704902 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
* *
704967 ACAATTTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTTAAGGGAAATGTTTTCAATGTTTAT
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
*
705032 GTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
131 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
705097 C
196 C
705098 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
*
705163 AAAATTTTGTTTTAAGGGAAACTATCTCAA
66 AAAATTTTGTTTCAAGGGAAACTATCTCAA
705193 GCGAGAGACA
Statistics
Matches: 462, Mismatches: 17, Indels: 16
0.93 0.03 0.03
Matches are distributed among these distances:
188 91 0.20
189 1 0.00
195 1 0.00
196 369 0.80
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (196 bp):
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
AAAATTTTGTTTCAAGGGAAACTATCTCAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
C
Found at i:705215 original size:40 final size:39
Alignment explanation
Indices: 705133--705238 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 39
705123 TCAATGTTTA
* * *
705133 TGTTTCAAGAGAAACTGTCTCAAG-G-GAGACAAAATTT
1 TGTTTTAAGGGAAACTATCTCAAGCGAGAGACAAAATTT
705170 TGTTTTAAGGGAAACTATCTCAAGCGAGAGACAAAAATTT
1 TGTTTTAAGGGAAACTATCTCAAGCGAGAGAC-AAAATTT
705210 TGTTTTAAGGGAAACTATCTCAAGCGAGA
1 TGTTTTAAGGGAAACTATCTCAAGCGAGA
705239 TAAAATTTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
37 21 0.33
38 1 0.02
39 5 0.08
40 36 0.57
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (39 bp):
TGTTTTAAGGGAAACTATCTCAAGCGAGAGACAAAATTT
Found at i:710656 original size:18 final size:18
Alignment explanation
Indices: 710635--710716 Score: 66
Period size: 18 Copynumber: 4.7 Consensus size: 18
710625 TAAAACAAGT
* *
710635 GAAAATGTATAAAATAAA
1 GAAAATGAAGAAAATAAA
710653 GAAAATGAAGAAAATAAA
1 GAAAATGAAGAAAATAAA
* *
710671 -ATAA--AACAAAATAAA
1 GAAAATGAAGAAAATAAA
710686 -AAAAT-AAGATAAATAAA
1 GAAAATGAAGA-AAATAAA
*
710703 GTAAAATAAAGAAA
1 G-AAAATGAAGAAA
710717 TGAAAAAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
15 13 0.25
16 3 0.06
17 10 0.19
18 16 0.30
19 7 0.13
20 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.10, T:0.16
Consensus pattern (18 bp):
GAAAATGAAGAAAATAAA
Found at i:710657 original size:9 final size:9
Alignment explanation
Indices: 710645--710716 Score: 64
Period size: 9 Copynumber: 8.3 Consensus size: 9
710635 GAAAATGTAT
710645 AAAATAAAG
1 AAAATAAAG
*
710654 AAAATGAAG
1 AAAATAAAG
710663 AAAAT-AA-
1 AAAATAAAG
* *
710670 AATA-AAAC
1 AAAATAAAG
710678 AAAATAAA-
1 AAAATAAAG
710686 AAAAT-AAG
1 AAAATAAAG
710694 ATAAATAAAG
1 A-AAATAAAG
710704 TAAAATAAAG
1 -AAAATAAAG
710714 AAA
1 AAA
710717 TGAAAAAAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
7 7 0.13
8 11 0.21
9 23 0.43
10 11 0.21
11 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.14
Consensus pattern (9 bp):
AAAATAAAG
Found at i:710671 original size:5 final size:5
Alignment explanation
Indices: 710663--710712 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
710653 GAAAATGAAG
* * *
710663 AAAAT AAAAT AAAAC AAAAT -AAA- AAAAT AAGAT -AAAT AAAGT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
710710 AAA
1 AAA
710713 GAAATGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
4 9 0.25
5 27 0.75
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:710673 original size:23 final size:22
Alignment explanation
Indices: 710643--710708 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
710633 GTGAAAATGT
* *
710643 ATAAAATAAAGAAAATGAAGAAA
1 ATAAAATAAACAAAAT-AAAAAA
710666 ATAAAATAAAACAAAATAAAAAA
1 ATAAAAT-AAACAAAATAAAAAA
* * *
710689 ATAAGATAAATAAAGTAAAA
1 ATAAAATAAACAAAATAAAA
710709 TAAAGAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.30
23 18 0.49
24 8 0.22
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.15
Consensus pattern (22 bp):
ATAAAATAAACAAAATAAAAAA
Found at i:710949 original size:23 final size:23
Alignment explanation
Indices: 710923--710974 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
710913 TAAAACAAAC
* *
710923 AATAAGTAAAAAATGACAATAAT
1 AATAAGCAAAAAATAACAATAAT
* * *
710946 AATAAACACAAAATAATAATAAT
1 AATAAGCAAAAAATAACAATAAT
710969 AATAAG
1 AATAAG
710975 ATTGTGACAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (23 bp):
AATAAGCAAAAAATAACAATAAT
Found at i:711522 original size:20 final size:20
Alignment explanation
Indices: 711493--711534 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
711483 GGCACCGCCT
* * *
711493 CGCCGGCTGCCGTTGATCGG
1 CGCCGACTGCCGGTCATCGG
711513 CGCCGACTGCCGGTCATCGG
1 CGCCGACTGCCGGTCATCGG
711533 CG
1 CG
711535 GCAAAACCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.38, G:0.38, T:0.17
Consensus pattern (20 bp):
CGCCGACTGCCGGTCATCGG
Found at i:713225 original size:20 final size:20
Alignment explanation
Indices: 713202--713239 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
713192 TTTTTCAATT
*
713202 AATA-AATTCATATTTTTAAA
1 AATATAATT-ATAATTTTAAA
713222 AATATAATTATAATTTTA
1 AATATAATTATAATTTTA
713240 TGAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATAATTATAATTTTAAA
Found at i:714444 original size:24 final size:24
Alignment explanation
Indices: 714417--714489 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
714407 CGTTCATTTA
714417 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
714441 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
714465 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
714489 C
1 C
714490 ATTCATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 42 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:714446 original size:14 final size:14
Alignment explanation
Indices: 714427--714482 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
714417 CGTTCGTGAA
714427 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
714441 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
714455 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
714465 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
714479 CGTT
1 CGTT
714483 TATGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:714499 original size:24 final size:23
Alignment explanation
Indices: 714428--714502 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 23
714418 GTTCGTGAAC
* *
714428 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
714452 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
*
714476 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCA-TTAT
714500 GTT
1 GTT
714503 TAACCCAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTCATTAT
Found at i:715614 original size:16 final size:16
Alignment explanation
Indices: 715585--715641 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
715575 AACATTTATA
715585 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
* *
715601 TTCATTTATTTTCGTG
1 TTCGTTTATGTTCGTG
715617 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
715633 TTCGTTTAT
1 TTCGTTTAT
715642 TTATTAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.09, C:0.12, G:0.19, T:0.60
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:726181 original size:13 final size:13
Alignment explanation
Indices: 726140--726183 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
726130 CCGGTCAGAT
726140 CGTTGACTTTGAC
1 CGTTGACTTTGAC
*
726153 TGTTTGACTGTTTGAC
1 CG-TTGAC--TTTGAC
726169 CGTTGACTTTGAC
1 CGTTGACTTTGAC
726182 CG
1 CG
726184 AAAAAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.35
14 5 0.19
15 5 0.19
16 7 0.27
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (13 bp):
CGTTGACTTTGAC
Found at i:727885 original size:31 final size:31
Alignment explanation
Indices: 727850--727960 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
727840 TTCAGTCGTT
727850 ACTGGTAATTCCTTGTATAGGTTTAGCATCG
1 ACTGGTAATTCCTTGTATAGGTTTAGCATCG
* * *
727881 ACTGGTAATTCTTATCTCTGGCAGGTTTAG--TCG
1 ACTGGTAATTCCT-TGTAT---AGGTTTAGCATCG
* *
727914 ATACTGGTAATTCCTTGTATAGGTTCAGCACCG
1 --ACTGGTAATTCCTTGTATAGGTTTAGCATCG
727947 ACTGGTAATTCCTT
1 ACTGGTAATTCCTT
727961 ATGGACCTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
31 33 0.52
32 3 0.05
33 5 0.08
34 3 0.05
35 20 0.31
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
ACTGGTAATTCCTTGTATAGGTTTAGCATCG
Found at i:727921 original size:66 final size:67
Alignment explanation
Indices: 727837--727962 Score: 209
Period size: 66 Copynumber: 1.9 Consensus size: 67
727827 AGAATCTGAA
* * *
727837 AGGTTCAGTCGTTACTGGTAATTCCTTGTATAGGTTTAGCATCGACTGGTAATT-CTTATCTCTG
1 AGGTTCAGTCGATACTGGTAATTCCTTGTATAGGTTCAGCACCGACTGGTAATTCCTTATCTCTG
727901 GC
66 GC
*
727903 AGGTTTAGTCGATACTGGTAATTCCTTGTATAGGTTCAGCACCGACTGGTAATTCCTTAT
1 AGGTTCAGTCGATACTGGTAATTCCTTGTATAGGTTCAGCACCGACTGGTAATTCCTTAT
727963 GGACCTAAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
66 50 0.91
67 5 0.09
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (67 bp):
AGGTTCAGTCGATACTGGTAATTCCTTGTATAGGTTCAGCACCGACTGGTAATTCCTTATCTCTG
GC
Found at i:729359 original size:20 final size:20
Alignment explanation
Indices: 729324--729376 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
729314 TCGATTTTCC
729324 AAATTCGCAACACGAATCTGT
1 AAATT-GCAACACGAATCTGT
* *
729345 AAATTGCAACGCGAATTTGT
1 AAATTGCAACACGAATCTGT
*
729365 AAATCGCAACAC
1 AAATTGCAACAC
729377 ATAAGTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
AAATTGCAACACGAATCTGT
Found at i:729397 original size:20 final size:20
Alignment explanation
Indices: 729368--729594 Score: 148
Period size: 20 Copynumber: 11.3 Consensus size: 20
729358 AATTTGTAAA
729368 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
* *
729388 TCGTAACACAGAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
**
729408 TCGCAATGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
*
729428 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
729448 TCGCAACAC-TGAAGTCAAAT
1 TCGCAACACAT-AAGTCAAAT
* * **
729468 TCGTAACGCGAATCTGT-AAA-
1 TCGCAACAC--ATAAGTCAAAT
* **
729488 TCGCAACGCGAATTTGT-AAA-
1 TCGCAACAC--ATAAGTCAAAT
*
729508 TCGCAACACAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
729528 TCGCAACAC-TGAATTTCAAAT
1 TCGCAACACAT-AA-GTCAAAT
* *
729549 TTGCAACACAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
729569 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
729589 TCGCAA
1 TCGCAA
729595 AGCCCGTTTA
Statistics
Matches: 169, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
18 4 0.02
19 3 0.02
20 138 0.82
21 21 0.12
22 2 0.01
23 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:729412 original size:40 final size:41
Alignment explanation
Indices: 729368--729594 Score: 172
Period size: 40 Copynumber: 5.7 Consensus size: 41
729358 AATTTGTAAA
*
729368 TCGCAACAC-ATAAGTCAAATTCGTAACACAGAAGTCAAAT
1 TCGCAACACGATAAGTCAAATTCGCAACACAGAAGTCAAAT
** *
729408 TCGCAATGCGAT-AGTCAAATTCGCAACGC-GATAGTCAAAT
1 TCGCAACACGATAAGTCAAATTCGCAACACAGA-AGTCAAAT
* *
729448 TCGCAACAC--TGAAGTCAAATTCGTAACGC-GAA-TCTGTAAA-
1 TCGCAACACGAT-AAGTCAAATTCGCAACACAGAAGTC---AAAT
* ** *
729488 TCGCAACGCGAATTTGT-AAA-TCGCAACACAAAAGTCAAAT
1 TCGCAACACG-ATAAGTCAAATTCGCAACACAGAAGTCAAAT
** * *
729528 TCGCAACACTGA-ATTTCAAATTTGCAACACAAAAGTCAAAT
1 TCGCAACAC-GATAAGTCAAATTCGCAACACAGAAGTCAAAT
*
729569 TCGCAACGCGAT-AGTCAAATTCGCAA
1 TCGCAACACGATAAGTCAAATTCGCAA
729595 AGCCCGTTTA
Statistics
Matches: 149, Mismatches: 21, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
38 3 0.02
39 8 0.05
40 95 0.64
41 38 0.26
42 4 0.03
43 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (41 bp):
TCGCAACACGATAAGTCAAATTCGCAACACAGAAGTCAAAT
Found at i:729432 original size:60 final size:61
Alignment explanation
Indices: 729323--729594 Score: 203
Period size: 60 Copynumber: 4.5 Consensus size: 61
729313 TTCGATTTTC
*
729323 CAAATTCGCAACAC-GAA-TCTGTAAATT-GCAACGCGAATTTGT-AAA-TCGCAACAC-ATAAG
1 CAAATTCGCAACACAGAAGTC---AAATTCGCAACGCG-A-TAGTCAAATTCGCAACACGATAAG
729382 T
61 T
* * *
729383 CAAATTCGTAACACAGAAGTCAAATTCGCAATGCGATAGTCAAATTCGCAACGCGAT-AGT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACGATAAGT
* * * * **
729443 CAAATTCGCAACACTGAAGTCAAATTCGTAACGCGAATCTGT-AAA-TCGCAACGCGAATTTGT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACGCG-AT-AGTCAAATTCGCAACACG-ATAAGT
* * * * *
729505 -AAA-TCGCAACACAAAAGTCAAATTCGCAACACTGA-ATTTCAAATTTGCAACAC-AAAAGT
1 CAAATTCGCAACACAGAAGTCAAATTCGCAACGC-GATA-GTCAAATTCGCAACACGATAAGT
*
729564 CAAATTCGCAACGC-GATAGTCAAATTCGCAA
1 CAAATTCGCAACACAGA-AGTCAAATTCGCAA
729595 AGCCCGTTTA
Statistics
Matches: 172, Mismatches: 23, Indels: 33
0.75 0.10 0.14
Matches are distributed among these distances:
58 3 0.02
59 13 0.08
60 105 0.61
61 45 0.26
62 6 0.03
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.22
Consensus pattern (61 bp):
CAAATTCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACGATAAGT
Found at i:729764 original size:22 final size:22
Alignment explanation
Indices: 729736--729782 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
729726 ATCTCCATCT
729736 GTCCCCATCTCCGACGAAATCC
1 GTCCCCATCTCCGACGAAATCC
* *
729758 GTCCCCATCTCCGGCGAAATTC
1 GTCCCCATCTCCGACGAAATCC
729780 GTC
1 GTC
729783 TATCTCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.43, G:0.17, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCC
Found at i:730170 original size:19 final size:20
Alignment explanation
Indices: 730148--730187 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
730138 AATCGCAACA
*
730148 CGATTTT-AGTTTCGCTTTG
1 CGATTTTCAGTTTCGCATTG
*
730167 CGATTTTCATTTTCGCATTG
1 CGATTTTCAGTTTCGCATTG
730187 C
1 C
730188 AAATTTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.12, C:0.20, G:0.17, T:0.50
Consensus pattern (20 bp):
CGATTTTCAGTTTCGCATTG
Found at i:731947 original size:42 final size:42
Alignment explanation
Indices: 731909--732018 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
731899 TCGGTGCTTT
* *
731909 GCGTAATGATGTCAGTACTTTACGTGAAGACAATGGTGCATG
1 GCGTAATGAGGTCAGTACTTTACGTGAAGAAAATGGTGCATG
* * * *
731951 GTGTCATGAGGTCGGTACTTTACGTGAAGAAAATGGTGCATA
1 GCGTAATGAGGTCAGTACTTTACGTGAAGAAAATGGTGCATG
* *
731993 GCGTCATGAGGTACGGT-CTTTACGTG
1 GCGTAATGAGGT-CAGTACTTTACGTG
732019 GTGAGGTGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 56 0.93
43 4 0.07
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (42 bp):
GCGTAATGAGGTCAGTACTTTACGTGAAGAAAATGGTGCATG
Found at i:732097 original size:21 final size:21
Alignment explanation
Indices: 732054--732103 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
732044 CAATGGTGCG
* *
732054 CTACGTGATGAGGTATCTACT
1 CTACGTGATGAGGTAGCCACT
* *
732075 CTATGTGATGAGGTAGCCGCT
1 CTACGTGATGAGGTAGCCACT
732096 CTACGTGA
1 CTACGTGA
732104 GTTTGTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
CTACGTGATGAGGTAGCCACT
Found at i:732209 original size:4 final size:4
Alignment explanation
Indices: 732200--732241 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
732190 TTTTTTGGCA
* * *
732200 TTAT TTAT TTAT TTAT TTAC TGAT TTAT TTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
732242 TCAGCGGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:732416 original size:21 final size:21
Alignment explanation
Indices: 732385--732447 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
732375 GATTCACATG
*
732385 TCATCGTTCAAGAGGCGT-CTC
1 TCATTGTTCAAGAGGC-TCCTC
732406 -CTATTGTTCAAGAGGCTCCTC
1 TC-ATTGTTCAAGAGGCTCCTC
* *
732427 TCATTGTTCAAAAGGCCCCTC
1 TCATTGTTCAAGAGGCTCCTC
732448 CCACCGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.06
21 33 0.92
22 1 0.03
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (21 bp):
TCATTGTTCAAGAGGCTCCTC
Found at i:732461 original size:42 final size:42
Alignment explanation
Indices: 732411--732503 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
732401 GTCTCCTATT
*
732411 GTTCAAGAGGCTCC-TCTCATTGTTCAAAAGGCCCCTCCCACC
1 GTTCAAGAGGC-CCTTCTCATCGTTCAAAAGGCCCCTCCCACC
* * ** *
732453 GTTTAAGAGGCCCTTGTCATCGTTCAATGGGTCCCTCCCACC
1 GTTCAAGAGGCCCTTCTCATCGTTCAAAAGGCCCCTCCCACC
732495 GTTCAAGAG
1 GTTCAAGAG
732504 CCCGATTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 41 0.95
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.26
Consensus pattern (42 bp):
GTTCAAGAGGCCCTTCTCATCGTTCAAAAGGCCCCTCCCACC
Found at i:733988 original size:66 final size:65
Alignment explanation
Indices: 733830--734005 Score: 246
Period size: 66 Copynumber: 2.6 Consensus size: 65
733820 TGGGGTACCC
*
733830 TTTTTTTGCTTGTTTAATTGAATTTTACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAAG
1 TTTTTTTGCTTGTTTAATTG-A-TTT---TTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAG
733895 AATTA
61 AATTA
* * *
733900 -TTCTTTGCTTGTTTAATTGATTTTTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTTTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATT
733964 A
65 A
*
733965 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTTTAAAAGTTGATTTGTT
734006 CTTTTAAATT
Statistics
Matches: 98, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
64 19 0.19
65 19 0.19
66 38 0.39
67 3 0.03
68 1 0.01
69 18 0.18
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTTTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:734089 original size:20 final size:21
Alignment explanation
Indices: 734060--734117 Score: 93
Period size: 20 Copynumber: 2.9 Consensus size: 21
734050 TTGAAGGTAT
734060 AAATTCGCAACGCGAAA-GTC
1 AAATTCGCAACGCGAAATGTC
*
734080 AAATTTGCAACGC-AAATGTC
1 AAATTCGCAACGCGAAATGTC
734100 AAATTCGCAACGCGAAAT
1 AAATTCGCAACGCGAAAT
734118 AAGCGTTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 3 0.09
20 27 0.79
21 4 0.12
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (21 bp):
AAATTCGCAACGCGAAATGTC
Found at i:737537 original size:14 final size:15
Alignment explanation
Indices: 737501--737538 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
737491 GAAATCATTG
737501 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
737516 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
737531 AAAAATTA
1 AAAAATTA
737539 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:737718 original size:19 final size:21
Alignment explanation
Indices: 737694--737739 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
737684 AACTAAAACC
737694 TGTTGCAAAATT-AAATTC-G
1 TGTTGCAAAATTGAAATTCAG
* *
737713 TGTTGCGAATTTGAAATTCAG
1 TGTTGCAAAATTGAAATTCAG
737734 TGTTGC
1 TGTTGC
737740 GAATTTGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 6 0.26
21 7 0.30
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (21 bp):
TGTTGCAAAATTGAAATTCAG
Found at i:737731 original size:20 final size:20
Alignment explanation
Indices: 737706--737968 Score: 114
Period size: 20 Copynumber: 13.0 Consensus size: 20
737696 TTGCAAAATT
*
737706 AAATTCGTGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
*
737726 AAATTCAGTGTTGCGAATTTG
1 AAATTC-GCGTTGCGAATTTG
*
737747 ACTATT-GCGTTGCGAATTTG
1 A-AATTCGCGTTGCGAATTTG
* *
737767 -ACTTCTGTGTTGCG-ATTT-
1 AAATTC-GCGTTGCGAATTTG
737785 ACAGATTCGCGTTGCGAATTTG
1 A-A-ATTCGCGTTGCGAATTTG
*
737807 -ACTATCGCGTTGCGAATTTG
1 AAAT-TCGCGTTGCGAATTTG
** * * *
737827 ACTTTTGTGTTGTG-ATTT-
1 AAATTCGCGTTGCGAATTTG
737845 ATAGATTCGCGTTGCGAATTTGG
1 A-A-ATTCGCGTTGCGAATTT-G
* * *** *
737868 AAAATGGCAAAGCGGATTTG
1 AAATTCGCGTTGCGAATTTG
* **
737888 AAAAATCGCAATGCG-ATTT-
1 -AAATTCGCGTTGCGAATTTG
737907 ACATATTCGCGTTGCGAATTTGG
1 A-A-ATTCGCGTTGCGAATTT-G
* *
737930 AAATT-GAGTTGCGAAATTG
1 AAATTCGCGTTGCGAATTTG
* * *
737949 GAGTTCGCATTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
737969 TTGGTCATTT
Statistics
Matches: 184, Mismatches: 36, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
18 4 0.02
19 14 0.08
20 102 0.55
21 57 0.31
22 5 0.03
23 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTTG
Found at i:737777 original size:40 final size:39
Alignment explanation
Indices: 737714--737866 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 39
737704 TTAAATTCGT
*
737714 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATTGC
1 GTTGCGAATTTG-ACTTC-GTGTTGCGAATTTGACTATTGC
*
737755 GTTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAGATTCGC
1 GTTGCGAATTTGACTTC-GTGTTGCGAATTTGAC-TATT-GC
* * *
737795 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACT-TCGTGTTGCGAATTTGACTATTGC
* * *
737835 GTTGTGATTTATAGA-TTCGCGTTGCGAATTTG
1 GTTGCGAATT-T-GACTTCGTGTTGCGAATTTG
737867 GAAAATGGCA
Statistics
Matches: 96, Mismatches: 9, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 7 0.07
40 61 0.64
41 22 0.23
42 4 0.04
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (39 bp):
GTTGCGAATTTGACTTCGTGTTGCGAATTTGACTATTGC
Found at i:737799 original size:60 final size:60
Alignment explanation
Indices: 737735--737866 Score: 228
Period size: 60 Copynumber: 2.2 Consensus size: 60
737725 GAAATTCAGT
*
737735 GTTGCGAATTTGACTATTGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGC
* * *
737795 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGTGATTTATAGATTCGC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGC
737855 GTTGCGAATTTG
1 GTTGCGAATTTG
737867 GAAAATGGCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (60 bp):
GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGC
Found at i:737892 original size:21 final size:20
Alignment explanation
Indices: 737862--737906 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
737852 CGCGTTGCGA
* *
737862 ATTTGGAAAATGGCAAAGCGG
1 ATTTGAAAAATCGCAAAGC-G
*
737883 ATTTGAAAAATCGCAATGCG
1 ATTTGAAAAATCGCAAAGCG
737903 ATTT
1 ATTT
737907 ACATATTCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (20 bp):
ATTTGAAAAATCGCAAAGCG
Found at i:738767 original size:20 final size:20
Alignment explanation
Indices: 738409--738756 Score: 438
Period size: 20 Copynumber: 17.5 Consensus size: 20
738399 GATTTTCCAT
* ** *
738409 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
738429 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
738449 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
738469 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
738489 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
738509 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
738529 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
738549 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
738569 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
738589 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
738609 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
738629 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
738649 AATCGCAACG-ATATCCGTA
1 AATCGCAACGCGTATCCGTA
*
738668 AATCGCAACGCTTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
738688 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
738708 AATCGCAACGAGAATCTGT-
1 AATCGCAACGCGTATCCGTA
*
738727 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
738747 AATCGCAACG
1 AATCGCAACG
738757 AGAATCTGTA
Statistics
Matches: 289, Mismatches: 30, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
19 36 0.12
20 250 0.87
21 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:739495 original size:24 final size:24
Alignment explanation
Indices: 739456--739502 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
739446 AAATTTGGTC
739456 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
739480 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
739503 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:739693 original size:12 final size:12
Alignment explanation
Indices: 739676--739700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
739666 ATATAATCCT
739676 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739688 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739700 G
1 G
739701 TCCCCCGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:741992 original size:19 final size:19
Alignment explanation
Indices: 741970--742224 Score: 316
Period size: 19 Copynumber: 14.4 Consensus size: 19
741960 CGGAAAATAC
*
741970 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
741989 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
742003 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
742023 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
742037 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742056 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
742075 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
742089 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
742108 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742127 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742146 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742165 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
742179 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742198 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
742217 AATCGCAA
1 AATCGCAA
742225 CGAGATAATC
Statistics
Matches: 207, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
14 38 0.18
15 1 0.00
16 14 0.07
17 12 0.06
18 2 0.01
19 127 0.61
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:742057 original size:33 final size:34
Alignment explanation
Indices: 741970--742224 Score: 240
Period size: 33 Copynumber: 7.2 Consensus size: 34
741960 CGGAAAATAC
* *
741970 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
742003 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
742037 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
742075 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
742108 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
742146 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
742178 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
742217 AATCGCAA
1 AATCGCAA
742225 CGAGATAATC
Statistics
Matches: 195, Mismatches: 8, Indels: 33
0.83 0.03 0.14
Matches are distributed among these distances:
32 2 0.01
33 79 0.41
34 30 0.15
35 10 0.05
36 7 0.04
37 2 0.01
38 63 0.32
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:742085 original size:52 final size:55
Alignment explanation
Indices: 741998--742224 Score: 298
Period size: 52 Copynumber: 4.2 Consensus size: 55
741988 AAATCCCAAC
*
741998 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
742051 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
742103 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
742160 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
742212 ATGAAAATCGCAA
1 ATGAAAATCGCAA
742225 CGAGATAATC
Statistics
Matches: 164, Mismatches: 2, Indels: 17
0.90 0.01 0.09
Matches are distributed among these distances:
52 109 0.66
53 16 0.10
54 6 0.04
55 7 0.04
57 26 0.16
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:742152 original size:90 final size:89
Alignment explanation
Indices: 741970--742246 Score: 387
Period size: 90 Copynumber: 3.2 Consensus size: 89
741960 CGGAAAATAC
* *
741970 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAAC--GAAGAATCGCAATGC-GAAATGAAAATCGCAATGC
*
742032 G--A-GAGAATCGCAATGCGAAATGAA
63 GAAATGAAAATCGCAATGCGAAATGAA
*
742056 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-AGAATCGCAATGCGAAATGAAAATCGCAATGCGA
742121 AATGAAAATCGCAATGCGAAATGAA
65 AATGAAAATCGCAATGCGAAATGAA
742146 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACG-AAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
*
742211 AATGAAAATCGCAA--CG--A-GAT
65 AATGAAAATCGCAATGCGAAATGAA
742231 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
742247 TATAACGCAT
Statistics
Matches: 177, Mismatches: 6, Indels: 17
0.88 0.03 0.09
Matches are distributed among these distances:
84 2 0.01
85 34 0.19
86 38 0.21
87 2 0.01
88 2 0.01
89 1 0.01
90 97 0.55
91 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (89 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
ATGAAAATCGCAATGCGAAATGAA
Found at i:742225 original size:52 final size:55
Alignment explanation
Indices: 741970--742246 Score: 290
Period size: 52 Copynumber: 5.3 Consensus size: 55
741960 CGGAAAATAC
* *
741970 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
742023 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
742075 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
742127 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
742179 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
742231 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
742247 TATAACGCAT
Statistics
Matches: 205, Mismatches: 6, Indels: 27
0.86 0.03 0.11
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 2 0.01
52 129 0.63
53 24 0.12
54 7 0.03
55 6 0.03
57 26 0.13
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:742361 original size:19 final size:19
Alignment explanation
Indices: 742252--742353 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
742242 GAAATTATAA
742252 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
742271 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
742291 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
742307 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
742324 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
742343 CGCATTGCGAT
1 CGCATTGCGAT
742354 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:742478 original size:14 final size:14
Alignment explanation
Indices: 742459--742495 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
742449 GCATCAATAC
742459 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
742473 ACAAATCATCTTTT
1 ACAAATCAACTTTT
742487 ACAAATCAA
1 ACAAATCAA
742496 TTAAACAATC
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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:744415 original size:20 final size:19
Alignment explanation
Indices: 744390--744454 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
744380 TAGTTTACTT
*
744390 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
744410 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
744428 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
744447 TCGCAACG
1 TCGCAACG
744455 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:744449 original size:19 final size:19
Alignment explanation
Indices: 744390--744523 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
744380 TAGTTTACTT
* *
744390 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
744410 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
744428 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
744447 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
744461 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
744480 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
744494 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
744513 TCGCAATGCGA
1 TCGCAACGCGA
744524 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
18 16 0.17
19 29 0.31
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:744464 original size:14 final size:14
Alignment explanation
Indices: 744445--744501 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
744435 GCGAAATGAA
*
744445 AATCGCAACGACAG
1 AATCGCAACGAAAG
744459 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
744476 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
744492 AATCGCAACG
1 AATCGCAACG
744502 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:744472 original size:33 final size:33
Alignment explanation
Indices: 744390--744518 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
744380 TAGTTTACTT
* * *
744390 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
*
744428 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
744461 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
744494 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
744519 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 57 0.68
35 4 0.05
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:744541 original size:19 final size:18
Alignment explanation
Indices: 744519--744647 Score: 112
Period size: 19 Copynumber: 7.3 Consensus size: 18
744509 AAAATCGCAA
744519 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
744538 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
744552 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
744571 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
744585 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
744604 TGCGATTTTTGTTTCGCGT
1 TGCGA-TTTTGTTTCGCGT
*
744623 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
744643 TGCGA
1 TGCGA
744648 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 7, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 6 0.07
19 40 0.44
20 17 0.19
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:744561 original size:33 final size:33
Alignment explanation
Indices: 744519--744610 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
744509 AAAATCGCAA
744519 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
744552 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
744585 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
744611 TTTGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:744880 original size:92 final size:93
Alignment explanation
Indices: 744778--745148 Score: 694
Period size: 92 Copynumber: 4.0 Consensus size: 93
744768 TGGCAGCAAC
744778 CTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
744842 CAGAATTGGCAGCAACCGAACAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
744870 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
*
744935 CATAATTGGCAGCAACCGAACAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
*
744963 CTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
745027 CAGAATTGGCAGCAACCGAACAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
745055 CTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
1 CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
*
745119 CAGAATTGGCAGCAACCGAATAAATTTA
66 CAGAATTGGCAGCAACCGAACAAATTTA
745147 CT
1 CT
745149 AAGCAATCTA
Statistics
Matches: 272, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
91 4 0.01
92 177 0.65
93 91 0.33
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
CTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAG
CAGAATTGGCAGCAACCGAACAAATTTA
Found at i:746864 original size:14 final size:14
Alignment explanation
Indices: 746845--746931 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
746835 TTGAAATGAA
746845 AATCGCAACGAGAG
1 AATCGCAACGAGAG
746859 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
746876 ACAATCGCAAC--GAG
1 --AATCGCAACGAGAG
*
746890 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
746909 AATCGCAACGAGAG
1 AATCGCAACGAGAG
746923 AATCGCAAC
1 AATCGCAAC
746932 ACGAAATGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 24
0.69 0.02 0.28
Matches are distributed among these distances:
12 8 0.14
14 21 0.36
15 3 0.05
16 5 0.08
17 4 0.07
19 18 0.31
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:746882 original size:33 final size:33
Alignment explanation
Indices: 746837--746949 Score: 185
Period size: 33 Copynumber: 3.5 Consensus size: 33
746827 TCTTTTGGTT
746837 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
746870 GAGATGACAATCGCAAC--GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
746901 GAAATGAAAATCGCAACGAGAGAATCGCAACAC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
746934 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
746950 TGCGATTTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
31 29 0.40
33 44 0.60
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:746914 original size:19 final size:19
Alignment explanation
Indices: 746890--746954 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
746880 TCGCAACGAG
746890 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
746909 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
746923 AATCGCAACACGAAATGAA
1 AATCGCAACGCGAAATGAA
*
746942 AATCGCAATGCGA
1 AATCGCAACGCGA
746955 TTTTGGTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 21 0.57
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:746985 original size:14 final size:14
Alignment explanation
Indices: 746966--747020 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
746956 TTTGGTTTCG
746966 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
746980 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
746999 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
747013 CGTTGCGA
1 CGTTGCGA
747021 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:746998 original size:33 final size:33
Alignment explanation
Indices: 746950--747020 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
746940 AAAATCGCAA
**
746950 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
746983 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
747016 TGCGA
1 TGCGA
747021 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:747028 original size:33 final size:33
Alignment explanation
Indices: 746961--747042 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
746951 GCGATTTTGG
***
746961 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
746994 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
747027 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
747043 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:747047 original size:20 final size:20
Alignment explanation
Indices: 746973--747061 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
746963 TCGCGTTGCG
746973 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
746993 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
747006 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
747026 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
747046 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
747062 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:747183 original size:33 final size:33
Alignment explanation
Indices: 747141--747211 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
747131 AATACTAACT
*
747141 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
747174 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
747207 TGAAA
1 TGAAA
747212 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:747442 original size:21 final size:22
Alignment explanation
Indices: 747391--747444 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
747381 TGGTTGTGAG
**
747391 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
747413 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
747434 GGATTTCTTCG
1 GGATTTCTTCG
747445 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:747615 original size:20 final size:20
Alignment explanation
Indices: 747590--747782 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
747580 CTTTAAATAT
747590 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
747610 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
747632 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
747651 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
747671 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
747691 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
747711 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
747731 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
747751 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
747771 CGCGTTGCGATT
1 CGCGTTGCGATT
747783 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:747777 original size:60 final size:60
Alignment explanation
Indices: 747590--747782 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
747580 CTTTAAATAT
**
747590 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
747651 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
747711 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
747771 CGCGTTGCGATT
1 CGCGTTGCGATT
747783 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:747863 original size:20 final size:20
Alignment explanation
Indices: 747838--747889 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
747828 AAGAATCGCG
*
747838 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
747858 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
747878 TTGCGATTCTGG
1 TTGCGATTCTGG
747890 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:750495 original size:22 final size:23
Alignment explanation
Indices: 750458--750504 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
750448 AACCCTAAAT
750458 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCCAAAAATCGTATCTGCTA
* *
750481 AAGCCC-AGAATCGTATCTTCTA
1 AAGCCCAAAAATCGTATCTGCTA
750503 AA
1 AA
750505 CTCGCGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (23 bp):
AAGCCCAAAAATCGTATCTGCTA
Found at i:753997 original size:61 final size:61
Alignment explanation
Indices: 753893--754010 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 61
753883 ACACATGTGG
753893 TCCCCAATTATAAAGCACTGCTTCGTTGAGTCCCTCAACTATTAAATA-TTACAAAATGGTC
1 TCCCCAATTATAAAGCACTGCTTCGTTGAGTCCCTCAACTATTAAA-AGTTACAAAATGGTC
* * ** *
753954 TCCCCAATTAT-AAG-ACGTTGCTTTGTTGAGTTCCTTGATTATTAAAAGTTACAAAAT
1 TCCCCAATTATAAAGCAC--TGCTTCGTTGAGTCCCTCAACTATTAAAAGTTACAAAAT
754011 TATCACCTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
59 2 0.04
60 4 0.08
61 43 0.88
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (61 bp):
TCCCCAATTATAAAGCACTGCTTCGTTGAGTCCCTCAACTATTAAAAGTTACAAAATGGTC
Found at i:757317 original size:3 final size:3
Alignment explanation
Indices: 757311--757350 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
757301 TTTTTTTTTA
**
757311 TAT TAT TAT TAT TAT TAT CGT TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
757351 ATTTACATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:758089 original size:14 final size:14
Alignment explanation
Indices: 758072--758098 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
758062 ATCTCTGGAT
758072 CTCTCTCTCTCTTA
1 CTCTCTCTCTCTTA
758086 CTCTCTCTCTCTT
1 CTCTCTCTCTCTT
758099 GTCTAGGTGA
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:0.04, C:0.44, G:0.00, T:0.52
Consensus pattern (14 bp):
CTCTCTCTCTCTTA
Found at i:758540 original size:24 final size:22
Alignment explanation
Indices: 758481--758540 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
758471 TCACGCTTAA
758481 TAGTATAATAATATTTATATATT
1 TAGTAT-ATAATATTTATATATT
* *
758504 TATTACCTTTAATATTTGGATATATT
1 TAGTA--TATAATATTT--ATATATT
758530 TAGTATATAAT
1 TAGTATATAAT
758541 CATATGTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
23 4 0.14
24 13 0.45
25 1 0.03
26 11 0.38
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (22 bp):
TAGTATATAATATTTATATATT
Found at i:763095 original size:13 final size:13
Alignment explanation
Indices: 763072--763155 Score: 53
Period size: 14 Copynumber: 5.8 Consensus size: 13
763062 CACAGAAGAG
763072 CAAAG-AAAAAAA
1 CAAAGAAAAAAAA
763084 CAAAGAAAAAAATCAAA
1 CAAAG--AAAAA--AAA
763101 GCAAAAGGAAAAAAAA
1 -C-AAA-GAAAAAAAA
*
763117 CAAAGAGAAAAGAAT
1 CAAAGA-AAAA-AAA
*
763132 CAAAGAAAAATAA
1 CAAAGAAAAAAAA
763145 CAAAAGAAAAA
1 C-AAAGAAAAA
763156 GAAGACAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
12 5 0.09
13 4 0.07
14 20 0.34
15 13 0.22
16 3 0.05
17 3 0.05
18 6 0.10
19 3 0.05
20 1 0.02
ACGTcount: A:0.76, C:0.08, G:0.12, T:0.04
Consensus pattern (13 bp):
CAAAGAAAAAAAA
Found at i:763121 original size:14 final size:14
Alignment explanation
Indices: 763104--763155 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
763094 AATCAAAGCA
763104 AAAGGAAAAAAAAC
1 AAAGGAAAAAAAAC
* *
763118 AAAGAGAAAAGAATC
1 AAAG-GAAAAAAAAC
*
763133 AAA-GAAAAATAAC
1 AAAGGAAAAAAAAC
*
763146 AAAAGAAAAA
1 AAAGGAAAAA
763156 GAAGACAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 10 0.32
14 10 0.32
15 11 0.35
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (14 bp):
AAAGGAAAAAAAAC
Found at i:763172 original size:52 final size:46
Alignment explanation
Indices: 763052--763174 Score: 117
Period size: 48 Copynumber: 2.5 Consensus size: 46
763042 AGAAAAAAAG
*
763052 AGAAAAAGAACACAGAAGAGCAAAGAAAAAAACAAAGAAAAAAATCAA
1 AGAAAAAGAA-ACAAAAGA-CAAAGAAAAAAACAAAGAAAAAAATCAA
*
763100 AGCAAAAGGAAA-AAAA-ACAAAGAGAAAAGAATCAAAGAAAAATAA-CAAA
1 AG-AAAAAGAAACAAAAGACAAAGA-AAAA-AA-CAAAGAAAAA-AATC-AA
763149 AGAAAAAGAAGACAAAAGCACAAAGA
1 AGAAAAAGAA-ACAAAAG-ACAAAGA
763175 CAAAGAGTCC
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
45 6 0.10
46 5 0.08
47 5 0.08
48 21 0.34
49 14 0.23
50 4 0.06
52 7 0.11
ACGTcount: A:0.72, C:0.10, G:0.15, T:0.02
Consensus pattern (46 bp):
AGAAAAAGAAACAAAAGACAAAGAAAAAAACAAAGAAAAAAATCAA
Found at i:764358 original size:4 final size:4
Alignment explanation
Indices: 764341--764930 Score: 953
Period size: 4 Copynumber: 153.8 Consensus size: 4
764331 GCATAAATCA
*
764341 ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
764389 ATAC ATAC ATAC -TAC -TAC ATAC -TAC ATAC ATAG ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764434 ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764480 ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC
*
764529 ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764575 ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764621 AT-C ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764666 -TAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764712 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764760 ATAC --AC ATAC -TAC ATAC ATAC ATAC -TAC ATAC ATAC ATA- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764803 ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
764848 ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
764892 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
764931 AAATTTGCAT
Statistics
Matches: 552, Mismatches: 8, Indels: 52
0.90 0.01 0.08
Matches are distributed among these distances:
2 16 0.03
3 30 0.05
4 502 0.91
5 4 0.01
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:765559 original size:109 final size:106
Alignment explanation
Indices: 765446--765696 Score: 282
Period size: 108 Copynumber: 2.4 Consensus size: 106
765436 ATTTAAGACA
*
765446 ATTTCTCTTAAAATAAACTTTGTCTCGCTTGAGACAATTGGTTCCTTTGA-TATACAAATTTCGA
1 ATTTCTCTTAAAATAAACTTTGTCTCGCTTGAGACAATT-GTTCCTTTGAGAATACAAATTTCGA
**
765510 ATTTGATTCAC-TTGAAACAAAAAATTAATCTCACTTGAGATTGTT
65 ATTTGATTCACATT-AAAC--AAAATTAATCTCACTTGAGA-TCAT
* * *
765555 ATTTCT-TTCAAAACAAA-TTTCGTCTCGTTTGAGAC-ATTTTTCCTTTGAGAATACAAATTTCG
1 ATTTCTCTT-AAAATAAACTTT-GTCTCGCTTGAGACAATTGTTCCTTTGAGAATACAAATTTCG
* * *
765617 AATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCAT
64 AATTTGATTCACATTAAACAAAATTAATCTCACTTGAGATCAT
* * *
765660 -TTTCTC-AAAAATAAACTCTGTCACGCTTGAGACAATT
1 ATTTCTCTTAAAATAAACTTTGTCTCGCTTGAGACAATT
765697 TCTCTAAAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
103 19 0.16
104 10 0.08
105 2 0.02
106 18 0.15
107 9 0.07
108 35 0.29
109 28 0.23
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (106 bp):
ATTTCTCTTAAAATAAACTTTGTCTCGCTTGAGACAATTGTTCCTTTGAGAATACAAATTTCGAA
TTTGATTCACATTAAACAAAATTAATCTCACTTGAGATCAT
Found at i:765726 original size:36 final size:36
Alignment explanation
Indices: 765632--765769 Score: 138
Period size: 36 Copynumber: 3.8 Consensus size: 36
765622 GTTTCACATT
*
765632 AAACAAA-GTTGATCTCACTTGAGATCATTTTCTC-AA
1 AAACAAATGTTG-TCTCACTTGAGA-CAATTTCTCTAA
* * * *
765668 AAATAAACT-CTGTCACGCTTGAGACAATTTCTCTAA
1 AAACAAA-TGTTGTCTCACTTGAGACAATTTCTCTAA
* * **
765704 AAACAATTTTTGTCTCGTTTGAGACAATTTCTCTAA
1 AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
*
765740 AAACAAATGTTGTCTCACTTGAGGCAATTT
1 AAACAAATGTTGTCTCACTTGAGACAATTT
765770 TCCAAATTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
35 9 0.11
36 72 0.87
37 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (36 bp):
AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
Found at i:765822 original size:32 final size:32
Alignment explanation
Indices: 765785--765866 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
765775 ATTATGAATT
* *
765785 TGTTTCACTGGAAACAAACATCATCTTTGAGTC
1 TGTTTCACTTGAAACAAA-AGCATCTTTGAGTC
** *
765818 -GTTTCTTTTGAAAC-AAAGGATCTTTGAGTC
1 TGTTTCACTTGAAACAAAAGCATCTTTGAGTC
765848 TGTTTCACTTGAAACAAAA
1 TGTTTCACTTGAAACAAAA
765867 TGAAAAAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
30 12 0.30
31 14 0.35
32 14 0.35
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTTTCACTTGAAACAAAAGCATCTTTGAGTC
Found at i:766298 original size:28 final size:28
Alignment explanation
Indices: 766267--766346 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
766257 AACACATCAC
**
766267 CTTTGAGTTTGTTT-TTCTTGAAACAAAT
1 CTTTGAGTCAGTTTCTT-TTGAAACAAAT
*
766295 CTTTGAGTCAGTTTCTTTTGAAACATAT
1 CTTTGAGTCAGTTTCTTTTGAAACAAAT
**
766323 CTTTGAGTCAGTTTCCCTTGAAAC
1 CTTTGAGTCAGTTTCTTTTGAAAC
766347 CATAATCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 44 0.96
29 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (28 bp):
CTTTGAGTCAGTTTCTTTTGAAACAAAT
Found at i:766613 original size:43 final size:43
Alignment explanation
Indices: 766493--766617 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 43
766483 CCCCTCCTAA
* *
766493 AGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCT
1 AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCT
* * * *
766536 ---TGACCA-AATTTCCTCATCACGTAAGAACCGTGTCA-CCCTT
1 AGATGACCAGAA-CTCTTCATCACGTATGAGCCGTGTCATCCC-T
* *
766576 AGATGACCAGAACTCTTCATCGCGTATGAGCCTTGTCATCCC
1 AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCC
766618 CGACAACTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 13
0.72 0.14 0.15
Matches are distributed among these distances:
39 5 0.08
40 27 0.43
43 26 0.41
44 5 0.08
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (43 bp):
AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCT
Found at i:766776 original size:3 final size:3
Alignment explanation
Indices: 766768--766846 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
766758 GTCTTTTTTA
**
766768 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CGT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
766815 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
766847 ATTTACATGT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:767625 original size:2 final size:2
Alignment explanation
Indices: 767618--767668 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
767608 CGTTTCCAGA
767618 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
767660 TC TC TC TC T
1 TC TC TC TC T
767669 TTTCTCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:771221 original size:21 final size:21
Alignment explanation
Indices: 771192--771231 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
771182 TAAGCTAACA
*
771192 TAATGAAATT-AATTATTATAG
1 TAATAAAATTGAA-TATTATAG
771213 TAATAAAATTGAATATTAT
1 TAATAAAATTGAATATTAT
771232 GTCGACAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TAATAAAATTGAATATTATAG
Found at i:771802 original size:14 final size:14
Alignment explanation
Indices: 771785--771811 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
771775 TTTATTATAA
771785 TTATATTTTTATTT
1 TTATATTTTTATTT
771799 TTATATTTTTATT
1 TTATATTTTTATT
771812 ATAGTTTAAA
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATATTTTTATTT
Found at i:777053 original size:31 final size:31
Alignment explanation
Indices: 777000--777063 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
776990 TAGGTCCATA
* * *
777000 AGGAATTACCAATCGGTGCTGAACCTATCAG
1 AGGAATTACCAATCAGCGCTGAACCTACCAG
*
777031 AGGAATTACCAA-CAGCGACTGAATCTACCAG
1 AGGAATTACCAATCAGCG-CTGAACCTACCAG
777062 AG
1 AG
777064 TCTTCATACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (31 bp):
AGGAATTACCAATCAGCGCTGAACCTACCAG
Found at i:778592 original size:26 final size:26
Alignment explanation
Indices: 778561--778642 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
778551 TATATTATTC
*
778561 TTATTGTTATAAGATATATTTATTTT
1 TTATTGCTATAAGATATATTTATTTT
778587 TTATTGCTATAAGATATATTTATTTT
1 TTATTGCTATAAGATATATTTATTTT
778613 TTATTGCTATAAGATATATTTATTTT
1 TTATTGCTATAAGATATATTTATTTT
778639 TTAT
1 TTAT
778643 ATTTTTTTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (26 bp):
TTATTGCTATAAGATATATTTATTTT
Found at i:793900 original size:2 final size:2
Alignment explanation
Indices: 793893--793927 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
793883 TATTTAATGA
793893 AT AT AT AT AT AT AT AT AT -T 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
793928 TAAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:793916 original size:15 final size:15
Alignment explanation
Indices: 793896--793925 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
793886 TTAATGAATA
793896 TATATATATATATAT
1 TATATATATATATAT
793911 TATATATATATATAT
1 TATATATATATATAT
793926 ATTAAAAAAT
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:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:793916 original size:17 final size:17
Alignment explanation
Indices: 793894--793929 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
793884 ATTTAATGAA
793894 TATATATATATATATAT
1 TATATATATATATATAT
793911 TATATATATATATATAT
1 TATATATATATATATAT
793928 TA
1 TA
793930 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:797145 original size:57 final size:58
Alignment explanation
Indices: 797050--797176 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 58
797040 AAAAACACAT
* *
797050 GAAAATCAGACACCAATCTTTCTAGGCAAAACCTTGTGAAATGGTTCATCAACAACAC
1 GAAAATCAGACACCAATCTTTCTAAGCAAAACCTTGTGAAATGGTTCAACAACAACAC
** *
797108 G-AAATCAGACACCTGTCTTTCTAAGCAAAA-CTATGTGAAATGGTTCAACAACAACAT
1 GAAAATCAGACACCAATCTTTCTAAGCAAAACCT-TGTGAAATGGTTCAACAACAACAC
797165 GAAAATCAGACA
1 GAAAATCAGACA
797177 TAAGAACCGG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
56 2 0.03
57 49 0.79
58 11 0.18
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (58 bp):
GAAAATCAGACACCAATCTTTCTAAGCAAAACCTTGTGAAATGGTTCAACAACAACAC
Found at i:798210 original size:22 final size:22
Alignment explanation
Indices: 798183--798237 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 22
798173 GAAAGAAGAA
*
798183 GGGTTGAGGAAGAAATGAGTTT
1 GGGTTGAGGAAGAAATGAGGTT
798205 GGGTT---GAA-AAATGAGGTT
1 GGGTTGAGGAAGAAATGAGGTT
798223 GGGTTGAGGAAGAAA
1 GGGTTGAGGAAGAAA
798238 AAGAGCCGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 14 0.50
19 3 0.11
21 3 0.11
22 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.24
Consensus pattern (22 bp):
GGGTTGAGGAAGAAATGAGGTT
Found at i:802470 original size:20 final size:20
Alignment explanation
Indices: 802434--802565 Score: 149
Period size: 20 Copynumber: 6.5 Consensus size: 20
802424 CAAGAAAAAT
*
802434 CAGATTCCCCCCTATGGGGTA
1 CAGATTCCCCCC-AGGGGGTA
*
802455 CAGATTCCCCCCATGGGGTA
1 CAGATTCCCCCCAGGGGGTA
* *** *
802475 CAAATTCCCTATAGGGGGAA
1 CAGATTCCCCCCAGGGGGTA
802495 CAGATTCCCCCCCAGGGGGTA
1 CAGATT-CCCCCCAGGGGGTA
* *
802516 CCGATT-CCCCCAGGGGGAA
1 CAGATTCCCCCCAGGGGGTA
802535 CAGATTCCCCCCAGGGGGTA
1 CAGATTCCCCCCAGGGGGTA
*
802555 CCGATTCCCCC
1 CAGATTCCCCC
802566 TATCTAACGG
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.18
20 49 0.53
21 27 0.29
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (20 bp):
CAGATTCCCCCCAGGGGGTA
Found at i:802527 original size:19 final size:19
Alignment explanation
Indices: 802503--802565 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
802493 AACAGATTCC
802503 CCCCCAGGGGGTACCGATT
1 CCCCCAGGGGGTACCGATT
* *
802522 CCCCCAGGGGGAACAGATT
1 CCCCCAGGGGGTACCGATT
802541 CCCCCCAGGGGGTACCGATT
1 -CCCCCAGGGGGTACCGATT
802561 CCCCC
1 CCCCC
802566 TATCTAACGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.17, C:0.41, G:0.29, T:0.13
Consensus pattern (19 bp):
CCCCCAGGGGGTACCGATT
Found at i:802556 original size:39 final size:39
Alignment explanation
Indices: 802449--802565 Score: 162
Period size: 39 Copynumber: 2.9 Consensus size: 39
802439 TCCCCCCTAT
* * ** **
802449 GGGGTACAGATTCCCCCCATGGGGTACAAATTCCCTATAG
1 GGGGAACAGATTCCCCCCAGGGGGTACCGATTCCC-CCAG
802489 GGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCCCAG
1 GGGGAACAGATT-CCCCCCAGGGGGTACCGATTCCCCCAG
802529 GGGGAACAGATTCCCCCCAGGGGGTACCGATTCCCCC
1 GGGGAACAGATTCCCCCCAGGGGGTACCGATTCCCCC
802566 TATCTAACGG
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
39 25 0.36
40 25 0.36
41 20 0.29
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.16
Consensus pattern (39 bp):
GGGGAACAGATTCCCCCCAGGGGGTACCGATTCCCCCAG
Found at i:803865 original size:19 final size:20
Alignment explanation
Indices: 803841--803887 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
803831 AATGATTTTC
* *
803841 TTTTGAAATCAAAAAT-AGA
1 TTTTGAAAGCAAAAATGAAA
*
803860 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAGCAAAAATGAAA
803880 TTTTGAAA
1 TTTTGAAA
803888 AAGGATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (20 bp):
TTTTGAAAGCAAAAATGAAA
Found at i:805391 original size:21 final size:21
Alignment explanation
Indices: 805312--805396 Score: 100
Period size: 21 Copynumber: 4.0 Consensus size: 21
805302 AATCAGATTG
*
805312 CCCAGAGGGTACAGATTTCCCC
1 CCCAGGGGGTACAGA-TTCCCC
*
805334 CCCATGGGGTACAGATT-CCC
1 CCCAGGGGGTACAGATTCCCC
* * *
805354 TCCAGGAGGAACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
805375 CCCAGGGGGTACTGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
805396 C
1 C
805397 TGTCTAACGG
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.31
21 23 0.44
22 13 0.25
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.18
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:808221 original size:13 final size:13
Alignment explanation
Indices: 808203--808251 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
808193 ACTAAAAATA
*
808203 ATTAAATGCAAAC
1 ATTAAATACAAAC
808216 ATTAAATACAAAC
1 ATTAAATACAAAC
* *
808229 GTTACAATTCAAAC
1 ATTA-AATACAAAC
808243 AGTTAAATA
1 A-TTAAATA
808252 ATAACAACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 15 0.52
14 11 0.38
15 3 0.10
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (13 bp):
ATTAAATACAAAC
Found at i:811639 original size:31 final size:30
Alignment explanation
Indices: 811601--811689 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 30
811591 GAGTAGAGGG
811601 TTACCTATGTATTTCGAGACATATGGACAGT
1 TTACCTATGT-TTTCGAGACATATGGACAGT
*
811632 TTACCTATGTCCTTT-GGGACATATGGACAGT
1 TTACCTATGT--TTTCGAGACATATGGACAGT
811663 TTACCTATGTTCTTC-AGAACATATGGA
1 TTACCTATGTT-TTCGAG-ACATATGGA
811690 TAGGTTCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
29 1 0.02
30 3 0.06
31 44 0.86
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (30 bp):
TTACCTATGTTTTCGAGACATATGGACAGT
Found at i:811885 original size:31 final size:31
Alignment explanation
Indices: 811847--811916 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
811837 GAGTAGAGGG
**
811847 TTACCTATGT-ATTTCGAGACATATGGACAGT
1 TTACCTATGTCATTT-GAGACATATGGACAAC
* *
811878 TTACCTATGTCCTTTGGGACATATGGACAAC
1 TTACCTATGTCATTTGAGACATATGGACAAC
811909 TTACCTAT
1 TTACCTAT
811917 ATTCTTCAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCATTTGAGACATATGGACAAC
Found at i:811934 original size:246 final size:246
Alignment explanation
Indices: 811500--811996 Score: 958
Period size: 246 Copynumber: 2.0 Consensus size: 246
811490 TTATATGAAA
811500 AGTGAAATGTACATGTGAATAGGTGAAATGATATGAAAGAGTATACCCATGTTATGTGATATAAG
1 AGTGAAATGTACATGTGAATAGGTGAAATGATATGAAAGAGTATACCCATGTTATGTGATATAAG
811565 AGCGATAGGTATAGTTGGCATGCCAAGAGTAGAGGGTTACCTATGTATTTCGAGACATATGGACA
66 AGCGATAGGTATAGTTGGCATGCCAAGAGTAGAGGGTTACCTATGTATTTCGAGACATATGGACA
** *
811630 GTTTACCTATGTCCTTTGGGACATATGGACAGTTTACCTATGTTCTTCAGAACATATGGATAGGT
131 GTTTACCTATGTCCTTTGGGACATATGGACAACTTACCTATATTCTTCAGAACATATGGATAGGT
*
811695 TCTCCAGGACACAAATTTTTTATGCCACTTAGTGGATTCTATACGAGCTGT
196 CCTCCAGGACACAAATTTTTTATGCCACTTAGTGGATTCTATACGAGCTGT
811746 AGTGAAATGTACATGTGAATAGGTGAAATGATATGAAAGAGTATACCCATGTTATGTGATATAAG
1 AGTGAAATGTACATGTGAATAGGTGAAATGATATGAAAGAGTATACCCATGTTATGTGATATAAG
811811 AGCGATAGGTATAGTTGGCATGCCAAGAGTAGAGGGTTACCTATGTATTTCGAGACATATGGACA
66 AGCGATAGGTATAGTTGGCATGCCAAGAGTAGAGGGTTACCTATGTATTTCGAGACATATGGACA
811876 GTTTACCTATGTCCTTTGGGACATATGGACAACTTACCTATATTCTTCAGAACATATGGATAGGT
131 GTTTACCTATGTCCTTTGGGACATATGGACAACTTACCTATATTCTTCAGAACATATGGATAGGT
811941 CCTCCAGGACACAAATTTTTTATGCCACTTAGTGGATTCTATACGAGCTGT
196 CCTCCAGGACACAAATTTTTTATGCCACTTAGTGGATTCTATACGAGCTGT
811992 AGTGA
1 AGTGA
811997 CAGCATATGT
Statistics
Matches: 247, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
246 247 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (246 bp):
AGTGAAATGTACATGTGAATAGGTGAAATGATATGAAAGAGTATACCCATGTTATGTGATATAAG
AGCGATAGGTATAGTTGGCATGCCAAGAGTAGAGGGTTACCTATGTATTTCGAGACATATGGACA
GTTTACCTATGTCCTTTGGGACATATGGACAACTTACCTATATTCTTCAGAACATATGGATAGGT
CCTCCAGGACACAAATTTTTTATGCCACTTAGTGGATTCTATACGAGCTGT
Found at i:816403 original size:18 final size:18
Alignment explanation
Indices: 816356--816408 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
816346 TTGACGTGAA
*
816356 AAATATTAAAAAATCCAT
1 AAATATTAAAAAATACAT
* *
816374 AAAGTTAATAAAAACTACAT
1 AAA--TATTAAAAAATACAT
816394 AAATATTAAAAAATA
1 AAATATTAAAAAATA
816409 TAAAAGTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 13 0.46
20 15 0.54
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATATTAAAAAATACAT
Found at i:817987 original size:14 final size:14
Alignment explanation
Indices: 817968--818010 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
817958 TAAATAATTA
817968 ATTATTTTATTATT
1 ATTATTTTATTATT
*
817982 ATTATTTTTAGTATT
1 ATTA-TTTTATTATT
* *
817997 TTTATTTGATTATT
1 ATTATTTTATTATT
818011 TAATCGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (14 bp):
ATTATTTTATTATT
Found at i:819036 original size:32 final size:32
Alignment explanation
Indices: 818994--819062 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
818984 TAAGAAAAGT
* * *
818994 CTGTTTTAGGTGTGTGTGTATGCTTTTATTTA
1 CTGTTGTAGGTGTATGTCTATGCTTTTATTTA
819026 CTGTTGTAGGTGTATGTCTATGCTTTTATTTA
1 CTGTTGTAGGTGTATGTCTATGCTTTTATTTA
819058 CTGTT
1 CTGTT
819063 TAAGGTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.13, C:0.09, G:0.23, T:0.55
Consensus pattern (32 bp):
CTGTTGTAGGTGTATGTCTATGCTTTTATTTA
Found at i:819146 original size:27 final size:26
Alignment explanation
Indices: 819110--819167 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
819100 TGGTTTGGTA
* * *
819110 TGTTTCATGTCATGTTTATTAGTTTGT
1 TGTTTAATGTAATGTTTATGA-TTTGT
819137 TGTTTAATGTAATGTTTATGATTTGT
1 TGTTTAATGTAATGTTTATGATTTGT
819163 TGTTT
1 TGTTT
819168 TTATAGTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.17, C:0.03, G:0.19, T:0.60
Consensus pattern (26 bp):
TGTTTAATGTAATGTTTATGATTTGT
Found at i:820182 original size:83 final size:83
Alignment explanation
Indices: 820042--820567 Score: 436
Period size: 83 Copynumber: 6.3 Consensus size: 83
820032 GCCATGTCAT
* * * *
820042 AGTGTTTTCCATTATTATTCATAGAATCTCTATCATGTCATAGTGTTCTATCCCATCCCAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCAATCCCATCCGAAATGA
820107 AAGGAGCGTTCTAGGGGA
66 AAGGAGCGTTCTAGGGGA
* * * * * *
820125 AGTGTTTTCTATTATTATTCAGAGAATCTTTGCTATGTCATAGTGTTCCATCACATCCGAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCAATCCCATCCGAAATGA
* * * * *
820190 AATGTGCATTCTAAGGAA
66 AAGGAGCGTTCTAGGGGA
* ** * *
820208 ATTGTTTTCCATTATTATTCAGAGAATCTCTACCACATCATAGTGTTCCATCCCATCTGAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCAATCCCATCCGAAATG-
* **
820273 AAAGTA-CGTTCCGGGGGA
65 AAAGGAGCGTTCTAGGGGA
* * * * * *
820291 AGCGTTTACCATTATTAATAAGAGAATCTCTGCCATGTCATAATGTTCAATCCCATCCGAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCAATCCCATCCGAAATGA
* * * * *
820356 AAAGTGTGTTCCAGGTGA
66 AAGGAGCGTTCTAGGGGA
* * * * *
820374 AGAGTTTTGCATTATTATTCAAATAATCTCTACCA-ATCATAGTGTTCAATCCCATCCGAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCAATCCCATCCGAAATGA
* * *
820438 AA-GACGCATTCTAGAGAA
66 AAGGA-GCGTTCTAGGGGA
* * * * * *
820456 AGCT-TTTTCTATTATTATTC-GAATAATCTATATCATGTCATAATGTTTC-ATCCCATCAGAAA
1 AG-TGTTTTCCATTATTATTCAG-AGAATCTCTACCATGTCATAGTG-TTCAATCCCATCCGAAA
* * * *
820518 GGAAA-TACGCGTTCCAGAGGA
63 TGAAAGGA-GCGTTCTAGGGGA
*** * *
820539 AACATTTTTCATTATTATTTAGAGAATCT
1 AGTGTTTTCCATTATTATTCAGAGAATCT
820568 TTGCCATTTC
Statistics
Matches: 349, Mismatches: 85, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
81 1 0.00
82 66 0.19
83 275 0.79
84 7 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (83 bp):
AGTGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCAATCCCATCCGAAATGA
AAGGAGCGTTCTAGGGGA
Found at i:820554 original size:248 final size:248
Alignment explanation
Indices: 820046--820574 Score: 559
Period size: 248 Copynumber: 2.1 Consensus size: 248
820036 TGTCATAGTG
* * ** * * *
820046 TTTTCCATTATTATTCATAGAATCTCTATCATGTCATAGTGTTCTATCCCATCCCAAATGAAAGG
1 TTTTCCATTATTATTAAGAGAATCTCTGCCATGTCATAATGTTCAATCCCATCCCAAATGAAAAG
* * * * * * * *
820111 AGCGTTCTAGGGGAAGTGTTTTCTATTATTATTCAGAGAATCTTTGCTATGTCATAGTGTTCCAT
66 AGCGTTCCAGGGGAAGAGTTTTCTATTATTATTCAAAGAATCTCTACCATATCATAGTGTTCAAT
* * *
820176 CACATCCGAAATGAAATGTGCATTCTAAGGAAATTGTTTTCCATTATTATTCAGAGAATCTCTAC
131 CACATCCGAAATGAAATGCGCATTCTAAGGAAACTGTTTTCCATTATTATTCAGAGAATCTATAC
* * * * * * *
820241 CACATCATAGTGTTCCATCCCATCTGAAATGAAAAGTACGTTCCGGGGGAAGCG
196 CACATCATAATGTTCCATCCCATCAGAAAGGAAAAG-ACGTTCCAGAGGAAACA
* * *
820295 TTTACCATTATTAATAAGAGAATCTCTGCCATGTCATAATGTTCAATCCCATCCGAAATGAAAAG
1 TTTTCCATTATTATTAAGAGAATCTCTGCCATGTCATAATGTTCAATCCCATCCCAAATGAAAAG
* * * *
820360 TGTGTTCCAGGTGAAGAGTTTTGC-ATTATTATTCAAATAATCTCTACCA-ATCATAGTGTTCAA
66 AGCGTTCCAGGGGAAGAGTTTT-CTATTATTATTCAAAGAATCTCTACCATATCATAGTGTTCAA
* * *
820423 TCCCATCCGAAATGAAA-GACGCATTCT-AGAGAAAGCT-TTTTCTATTATTATTC-GAATAATC
130 TCACATCCGAAATGAAATG-CGCATTCTAAG-GAAA-CTGTTTTCCATTATTATTCAG-AGAATC
* ** *
820484 TATATCATGTCATAATGTTTCATCCCATCAGAAAGGAAATACG-CGTTCCAGAGGAAACA
191 TATACCACATCATAATGTTCCATCCCATCAGAAAGGAAA-A-GACGTTCCAGAGGAAACA
* * *
820543 TTTTTCATTATTATTTAGAGAATCTTTGCCAT
1 TTTTCCATTATTATTAAGAGAATCTCTGCCAT
820575 TTCACATAAT
Statistics
Matches: 229, Mismatches: 44, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
247 4 0.02
248 129 0.56
249 94 0.41
250 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (248 bp):
TTTTCCATTATTATTAAGAGAATCTCTGCCATGTCATAATGTTCAATCCCATCCCAAATGAAAAG
AGCGTTCCAGGGGAAGAGTTTTCTATTATTATTCAAAGAATCTCTACCATATCATAGTGTTCAAT
CACATCCGAAATGAAATGCGCATTCTAAGGAAACTGTTTTCCATTATTATTCAGAGAATCTATAC
CACATCATAATGTTCCATCCCATCAGAAAGGAAAAGACGTTCCAGAGGAAACA
Found at i:820666 original size:8 final size:8
Alignment explanation
Indices: 820653--820700 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
820643 ATCTTTGAAA
820653 TCTCAAAC
1 TCTCAAAC
820661 TCTCAAAC
1 TCTCAAAC
820669 GT-TCAAAC
1 -TCTCAAAC
*
820677 TTTCAAAC
1 TCTCAAAC
*
820685 TC-CCAAC
1 TCTCAAAC
820692 TCTCAAAC
1 TCTCAAAC
820700 T
1 T
820701 AAAAAAATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 7 0.21
8 26 0.76
9 1 0.03
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.27
Consensus pattern (8 bp):
TCTCAAAC
Found at i:820676 original size:16 final size:15
Alignment explanation
Indices: 820655--820700 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
820645 CTTTGAAATC
820655 TCAAACTCTCAAACGT
1 TCAAACTCTCAAAC-T
*
820671 TCAAACTTTCAAACT
1 TCAAACTCTCAAACT
* *
820686 CCCAACTCTCAAACT
1 TCAAACTCTCAAACT
820701 AAAAAAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.37, C:0.35, G:0.02, T:0.26
Consensus pattern (15 bp):
TCAAACTCTCAAACT
Found at i:824273 original size:20 final size:18
Alignment explanation
Indices: 824229--824283 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
824219 CTTTATTTTT
*
824229 TAATATTTTAAATTTTAA
1 TAATATTTAAAATTTTAA
*
824247 TAATATTTAAATATTTTCA
1 TAATATTTAAA-ATTTTAA
824266 TGAATATTTTAAAATTTT
1 T-AATA-TTTAAAATTTT
824284 TAAAATTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 10 0.31
19 7 0.22
20 9 0.28
21 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TAATATTTAAAATTTTAA
Found at i:827923 original size:58 final size:61
Alignment explanation
Indices: 827772--827924 Score: 181
Period size: 59 Copynumber: 2.6 Consensus size: 61
827762 AAGGGGACAA
* * * *
827772 TTTTTTTAAATTTTATAAATTTGTCCATACTTTCTAACTTAATTATTAAAAGCTCCTATTG
1 TTTTTTTAAATTTTATAAAATTATCCTTATTTTCTAACTTAATTATTAAAAGCTCCTATTG
* * * *
827833 --TTTTTAAATTCTATAAAATTTTCCTCATTTTCTAACTTAATTATTAAATG-T-CT-TTG
1 TTTTTTTAAATTTTATAAAATTATCCTTATTTTCTAACTTAATTATTAAAAGCTCCTATTG
* *
827889 TTTTTTTCAATTTTATAAAATAATCCTTATTTTCTA
1 TTTTTTTAAATTTTATAAAATTATCCTTATTTTCTA
827925 CCTTTATAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
56 3 0.04
57 2 0.03
58 30 0.38
59 43 0.55
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.54
Consensus pattern (61 bp):
TTTTTTTAAATTTTATAAAATTATCCTTATTTTCTAACTTAATTATTAAAAGCTCCTATTG
Found at i:834598 original size:21 final size:21
Alignment explanation
Indices: 834574--834614 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
834564 TATGAAATGG
834574 AGGCAGTGGCGTCTGAAATAA
1 AGGCAGTGGCGTCTGAAATAA
*
834595 AGGCGGTGGCGTCTGAAATA
1 AGGCAGTGGCGTCTGAAATA
834615 GTTGTGGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.37, T:0.20
Consensus pattern (21 bp):
AGGCAGTGGCGTCTGAAATAA
Found at i:836283 original size:103 final size:103
Alignment explanation
Indices: 836172--836492 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
836162 TAATGTCCAT
836172 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
836237 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
836275 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTAGGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
836340 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
836378 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAAAGATCAAGTATGTGTCTCAACA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
836443 GACCTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
836481 AAGGACCACATA
1 AAGGACCACATA
836493 GACCCTCTAC
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:839046 original size:21 final size:21
Alignment explanation
Indices: 839003--839047 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
838993 GATTTCTGGG
* * *
839003 CAAGGGGAATCGGTACCTATT
1 CAAGGGGAACCGATACCCATT
*
839024 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
839045 CAA
1 CAA
839048 ACGAACAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:840044 original size:31 final size:31
Alignment explanation
Indices: 840006--840099 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
839996 AGGGTCGAGG
840006 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
840037 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
840068 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
840099 G
1 G
840100 GTCCTTCGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 58 0.98
32 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:842542 original size:19 final size:20
Alignment explanation
Indices: 842515--842592 Score: 79
Period size: 19 Copynumber: 4.0 Consensus size: 20
842505 ATTTGTTTTA
* *
842515 TTTATTATTATTATT-TTGT
1 TTTAATATTATTATTATTAT
842534 TTTAATATTATTATTATTAT
1 TTTAATATTATTATTATTAT
* *
842554 ATT-ATATTATTATTATTAA
1 TTTAATATTATTATTATTAT
* *
842573 ATAAATAATTATTATTATTA
1 TTTAAT-ATTATTATTATTA
842593 CAAACAGACC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 31 0.61
20 7 0.14
21 13 0.25
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTAATATTATTATTATTAT
Found at i:842542 original size:22 final size:22
Alignment explanation
Indices: 842506--842571 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
842496 TTTTATTTCA
842506 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTA-TTATTATTATTAT
*
842529 TTTGTTTTAATATTATTATTAT
1 TTTGTTTTATTATTATTATTAT
* * *
842551 TATATTATATTATTATTATTA
1 TTTGTTTTATTATTATTATTA
842572 AATAAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
22 29 0.76
23 9 0.24
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTGTTTTATTATTATTATTAT
Done.