Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 13 of 127
Found at i:3008471 original size:74 final size:73
Alignment explanation
Indices: 3008343--3008480 Score: 172
Period size: 74 Copynumber: 1.9 Consensus size: 73
3008333 AAAATTTAAG
** * *
3008343 AAAAAGTTAAAAGTATCAATTTTTCATAGAAAAAAATTTTTCAAAATTATATTTTCAAAAGAAAT
1 AAAAAGTTAAAAGTATCAATTTTTCATAGAAAAAAATTTTTCAAAAAAAGATTTT-AAAAAAAAT
3008408 ATGTTTAGA
65 ATGTTTAGA
* **
3008417 AAAAAGTTGAAAGTATCAATTTTTTTTA-AATAAAAATATTTT-AAAAAAAGATTTTAAAAAAAA
1 AAAAAGTTAAAAGTATCAATTTTTCATAGAA-AAAAAT-TTTTCAAAAAAAGATTTTAAAAAAAA
3008480 T
64 T
3008481 TAAAAATATC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
73 10 0.18
74 41 0.75
75 4 0.07
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (73 bp):
AAAAAGTTAAAAGTATCAATTTTTCATAGAAAAAAATTTTTCAAAAAAAGATTTTAAAAAAAATA
TGTTTAGA
Found at i:3008477 original size:57 final size:61
Alignment explanation
Indices: 3008391--3008574 Score: 175
Period size: 57 Copynumber: 3.0 Consensus size: 61
3008381 TTTCAAAATT
* * * * *
3008391 ATATTTTCAAAAGAAATATGTTTAGAAAAAAGTTGAAAGTATCAATTTTTTTTAAATAAAA
1 ATATTTTCAAAAGAAAGATGTTTAGAAAAAAATTAAAAATATCAATTTTTCTTAAATAAAA
3008452 ATATTTT-AAAA-AAAGAT-TTTA-AAAAAAATTAAAAATATCAATTTTTCTTAAATAAAA
1 ATATTTTCAAAAGAAAGATGTTTAGAAAAAAATTAAAAATATCAATTTTTCTTAAATAAAA
* *
3008509 AT-TTTCTCAATTTCAA-AAA-ATGCATTTAGTAAAAAAGTTAAAAGTATCAATTTTTTCTTAAA
1 ATATTT-TCAA----AAGAAAGATG--TTTAG-AAAAAAATTAAAAATATCAA-TTTTTCTTAAA
3008571 TAAA
57 TAAA
3008575 GGCATTAATT
Statistics
Matches: 104, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
56 3 0.03
57 35 0.34
58 6 0.06
59 5 0.05
60 4 0.04
61 9 0.09
62 5 0.05
64 4 0.04
66 18 0.17
67 15 0.14
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (61 bp):
ATATTTTCAAAAGAAAGATGTTTAGAAAAAAATTAAAAATATCAATTTTTCTTAAATAAAA
Found at i:3013163 original size:24 final size:24
Alignment explanation
Indices: 3013117--3013163 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3013107 ATATAAAAGT
* *
3013117 ATATATTTTATTATTTCTGTAATC
1 ATATATTTTATTATATCTATAATC
3013141 ATATA-TTTATATATATCTATAAT
1 ATATATTTTAT-TATATCTATAAT
3013164 ATTAATGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATATTTTATTATATCTATAATC
Found at i:3013534 original size:13 final size:13
Alignment explanation
Indices: 3013513--3013556 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
3013503 TTTTCTATTG
*
3013513 TTTTATTTTTCTT
1 TTTTGTTTTTCTT
3013526 TTATT-TTTTTCTT
1 TT-TTGTTTTTCTT
3013539 TTTTGTTTTTCATT
1 TTTTGTTTTTC-TT
3013553 TTTT
1 TTTT
3013557 AATTAGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.07
13 18 0.64
14 8 0.29
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTGTTTTTCTT
Found at i:3013778 original size:53 final size:53
Alignment explanation
Indices: 3013715--3013820 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
3013705 GGGATGACAA
* *
3013715 AGCAATCAATATCTAATAGGTTTCGATACGTTTCAATTTGATATTAATTTTTT
1 AGCAATCAATATCTAATAGATTTCGATACATTTCAATTTGATATTAATTTTTT
*
3013768 AGCAATCAATATCTAATAGATTTCGATTCATTTCAATTTGATATTAATTTTTT
1 AGCAATCAATATCTAATAGATTTCGATACATTTCAATTTGATATTAATTTTTT
3013821 TAAAAAATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.46
Consensus pattern (53 bp):
AGCAATCAATATCTAATAGATTTCGATACATTTCAATTTGATATTAATTTTTT
Found at i:3014708 original size:26 final size:25
Alignment explanation
Indices: 3014675--3014727 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
3014665 GCAATGATTT
**
3014675 TTTTTTCATTTTTTGTTTATTTTTTA
1 TTTTTTCATTTTTT-TAAATTTTTTA
3014701 TTTTTTCATTTTTTTAAATTTTTTA
1 TTTTTTCATTTTTTTAAATTTTTTA
3014726 TT
1 TT
3014728 AATAAAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTTTCATTTTTTTAAATTTTTTA
Found at i:3017906 original size:63 final size:63
Alignment explanation
Indices: 3017807--3017929 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
3017797 CTCAACCTGA
* * *
3017807 GAGCTAGGAAAAGGGAGCATCTTAAACTTCCTGGTAGTTGGGTTA-CAGATAAAATATCTCGGT
1 GAGCTAGGAAAAGGGAACATCTTAAACTTCCCGGTAGTTGGG-TACCAGACAAAATATCTCGGT
*
3017870 GAGCTAGGAAAAGGGAACATCTT-AACTTCCCCGGTAGTTGGGTACCAGACAACATATCTC
1 GAGCTAGGAAAAGGGAACATCTTAAACTT-CCCGGTAGTTGGGTACCAGACAAAATATCTC
3017930 ATTGTTGACT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
62 7 0.13
63 47 0.87
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (63 bp):
GAGCTAGGAAAAGGGAACATCTTAAACTTCCCGGTAGTTGGGTACCAGACAAAATATCTCGGT
Found at i:3018316 original size:6 final size:6
Alignment explanation
Indices: 3018305--3018339 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
3018295 GGAGCCTTCA
3018305 TCGTCT TCGTCT TCGTCT TCGTCT TCGTCT TCGTC
1 TCGTCT TCGTCT TCGTCT TCGTCT TCGTCT TCGTC
3018340 GTCTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.17, T:0.49
Consensus pattern (6 bp):
TCGTCT
Found at i:3020550 original size:24 final size:23
Alignment explanation
Indices: 3020523--3020569 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
3020513 GAATTGCTAA
3020523 AATTTTAAAATAATTAAATTATTT
1 AATTTTAAAATAATT-AATTATTT
* *
3020547 AATTTTCAATTAATTAATTATTT
1 AATTTTAAAATAATTAATTATTT
3020570 TTATAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTTAAAATAATTAATTATTT
Found at i:3022422 original size:17 final size:17
Alignment explanation
Indices: 3022400--3022441 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
3022390 ATTTACCTAT
3022400 CATATTGAAATTAGATG
1 CATATTGAAATTAGATG
*
3022417 CATATTTAAATTAGATG
1 CATATTGAAATTAGATG
*
3022434 CATTTTGA
1 CATATTGA
3022442 TTTTACCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (17 bp):
CATATTGAAATTAGATG
Found at i:3025143 original size:12 final size:12
Alignment explanation
Indices: 3025126--3025151 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3025116 CAAAACTAAA
3025126 CTGTTGCACTGT
1 CTGTTGCACTGT
3025138 CTGTTGCACTGT
1 CTGTTGCACTGT
3025150 CT
1 CT
3025152 ATGTTGTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.27, G:0.23, T:0.42
Consensus pattern (12 bp):
CTGTTGCACTGT
Found at i:3026542 original size:2 final size:2
Alignment explanation
Indices: 3026535--3026564 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3026525 ACTTTCAACG
3026535 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
3026565 AGGCAGAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3032075 original size:14 final size:15
Alignment explanation
Indices: 3032056--3032095 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
3032046 ACAGAAAAAG
3032056 TATTTATTTTA-TTT
1 TATTTATTTTACTTT
3032070 TATTTATTTTACTTT
1 TATTTATTTTACTTT
* *
3032085 GATTTGTTTTA
1 TATTTATTTTA
3032096 ATGTGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (15 bp):
TATTTATTTTACTTT
Found at i:3043905 original size:74 final size:74
Alignment explanation
Indices: 3043784--3043928 Score: 263
Period size: 74 Copynumber: 2.0 Consensus size: 74
3043774 GCATCCAAAC
* * *
3043784 AGAAAAAGCCAAATTAAAGTCCCCAAGTGTTATTTTTCCTTCTCTTTGTTAATCACAATCCACAT
1 AGAAAAACCCAAATTAAAGTCCCCAAATGTTATTTTTCCTTCTCTTTGTCAATCACAATCCACAT
3043849 AAAATTAAA
66 AAAATTAAA
3043858 AGAAAAACCCAAATTAAAGTCCCCAAATGTTATTTTTCCTTCTCTTTGTCAATCACAATCCACAT
1 AGAAAAACCCAAATTAAAGTCCCCAAATGTTATTTTTCCTTCTCTTTGTCAATCACAATCCACAT
3043923 AAAATT
66 AAAATT
3043929 TCCAAAATGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (74 bp):
AGAAAAACCCAAATTAAAGTCCCCAAATGTTATTTTTCCTTCTCTTTGTCAATCACAATCCACAT
AAAATTAAA
Found at i:3051612 original size:30 final size:27
Alignment explanation
Indices: 3051578--3051674 Score: 113
Period size: 30 Copynumber: 3.3 Consensus size: 27
3051568 TATTACGTTC
3051578 AAATAAATTTATAATTTATAATTTATATAT
1 AAATAAATTT-TAATTT-TAATTTATAT-T
3051608 AAATAAATATTTAATATTTAATTTATATT
1 AAATAAAT-TTTAAT-TTTAATTTATATT
3051637 AAATAAATTCTTAAATTTTTAATTTATACTT
1 AAATAAATT-TT-AA-TTTTAATTTATA-TT
3051668 AAATAAA
1 AAATAAA
3051675 CGTATATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
28 1 0.02
29 11 0.18
30 35 0.57
31 14 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AAATAAATTTTAATTTTAATTTATATT
Found at i:3052568 original size:22 final size:23
Alignment explanation
Indices: 3052518--3052568 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
3052508 TTATGTCTTA
*
3052518 TTTTTTAAAATATCTAAAATTCT
1 TTTTTTAAAATATCTAAAATTAT
* *
3052541 TATTTTTAATAT-TTTAAAATTAT
1 T-TTTTTAAAATATCTAAAATTAT
3052564 TTTTT
1 TTTTT
3052569 ATGATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 11 0.46
24 9 0.38
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTTTAAAATATCTAAAATTAT
Found at i:3059400 original size:20 final size:21
Alignment explanation
Indices: 3059377--3059429 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
3059367 ATAATTATTT
**
3059377 TATATATAAATT-TATTTAAA
1 TATATATAAATTATATCAAAA
*
3059397 TATATTAAAAATTATATCAAAA
1 TATA-TATAAATTATATCAAAA
3059419 TAATATATAAA
1 T-ATATATAAA
3059430 AATAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.15
21 7 0.27
22 12 0.46
23 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATATAAATTATATCAAAA
Found at i:3059904 original size:26 final size:27
Alignment explanation
Indices: 3059852--3059914 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
3059842 TTCGTTCGTG
* *
3059852 AATAT-TAAACGAACATATTCACGAAT
1 AATATATAAATGAACATATTCACAAAT
* *
3059878 -ATATATAAATGAACATATTTATAAAT
1 AATATATAAATGAACATATTCACAAAT
*
3059904 AATAAATAAAT
1 AATATATAAAT
3059915 CATAACTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.13
26 17 0.57
27 9 0.30
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.32
Consensus pattern (27 bp):
AATATATAAATGAACATATTCACAAAT
Found at i:3060055 original size:11 final size:11
Alignment explanation
Indices: 3060041--3060071 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3060031 ATTGTAAATA
*
3060041 AATAGTAAACG
1 AATAATAAACG
3060052 AATAATAAACG
1 AATAATAAACG
3060063 AATAATAAA
1 AATAATAAA
3060072 TAAATACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (11 bp):
AATAATAAACG
Found at i:3065421 original size:21 final size:21
Alignment explanation
Indices: 3065397--3065439 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3065387 CAATTAGCAA
3065397 TCAATAAGGGAAGAAAAAGGG
1 TCAATAAGGGAAGAAAAAGGG
3065418 TCAATAAGGGAAGAAAAAGGG
1 TCAATAAGGGAAGAAAAAGGG
3065439 T
1 T
3065440 TTCTTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.33, T:0.12
Consensus pattern (21 bp):
TCAATAAGGGAAGAAAAAGGG
Found at i:3066214 original size:16 final size:15
Alignment explanation
Indices: 3066195--3066235 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
3066185 TGCAGATTCT
3066195 TTTTCTCCTTTTAGGA
1 TTTTCTCCTTTT-GGA
3066211 TTTTCT--TTTTGGA
1 TTTTCTCCTTTTGGA
3066224 TGTTTCTCCTTT
1 T-TTTCTCCTTT
3066236 AAGGTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.18
14 9 0.41
16 9 0.41
ACGTcount: A:0.07, C:0.17, G:0.12, T:0.63
Consensus pattern (15 bp):
TTTTCTCCTTTTGGA
Found at i:3077483 original size:2 final size:2
Alignment explanation
Indices: 3077476--3077512 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3077466 AGAAAATTAA
3077476 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3077513 AAGAACCGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3085521 original size:29 final size:28
Alignment explanation
Indices: 3085489--3085590 Score: 75
Period size: 29 Copynumber: 3.5 Consensus size: 28
3085479 ATAAAATATA
3085489 ATTTTTTAAATATAAATTATATCTTAATT
1 ATTTTTTAAATATAAATTATAT-TTAATT
* *
3085518 A-TTTATAAATATAATATTTTTATTTAATT
1 ATTTTTTAAATATAA-A-TTATATTTAATT
* * * *
3085547 AATATCTTAAAT-TAAGTTATTATATAATT
1 -ATTTTTTAAATATAAATTA-TATTTAATT
3085576 ATTTTATT-AATATAA
1 ATTTT-TTAAATATAA
3085591 TAATATATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
28 20 0.36
29 21 0.38
30 9 0.16
31 6 0.11
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (28 bp):
ATTTTTTAAATATAAATTATATTTAATT
Found at i:3085540 original size:21 final size:21
Alignment explanation
Indices: 3085482--3085543 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
3085472 AATATTCATA
**
3085482 AAATATAAT-TTTTTAAATAT
1 AAATATAATATTTTTATTTAT
3085502 AAAT-T-ATATCTTAATTATTTAT
1 AAATATAATAT-TT--TTATTTAT
3085524 AAATATAATATTTTTATTTA
1 AAATATAATATTTTTATTTA
3085544 ATTAATATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 6 0.18
21 7 0.21
22 10 0.29
23 3 0.09
24 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATATAATATTTTTATTTAT
Found at i:3093687 original size:22 final size:22
Alignment explanation
Indices: 3093647--3093688 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3093637 ATGGTTTAGA
*
3093647 TAAATTAAAAAATATATATTTT
1 TAAATTAAAAAATAAATATTTT
3093669 TAAATTGAAAAAA-AAATATT
1 TAAATT-AAAAAATAAATATT
3093689 GACAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATTAAAAAATAAATATTTT
Found at i:3093828 original size:31 final size:31
Alignment explanation
Indices: 3093770--3093850 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
3093760 ACATGATTAG
*
3093770 AATTT-GAAT-TAACATGATACATAATTTAAA
1 AATTTAGAATATAA-ATTATACATAATTTAAA
* * *
3093800 AGTTTAGAGTATAAATTATACATTATTTAAA
1 AATTTAGAATATAAATTATACATAATTTAAA
*
3093831 AATTTAGAATGTAAATTATA
1 AATTTAGAATATAAATTATA
3093851 TATTTTACTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 4 0.10
31 35 0.83
32 3 0.07
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.40
Consensus pattern (31 bp):
AATTTAGAATATAAATTATACATAATTTAAA
Found at i:3097234 original size:2 final size:2
Alignment explanation
Indices: 3097227--3097254 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3097217 AATTCTTCTT
3097227 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3097255 AAAGACTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3097339 original size:13 final size:13
Alignment explanation
Indices: 3097313--3097354 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
3097303 AGAAACCATT
*
3097313 AAAT-AAAAACTA
1 AAATCAAAAATTA
3097325 AAATCAAAAATTA
1 AAATCAAAAATTA
3097338 AAATCAATAAATTA
1 AAATCAA-AAATTA
3097352 AAA
1 AAA
3097355 GATCTCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 4 0.15
13 14 0.52
14 9 0.33
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATCAAAAATTA
Found at i:3099236 original size:66 final size:66
Alignment explanation
Indices: 3099153--3099309 Score: 269
Period size: 66 Copynumber: 2.4 Consensus size: 66
3099143 ATGGAGCCGC
* *
3099153 TGTCCAAGGTGTAGGAGCTGGTGCCCAAGGTTCAGTTGGTGTTGCTGGCATTGAAGGTGTAGTTG
1 TGTCCAAGGTGCAGGAGCTGGTGCCCAAGGTTCAGTTGGTGTTGCTGGCACTGAAGGTGTAGTTG
3099218 G
66 G
*
3099219 TGTCCACGGTGCAGGAGCTGGTGCCCAAGGTTCAGTTGGTGTTGCTGGCACTGAAGGTGTAGTTG
1 TGTCCAAGGTGCAGGAGCTGGTGCCCAAGGTTCAGTTGGTGTTGCTGGCACTGAAGGTGTAGTTG
3099284 G
66 G
* *
3099285 TGTCCAAGGTTCAGGAGTTGGTGCC
1 TGTCCAAGGTGCAGGAGCTGGTGCC
3099310 GGGGCTGGTG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 85 1.00
ACGTcount: A:0.16, C:0.17, G:0.39, T:0.29
Consensus pattern (66 bp):
TGTCCAAGGTGCAGGAGCTGGTGCCCAAGGTTCAGTTGGTGTTGCTGGCACTGAAGGTGTAGTTG
G
Found at i:3100490 original size:32 final size:32
Alignment explanation
Indices: 3100452--3100519 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
3100442 TATGATATTT
*
3100452 AATTTTAATATAAAATATAATATAAATATATA
1 AATTTTAATATAAAACATAATATAAATATATA
*** *
3100484 AATTTTAATATTTTACATAATATAAATATATT
1 AATTTTAATATAAAACATAATATAAATATATA
3100516 AATT
1 AATT
3100520 ATAAAGATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTTTAATATAAAACATAATATAAATATATA
Found at i:3101004 original size:27 final size:28
Alignment explanation
Indices: 3100945--3101014 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
3100935 AATCTTATCG
*
3100945 TTAATAATTTTATAATTTATTAATAAAATA
1 TTAA-AATTTTA-ATTTTATTAATAAAATA
*
3100975 TTAAAATTTTAATTTTATTAATTAAA-A
1 TTAAAATTTTAATTTTATTAATAAAATA
3101002 TTAAAATTTTAAT
1 TTAAAATTTTAAT
3101015 AATTTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 14 0.37
28 13 0.34
29 7 0.18
30 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTAAAATTTTAATTTTATTAATAAAATA
Found at i:3101022 original size:27 final size:28
Alignment explanation
Indices: 3100945--3101029 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
3100935 AATCTTATCG
*
3100945 TTAATAATTTT-ATAATTTATTAATAAAATA
1 TTAA-AATTTTAATAA-TTATTAATTAAA-A
*
3100975 TTAAAATTTTAAT-TTTATTAATTAAAA
1 TTAAAATTTTAATAATTATTAATTAAAA
3101002 TTAAAATTTTAATAATT-TTAAATTAAAA
1 TTAAAATTTTAATAATTATT-AATTAAAA
3101030 AAAAAGTCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
27 16 0.33
28 21 0.43
29 6 0.12
30 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAAATTTTAATAATTATTAATTAAAA
Found at i:3101027 original size:22 final size:21
Alignment explanation
Indices: 3100974--3101029 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
3100964 TTAATAAAAT
** *
3100974 ATTAAAATTTTAATTTTATTA
1 ATTAAAATTAAAATTTTAATA
3100995 ATTAAAATTAAAATTTTAATA
1 ATTAAAATTAAAATTTTAATA
*
3101016 ATTTTAAATTAAAA
1 A-TTAAAATTAAAA
3101030 AAAAAGTCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAAAATTAAAATTTTAATA
Found at i:3104418 original size:16 final size:16
Alignment explanation
Indices: 3104397--3104436 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
3104387 ATTTGCATAA
*
3104397 CATGCATTGAATTTTG
1 CATGCATTGAATTTCG
*
3104413 CATGCATTGCATTTCG
1 CATGCATTGAATTTCG
3104429 CATAGCAT
1 CAT-GCAT
3104437 ATACTACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (16 bp):
CATGCATTGAATTTCG
Found at i:3104841 original size:45 final size:45
Alignment explanation
Indices: 3104703--3104919 Score: 197
Period size: 45 Copynumber: 5.1 Consensus size: 45
3104693 GCTTTATTTA
* * *
3104703 TTTTTTCAAAGTCGTGATTGCCTCTGATTAGAGGAG-AATTT-A-
1 TTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATTTAAT
** * * *
3104745 -TTTTTCGAAA-TTGTGG-TGCCTCTATTTAAATGAGC-ATTT-A-
1 TTTTTTC-AAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATTTAAT
* *
3104785 -TTTTTCGAAGTCATGGTTGCCTCTGTTTAGAGGAGTAATTTAAT
1 TTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATTTAAT
** * *
3104829 TTTTTTTTAAGTCATGGTTGCCTCTGTTTAAATGAGCAATTT-A-
1 TTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATTTAAT
* *
3104872 TTTTTTCAAAGTCATGGTTGCCTCTGTCTAGAGGAGCAATTTACT
1 TTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATTTAAT
3104917 TTT
1 TTT
3104920 CAAAAGTTAT
Statistics
Matches: 141, Mismatches: 24, Indels: 17
0.77 0.13 0.09
Matches are distributed among these distances:
39 2 0.01
40 29 0.21
41 25 0.18
42 7 0.05
43 38 0.27
44 1 0.01
45 39 0.28
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (45 bp):
TTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCAATTTAAT
Found at i:3104897 original size:88 final size:85
Alignment explanation
Indices: 3104698--3104919 Score: 272
Period size: 88 Copynumber: 2.6 Consensus size: 85
3104688 AATAAGCTTT
* * * **
3104698 ATTTATTTTTTCAAAGTCGTGATTGCCTCTGATTAGAGGAGAATTT-A--TTTTTCGAAATTGTG
1 ATTTATTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGAATTTAATTTTTTTCGAAATCATG
3104760 GTGCCTCTATTTAAATGAGC
66 GTGCCTCTATTTAAATGAGC
* ** *
3104780 ATTTA-TTTTTCGAAGTCATGGTTGCCTCTGTTTAGAGGAGTAATTTAATTTTTTTTTAAGTCAT
1 ATTTATTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAG-AATTTAATTTTTTTCGAAATCAT
*
3104844 GGTTGCCTCTGTTTAAATGAGC
65 GG-TGCCTCTATTTAAATGAGC
* *
3104866 AATTTATTTTTTCAAAGTCATGGTTGCCTCTGTCTAGAGGAGCAATTTACTTTT
1 -ATTTATTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAG-AATTTAATTTT
3104920 CAAAAGTTAT
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
81 31 0.26
82 10 0.08
83 1 0.01
85 11 0.09
86 18 0.15
87 5 0.04
88 43 0.36
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.45
Consensus pattern (85 bp):
ATTTATTTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGAATTTAATTTTTTTCGAAATCATG
GTGCCTCTATTTAAATGAGC
Found at i:3104926 original size:43 final size:42
Alignment explanation
Indices: 3104698--3104923 Score: 226
Period size: 43 Copynumber: 5.3 Consensus size: 42
3104688 AATAAGCTTT
* * *
3104698 ATTTATTTTTTCAAAGTCGTGATTGCCTCTGATTAGAGGAG-A
1 ATTTA-TTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCA
** * * *
3104740 ATTTATTTTTCGAAA-TTGTGG-TGCCTCTATTTAAATGAGC-
1 ATTTATTTTTC-AAAGTCATGGTTGCCTCTGTTTAGAGGAGCA
* *
3104780 ATTTATTTTTCGAAGTCATGGTTGCCTCTGTTTAGAGGAGTA
1 ATTTATTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCA
** * *
3104822 ATTTAATTTTTTTTTAAGTCATGGTTGCCTCTGTTTAAATGAGCA
1 ATTT-A--TTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCA
*
3104867 ATTTATTTTTTCAAAGTCATGGTTGCCTCTGTCTAGAGGAGCA
1 ATTTA-TTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCA
*
3104910 ATTTACTTTTCAAA
1 ATTTATTTTTCAAA
3104924 AGTTATTGAG
Statistics
Matches: 152, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
39 2 0.01
40 29 0.19
41 25 0.16
42 20 0.13
43 39 0.26
44 1 0.01
45 36 0.24
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (42 bp):
ATTTATTTTTCAAAGTCATGGTTGCCTCTGTTTAGAGGAGCA
Found at i:3105043 original size:45 final size:44
Alignment explanation
Indices: 3104942--3105061 Score: 163
Period size: 44 Copynumber: 2.8 Consensus size: 44
3104932 AGCCTTTAAA
* *
3104942 TAGATAAGCTTTA-TT-TTTTTTAAAAATCGTTGAGCCTCTGAT
1 TAGATAAGCTTTATTTATTTTTTAAAAGTCGTTGAACCTCTGAT
**
3104984 TAGAGGAGCTTTATTTATTTTTTAAAAGTCGTTGAACCTCTGAT
1 TAGATAAGCTTTATTTATTTTTTAAAAGTCGTTGAACCTCTGAT
* *
3105028 TAGATCAGCTTTTATTTATTTTTCAAAAGTCGTT
1 TAGATAAGC-TTTATTTATTTTTTAAAAGTCGTT
3105062 AGGCATTTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 11 0.16
43 2 0.03
44 32 0.47
45 23 0.34
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (44 bp):
TAGATAAGCTTTATTTATTTTTTAAAAGTCGTTGAACCTCTGAT
Found at i:3105073 original size:45 final size:44
Alignment explanation
Indices: 3104910--3105110 Score: 192
Period size: 45 Copynumber: 4.6 Consensus size: 44
3104900 TAGAGGAGCA
* ** * * *
3104910 ATTTACTTTTCAAAAGTTATTGAGCCTTTAAATAGATAAGCTTT
1 ATTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGATAAGCTTT
* **
3104954 ATTT-TTTTT-AAAAATCGTTGAGCCTCTGATTAGAGGAGCTTT
1 ATTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGATAAGCTTT
* * *
3104996 ATTTATTTTTTAAAAGTCGTTGAACCTCTGATTAGATCAGCTTTT
1 ATTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGATAAGC-TTT
* * *
3105041 ATTTATTTTTCAAAAGTCGTT-AGGCATTTGATTAGAAAAGCTTTT
1 ATTTATTTTTCAAAAGTCGTTGA-GCCTCTGATTAGATAAGC-TTT
* * *
3105086 GTTTATTTTTCTAAAGTCATTGAGC
1 ATTTATTTTTCAAAAGTCGTTGAGC
3105111 TTTTTTTTTA
Statistics
Matches: 130, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
42 29 0.22
43 9 0.07
44 31 0.24
45 60 0.46
46 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (44 bp):
ATTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGATAAGCTTT
Found at i:3105083 original size:89 final size:87
Alignment explanation
Indices: 3104910--3105108 Score: 197
Period size: 86 Copynumber: 2.3 Consensus size: 87
3104900 TAGAGGAGCA
* * * * * * *
3104910 ATTTACTTTTCAAAAGTTATTGAGCCTTTAAATAGATAAGCTTTATTTTTTTTAAAAATCGTTGA
1 ATTTATTTTTCTAAAGTCATTGAACCTCTGATTAGATAAGCTTTATTTTTTTTAAAAATCGTTGA
* **
3104975 GCCTCTGATTAGAGGAGC-TTT
66 GCATCTGATTAGAAAAGCTTTT
* * *
3104996 ATTTATTTTT-TAAAAGTCGTTGAACCTCTGATTAGATCAGCTTTTATTTATTTTTCAAAAGTCG
1 ATTTATTTTTCT-AAAGTCATTGAACCTCTGATTAGATAAGC-TTTATTT-TTTTT-AAAAATCG
*
3105060 TT-AGGCATTTGATTAGAAAAGCTTTT
62 TTGA-GCATCTGATTAGAAAAGCTTTT
*
3105086 GTTTATTTTTCTAAAGTCATTGA
1 ATTTATTTTTCTAAAGTCATTGA
3105109 GCTTTTTTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
86 31 0.34
87 7 0.08
88 6 0.07
89 23 0.26
90 22 0.24
91 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (87 bp):
ATTTATTTTTCTAAAGTCATTGAACCTCTGATTAGATAAGCTTTATTTTTTTTAAAAATCGTTGA
GCATCTGATTAGAAAAGCTTTT
Found at i:3106343 original size:14 final size:15
Alignment explanation
Indices: 3106318--3106356 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
3106308 ATATCAATTT
3106318 TTCTTGAAAATAAAA-
1 TTCTT-AAAATAAAAG
*
3106333 TTTTTAAAATAAAAG
1 TTCTTAAAATAAAAG
3106348 TTCTTAAAA
1 TTCTTAAAA
3106357 AGTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (15 bp):
TTCTTAAAATAAAAG
Found at i:3106371 original size:137 final size:133
Alignment explanation
Indices: 3106197--3106465 Score: 350
Period size: 137 Copynumber: 2.0 Consensus size: 133
3106187 AAATTGGAAG
3106197 TTTTAAAATAAAATTATTAAAAAAAATTTTTAAAGAAAAGTTGAAAGTATCAA-TTTTTCTTAAA
1 TTTTAAAATAAAATTATTAAAAAAAATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTTCTTAAA
3106261 -AATAAATTTTA-AAATTAAAAATATACATTTTTGAGAAAAAGTTAAAAATATC-AATTTTTCTT
66 CAA-AAATTTTAGAAA--AAAAA-ATAC--TTTT-AGAAAAAGTTAAAAATA-CAAATTTTTCTT
*
3106323 GAAAATAAAAT
123 AAAAATAAAAT
* ** *
3106334 TTTTAAAATAAAAGTTCTTAAAAAGTA-TTTTAAAGAAAAGTTGAAAGTATCAATTTTTTTTTAA
1 TTTTAAAATAAAA-TTATTAAAAAAAATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTTCTTAA
* * *
3106398 ACAAAAATTTTAGAAAAAAAAATACTTTTAGGAAAAGTTGAAAGTACAAATTTTTCTTAAAAATA
65 ACAAAAATTTTAGAAAAAAAAATACTTTTAGAAAAAGTTAAAAATACAAATTTTTCTTAAAAATA
3106463 AAA
130 AAA
3106466 ATTATCAAGA
Statistics
Matches: 119, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
132 1 0.01
133 33 0.28
134 4 0.03
136 4 0.03
137 44 0.37
138 28 0.24
139 5 0.04
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (133 bp):
TTTTAAAATAAAATTATTAAAAAAAATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTTCTTAAA
CAAAAATTTTAGAAAAAAAAATACTTTTAGAAAAAGTTAAAAATACAAATTTTTCTTAAAAATAA
AAT
Found at i:3106436 original size:61 final size:62
Alignment explanation
Indices: 3106353--3106509 Score: 180
Period size: 61 Copynumber: 2.6 Consensus size: 62
3106343 AAAAGTTCTT
* * * **
3106353 AAAAAGTATTTTAA-AGAAAAGTTGAAAGTATCAATTTTTTTTTAAACAA-AAATTTTAGAAA
1 AAAAAATATTTTAAGAGAAAAGTTGAAAGTATCAAATTTTTCTTAAA-AATAAAAATTAGAAA
**
3106414 AAAAAATACTTTT-AG-GAAAAGTTGAAAGTA-CAAATTTTTCTTAAAAATAAAAATTATCAA
1 AAAAAATA-TTTTAAGAGAAAAGTTGAAAGTATCAAATTTTTCTTAAAAATAAAAATTAGAAA
* *
3106474 GAAAAATATTTTAAGAAAAAAGTTGAAAGTATCAAA
1 AAAAAATATTTTAAGAGAAAAGTTGAAAGTATCAAA
3106510 AGTTGAATCA
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
59 6 0.07
60 30 0.37
61 37 0.46
62 8 0.10
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (62 bp):
AAAAAATATTTTAAGAGAAAAGTTGAAAGTATCAAATTTTTCTTAAAAATAAAAATTAGAAA
Found at i:3106495 original size:137 final size:137
Alignment explanation
Indices: 3106201--3106497 Score: 325
Period size: 137 Copynumber: 2.2 Consensus size: 137
3106191 TGGAAGTTTT
*
3106201 AAAATAAAA-TTATTAAAAAAAA-TTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAAATAAAAGTTCTTAAAAAAAAGTTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
*
3106264 AAATTTTAAAATTAAAAATATACATTTTTGAGAAAAAGTTAAAAATATCAATTTTTCTTGAAAAT
66 AAATTTTAAAA-TAAAAATATACA-TTTTGAGAAAAAGTTAAAAATATCAATTTTTCTTAAAAAT
* *
3106329 AAAATTTTT
129 AAAATTATC
*
3106338 AAAATAAAAGTTCTT---AAAAAGTATTTTAAAGAAAAGTTGAAAGTATCAATTTTTTTTTAAAC
1 AAAATAAAAGTTCTTAAAAAAAAGT-TTTTAAAGAAAAGTTGAAAGTATCAA-TTTTTCTTAAA-
* * *
3106400 AA-AAATTTTAGAAA-AAAAA-ATAC-TTTT-AGGAAAAGTTGAAAGTA-CAAATTTTTCTTAAA
63 AATAAATTTTA-AAATAAAAATATACATTTTGAGAAAAAGTTAAAAATATC-AATTTTTCTTAAA
3106459 AATAAAAATTATC
126 AAT-AAAATTATC
3106472 AAGAA-AAATA-TT-TTAAGAAAAAAGTT
1 AA-AATAAA-AGTTCTTAA-AAAAAAGTT
3106498 GAAAGTATCA
Statistics
Matches: 138, Mismatches: 8, Indels: 29
0.79 0.05 0.17
Matches are distributed among these distances:
132 1 0.01
133 31 0.22
134 18 0.13
135 8 0.06
136 6 0.04
137 47 0.34
138 22 0.16
139 5 0.04
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (137 bp):
AAAATAAAAGTTCTTAAAAAAAAGTTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
AAATTTTAAAATAAAAATATACATTTTGAGAAAAAGTTAAAAATATCAATTTTTCTTAAAAATAA
AATTATC
Found at i:3108340 original size:39 final size:39
Alignment explanation
Indices: 3108286--3108361 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
3108276 AAATGTGATC
* * *
3108286 TAAAGTTATGGTATAATCCTTGTTTGTTAGATATGATTA
1 TAAAGTTATAGTATAATCCTTATTTATTAGATATGATTA
3108325 TAAAGTTATAGTATAATCCTTATTTATTAGATATGAT
1 TAAAGTTATAGTATAATCCTTATTTATTAGATATGAT
3108362 ATCCTTTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (39 bp):
TAAAGTTATAGTATAATCCTTATTTATTAGATATGATTA
Found at i:3110071 original size:12 final size:11
Alignment explanation
Indices: 3110048--3110077 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
3110038 TATTTTACAT
3110048 AAAATAATAAA
1 AAAATAATAAA
3110059 AAAATATATAAA
1 AAAATA-ATAAA
3110071 AAAATAA
1 AAAATAA
3110078 ACAACATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:3110928 original size:17 final size:17
Alignment explanation
Indices: 3110901--3110964 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
3110891 TATTATTAAA
*
3110901 ATTTTAAATTATATTAT
1 ATTTTATATTATATTAT
* *
3110918 TTTTTATATTATGTTAT
1 ATTTTATATTATATTAT
** *
3110935 ATTTTATCATCGTATCAT
1 ATTTTAT-ATTATATTAT
*
3110953 ATTTTAAATTAT
1 ATTTTATATTAT
3110965 TAAATTTATA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
17 23 0.66
18 12 0.34
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTTTATATTATATTAT
Found at i:3112171 original size:3 final size:3
Alignment explanation
Indices: 3112165--3112194 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3112155 TAAGATGATT
3112165 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3112195 GATGATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3118379 original size:121 final size:125
Alignment explanation
Indices: 3118144--3118380 Score: 279
Period size: 121 Copynumber: 1.9 Consensus size: 125
3118134 AAAACCTTGT
* *
3118144 ATTACTTGTATATAGTTTTGCAAAACGAATAAAAAATAATTTTTTAATTTATTTTCCTTTTAATA
1 ATTACTTATATATAGTTTTGCAAAACGAATAAAAAATAATTTTTTAATTTATTTT-CTTTGAATA
** ** * **
3118209 AACTTTGGGTATTTGAATTTTTTTTTAAAATTTCTACTTAAAGTTGAAGGAGTTTCTTTTA
65 AAAATTGGGTATTTGAATTTTTTTAAAAAATTTATACTTAAAGAAGAAGGAGTTTCTTTTA
* *
3118270 ATTACTTTATATATAGTTTTGCAAAA-G-A-AAAAAATGATTTTTTAATTTATTTT-TTTGGATA
1 ATTAC-TTATATATAGTTTTGCAAAACGAATAAAAAATAATTTTTTAATTTATTTTCTTTGAAT-
* * *
3118331 AAAAATT-GTTATTTGGA-TTTTTTAAAAAATTTATACTTATAGAAGAAGGA
64 AAAAATTGGGTATTTGAATTTTTTTAAAAAATTTATACTTAAAGAAGAAGGA
3118381 ATTGTTTTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
121 27 0.28
122 13 0.14
123 5 0.05
124 24 0.25
125 1 0.01
126 6 0.06
127 19 0.20
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (125 bp):
ATTACTTATATATAGTTTTGCAAAACGAATAAAAAATAATTTTTTAATTTATTTTCTTTGAATAA
AAATTGGGTATTTGAATTTTTTTAAAAAATTTATACTTAAAGAAGAAGGAGTTTCTTTTA
Found at i:3119170 original size:14 final size:14
Alignment explanation
Indices: 3119151--3119192 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
3119141 TTTTAAATTG
*
3119151 ATTAATTGAATTAA
1 ATTAATTTAATTAA
*
3119165 ATTAATTTAATCAA
1 ATTAATTTAATTAA
3119179 A-TAATTTAATTAA
1 ATTAATTTAATTAA
3119192 A
1 A
3119193 ATCGAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (14 bp):
ATTAATTTAATTAA
Found at i:3121171 original size:59 final size:59
Alignment explanation
Indices: 3121079--3121202 Score: 241
Period size: 59 Copynumber: 2.1 Consensus size: 59
3121069 GAGAAGAAGG
3121079 CCTAAAAATAGATGAATAAATAGTAAGTGACATGGTGTCAACCATATCTTGAGAAAGCA
1 CCTAAAAATAGATGAATAAATAGTAAGTGACATGGTGTCAACCATATCTTGAGAAAGCA
3121138 CCTAAAAATAGATGAATAAATAGTAAGTGACATGGTGTCAACCATATCTTGAGAAAGCA
1 CCTAAAAATAGATGAATAAATAGTAAGTGACATGGTGTCAACCATATCTTGAGAAAGCA
3121197 CC-AAAA
1 CCTAAAA
3121203 GACAGAAAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 4 0.06
59 61 0.94
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.23
Consensus pattern (59 bp):
CCTAAAAATAGATGAATAAATAGTAAGTGACATGGTGTCAACCATATCTTGAGAAAGCA
Found at i:3130351 original size:11 final size:11
Alignment explanation
Indices: 3130335--3130359 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3130325 TATGCGTGCG
3130335 TTGACTATGGA
1 TTGACTATGGA
3130346 TTGACTATGGA
1 TTGACTATGGA
3130357 TTG
1 TTG
3130360 TGGTGAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (11 bp):
TTGACTATGGA
Found at i:3130732 original size:25 final size:25
Alignment explanation
Indices: 3130694--3130745 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
3130684 AAATAATAAT
* *
3130694 AAAATTATTATAATTGTAATTAAAA
1 AAAATTATGATAATTATAATTAAAA
*
3130719 AAAATTATGGTAATTATAATTAAAA
1 AAAATTATGATAATTATAATTAAAA
3130744 AA
1 AA
3130746 TTTATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
AAAATTATGATAATTATAATTAAAA
Found at i:3134973 original size:23 final size:22
Alignment explanation
Indices: 3134922--3134975 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
3134912 TAAATTGTGT
* *
3134922 AAAA-TTTTAAAAAATTTTGAT
1 AAAATTTTTAAAAAATATTGAC
* *
3134943 ATATTTTTTAAATAAATATTGAC
1 AAAATTTTTAAA-AAATATTGAC
3134966 AAAATTTTTA
1 AAAATTTTTA
3134976 TCATTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 2 0.08
22 7 0.28
23 16 0.64
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
AAAATTTTTAAAAAATATTGAC
Found at i:3138152 original size:42 final size:42
Alignment explanation
Indices: 3138093--3138177 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
3138083 ACTCATCAGG
*
3138093 AGATCATAGTTAAATCATGAGCTCAAATGTTATGGCAGATGA
1 AGATCATAGTTAAATCATGAGCTAAAATGTTATGGCAGATGA
* *
3138135 AGATCATAGTTAAATCATGAGGTAAAATGTTATGGCAGGTGA
1 AGATCATAGTTAAATCATGAGCTAAAATGTTATGGCAGATGA
3138177 A
1 A
3138178 CTAGTACATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATCATAGTTAAATCATGAGCTAAAATGTTATGGCAGATGA
Found at i:3140620 original size:18 final size:19
Alignment explanation
Indices: 3140599--3140653 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
3140589 AAAATAGTAA
3140599 AAAATAATTTTAAA-ATAT
1 AAAATAATTTTAAATATAT
* * *
3140617 AAAA-AAATTTAAATGTTT
1 AAAATAATTTTAAATATAT
*
3140635 AAAATAATTTTTAATATAT
1 AAAATAATTTTAAATATAT
3140654 CTCAAAAAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 8 0.29
18 10 0.36
19 10 0.36
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAATAATTTTAAATATAT
Found at i:3150906 original size:13 final size:14
Alignment explanation
Indices: 3150882--3150910 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3150872 TTAAGATTTG
3150882 AAATATAATTTGAT
1 AAATATAATTTGAT
3150896 AAATA-AATTTGAT
1 AAATATAATTTGAT
3150909 AA
1 AA
3150911 TTTATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
AAATATAATTTGAT
Found at i:3151024 original size:27 final size:25
Alignment explanation
Indices: 3150989--3151059 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 25
3150979 AGTTAAGTAC
3150989 ATAATTTTTTTATTTCTTTAAATTTAT
1 ATAATTTTTTTATTT-TTTAAA-TTAT
**
3151016 ATAATTTTTTTAAAATTTTAAATTAT
1 ATAATTTTTTT-ATTTTTTAAATTAT
*
3151042 ATTA-TTTTTTATTTTTTA
1 ATAATTTTTTTATTTTTTA
3151060 TATATTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 6 0.16
25 6 0.16
26 7 0.18
27 17 0.45
28 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (25 bp):
ATAATTTTTTTATTTTTTAAATTAT
Found at i:3151067 original size:10 final size:10
Alignment explanation
Indices: 3151038--3151075 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
3151028 AAATTTTAAA
3151038 TTATATTATTT
1 TTATA-TATTT
3151049 TT-TAT-TTT
1 TTATATATTT
3151057 TTATATATTT
1 TTATATATTT
3151067 TTATATATT
1 TTATATATT
3151076 AATCATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.20
9 4 0.16
10 14 0.56
11 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATATATTT
Found at i:3152518 original size:43 final size:43
Alignment explanation
Indices: 3152451--3152537 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
3152441 CATCTATAAA
*
3152451 AAAAAACATGTATTAATATCAAATCACACGTAAACAATAGTAG
1 AAAAAACATGTATTAATATCAAATCACACGTAAACAAAAGTAG
* * *
3152494 AAAAAACATGTATTAGTATGAAATCACATGTAAACAAAAGTAG
1 AAAAAACATGTATTAATATCAAATCACACGTAAACAAAAGTAG
3152537 A
1 A
3152538 GGAAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (43 bp):
AAAAAACATGTATTAATATCAAATCACACGTAAACAAAAGTAG
Found at i:3174467 original size:16 final size:16
Alignment explanation
Indices: 3174443--3174476 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3174433 CATTTTTTTT
* *
3174443 ACTCGAATGAAAGTTC
1 ACTCCAATGAAAATTC
3174459 ACTCCAATGAAAATTC
1 ACTCCAATGAAAATTC
3174475 AC
1 AC
3174477 CATTTTCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (16 bp):
ACTCCAATGAAAATTC
Found at i:3175606 original size:24 final size:25
Alignment explanation
Indices: 3175556--3175613 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
3175546 TGTTAATATG
3175556 ATAATTTTAAATAATTTAAAAATAAT
1 ATAA-TTTAAATAATTTAAAAATAAT
*
3175582 ATAATTTAAAT-TTTTAATAAA-AAT
1 ATAATTTAAATAATTTAA-AAATAAT
*
3175606 ATATTTTA
1 ATAATTTA
3175614 TAAATTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 15 0.52
25 10 0.34
26 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAATTTAAATAATTTAAAAATAAT
Found at i:3175909 original size:3 final size:3
Alignment explanation
Indices: 3175899--3175961 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
3175889 CGACGATGGC
* * *
3175899 CTT C-T CTT CTT CTT C-G CTT TTT C-T CTC CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
3175944 CTT CGT CTT -TT CTCT CTT
1 CTT CTT CTT CTT CT-T CTT
3175962 ATTCCCCTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
2 7 0.15
3 37 0.79
4 3 0.06
ACGTcount: A:0.00, C:0.35, G:0.03, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:3181871 original size:2 final size:2
Alignment explanation
Indices: 3181866--3181896 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3181856 AAAAGAAAAA
3181866 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3181897 ATTCCTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3220031 original size:21 final size:21
Alignment explanation
Indices: 3220007--3220053 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
3219997 TTCGAAATTA
3220007 ATAAAATATT-TTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
3220028 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
3220049 ATAAA
1 ATAAA
3220054 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:3220667 original size:21 final size:20
Alignment explanation
Indices: 3220639--3220679 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3220629 TTGTTGATGA
* *
3220639 AATGTTAGATTTTAAATTTT
1 AATGTTAGAATTAAAATTTT
3220659 AATGATTAGAATTAAAATTTT
1 AATG-TTAGAATTAAAATTTT
3220680 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
AATGTTAGAATTAAAATTTT
Found at i:3224082 original size:24 final size:23
Alignment explanation
Indices: 3224055--3224114 Score: 97
Period size: 21 Copynumber: 2.7 Consensus size: 23
3224045 GTTTATGATT
3224055 ATTTATTCCAATTTTTTTGAAGGA
1 ATTTATTCCAATTTTTTT-AAGGA
3224079 ATTTATT-C-ATTTTTTTAAGGA
1 ATTTATTCCAATTTTTTTAAGGA
3224100 ATTTATTCCAATTTT
1 ATTTATTCCAATTTT
3224115 AATATGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.35
22 9 0.26
23 6 0.18
24 7 0.21
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.55
Consensus pattern (23 bp):
ATTTATTCCAATTTTTTTAAGGA
Found at i:3224980 original size:2 final size:2
Alignment explanation
Indices: 3224973--3225011 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3224963 TGGTGTTCTT
3224973 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3225012 TAAGTAGTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3227106 original size:516 final size:514
Alignment explanation
Indices: 3226131--3228076 Score: 2537
Period size: 516 Copynumber: 3.8 Consensus size: 514
3226121 TCTCATTAAT
** *
3226131 GAAGTCATTGATTCATAATTCATCCAACTATAAACTCCTTTTTAGTAAGGTAATTTCTCATTGTT
1 GAAGTCATTGATTCATAATTCATAGAAGTATAAACTCCTTTTTAGTAAGGTAATTTCTCATTGTT
3226196 ACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATCAAACTCATGTTAGAAATTAGA
66 ACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATC-AACTCATGTTAGAAATTAGA
* * * * *
3226261 TAATATTTATGTGAGTGTACTAATGGATTTATATTCACTTGATCTGACTCATATTTCAATAAATC
130 TAATATTTATGTGAATGTACTAATGCATTTGTATTCACTTGATCTAACTCATATTCCAATAAATC
* * **
3226326 TCATAATTAAATTTTATCTTTTCAATTACAAGTTTCATATCACATAATGTGATATTAAAAAGTGA
195 TCATAATTAAAATTTATCCTTTCAATTACAAGTTTCATATCACATAAAATGATATTAAAAAGTGA
* * * * *
3226391 TCTTTAAAGCTTTTTTAGATAATAGAATATCACATAGTTTAATCCATGAATGATAAACGCGTATA
260 TCTTTAAAGCTTTTTCAGATAATAAAATATCACATAGTTCAATCCATGCATGATAAACGCGTGTA
* * * * * *
3226456 TCTCTATTTAGAGAATCCAGTTCAAATTCTAATTAATTTTCACATCAAGACAAAAATATTACATT
325 TCTCTATTTAGAGAATCCAGTTTAAATTCTCATTAATTTTCACATAAAAACAAAAATATTATATG
* * * *
3226521 TAC-CTATCTTAATGACAATTTAATTCATCCAAAATATTTAAAAATTTGTTTAAAAAATAAAAGA
390 TACTC-ATCTTAATGATAATTTAATTCATCCAAAATAATCAAAAA-TTATTTAAAAAATAAAAGA
* * * * *
3226585 AAGAAAAAAAGCCCACTTAGGTTTTGTGGAGTTCATTGTATATATTGAGTAGCACTTCAAAA
453 AAGAAAAAAAGCCCACCTAGGTTTTGTGGAGTTCATTATATATATTGAGTAGCACTTGAGAG
* *
3226647 GAAGTCACTGATTCATAATTCATAGAAGTATAAACTCCTTTATAGTAAGGTAATTTCTCATTGTT
1 GAAGTCATTGATTCATAATTCATAGAAGTATAAACTCCTTTTTAGTAAGGTAATTTCTCATTGTT
* * * * * *
3226712 ACAGACGCATATTTGAATTTCCATTAGAAATAAAATTTTAAATCAACTCATGTTAGAGATTAGAT
66 ACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATCAACTCATGTTAGAAATTAGAT
*
3226777 AATATTTATGTGAATGTACTAATGCATTTGTATTCACTTGATCCAACTCATATTCCAATAAATCT
131 AATATTTATGTGAATGTACTAATGCATTTGTATTCACTTGATCTAACTCATATTCCAATAAATCT
* * *
3226842 CGTAATTAAAATTTATCCTTTCAATTA-ATAATTTCATATCACATAAAATTATATTAAAAAGTGA
196 CATAATTAAAATTTATCCTTTCAATTACA-AGTTTCATATCACATAAAATGATATTAAAAAGTGA
* * * * * *
3226906 TCTTTAAAGTTTTTATTAGATAATAGAATATCACATGGTTCAATCCATCCATGATAAATGCGTGT
260 TCTTTAAAGCTTTT-TCAGATAATAAAATATCACATAGTTCAATCCATGCATGATAAACGCGTGT
* *
3226971 ATCTCTATTTAAAGAATACAGTTTAAATTCTCATTAATTTTCACATAAAAACAAAAATATTATAT
324 ATCTCTATTTAGAGAATCCAGTTTAAATTCTCATTAATTTTCACATAAAAACAAAAATATTATAT
* * *
3227036 GTAGTCATATTAATGATAATTTAATTCATCCAAAATAATCAACAAATTATTTAAAAAATAAAACA
389 GTACTCATCTTAATGATAATTTAATTCATCCAAAATAATCAA-AAATTATTTAAAAAATAAAAGA
** * * *
3227101 AAGAAAAAAAAATCTACCTAGGTTTTGTAGCGTTCATTATATATATTGAGTAGCACTTGAGAG
453 AAG-AAAAAAAGCCCACCTAGGTTTTGTGGAGTTCATTATATATATTGAGTAGCACTTGAGAG
* **
3227164 GAAGTCATTGATTCATAATTCATAGAAGTATAAACT-CTTTTTAATAAGGTAATTTCTTGTTGTT
1 GAAGTCATTGATTCATAATTCATAGAAGTATAAACTCCTTTTTAGTAAGGTAATTTCTCATTGTT
* ** *
3227228 ACAAATACTTATGTGAAATTCCATTAGAAATAAAATTCAAAATCAACTAATGTTAGAAAATT-GA
66 ACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATCAACTCATGTTAG-AAATTAGA
* * * *
3227292 TAATATTTATGTAAATGTACTAATGGATTTGTATTTACTTGATCGAACTCATATTCCAATAAATC
130 TAATATTTATGTGAATGTACTAATGCATTTGTATTCACTTGATCTAACTCATATTCCAATAAATC
* * * ** *
3227357 TTATAATTAAATTTTGTCCTTTCGGTTACAAGTTTCATATCACATAAAATGATATTAAAAGGTGA
195 TCATAATTAAAATTTATCCTTTCAATTACAAGTTTCATATCACATAAAATGATATTAAAAAGTGA
* * * * * ** *
3227422 TCTTTAAAGCTTTTGTCAGATAATAAAATATCAGATGGTTCAATACATGTATGAGAAACATGTGA
260 TCTTTAAAGCTTTT-TCAGATAATAAAATATCACATAGTTCAATCCATGCATGATAAACGCGTGT
* * * * * ** * *
3227487 ATCGCTATTTAGATAATTCAATTTAAATTCTC----ATTCTCGTATAAAAATAGAAATATTATAT
324 ATCTCTATTTAGAGAATCCAGTTTAAATTCTCATTAATTTTCACATAAAAACAAAAATATTATAT
* * *
3227548 ATACTCATCTTAATGATAATTTAATTCATCCAAAATAATCAATAAATTATTTGAAAAATTAAAGA
389 GTACTCATCTTAATGATAATTTAATTCATCCAAAATAATCAA-AAATTATTTAAAAAATAAAAGA
* * * * *
3227613 AAGGAAAAGAGCCCACCTAGATTTTATGGTGTTCATTATATATATTGAGTAGCACTTGAGAG
453 AAGAAAAAAAGCCCACCTAGGTTTTGTGGAGTTCATTATATATATTGAGTAGCACTTGAGAG
* *
3227675 GAAGTCATTGATTCATAATTCATAAAAGTATAAACACCTTTTTAGTAAGGTAATTTCTCATTGTT
1 GAAGTCATTGATTCATAATTCATAGAAGTATAAACTCCTTTTTAGTAAGGTAATTTCTCATTGTT
* * **
3227740 ACAAATGTTTATGTGAAATTCCATTAGAAATAAAATTTTAAATTAACTCATGTTATTAATTAGAT
66 ACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATCAACTCATGTTAGAAATTAGAT
* * * * * * * *
3227805 AATATTTATGTGACTATACTAATTCGTTT-AATTTCACTTGATTTTACTCATATTCCAATAAATT
131 AATATTTATGTGAATGTACTAATGCATTTGTA-TTCACTTGATCTAACTCATATTCCAATAAATC
* * * *
3227869 TCATAAATAAAATTTATCCCTTT-GATTACAAGTTTCATATTACAAAAAATGATATTAAAAAGTG
195 TCATAATTAAAATTTAT-CCTTTCAATTACAAGTTTCATATCACATAAAATGATATTAAAAAGTG
* * * * *
3227933 ATCTCTAAAACTTGTTTCAGATAATAAAATATCATATAGTTCAATCCATGCATGATAGACGCATG
259 ATCTTTAAAGCTT-TTTCAGATAATAAAATATCACATAGTTCAATCCATGCATGATAAACGCGTG
* * *
3227998 TATCTCTATTTAGAGAATCCAGTTTAAATTCTTATTAATTTTCACAT-AAGACAAAAATATTAAA
323 TATCTCTATTTAGAGAATCCAGTTTAAATTCTCATTAATTTTCACATAAAAACAAAAATATTATA
*
3228062 TGTACTCATCCTAAT
388 TGTACTCATCTTAAT
3228077 TATATATATT
Statistics
Matches: 1232, Mismatches: 182, Indels: 33
0.85 0.13 0.02
Matches are distributed among these distances:
511 89 0.07
512 340 0.28
513 7 0.01
514 1 0.00
515 173 0.14
516 529 0.43
517 93 0.08
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (514 bp):
GAAGTCATTGATTCATAATTCATAGAAGTATAAACTCCTTTTTAGTAAGGTAATTTCTCATTGTT
ACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATCAACTCATGTTAGAAATTAGAT
AATATTTATGTGAATGTACTAATGCATTTGTATTCACTTGATCTAACTCATATTCCAATAAATCT
CATAATTAAAATTTATCCTTTCAATTACAAGTTTCATATCACATAAAATGATATTAAAAAGTGAT
CTTTAAAGCTTTTTCAGATAATAAAATATCACATAGTTCAATCCATGCATGATAAACGCGTGTAT
CTCTATTTAGAGAATCCAGTTTAAATTCTCATTAATTTTCACATAAAAACAAAAATATTATATGT
ACTCATCTTAATGATAATTTAATTCATCCAAAATAATCAAAAATTATTTAAAAAATAAAAGAAAG
AAAAAAAGCCCACCTAGGTTTTGTGGAGTTCATTATATATATTGAGTAGCACTTGAGAG
Found at i:3228479 original size:428 final size:428
Alignment explanation
Indices: 3227647--3228487 Score: 1163
Period size: 428 Copynumber: 2.0 Consensus size: 428
3227637 TATGGTGTTC
* *
3227647 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAAAAGTATAAACAC
1 ATTATATATATTGAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAAAAGTATAAACAC
* *
3227712 CTTTTTAGTAAGGTAATTTCTCATTGTTACAAATGTTTATGTGAAATTCCATTAGAAATAAAATT
66 CTTTTTAGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTAAAATTCCATTAGAAATAAAATT
* * ** *
3227777 TTAAATTAACTCATGTTATTAATTAGATAATATTTATGTGACTATACTAATTCGTTTAATTTCAC
131 TTAAATAAACTCAAGTTAGAAATTAGATAATATTTATGTGAATATACTAATTCGTTTAATTTCAC
*** * *
3227842 TTGATTTTACTCATATTCCAATAAATTTCATAAATAAAATTTATCCCTTTGATTACAAGTTTCAT
196 TTGATCCGACTCATATTCCAATAAATCTCATAAATAAAATTTATCCCTTTAATTACAAGTTTCAT
* *
3227907 ATTACAAAAAATGATATTAAAAAGTGATCTCTAAAACTTGTTTCAGATAATAAAATATCATATAG
261 ATCACAAAAAATGATATTAAAAAGTGATCTCTAAAACTTGTTTCAGATAATAAAATATCACATAG
* * * *
3227972 TTCAATCCATGCATGATAGACGCATGTATCTCTATTTAGAGAATCCAGTTTAAATTCTTATTAAT
326 TTCAATCCATACATGATAAACGCATGTATCTCTATTTAGAGAATCCAATTTAAATTCTCATTAAT
*
3228037 TTTCACATAAGACAAAAATATTAAATGTACTCATCCTA
391 TTTCACACAAGACAAAAATATTAAATGTACTCATCCTA
* * *
3228075 ATTATATATATTTAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
1 ATTATATATATTGAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAAAAGTATAAAC-A
* *
3228140 CCTTTTT-GTATGGTAATTTCTCATTGTTACAAATGCTTATGTAAAATTTCATTAGAAATAAAAT
65 CCTTTTTAGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTAAAATTCCATTAGAAATAAAAT
* * *
3228204 TTTAAATCAAACTCAAGTTAGAAATTAGATAATATTTATGTGAATGTACTAA-TGGATTTGTATT
130 TTTAAAT-AAACTCAAGTTAGAAATTAGATAATATTTATGTGAATATACTAATTCG-TTT-AATT
* * ** *
3228268 T-ACTTGATCCGATTCATATTCCAATAAATCTCATAATTAAGTTTTAT-CTTTTCAATT-CAAGT
192 TCACTTGATCCGACTCATATTCCAATAAATCTCATAAATAAAATTTATCCCTTT-AATTACAAGT
* * ** *
3228330 TTCATATCACATAAAATGATATTAAAAAGTGATCTTTAAGGCTT-TTTCAGATAATAGAATATCA
256 TTCATATCACAAAAAATGATATTAAAAAGTGATCTCTAAAACTTGTTTCAGATAATAAAATATCA
* * ** * *
3228394 CATGGTTTAATCTGTACATGATAAACGCATGTATTTTTATTTAGAGAATCCAATTTAAATTCTCA
321 CATAGTTCAATCCATACATGATAAACGCATGTATCTCTATTTAGAGAATCCAATTTAAATTCTCA
* *
3228459 TTAATTTTTATACCAAGACAAAAATATTA
386 TTAATTTTCACA-CAAGACAAAAATATTA
3228488 TATTTACTTA
Statistics
Matches: 360, Mismatches: 47, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
427 83 0.23
428 184 0.51
429 89 0.25
430 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (428 bp):
ATTATATATATTGAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAAAAGTATAAACAC
CTTTTTAGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTAAAATTCCATTAGAAATAAAATT
TTAAATAAACTCAAGTTAGAAATTAGATAATATTTATGTGAATATACTAATTCGTTTAATTTCAC
TTGATCCGACTCATATTCCAATAAATCTCATAAATAAAATTTATCCCTTTAATTACAAGTTTCAT
ATCACAAAAAATGATATTAAAAAGTGATCTCTAAAACTTGTTTCAGATAATAAAATATCACATAG
TTCAATCCATACATGATAAACGCATGTATCTCTATTTAGAGAATCCAATTTAAATTCTCATTAAT
TTTCACACAAGACAAAAATATTAAATGTACTCATCCTA
Found at i:3228957 original size:944 final size:939
Alignment explanation
Indices: 3227136--3229021 Score: 2528
Period size: 944 Copynumber: 2.0 Consensus size: 939
3227126 TGTAGCGTTC
* *
3227136 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
1 ATTATATATATTGAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
** *
3227201 TTTTTAATAAGGTAATTTCTTGTTGTTACAAATACTTATGTGAAATTCCATTAGAAATAAAATTC
66 TTTTTAATAAGGTAATTTCTCATTGTTACAAATACTTATGTAAAATTCCATTAGAAATAAAATTC
3227266 AAAATCAACTAATGTTAGAAAATTGATAATATTTATGTAAATGTACTAATGGATTTGTATTTACT
131 AAAATCAACTAATGTTAGAAAATTGATAATATTTATGTAAATGTACTAATGGATTTGTATTTACT
* * **
3227331 TGATCGAACTCATATTCCAATAAATCTTATAATTAAATTTTGTCCTTTCGGTTACAAGTTTCATA
196 TGATCGAACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTCATA
* *
3227396 TCACATAAAATGATATTAAAAGGTGATCTTTAAAGCTTTTGTCAGATAATAAAATATCAGATGGT
261 TCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTCAGATAATAAAATATCACATGGT
* *
3227461 TCAATACATGTATGAGAAACATGTGAATCGCTATTTAGATAATTCAATTTAAATTCTCATTCTCG
326 TCAATACATGTATGAGAAACATGT-AATCGCTATTTAGAGAATCCAATTTAAATTCTCATTCTCG
* * * *
3227526 TATAAAAATAGAAATATTATATATACTCATCTTAATGATAATTTAATTCATCCAAAATAATCAAT
390 TATAAAAACAAAAATATTATATATACTCATCTTAATGACAATTTAATTCATCCAAAATAATCAAA
* * * **
3227591 AAATTATTTGAAAAATTAAAGAAAGGAAAAGAGCCCACCTAGATTTTATGGTGTTCATTATATAT
455 AAATTATTTAAAAAATAAAAGAAAGAAAAAGAGCCCACCTAGATTTTATGACGTTCATTATATAT
*
3227656 ATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAAAAGTATAAACACCTTTTTAGT
520 ATTGAGTAGCACTTAAGAGGAAGTCATTGATTCATAATTCATAAAAGTATAAACACCTTTTTAGT
* *
3227721 AAGGTAATTTCTCATTGTTACAAATGTTTATGTGAAATTCCATTAGAAATAAAATTTTAAATTAA
585 AAGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATCAA
* * ***
3227786 CTCATGTTATTAATTAGATAATATTTATGTGACTATACTAATTCGTTTAATTTCACTTGATTTTA
650 CTCATGTTATGAATTAGATAATATTTATGTGAATATACTAATTCGTTTAATTTCACTTGATCCAA
* * *
3227851 CTCATATTCCAATAAATTTCATAAATAAAATTTATCCCTTTGATTACAAGTTTCATATTACAAAA
715 CTCATATTCCAATAAATCTCACAAATAAAATTTATCCCTTTGATTACAAGTTTCATATCACAAAA
3227916 AATGATATTAAAAAGTGATCTCTAAAACTTGTTTCAGATAATAAAATATCATATAGTTCAATCCA
780 AATGATATTAAAAAGTGATCTCTAAAACTTGTTTCAGATAATAAAATATCATATAGTTCAATCCA
* * * * *
3227981 TGCATGATAGACGCATGTATCTCTATTTAGAGAATCCAGTTTAAATTCTTATTAATTTTCACAT-
845 TGCATGATAAACACATGTATCTCTATTTAGAGAATACAGTTTAAATTCTCATTAATTTTCAAATA
*
3228045 AAGACAAAAATATTAAATGTACTCATCCTA
910 AAAACAAAAATATTAAATGTACTCATCCTA
*
3228075 ATTATATATATTTAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
1 ATTATATATATTGAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAGAAGTATAAACT-
* * * *
3228140 CCTTTTT-GTATGGTAATTTCTCATTGTTACAAATGCTTATGTAAAATTTCATTAGAAATAAAAT
65 -CTTTTTAATAAGGTAATTTCTCATTGTTACAAATACTTATGTAAAATTCCATTAGAAATAAAAT
** *
3228204 TTTAAATCAAACTCAA-GTTAG-AAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTAT
129 TCAAAATC-AACT-AATGTTAGAAAATT-GATAATATTTATGTAAATGTACTAATGGATTTGTAT
* * *
3228267 TTACTTGATCCG-ATTCATATTCCAATAAATCTCATAATTAAGTTTTATCTTTTCAATT-CAAGT
191 TTACTTGAT-CGAACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGT
* *
3228330 TTCATATCACATAAAATGATATTAAAAAGTGATCTTTAAGGCTTTT-TCAGATAATAGAATATCA
255 TTCATATCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTCAGATAATAAAATATCA
* * ***
3228394 CATGGTTTAAT-C-TGTACATGATAAACGCATGT-ATTTTTATTTAGAGAATCCAATTTAAATTC
320 CATGGTTCAATACATGT--ATGAGAAA--CATGTAATCGCTATTTAGAGAATCCAATTTAAATTC
* ** * * *
3228456 TCATTAATTTTTATACCAAGACAAAAATATTATATTTACTTATCTTAATGACAATTTAATTCATC
381 TCATT--CTCGTATA--AAAACAAAAATATTATATATACTCATCTTAATGACAATTTAATTCATC
* * * *
3228521 CAAAGTATTCAAAAAATTATTTAAAAAATAAAAGAAAGAAAAAGAGCCCACTTA-AGTTTTGTGA
442 CAAAATAATCAAAAAATTATTTAAAAAATAAAAGAAAGAAAAAGAGCCCACCTAGA-TTTTATGA
* *
3228585 CGTTCATTATATATATTGAGTAGCACTTAAGAGGAAGTCATTGATTCATAATTCGTAGAAGTATA
506 CGTTCATTATATATATTGAGTAGCACTTAAGAGGAAGTCATTGATTCATAATTCATAAAAGTATA
* * ** * * *
3228650 AACTCTTTTTTAGTAAGGTAATTTCTCATTGTTACATTTGCTTATTTGATATTTTCATTAGAAAT
571 AACACCTTTTTAGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGA-AATTCCATTAGAAAT
* ** * * *
3228715 GAAATTTTTTATCAACTCATGTTA-GAGATTAGATAGTATTTATGTGAATGTACTAA-TGGATTT
635 AAAATTTTAAATCAACTCATGTTATGA-ATTAGATAATATTTATGTGAATATACTAATTCG-TTT
* * * *
3228778 -GTATTCACTTGATCCAACTCATATTCCAATAAATCTCACAATTAAAGTTTATCCTTTTGATTAC
698 AAT-TTCACTTGATCCAACTCATATTCCAATAAATCTCACAAATAAAATTTATCCCTTTGATTAC
* * * * * * *
3228842 TAGTTTCATATCACATAAAATGATATTAAAAAGTGATCT-TTAAAGTTTTTGTTAGATAATAGAA
762 AAGTTTCATATCACAAAAAATGATATTAAAAAGTGATCTCTAAAACTTGTT-TCAGATAATAAAA
*** ** * *
3228906 TATCACT-T-GATTCAATTTGTGCATGATAAACATGTGTATCTTTATTTAGAGAATATAGTTTAA
826 TATCA-TATAG-TTCAATCCATGCATGATAAACACATGTATCTCTATTTAGAGAATACAGTTTAA
* *
3228969 ATTCTCATTAATTTTCAAATAAAAACAAAAATATTATATGTACTCATCTTA
889 ATTCTCATTAATTTTCAAATAAAAACAAAAATATTAAATGTACTCATCCTA
3229020 AT
1 AT
3229022 GATAATTTAA
Statistics
Matches: 822, Mismatches: 102, Indels: 40
0.85 0.11 0.04
Matches are distributed among these distances:
937 3 0.00
938 1 0.00
939 124 0.15
940 110 0.13
941 108 0.13
942 5 0.01
943 212 0.26
944 229 0.28
945 30 0.04
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (939 bp):
ATTATATATATTGAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
TTTTTAATAAGGTAATTTCTCATTGTTACAAATACTTATGTAAAATTCCATTAGAAATAAAATTC
AAAATCAACTAATGTTAGAAAATTGATAATATTTATGTAAATGTACTAATGGATTTGTATTTACT
TGATCGAACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTCATA
TCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTCAGATAATAAAATATCACATGGT
TCAATACATGTATGAGAAACATGTAATCGCTATTTAGAGAATCCAATTTAAATTCTCATTCTCGT
ATAAAAACAAAAATATTATATATACTCATCTTAATGACAATTTAATTCATCCAAAATAATCAAAA
AATTATTTAAAAAATAAAAGAAAGAAAAAGAGCCCACCTAGATTTTATGACGTTCATTATATATA
TTGAGTAGCACTTAAGAGGAAGTCATTGATTCATAATTCATAAAAGTATAAACACCTTTTTAGTA
AGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATTTTAAATCAAC
TCATGTTATGAATTAGATAATATTTATGTGAATATACTAATTCGTTTAATTTCACTTGATCCAAC
TCATATTCCAATAAATCTCACAAATAAAATTTATCCCTTTGATTACAAGTTTCATATCACAAAAA
ATGATATTAAAAAGTGATCTCTAAAACTTGTTTCAGATAATAAAATATCATATAGTTCAATCCAT
GCATGATAAACACATGTATCTCTATTTAGAGAATACAGTTTAAATTCTCATTAATTTTCAAATAA
AAACAAAAATATTAAATGTACTCATCCTA
Found at i:3230056 original size:20 final size:20
Alignment explanation
Indices: 3230026--3230063 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3230016 ATAATAATTT
3230026 AATTCATTCAAAATAATAAGA
1 AATTCATTCAAAA-AATAAGA
3230047 AATT-ATTCAAAAAATAA
1 AATTCATTCAAAAAATAA
3230064 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (20 bp):
AATTCATTCAAAAAATAAGA
Found at i:3231057 original size:515 final size:515
Alignment explanation
Indices: 3228075--3231312 Score: 3875
Period size: 515 Copynumber: 6.4 Consensus size: 515
3228065 ACTCATCCTA
* * *
3228075 ATTATATATATTTAGTAACACTTGAGAGCAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
1 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
* * * *
3228140 CCTTTTTGTATGGTAATTTCTCATTGTTACAAATGCTTATGTAAAATTTCATTAGAAATAAAATT
66 CTTTTTTGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATT
* *
3228205 TTAAATCAAACTCAAGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTTA
131 TTAAATC-AACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTCA
* * * *
3228270 CTTGATCCGATTCATATTCCAATAAATCTCATAATTAAGTTTTATCTTTTCAATT-CAAGTTTCA
195 CTTGATCCTACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTCA
* *
3228334 TATCACATAAAATGATATTAAAAAGTGATCTTTAAGGCTTTT-TCAGATAATAGAATATCACATG
260 TATCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTTAGATAATAGAATATCACATG
* * * * * * * *
3228398 GTTTAATCTGTACATGATAAACGCATGTATTTTTATTTAGAGAATCCAATTTAAATTCTCATTAA
325 ATTCAATTTGTACATGATAAACACGTGTATCTCTATTTAGAGAATCCAGTTTAAATTCTCATTAA
* * ** * * *
3228463 TTTTTATACCAAGACAAAAATATTATATT-TACTTATCTTAATGACAATTTAATTCATCCAAAGT
390 TTTTCACATAAAGACAAAAATATTAT-TTGTACTCATCTTAATGATAATTTAATTCATCCAAAAT
* * * * *
3228527 ATTCAAAAAATTATTTAAAAAATAAAAGAAAGAAAAAGAGCCCACTTAAGTTTTGTGACGTTC
454 AATCAATAAATTATTT-AAAAATAAAAGAAAGAAAAAGAGCCCACCTAGGTTTTGTGGCGTTC
* *
3228590 ATTATATATATTGAGTAGCACTTAAGAGGAAGTCATTGATTCATAATTCGTAGAAGTATAAACT-
1 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
** * * * *
3228654 CTTTTTTAGTAAGGTAATTTCTCATTGTTACATTTGCTTATTTGATATTTTCATTAGAAATGAAA
66 CTTTTTT-GTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGA-AATTCCATTAGAAATAAAA
** * *
3228719 TTTTTTATCAACTCATGTTAGAGATTAGATAGTATTTATGTGAATGTACTAATGGATTTGTATTC
129 TTTTAAATCAACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTC
* * * ** *
3228784 ACTTGATCCAACTCATATTCCAATAAATCTCACAATTAAAGTTTATCCTTTTGATTACTAGTTTC
194 ACTTGATCCTACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTC
* *
3228849 ATATCACATAAAATGATATTAAAAAGTGATCTTTAAAGTTTTTGTTAGATAATAGAATATCACTT
259 ATATCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTTAGATAATAGAATATCACAT
* * * **
3228914 GATTCAATTTGTGCATGATAAACATGTGTATCTTTATTTAGAGAATATAGTTTAAATTCTCATTA
324 GATTCAATTTGTACATGATAAACACGTGTATCTCTATTTAGAGAATCCAGTTTAAATTCTCATTA
* * *
3228979 ATTTTCAAATAAAAACAAAAATATTATATGTACTCATCTTAATGATAATTTAATTCATCCAAAAT
389 ATTTTCACATAAAGACAAAAATATTATTTGTACTCATCTTAATGATAATTTAATTCATCCAAAAT
* ** * *
3229044 AATCAATAAATTATTTAAAAACTAAAAGAAA-AAAAAGAGCCTATTTAGGTTTTGTAGTGTTC
454 AATCAATAAATTATTTAAAAA-TAAAAGAAAGAAAAAGAGCCCACCTAGGTTTTGTGGCGTTC
* ** *
3229106 GTTATATATATTGAGTAGCACTTGAGATAAAG---TT-A-T--TGATTCATAGAAGTATAAACTC
1 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
* * * * *
3229164 CTTTTTAGTAAAGTAATTTCTTATTGTTATAAATGTTTATGTGAAATTCCATTAGAAATAAAATT
66 CTTTTTTGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATT
* *
3229229 TTAAATTAACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTTAC
131 TTAAATCAACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTCAC
* * * *
3229294 TTGATCCAACTCATACTCCAATAAATCTCATAATTAAATTTTATCCTTTTAGTTACAAGTTTCAT
196 TTGATCCTACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTCAT
* * * **
3229359 ATCACATAAAATGATATTAAAAGGTCAT-TGTTTAAGCTTTTGTCGGATAAT-G-------CATG
261 ATCACATAAAATGATATTAAAAAGTGATCT-TTAAAGCTTTTGTTAGATAATAGAATATCACATG
* ** * * * *
3229415 ATTCAATCCATGT--ATG-TGAAATGCGTCTATCGCTATTTAGATAATCCAGTTTAAATTCTAAT
325 ATTCAAT--TTGTACATGAT-AAACACGTGTATCTCTATTTAGAGAATCCAGTTTAAATTCTCAT
* * * *
3229477 TAATTTTCATATAAAGATAGAAATATT-TTATGTA--C-TC-----G------T-CTT-ATCCAA
387 TAATTTTCACATAAAGACAAAAATATTATT-TGTACTCATCTTAATGATAATTTAATTCATCCAA
** *
3229525 AATAATCAATAAATTATTTAAAAA-ATTA-AAA-AAAAA-AGCCCACCTAGGTTTTGTGGTGTTC
451 AATAATCAATAAATTATTTAAAAATAAAAGAAAGAAAAAGAGCCCACCTAGGTTTTGTGGCGTTC
* * *
3229586 ATTATATATATTGAGTAGCAATTGAGAGGAAGTCATTGATTCGTAATTCATAGAAGTATAAATTC
1 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
* * * *
3229651 CTTTTTAGTAAGGTAATTTCTCATTGTTACAAAATGTTTATGTGAAATTTCATAAGAAATAAAAT
66 CTTTTTTGTAAGGTAATTTCTCATTGTTAC-AAATGCTTATGTGAAATTCCATTAGAAATAAAAT
* * * * **
3229716 TTTAAATCAACTCATATCAGAAAATTAGATAATATTTATGTGACTATACTAATAAATTTGTATTC
130 TTTAAATCAACTCATGTTAG-AAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTC
* ** * **
3229781 ACTTGAT--TGACTCACATTATAATAAATCTCATAAATAAATTTTATCCTTTTGATTACAAGTTT
194 ACTTGATCCT-ACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTT
* * * *
3229844 CATATAATATAAAATGATATTAAAAAGTGATCTTTAAAGCATTTATCTA-ATAATAGAATATCAC
258 CATATCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGT-TAGATAATAGAATATCAC
* ** * * * * *
3229908 ATGGTTCAATACGTACATGATAAACATGTGCATCTTTATTTAGAAAATCCAATTTAAATTCTCAT
322 ATGATTCAATTTGTACATGATAAACACGTGTATCTCTATTTAGAGAATCCAGTTTAAATTCTCAT
* * *
3229973 TAATTTTCACATAAAGACAAAAATATTATTTGTAGTCATCTTAATAATAATTTAATTCATTCAAA
387 TAATTTTCACATAAAGACAAAAATATTATTTGTACTCATCTTAATGATAATTTAATTCATCCAAA
* * ** *
3230038 ATAAT-AAGAAATTATTCAAAAAATAAAAGAAAGAAAAAGAGCTAACCTAGGTTTTCTGGCGTTC
452 ATAATCAATAAATTATT-TAAAAATAAAAGAAAGAAAAAGAGCCCACCTAGGTTTTGTGGCGTTC
* * * * * *
3230102 AGTATATATATTGAGTAGCACTTGAGAGGAAGTTATTGATTCATAATTTATAAAAGTATGAACAC
1 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
* *
3230167 ATTTTTTGTAAGATAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATT
66 CTTTTTTGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATT
* * * * *
3230232 TTAAATTAACTTATGTTAGAAATTAGATAATATTTATGTGACTATACTAATGGATTTAT-TTCAC
131 TTAAATCAACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTCAC
* * *
3230296 TTGATCCGT-CTCATATTCCAATAAATCTCATAAATAAATTTTATCATTTCAATTACAAGTTTTA
196 TTGATCC-TACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTCA
* * * * *
3230360 TATTACATAAAATGATATTAAAAAGTGATTTTTAAAACTTTTGTCAGATAATAGAATATCATAT-
260 TATCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTTAGATAATAGAATATCACATG
* * ***** * *
3230424 AGTT-TATTATGTGCATGATAGGTGTGTGTATCTCTATTTAGAGAATCTAGTTTAAATTGTCATT
325 A-TTCAATT-TGTACATGATAAACACGTGTATCTCTATTTAGAGAATCCAGTTTAAATTCTCATT
* * * * *
3230488 AATTTTCACATAAAAACAAGAATATTATATATACTCATCTTAATGATAATTTAATTGATCCAAAA
388 AATTTTCACATAAAGACAAAAATATTATTTGTACTCATCTTAATGATAATTTAATTCATCCAAAA
* * * *
3230553 TAATAAATAAATTATTTAAAAATAAAAGAAAGAAAAAAAGCCTACCTAGGTTTTGTGGTGTTC
453 TAATCAATAAATTATTTAAAAATAAAAGAAAGAAAAAGAGCCCACCTAGGTTTTGTGGCGTTC
* * *
3230616 ATTATATATATTGAGTAACAATTGAGAGGAAGTCAATGATTCATAATTCATAGAAGTATAAACTC
1 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
* * *
3230681 CTTTTTTGTATGGTAATTTCTTATTATTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATT
66 CTTTTTTGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATT
* * * * * *
3230746 TTAAATCAACTAATGGTAGAAATTAGATTATATTTATGTGAATGTACTAAGGGATTTGCATTGAC
131 TTAAATCAACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTCAC
* * * *
3230811 TTGATCCTACTCATAATCCAATAAATTTCATAATTAAATTTTATTCTTTCAATTCCAAGTTTCAT
196 TTGATCCTACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTCAT
* * * * * *
3230876 ATCACATAAAATGACATTAAAAAGTGATATCTAAAGCTATTGTTAGATAATAAAATATCACATCA
261 ATCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTTAGATAATAGAATATCACATGA
* * * ** *
3230941 TTCAATTTGTATATGATAAACACATGTATCTCTATTTATAGAATTTAGTTTAAATTTTCATTAAT
326 TTCAATTTGTACATGATAAACACGTGTATCTCTATTTAGAGAATCCAGTTTAAATTCTCATTAAT
* *
3231006 TTTCACATAAAGAGAAAAATATTATTTGTACTCATCTTAATGATAATTTAATTCATCCTAAATAA
391 TTTCACATAAAGACAAAAATATTATTTGTACTCATCTTAATGATAATTTAATTCATCCAAAATAA
** * ** *
3231071 TCAATAAATTATTTAAAAAATAAAAGAAAGAAATTGAGCCCACCTAAGTTTTGTCACATTC
456 TCAATAAATTATTT-AAAAATAAAAGAAAGAAAAAGAGCCCACCTAGGTTTTGTGGCGTTC
** * * *
3231132 ATTATATATATTGAGTAGCACTTGAGAATAAGTCATTGATTCATAATTCGTAGAAATATCAACTC
1 ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
* * *
3231197 CTTTTTAGTAAGGTAATTTCTCATTGTTACAAAAGCTTATGTAAAATT-CATCTAGAAATAAAAT
66 CTTTTTTGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCAT-TAGAAATAAAAT
* *
3231261 TTTAAATTAACTCATGTTAGAAATTAGATAATATTTATGTGAATATACTAAT
130 TTTAAATCAACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAAT
3231313 AGACTCGTAT
Statistics
Matches: 2316, Mismatches: 337, Indels: 139
0.83 0.12 0.05
Matches are distributed among these distances:
480 49 0.02
481 8 0.00
482 2 0.00
483 2 0.00
484 31 0.01
485 3 0.00
486 1 0.00
487 47 0.02
488 138 0.06
489 48 0.02
492 1 0.00
494 3 0.00
496 75 0.03
497 5 0.00
498 2 0.00
499 4 0.00
500 74 0.03
502 3 0.00
507 2 0.00
508 179 0.08
509 49 0.02
510 7 0.00
511 13 0.01
512 17 0.01
513 17 0.01
514 462 0.20
515 490 0.21
516 434 0.19
517 150 0.06
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (515 bp):
ATTATATATATTGAGTAGCACTTGAGAGGAAGTCATTGATTCATAATTCATAGAAGTATAAACTC
CTTTTTTGTAAGGTAATTTCTCATTGTTACAAATGCTTATGTGAAATTCCATTAGAAATAAAATT
TTAAATCAACTCATGTTAGAAATTAGATAATATTTATGTGAATGTACTAATGGATTTGTATTCAC
TTGATCCTACTCATATTCCAATAAATCTCATAATTAAATTTTATCCTTTCAATTACAAGTTTCAT
ATCACATAAAATGATATTAAAAAGTGATCTTTAAAGCTTTTGTTAGATAATAGAATATCACATGA
TTCAATTTGTACATGATAAACACGTGTATCTCTATTTAGAGAATCCAGTTTAAATTCTCATTAAT
TTTCACATAAAGACAAAAATATTATTTGTACTCATCTTAATGATAATTTAATTCATCCAAAATAA
TCAATAAATTATTTAAAAATAAAAGAAAGAAAAAGAGCCCACCTAGGTTTTGTGGCGTTC
Found at i:3232250 original size:17 final size:17
Alignment explanation
Indices: 3232219--3232252 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3232209 TAAAAGTATC
*
3232219 AATTTTTTATGAAAATA
1 AATTTTTTATAAAAATA
*
3232236 AATTTTTTTTAAAAATA
1 AATTTTTTATAAAAATA
3232253 TTTTTGAGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTTTTTATAAAAATA
Found at i:3232316 original size:58 final size:57
Alignment explanation
Indices: 3232176--3232401 Score: 287
Period size: 58 Copynumber: 3.9 Consensus size: 57
3232166 CAATTTTTCG
*
3232176 ATAAGCTTTT-TAAAAATATTTTTGAGGAAAAATTAAAAGTATCAATTTTT-TATGAAA
1 ATAAG-TTTTCTAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCT-TGAAA
* * * *
3232233 ATAAATTTTTTTTAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAA
1 AT-AA-GTTTTCTAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAA
* *
3232292 ATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAA
1 ATAAGTTTTCT-AAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAA
* *
3232350 ATAAGTTTTC-AAAAATGAATTTTTAAGGAAAAGTTAAAAATATCAATTTTTC
1 ATAAGTTTTCTAAAAAT--ATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTC
3232402 CTGCATAAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
56 6 0.04
57 7 0.05
58 92 0.61
59 44 0.29
60 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (57 bp):
ATAAGTTTTCTAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAA
Found at i:3236161 original size:15 final size:15
Alignment explanation
Indices: 3236121--3236168 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
3236111 AAAGTTTGTT
3236121 TATACATAAAT-AAAA
1 TATA-ATAAATAAAAA
* *
3236136 TGTTATAAAATAAAAA
1 TATAAT-AAATAAAAA
3236152 TATAATAAATAAAAA
1 TATAATAAATAAAAA
3236167 TA
1 TA
3236169 ATAGTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 17 0.63
16 8 0.30
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
TATAATAAATAAAAA
Found at i:3236217 original size:11 final size:11
Alignment explanation
Indices: 3236167--3236238 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
3236157 TAAATAAAAA
3236167 TAATAGTTAAAT
1 TAATA-TTAAAT
3236179 TAATATTTAATAT
1 TAATA-TTAA-AT
*
3236192 T-CT-TTAAAT
1 TAATATTAAAT
3236201 TAATATTAAAT
1 TAATATTAAAT
*
3236212 TAATA-TAAAA
1 TAATATTAAAT
* *
3236222 TATTATTAAAA
1 TAATATTAAAT
3236233 TAATAT
1 TAATAT
3236239 CATTAATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 3 0.06
10 13 0.26
11 21 0.42
12 10 0.20
13 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (11 bp):
TAATATTAAAT
Found at i:3236224 original size:33 final size:32
Alignment explanation
Indices: 3236163--3236238 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
3236153 ATAATAAATA
** *
3236163 AAAATAATAGTTAAATTAATATTTAATATTCTTT
1 AAAATAATA-TTAAATTAATATAAAATATT-ATT
*
3236197 AAATTAATATTAAATTAATATAAAATATTATT
1 AAAATAATATTAAATTAATATAAAATATTATT
3236229 AAAATAATAT
1 AAAATAATAT
3236239 CATTAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.30
33 18 0.49
34 8 0.22
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (32 bp):
AAAATAATATTAAATTAATATAAAATATTATT
Found at i:3238199 original size:13 final size:13
Alignment explanation
Indices: 3238174--3238214 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
3238164 TGTATTAAAT
3238174 ATTTTTAACTTTTA
1 ATTTTTAA-TTTTA
3238188 ATTTTTAATTTTA
1 ATTTTTAATTTTA
3238201 A-TTTTAA-TTTA
1 ATTTTTAATTTTA
3238212 ATT
1 ATT
3238215 ATTTTAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
12 7 0.27
13 6 0.23
14 8 0.31
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:3238213 original size:5 final size:6
Alignment explanation
Indices: 3238176--3238214 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
3238166 TATTAAATAT
3238176 TTTTAA CTTTTAA TTTTTAA TTTTAA TTTTAA -TTTAA TT
1 TTTTAA -TTTTAA -TTTTAA TTTTAA TTTTAA TTTTAA TT
3238215 ATTTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
5 5 0.17
6 13 0.43
7 12 0.40
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:3238767 original size:18 final size:18
Alignment explanation
Indices: 3238719--3238780 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
3238709 TATTTATTTT
*
3238719 TAATTTGTTATTAAAATATA
1 TAATATGTT-TTAAAAT-TA
*
3238739 TAA-ATTATTTTAAAATTA
1 TAATA-TGTTTTAAAATTA
3238757 TAATATGTTTTAAAATTA
1 TAATATGTTTTAAAATTA
*
3238775 AAATAT
1 TAATAT
3238781 AATAAAAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 22 0.61
19 8 0.22
20 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (18 bp):
TAATATGTTTTAAAATTA
Found at i:3241250 original size:14 final size:11
Alignment explanation
Indices: 3241215--3241244 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3241205 TCAAATTAAT
3241215 CTAAAATATTA
1 CTAAAATATTA
3241226 CTAAAATATTA
1 CTAAAATATTA
*
3241237 CTAGAATA
1 CTAAAATA
3241245 ATATTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (11 bp):
CTAAAATATTA
Found at i:3241504 original size:54 final size:54
Alignment explanation
Indices: 3241437--3241543 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
3241427 GAGTTTAAGC
3241437 AAGCAGATGACGACGAATGAAATAATAGTCAATTTCAATATGTTTAATATGCTA
1 AAGCAGATGACGACGAATGAAATAATAGTCAATTTCAATATGTTTAATATGCTA
*
3241491 AAGCAGATGACGACGAATGAAATGATAGTCAATTTCAATATGTTTAATATGCT
1 AAGCAGATGACGACGAATGAAATAATAGTCAATTTCAATATGTTTAATATGCT
3241544 CATGAAAAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (54 bp):
AAGCAGATGACGACGAATGAAATAATAGTCAATTTCAATATGTTTAATATGCTA
Found at i:3245295 original size:368 final size:368
Alignment explanation
Indices: 3244618--3245356 Score: 1178
Period size: 368 Copynumber: 2.0 Consensus size: 368
3244608 GAGGATCATG
* *
3244618 AATTAGACTACCTTTATAATGATATTTAGCTCTACATTTCTGAATGATATGATTAGTCCTCCCAC
1 AATTAGACTACATTTATAATGATACTTAGCTCTACATTTCTGAATGATATGATTAGTCCTCCCAC
* *
3244683 ATCATGAACAAGACTTGTGAAAAGTAAAGCTAGTACTTTTTTAAAAAGTAGTAGCAATAATAGTA
66 ATCATGAACAAGACTTGTGAAAAGTAAAGCTAGTACTTTTCTAAAAAGCAGTAGCAATAATAGTA
3244748 TCAACACTATGAGTTTGACTCATATCCAATCGAGTTTCCTCATATATCAATTCCATATGAGCATT
131 TCAACACTATGAGTTTGACTCATATCCAATCGAGTTTCCTCATATATCAATTCCATATGAGCATT
* * *
3244813 ATCCATAGTTGGTAAAGGATGTCGACATAAAAGTGAAGACTTAGTATTCTCAAATTCATTTCGAA
196 ATCCATAGTTGATAAAGGATGTCGACATAAAAGTAAAGACTTAGTATTCTCAAATTCATGTCGAA
* * * *
3244878 GTGTCATTAGAAATTGAATAAGATGAATTTGATTTCGATAAGTAATAAAATTACTAGCATCACTT
261 ATGACATTAAAAATTGAATAAGATGAATTTGATTTCAATAAGTAATAAAATTACTAGCATCACTT
* * *
3244943 TCATCTTTGAATTTTAGCTCAAAACTTTCAAGTATGTCCCATA
326 TCATCTTTGAATTTGAGCTCAAAAATTTCAAGCATGTCCCATA
* * * * *
3244986 AATTAGACTATATTTATAATGATACTTAGCTTTACATTTTTGAATGATATGATTAGTCTTTCCAC
1 AATTAGACTACATTTATAATGATACTTAGCTCTACATTTCTGAATGATATGATTAGTCCTCCCAC
* *
3245051 ATCATGAACAAGACTTGTGAAAAGTAAAGCTAGTACTTTTCTGAAGAGCAGTAGCAATAATAGTA
66 ATCATGAACAAGACTTGTGAAAAGTAAAGCTAGTACTTTTCTAAAAAGCAGTAGCAATAATAGTA
* * *
3245116 TCAATACTATGAGTTTGACTCATA-CCTAATCGAGTTTTCTCATATATCAATTCTATATGAGCAT
131 TCAACACTATGAGTTTGACTCATATCC-AATCGAGTTTCCTCATATATCAATTCCATATGAGCAT
* **
3245180 TATCTATAGTTGAT-AAGAGATGTCGAGGTAAAAGTAAAGACTTAGTATTCTCAAATTCATGTCG
195 TATCCATAGTTGATAAAG-GATGTCGACATAAAAGTAAAGACTTAGTATTCTCAAATTCATGTCG
3245244 AAATGACATTAAAAATTGAATAAGA-GAAATTTGATTTCAATAAGTAATAAAATTACTAGCATCA
259 AAATGACATTAAAAATTGAATAAGATG-AATTTGATTTCAATAAGTAATAAAATTACTAGCATCA
*
3245308 CTTTCATCTTTGAATTTGAGCTCAAAAATTTCAAGCATGTCTCATA
323 CTTTCATCTTTGAATTTGAGCTCAAAAATTTCAAGCATGTCCCATA
3245354 AAT
1 AAT
3245357 GTTGCATTTT
Statistics
Matches: 340, Mismatches: 28, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
367 6 0.02
368 334 0.98
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (368 bp):
AATTAGACTACATTTATAATGATACTTAGCTCTACATTTCTGAATGATATGATTAGTCCTCCCAC
ATCATGAACAAGACTTGTGAAAAGTAAAGCTAGTACTTTTCTAAAAAGCAGTAGCAATAATAGTA
TCAACACTATGAGTTTGACTCATATCCAATCGAGTTTCCTCATATATCAATTCCATATGAGCATT
ATCCATAGTTGATAAAGGATGTCGACATAAAAGTAAAGACTTAGTATTCTCAAATTCATGTCGAA
ATGACATTAAAAATTGAATAAGATGAATTTGATTTCAATAAGTAATAAAATTACTAGCATCACTT
TCATCTTTGAATTTGAGCTCAAAAATTTCAAGCATGTCCCATA
Found at i:3246738 original size:28 final size:28
Alignment explanation
Indices: 3246706--3246778 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 28
3246696 TGCTCAATTT
*
3246706 AAAAT-AAAATAATAATAATAATAAGTAA
1 AAAATAAAAATAA-AATAAAAATAAGTAA
*
3246734 AAAATAAAAATAAAATAAAAATATGTAA
1 AAAATAAAAATAAAATAAAAATAAGTAA
3246762 AAAACCTAAAAATAAAA
1 AAAA--TAAAAATAAAA
3246779 AAATGTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 22 0.55
29 7 0.17
30 11 0.28
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (28 bp):
AAAATAAAAATAAAATAAAAATAAGTAA
Found at i:3246753 original size:17 final size:17
Alignment explanation
Indices: 3246706--3246756 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
3246696 TGCTCAATTT
*
3246706 AAAATAAAATAATAATA
1 AAAATAAAATAAAAATA
* *
3246723 ATAAT-AAGTAAAAAATA
1 AAAATAAAAT-AAAAATA
3246740 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
3246757 TGTAAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:3246819 original size:18 final size:18
Alignment explanation
Indices: 3246706--3246812 Score: 52
Period size: 20 Copynumber: 5.2 Consensus size: 18
3246696 TGCTCAATTT
* *
3246706 AAAATAAAATAATAATAAT
1 AAAATAAAA-AATAAAAAG
*
3246725 AATAAGTAAAAAATAAAAAT
1 AA-AA-TAAAAAATAAAAAG
*
3246745 AAAATAAAAATATGTAAAAAACCTA
1 AAAATAAAAA-A--T-AAAAA---G
*
3246770 AAAATAAAAAAATGTAAACAG
1 AAAAT-AAAAAA--TAAAAAG
3246791 AAAATAAAAAATAAAAAG
1 AAAATAAAAAATAAAAAG
3246809 AAAA
1 AAAA
3246813 AGAAAAACAT
Statistics
Matches: 73, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
18 16 0.22
19 5 0.07
20 18 0.25
21 11 0.15
22 5 0.07
24 4 0.05
25 9 0.12
26 5 0.07
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAATAAAAAATAAAAAG
Found at i:3248726 original size:14 final size:14
Alignment explanation
Indices: 3248703--3248750 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
3248693 GTATGAAAAG
3248703 TTTAGGGTTTCGAT
1 TTTAGGGTTTCGAT
* *
3248717 TTTAGAGTTTGAAGAT
1 TTTAGGGTTT--CGAT
3248733 TTTAGGGTTTCGAT
1 TTTAGGGTTTCGAT
3248747 TTTA
1 TTTA
3248751 AAATTTGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 16 0.57
16 12 0.43
ACGTcount: A:0.21, C:0.04, G:0.25, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTCGAT
Found at i:3248758 original size:30 final size:30
Alignment explanation
Indices: 3248641--3248758 Score: 116
Period size: 30 Copynumber: 4.0 Consensus size: 30
3248631 TAAAAATTCG
* *
3248641 GATTTTAAGGGTTTAGA-TTT-AAGTTTTGAG
1 GATTTT-AGGGTTTCGATTTTAAAG-TTTGAA
* * *
3248671 GGTTTTAGGGTTT-GGTTTTAAAGTATGAA
1 GATTTTAGGGTTTCGATTTTAAAGTTTGAA
* * *
3248700 AAGTTTAGGGTTTCGATTTTAGAGTTTGAA
1 GATTTTAGGGTTTCGATTTTAAAGTTTGAA
*
3248730 GATTTTAGGGTTTCGATTTTAAAATTTGA
1 GATTTTAGGGTTTCGATTTTAAAGTTTGA
3248759 GGTTTGGGGT
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.01
29 24 0.34
30 46 0.65
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (30 bp):
GATTTTAGGGTTTCGATTTTAAAGTTTGAA
Found at i:3248784 original size:14 final size:14
Alignment explanation
Indices: 3248765--3248798 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3248755 TTGAGGTTTG
*
3248765 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
3248779 GGGTTTGGATTTAA
1 GGGTTTGGATTTAA
*
3248793 GAGTTT
1 GGGTTT
3248799 AAAGGTGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:3248843 original size:16 final size:16
Alignment explanation
Indices: 3248819--3248924 Score: 110
Period size: 15 Copynumber: 6.8 Consensus size: 16
3248809 AATTTCAGAA
3248819 TTTATGGGGTTTTGGAT
1 TTTA-GGGGTTTTGGAT
*
3248836 TTTAGGGG-TTTGAAT
1 TTTAGGGGTTTTGGAT
* * *
3248851 TTAAGGGATTTTGAAT
1 TTTAGGGGTTTTGGAT
* *
3248867 TTTAGAGGTTTCGGAT
1 TTTAGGGGTTTTGGAT
3248883 TTTA-GGGTTTTGGAT
1 TTTAGGGGTTTTGGAT
* *
3248898 TTTA-AGATTTTGGAT
1 TTTAGGGGTTTTGGAT
3248913 TTTAGGGGTTTT
1 TTTAGGGGTTTT
3248925 AGAAACCTAA
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
15 38 0.52
16 31 0.42
17 4 0.05
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (16 bp):
TTTAGGGGTTTTGGAT
Found at i:3248922 original size:31 final size:31
Alignment explanation
Indices: 3248819--3248924 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
3248809 AATTTCAGAA
* * *
3248819 TTTATGGGGTTTTGGATTTTAGGGGTTTGAAT
1 TTTA-GGGGTTTTGGATTTTAAGGTTTTGGAT
* * * *
3248851 TTAAGGGATTTTGAATTTTAGAGGTTTCGGAT
1 TTTAGGGGTTTTGGATTTTA-AGGTTTTGGAT
*
3248883 TTTA-GGGTTTTGGATTTTAAGATTTTGGAT
1 TTTAGGGGTTTTGGATTTTAAGGTTTTGGAT
3248913 TTTAGGGGTTTT
1 TTTAGGGGTTTT
3248925 AGAAACCTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
30 13 0.22
31 34 0.57
32 13 0.22
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (31 bp):
TTTAGGGGTTTTGGATTTTAAGGTTTTGGAT
Found at i:3250482 original size:80 final size:79
Alignment explanation
Indices: 3250375--3250532 Score: 289
Period size: 80 Copynumber: 2.0 Consensus size: 79
3250365 TGTTTTTCTA
* *
3250375 TTTTTTTTAATAATTAATTGTTTTTAATTTTAATTAAATCGATTTTATTATTATTATTATTAAAA
1 TTTTTTTTAATAATTAATTGTTTTTAATTTTAATTAAACCGACTTTATTATTATTATTATTAAAA
3250440 TCATTATTGTTATG
66 TCATTATTGTTATG
3250454 TTTTTTTTAATAATTAATTGATTTTTAATTTTAATTAAACCGACTTTATTATTATTATTATTAAA
1 TTTTTTTTAATAATTAATTG-TTTTTAATTTTAATTAAACCGACTTTATTATTATTATTATTAAA
3250519 ATCATTATTGTTAT
65 ATCATTATTGTTAT
3250533 ATATATATAT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 20 0.26
80 56 0.74
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (79 bp):
TTTTTTTTAATAATTAATTGTTTTTAATTTTAATTAAACCGACTTTATTATTATTATTATTAAAA
TCATTATTGTTATG
Found at i:3250582 original size:3 final size:3
Alignment explanation
Indices: 3250574--3250635 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
3250564 TAGTGTCTAC
3250574 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3250622 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
3250636 CAAATGGTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3254102 original size:24 final size:24
Alignment explanation
Indices: 3254047--3254102 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
3254037 GAGACAAAAT
**
3254047 AAAAATTTTTAAGTGAATTTTGTA
1 AAAAATTTTTAAGTGAATTTAATA
**
3254071 AATTATTTTATAAGT-AATTTAATA
1 AAAAATTTT-TAAGTGAATTTAATA
3254095 AAAAATTT
1 AAAAATTT
3254103 AAATTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (24 bp):
AAAAATTTTTAAGTGAATTTAATA
Found at i:3254856 original size:18 final size:18
Alignment explanation
Indices: 3254803--3254869 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
3254793 AAATTTATTT
* *
3254803 AATTTTAATTTGTTATTAA
1 AATTATAATATGTT-TTAA
*
3254822 AATATATAA-ATTATTTTAA
1 AAT-TATAATA-TGTTTTAA
3254841 AATTATAATATGTTTTAA
1 AATTATAATATGTTTTAA
*
3254859 AATTAAAATAT
1 AATTATAATAT
3254870 AATAAAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 22 0.55
19 11 0.28
20 7 0.17
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTATAATATGTTTTAA
Found at i:3257525 original size:22 final size:23
Alignment explanation
Indices: 3257477--3257530 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
3257467 AATTAATATT
* *
3257477 TAATATTCTTTAAATCAATATAA
1 TAATATTATTTAAATCAATACAA
*
3257500 -AATATTATTTAAAT-ATTACAA
1 TAATATTATTTAAATCAATACAA
*
3257521 TAATAATATT
1 TAATATTATT
3257531 ATCAATCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATATTATTTAAATCAATACAA
Found at i:3257806 original size:15 final size:16
Alignment explanation
Indices: 3257777--3257813 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
3257767 AGATAAAAGT
*
3257777 AAAATATTATAAAATA
1 AAAATATCATAAAATA
3257793 AAAATATCAT-AAATA
1 AAAATATCATAAAATA
3257808 AAAATA
1 AAAATA
3257814 ATTATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATATCATAAAATA
Found at i:3257898 original size:11 final size:11
Alignment explanation
Indices: 3257884--3257954 Score: 58
Period size: 11 Copynumber: 6.7 Consensus size: 11
3257874 TAAATCAATC
3257884 TAAAATATTAT
1 TAAAATATTAT
*
3257895 TAAAATATTAC
1 TAAAATATTAT
*
3257906 TAAAATAATAT
1 TAAAATATTAT
* * *
3257917 CATAA-A-T-C
1 TAAAATATTAT
3257925 TAAAATATTAT
1 TAAAATATTAT
*
3257936 TTAAATATTAT
1 TAAAATATTAT
*
3257947 TAGAATAT
1 TAAAATAT
3257955 CATTTACACT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
8 3 0.07
9 2 0.04
10 2 0.04
11 38 0.84
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:3259363 original size:322 final size:320
Alignment explanation
Indices: 3258869--3259499 Score: 1093
Period size: 322 Copynumber: 2.0 Consensus size: 320
3258859 AAACTTGTAG
*
3258869 CTTTGCGAACTTGAAAGAATTGGCTGTGAACAAGAATGGCGTACACACTTTCGGGTTTCCACACA
1 CTTTGCGAACTTGAAAGAATTGGCAGTGAACAAGAATGGCGTACACACTTTCGGG-TTCCACACA
* *
3258934 ACACCTTGTTCAGGAAAGCAGAAGTGGGAGATTGGAGCAATTATTTCACACCTGCAATGGTAGAA
65 ACACCTTGTTCAGGAAAGAAGAAGTGGGAGATTGGAGCAATTATCTCACACCTGCAATGGTAGAA
* *
3258999 CGTTTGGAGAAGCTTATTCAGGAGAATTTCGACAAGTCAGGTTTAACATTTAAATTATCTTCCCA
130 CGTTTGGAGAAGCTTATTCAAGAGAATTTCGACAAGTCAGGTTTAACATTTAAACTATCTTCCCA
*
3259064 ATCTCCAAAGGATGCTTGTGCATGATGGGCGTCTTTCAGCTTAGTTAATGTTGATCTTTTTTATT
195 ATCTCCAAAGGATGCTTGTGCATGATGGGCGTCTTTCAGCTTAGTTAATGTTGATCTTTCTTATT
**
3259129 AAGCAACAAGAAATTTCTGGGTTTTACTTTGTAAATCTTTTTCGAATTGATTTAAGTTGGATT
260 AAGCAACAAGAAATTTCTGGGTTTTACTAAGTAAATC-TTTTC-AATTGATTTAAGTTGGATT
3259192 CTTTGCGAACTTGAAAGAATTGGCAGTGAACAAGAATGGCGTACACACTTTCCGGG-TCCACACA
1 CTTTGCGAACTTGAAAGAATTGGCAGTGAACAAGAATGGCGTACACACTTT-CGGGTTCCACACA
3259256 ACACCTTGTTCAGGAAAGAAGAAGTGGGAGATTGGAGCAATTATCTCACACCTGCAATGGTAGAA
65 ACACCTTGTTCAGGAAAGAAGAAGTGGGAGATTGGAGCAATTATCTCACACCTGCAATGGTAGAA
* *
3259321 CGTTTTGAGAAGCTTATTCAAGAGAATTTCGGCAAGTCAGGTTTAACATTTAAACTATCTTCCCA
130 CGTTTGGAGAAGCTTATTCAAGAGAATTTCGACAAGTCAGGTTTAACATTTAAACTATCTTCCCA
* *
3259386 ATCTCCAAAGGATGTTTGTGCATGATGGGCGTCTTTCAGCTTAGTTAATGTTGATCTTTCTTGTT
195 ATCTCCAAAGGATGCTTGTGCATGATGGGCGTCTTTCAGCTTAGTTAATGTTGATCTTTCTTATT
* *
3259451 AAGCAGCAAGAAATTTCTGGGTTTTACTAAGTATATCTTTTCAATTGAT
260 AAGCAACAAGAAATTTCTGGGTTTTACTAAGTAAATCTTTTCAATTGAT
3259500 CTATGTCCGA
Statistics
Matches: 293, Mismatches: 14, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
320 7 0.02
321 5 0.02
322 227 0.77
323 50 0.17
324 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (320 bp):
CTTTGCGAACTTGAAAGAATTGGCAGTGAACAAGAATGGCGTACACACTTTCGGGTTCCACACAA
CACCTTGTTCAGGAAAGAAGAAGTGGGAGATTGGAGCAATTATCTCACACCTGCAATGGTAGAAC
GTTTGGAGAAGCTTATTCAAGAGAATTTCGACAAGTCAGGTTTAACATTTAAACTATCTTCCCAA
TCTCCAAAGGATGCTTGTGCATGATGGGCGTCTTTCAGCTTAGTTAATGTTGATCTTTCTTATTA
AGCAACAAGAAATTTCTGGGTTTTACTAAGTAAATCTTTTCAATTGATTTAAGTTGGATT
Found at i:3262479 original size:75 final size:75
Alignment explanation
Indices: 3262389--3262540 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 75
3262379 GCATGATGGA
* *
3262389 TGTCTTTTAGTTTTATTAGTTTATGTTTCGTTCGTGTTGGGTATCGGATACCTGTCTGTAAGAAC
1 TGTCTTTTAGTTTTATTAGTTTATGTTTCGTTCATGTTGGGTATCGGATACCTGACTGTAAGAAC
3262454 CACTTTATAT
66 CACTTTATAT
* *
3262464 TGTCTTTTAGTTTTATTAGTTTATGTTTCGTTCATGTTGGGTATTGGATATCTGACTGTAAGAAC
1 TGTCTTTTAGTTTTATTAGTTTATGTTTCGTTCATGTTGGGTATCGGATACCTGACTGTAAGAAC
3262529 CACTTTATAT
66 CACTTTATAT
3262539 TG
1 TG
3262541 CTACTTATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.49
Consensus pattern (75 bp):
TGTCTTTTAGTTTTATTAGTTTATGTTTCGTTCATGTTGGGTATCGGATACCTGACTGTAAGAAC
CACTTTATAT
Found at i:3263269 original size:11 final size:11
Alignment explanation
Indices: 3263255--3263285 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3263245 TATCAAATCA
3263255 ATTAAAATATT
1 ATTAAAATATT
3263266 ATTAAAATATT
1 ATTAAAATATT
*
3263277 ACTAAAATA
1 ATTAAAATA
3263286 GTTTTTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTAAAATATT
Found at i:3265262 original size:17 final size:18
Alignment explanation
Indices: 3265240--3265286 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
3265230 TACTCAACAC
3265240 CTATTTTTTTATTTTTT-
1 CTATTTTTTTATTTTTTA
*
3265257 CTA-TTTCTTATTTTTTA
1 CTATTTTTTTATTTTTTA
*
3265274 TTATTATTTTTAT
1 CTATT-TTTTTAT
3265287 CTTTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 12 0.50
17 5 0.21
18 1 0.04
19 6 0.25
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (18 bp):
CTATTTTTTTATTTTTTA
Found at i:3265596 original size:44 final size:44
Alignment explanation
Indices: 3265517--3266070 Score: 424
Period size: 43 Copynumber: 12.7 Consensus size: 44
3265507 CAAACAAAGC
* *
3265517 CTCAACGATTTTG-AAAAATAAATAAAGCTCTTCTAAGCAGAGG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* *
3265560 CTCAATGACTTTGAAAAAATAAATAAAACTCCTCTAAGCAGAGG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* * * * *
3265604 CACAACAACTTTGAAGAAATAAATAAAGCTTCTCTAAGCAGACG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* * * *
3265648 CTCAATGAC-TTCAAAAAATAAACAAGGCTCCTCTAAGCAGAGG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* * * * * * * * *
3265691 CTTAATGACATTG-AAAAATAAACAAGGCTCATTTAAGCAAAAG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
** * * * *
3265734 CTCAATAACTTT-AAAGAATAAATAAGGTTCCTCTAAGTAGAGG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* * * * * *
3265777 CTCAACAATTTTAAAAAAAATAAATAAAGCTCCTCCAAGCAAAAG
1 CTCAACGACTTT-GAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* * * * *
3265822 CTCAACAACTTTG-AAAGATAAATAAGGCTCTTCTAAGCAAAGG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* * * * * *
3265865 CTCAACGACTATGAAAAAGTAAATAATGCTTCTCTAAACAGAAG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
* * * * ** * **
3265909 TTTAACAACTTTGAAAAAGTAAATAAAAGCTTATATAAATAGAGG
1 CTCAACGACTTTGAAAAAATAAAT-AAAGCTCCTCTAAGCAGAGG
* * * **
3265954 CTCAATGACTTTGAAAAAATAAATAAAGGCTCATTTAAATAGAGG
1 CTCAACGACTTTGAAAAAATAAATAAA-GCTCCTCTAAGCAGAGG
* * * * *
3265999 CTTAACAACTTTG-AAAAAT-AA-AAGGTTCCTCTAAGTAGAGG
1 CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
*
3266040 CTCAACGACTTTG-AAAAATAAAATAAGGCTC
1 CTCAACGACTTTGAAAAAAT-AAATAAAGCTC
3266071 ATCAATAATC
Statistics
Matches: 410, Mismatches: 90, Indels: 21
0.79 0.17 0.04
Matches are distributed among these distances:
41 30 0.07
42 2 0.00
43 154 0.38
44 130 0.32
45 94 0.23
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.24
Consensus pattern (44 bp):
CTCAACGACTTTGAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
Found at i:3265851 original size:174 final size:174
Alignment explanation
Indices: 3265527--3265981 Score: 423
Period size: 174 Copynumber: 2.6 Consensus size: 174
3265517 CTCAACGATT
* * * *
3265527 TTGAAAAATAAATAAAGCTCTTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAATAAAACTCC
1 TTGAAAAATAAACAAAGCTCTTCTAAGCAAAAGCTCAATAACTTTGAAAAAATAAATAAAACTCC
* * * * * * **
3265592 TCTAAGCAGAGGCACAACAACTTTGAAGAAATAAATAAAGCTTCTCTAAGCAGACGCTCAATGAC
66 TCTAAGCAGAGGCACAACAACTTTAAAAAAATAAATAAAGCTCCTCCAAGCAAAAGCTCAACAAC
*
3265657 TTCAAAAAATAAACAAGGCTCCTCTAAGCAGAGGCTTAATGACA
131 TTCAAAAAATAAACAAGGCTCCTCTAAGCAAAGGCTTAATGACA
* * ***
3265701 TTGAAAAATAAACAAGGCTCATT-TAAGCAAAAGCTCAATAACTTT-AAAGAATAAATAAGGTTC
1 TTGAAAAATAAACAAAGCTC-TTCTAAGCAAAAGCTCAATAACTTTGAAAAAATAAATAAAACTC
* * *
3265764 CTCTAAGTAGAGGCTCAACAATTTTAAAAAAAATAAATAAAGCTCCTCCAAGCAAAAGCTCAACA
65 CTCTAAGCAGAGGCACAACAACTTT-AAAAAAATAAATAAAGCTCCTCCAAGCAAAAGCTCAACA
** * * * * *
3265829 ACTTTGAAAGATAAATAAGGCTCTTCTAAGCAAAGGCTCAACGAC-
129 ACTTCAAAAAATAAACAAGGCTCCTCTAAGCAAAGGCTTAATGACA
* * * * * * * *
3265874 TATGAAAAAGTAAATAATGCT-TCTCTAAACAGAAGTTTAACAACTTTGAAAAAGTAAATAAAAG
1 T-TGAAAAA-TAAACAAAGCTCT-TCTAAGCAAAAGCTCAATAACTTTGAAAAAATAAATAAAA-
** * ** * ** *
3265938 CTTATATAAATAGAGGCTCAATGACTTTGAAAAAATAAATAAAG
62 CTCCTCTAAGCAGAGGCACAACAACTTTAAAAAAATAAATAAAG
3265982 GCTCATTTAA
Statistics
Matches: 225, Mismatches: 48, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
173 38 0.17
174 113 0.50
175 28 0.12
176 26 0.12
177 20 0.09
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (174 bp):
TTGAAAAATAAACAAAGCTCTTCTAAGCAAAAGCTCAATAACTTTGAAAAAATAAATAAAACTCC
TCTAAGCAGAGGCACAACAACTTTAAAAAAATAAATAAAGCTCCTCCAAGCAAAAGCTCAACAAC
TTCAAAAAATAAACAAGGCTCCTCTAAGCAAAGGCTTAATGACA
Found at i:3266053 original size:131 final size:129
Alignment explanation
Indices: 3265517--3266070 Score: 492
Period size: 131 Copynumber: 4.2 Consensus size: 129
3265507 CAAACAAAGC
* *
3265517 CTCAACGATTTTGAAAAATAAATAAAGCTCTTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAA
1 CTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTG-AAAAATAA
* * * * *
3265582 ATAAA-ACTCCTCTAAGCAGAGGCACAACAACTTTGAAGAAATAAATAAAGCTTCTCTAAGCAGA
65 ATAAAGGCTCATTTAAGCAAAGGCTCAACAACTTTGAA-AAATAAAT-AAGCTTCTCTAAGCAGA
*
3265646 CG
128 GG
* ** * * * *
3265648 CTCAATGACTTCAAAAAATAAACAAGGCTCCTCTAAGCAGAGGCTTAATGACATTGAAAAATAAA
1 CTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAATAAA
* * * * *
3265713 -CAAGGCTCATTTAAGCAAAAGCTCAATAACTTT-AAAGAATAAATAAGGTTCCTCTAAGTAGAG
66 TAAAGGCTCATTTAAGCAAAGGCTCAACAACTTTGAAA-AATAAATAAGCTT-CTCTAAGCAGAG
3265776 G
129 G
* * * * * * ** *
3265777 CTCAACAATTTTAAAAAAAATAAATAAAGCTCCTCCAAGCAAAAGCTCAACAACTTTGAAAGATA
1 CTCAACGACTTT--GAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAATA
* * *
3265842 AAT-AAGGCTC-TTCTAAGCAAAGGCTCAACGACTATGAAAAAGTAAATAATGCTTCTCTAAACA
64 AATAAAGGCTCATT-TAAGCAAAGGCTCAACAACTTTGAAAAA-TAAATAA-GCTTCTCTAAGCA
*
3265905 GAAG
126 GAGG
* * * ** * **
3265909 TTTAACAACTTTGAAAAAGTAAATAAAAGCTTATATAAATAGAGGCTCAATGACTTTGAAAAAAT
1 CTCAACGACTTTGAAAAA-TAAAT-AAAGCTCCTCTAAGCAGAGGCTCAATGACTTTG-AAAAAT
** * * * *
3265974 AAATAAAGGCTCATTTAAATAGAGGCTTAACAACTTTGAAAAAT-AA-AAGGTTCCTCTAAGTAG
63 AAATAAAGGCTCATTTAAGCAAAGGCTCAACAACTTTGAAAAATAAATAAGCTT-CTCTAAGCAG
3266037 AGG
127 AGG
*
3266040 CTCAACGACTTTGAAAAATAAAATAAGGCTC
1 CTCAACGACTTTGAAAAAT-AAATAAAGCTC
3266071 ATCAATAATC
Statistics
Matches: 334, Mismatches: 72, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
128 6 0.02
129 30 0.09
130 47 0.14
131 153 0.46
132 54 0.16
133 13 0.04
134 29 0.09
135 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.24
Consensus pattern (129 bp):
CTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAATAAA
TAAAGGCTCATTTAAGCAAAGGCTCAACAACTTTGAAAAATAAATAAGCTTCTCTAAGCAGAGG
Found at i:3267102 original size:10 final size:10
Alignment explanation
Indices: 3267087--3267114 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3267077 AACTTAAGTT
3267087 TTTTTTTTCA
1 TTTTTTTTCA
3267097 TTTTTTTTCA
1 TTTTTTTTCA
3267107 TTTTTTTT
1 TTTTTTTT
3267115 AAGTATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:3272268 original size:19 final size:21
Alignment explanation
Indices: 3272244--3272302 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
3272234 TATTTTATTA
*
3272244 ATTTATATTTGATT-GATA-G
1 ATTTATATTTGATTAAATATG
*
3272263 ATTTATATTTCATTAAATATG
1 ATTTATATTTGATTAAATATG
*
3272284 ATTT-TATTTGATAAAATAT
1 ATTTATATTTGATTAAATAT
3272303 CAATGCACGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 13 0.38
20 16 0.47
21 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (21 bp):
ATTTATATTTGATTAAATATG
Found at i:3284403 original size:23 final size:24
Alignment explanation
Indices: 3284350--3284405 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
3284340 AGACAAAATG
**
3284350 AAAATTTT-TAAGTGAATTTTGTA
1 AAAATTTTATAAGTGAATTTAATA
*
3284373 AATTATTTTATAAGT-AATTTAATA
1 AA-AATTTTATAAGTGAATTTAATA
3284397 AAAATTTTA
1 AAAATTTTA
3284406 AATTAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 8 0.30
24 14 0.52
25 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
AAAATTTTATAAGTGAATTTAATA
Found at i:3285116 original size:18 final size:18
Alignment explanation
Indices: 3285093--3285135 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3285083 AATTTAAACG
3285093 AATAAATTAATAAAACTT
1 AATAAATTAATAAAACTT
* *
3285111 AATAAATAAATCAAACTT
1 AATAAATTAATAAAACTT
3285129 -ATAAATT
1 AATAAATT
3285136 CACTAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATTAATAAAACTT
Found at i:3291120 original size:14 final size:15
Alignment explanation
Indices: 3291101--3291133 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3291091 TCATCAATTC
3291101 ATTTATTT-ATTTAA
1 ATTTATTTAATTTAA
*
3291115 ATTTATTTAATTTTA
1 ATTTATTTAATTTAA
3291130 ATTT
1 ATTT
3291134 GTTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTATTTAATTTAA
Found at i:3291161 original size:18 final size:17
Alignment explanation
Indices: 3291132--3291186 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
3291122 TAATTTTAAT
3291132 TTGTTATTAAAATATAAAA
1 TTGTT-TTAAAAT-TAAAA
*
3291151 TTGTTTTAAAATTATAA
1 TTGTTTTAAAATTAAAA
*
3291168 TATATTTTAAAATTAAAA
1 T-TGTTTTAAAATTAAAA
3291186 T
1 T
3291187 ATAATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.16
18 22 0.69
19 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (17 bp):
TTGTTTTAAAATTAAAA
Found at i:3291187 original size:18 final size:18
Alignment explanation
Indices: 3291138--3291189 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
3291128 TAATTTGTTA
*
3291138 TTAAAATATAAAAT-TGTT
1 TTAAAAT-TAAAATATATT
*
3291156 TTAAAATTATAATATATT
1 TTAAAATTAAAATATATT
3291174 TTAAAATTAAAATATA
1 TTAAAATTAAAATATA
3291190 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAAAATTAAAATATATT
Found at i:3291588 original size:24 final size:23
Alignment explanation
Indices: 3291544--3291588 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
3291534 ATTATGTTAT
*
3291544 TAAAAATTTTAATTATTTAAATC
1 TAAAAATTTTAATTATCTAAATC
3291567 TAAAAATTGTT-ATTATACTAAA
1 TAAAAATT-TTAATTAT-CTAAA
3291589 AAGGTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAAAATTTTAATTATCTAAATC
Found at i:3295965 original size:16 final size:16
Alignment explanation
Indices: 3295944--3295976 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3295934 TCAACATAAG
3295944 TTGGATAAGTCAGGTT
1 TTGGATAAGTCAGGTT
3295960 TTGGATAAGTCAGGTT
1 TTGGATAAGTCAGGTT
3295976 T
1 T
3295977 AACATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.30, T:0.39
Consensus pattern (16 bp):
TTGGATAAGTCAGGTT
Found at i:3296805 original size:23 final size:26
Alignment explanation
Indices: 3296774--3296823 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3296764 AGCTTAACCA
3296774 TGATCT-AAATT-TAAAATATAATTT
1 TGATCTAAAATTATAAAATATAATTT
*
3296798 TGAT-TAAAATTATAAAATATCATTT
1 TGATCTAAAATTATAAAATATAATTT
3296823 T
1 T
3296824 TATATTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 9 0.39
25 13 0.57
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (26 bp):
TGATCTAAAATTATAAAATATAATTT
Found at i:3297136 original size:32 final size:32
Alignment explanation
Indices: 3297078--3297154 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 32
3297068 CTTATAATCA
* * *
3297078 ATTAAATCAATATTAATATTCTCTAAATCAAT
1 ATTAAATTAATATGAATATTCACTAAATCAAT
* *
3297110 ATTAAATTAATATAGAATATT-ACTAAATTATT
1 ATTAAATTAATAT-GAATATTCACTAAATCAAT
3297142 ATTATAA-TAATAT
1 ATTA-AATTAATAT
3297155 CATCAATCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 30 0.79
33 8 0.21
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (32 bp):
ATTAAATTAATATGAATATTCACTAAATCAAT
Found at i:3299521 original size:3 final size:3
Alignment explanation
Indices: 3299513--3299557 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
3299503 AAATTAAACC
3299513 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3299558 TGGGCCAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3300078 original size:41 final size:42
Alignment explanation
Indices: 3299998--3300080 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
3299988 TAATATTCTT
* * * *
3299998 TAAATTAATATCAAATCAATTTAGAATATTACTGAAATATTAC
1 TAAAATAATATC-AATCAATCTAAAATATTACTCAAATATTAC
3300041 TAAAATAATATC-ATCAATCTAAAATATTA-TCATAATATTA
1 TAAAATAATATCAATCAATCTAAAATATTACTCA-AATATTA
3300081 TTATAATACC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 2 0.06
41 22 0.63
43 11 0.31
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (42 bp):
TAAAATAATATCAATCAATCTAAAATATTACTCAAATATTAC
Found at i:3300175 original size:29 final size:29
Alignment explanation
Indices: 3300133--3300190 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
3300123 TGTTTTGAGT
3300133 GTTTTTCTTCTTTTCTGTATCCCTACCCG
1 GTTTTTCTTCTTTTCTGTATCCCTACCCG
3300162 GTTTTTCTTCTTTTCTGTATCCCTACCCG
1 GTTTTTCTTCTTTTCTGTATCCCTACCCG
3300191 ATCAGCGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.07, C:0.31, G:0.10, T:0.52
Consensus pattern (29 bp):
GTTTTTCTTCTTTTCTGTATCCCTACCCG
Done.