Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 25 of 133
Found at i:6075217 original size:32 final size:30
Alignment explanation
Indices: 6075131--6075251 Score: 107
Period size: 32 Copynumber: 3.8 Consensus size: 30
6075121 AAAAGAATTG
*
6075131 AAAATTTTTATATAATATTTTAAAATGATAT
1 AAAATTTTTAT-TAATTTTTTAAAATGATAT
* * * *
6075162 AAAGTTTTAATTTAATTTCTTAAACTGATAT
1 AAAATTTTTA-TTAATTTTTTAAAATGATAT
6075193 AAAAATTTTTACTTAATTTTTTAAAATGATAT
1 -AAAATTTTTA-TTAATTTTTTAAAATGATAT
** * *
6075225 GTAATTTTAATAAAATTATTTTAAAAT
1 AAAATTTTTAT-TAATT-TTTTAAAAT
6075252 TTTCAACTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
30 1 0.01
31 35 0.49
32 36 0.50
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (30 bp):
AAAATTTTTATTAATTTTTTAAAATGATAT
Found at i:6075474 original size:12 final size:13
Alignment explanation
Indices: 6075459--6075490 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
6075449 ATAAATAAAA
6075459 AATATTTAATA-T
1 AATATTTAATATT
6075471 AATATTTAATATT
1 AATATTTAATATT
6075484 AATATTT
1 AATATTT
6075491 TTAGAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATTTAATATT
Found at i:6075623 original size:18 final size:18
Alignment explanation
Indices: 6075600--6075646 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
6075590 GATATTGAAT
6075600 TTTTTAAAAAAATTTAAA
1 TTTTTAAAAAAATTTAAA
*** *
6075618 TTTTTAACTTAATTTTAA
1 TTTTTAAAAAAATTTAAA
6075636 -TTTTAAAAAAA
1 TTTTTAAAAAAA
6075647 ACTATTCTAT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTTAAAAAAATTTAAA
Found at i:6075697 original size:15 final size:15
Alignment explanation
Indices: 6075655--6075705 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
6075645 AAACTATTCT
*
6075655 ATATTACAAGCAAAAA
1 ATATTACAA-TAAAAA
* *
6075671 ATATAACTAATAAAAT
1 ATATTAC-AATAAAAA
6075687 ATATTACAATAAAAA
1 ATATTACAATAAAAA
6075702 ATAT
1 ATAT
6075706 AAAAATATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 11 0.38
16 16 0.55
17 2 0.07
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (15 bp):
ATATTACAATAAAAA
Found at i:6077407 original size:73 final size:66
Alignment explanation
Indices: 6077310--6077477 Score: 178
Period size: 73 Copynumber: 2.4 Consensus size: 66
6077300 ATTTTTTTAT
* *
6077310 AATAAAAAATATAGTTTTTGTTAAAAATATA-AAAAAAATATTTTTTAAAATTCAACAAAAATAA
1 AATAAAAAAT-CAGTTTTTATTAAAAATATATAAAAAAA-A--TTTT-AAATT-AA-AAAAATAA
6077374 TACTTATAA
59 TA-TTATAA
* * * *
6077383 AATAAAAAATGCAGTATTTATTAAAAATATATAAAAAAAATTTTAGATTAAAAAAATGATATTTT
1 AATAAAAAAT-CAGTTTTTATTAAAAATATATAAAAAAAATTTTAAATTAAAAAAATAATATTAT
6077448 AA
65 AA
6077450 AGATAAAAAA-CAGTTTTTATTAAAAATA
1 A-ATAAAAAATCAGTTTTTATTAAAAATA
6077478 CGATATTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
66 17 0.20
67 6 0.07
68 17 0.20
69 2 0.02
70 4 0.05
71 4 0.05
73 28 0.33
74 7 0.08
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (66 bp):
AATAAAAAATCAGTTTTTATTAAAAATATATAAAAAAAATTTTAAATTAAAAAAATAATATTATA
A
Found at i:6077456 original size:39 final size:39
Alignment explanation
Indices: 6077413--6077497 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
6077403 TTAAAAATAT
*
6077413 ATAAAAAA-AATTTTAGATTAAAAAAATGATATTTTAAAG
1 ATAAAAAACAATTTT-GATTAAAAAAACGATATTTTAAAG
* * * *
6077452 ATAAAAAACAGTTTTTATTAAAAATACGATATTTTTAAG
1 ATAAAAAACAATTTTGATTAAAAAAACGATATTTTAAAG
6077491 ATAAAAA
1 ATAAAAA
6077498 CTTAAACGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.88
40 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (39 bp):
ATAAAAAACAATTTTGATTAAAAAAACGATATTTTAAAG
Found at i:6077686 original size:24 final size:23
Alignment explanation
Indices: 6077658--6077730 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
6077648 GCAGTTTTTA
*
6077658 TTAAAAATATAAAAAAATTATTT
1 TTAAAAATATAAAAAAATAATTT
* *
6077681 TCT-AAAATTTAATAAAAATAACATT
1 T-TAAAAATATAA-AAAAATAA-TTT
6077706 TTAAAAATA-AAAAAATATAATTT
1 TTAAAAATATAAAAAA-ATAATTT
6077729 TT
1 TT
6077731 GTTGAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
23 17 0.43
24 15 0.38
25 8 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAAAAATATAAAAAAATAATTT
Found at i:6077739 original size:75 final size:76
Alignment explanation
Indices: 6077556--6077739 Score: 209
Period size: 75 Copynumber: 2.4 Consensus size: 76
6077546 AAAATTATAT
* * *
6077556 TTTTAAAAT--AAAAATATAA-CTTTGTTTACAAATATATAAAAAATATATTTTTTAAAATTCAA
1 TTTTAAAATAAAAAAATATAATTTTTG-TTAAAAATATATAAAAAATATATTTTCTAAAATTCAA
6077618 CAAAAATAACAC
65 CAAAAATAACAC
* * * * *
6077630 TTTTAAAATAAAAAAAAAGCAGTTTTTATTAAAAATATA-AAAAAAT-TATTTTCTAAAATTTAA
1 TTTTAAAATAAAAAAATA-TAATTTTTGTTAAAAATATATAAAAAATATATTTTCTAAAATTCAA
*
6077693 TAAAAATAACA-
65 CAAAAATAACAC
6077704 TTTTAAAAATAAAAAAATATAATTTTTGTTGAAAAA
1 TTTT-AAAATAAAAAAATATAATTTTTGTT-AAAAA
6077740 AGAATGTTTC
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
74 21 0.23
75 43 0.47
76 13 0.14
77 11 0.12
78 3 0.03
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (76 bp):
TTTTAAAATAAAAAAATATAATTTTTGTTAAAAATATATAAAAAATATATTTTCTAAAATTCAAC
AAAAATAACAC
Found at i:6083625 original size:6 final size:6
Alignment explanation
Indices: 6083617--6083651 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6083607 TCCAAAAGAT
* *
6083617 GCTGCT GCTGCT GCTGCC GCTGCC GCTGCC GCTGC
1 GCTGCC GCTGCC GCTGCC GCTGCC GCTGCC GCTGC
6083652 AGCAACATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.43, G:0.34, T:0.23
Consensus pattern (6 bp):
GCTGCC
Found at i:6084661 original size:39 final size:39
Alignment explanation
Indices: 6084607--6084715 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 39
6084597 AGAAAATAAG
6084607 TTAACTTTCCTTCTTTCCTTCCCCTCTCAAATCTCAGTC
1 TTAACTTTCCTTCTTTCCTTCCCCTCTCAAATCTCAGTC
6084646 TTAACTTT-C--C-TT-CTT----TCTCAAATCTCAGTC
1 TTAACTTTCCTTCTTTCCTTCCCCTCTCAAATCTCAGTC
6084676 TTAACTTTCCTTCTTTCCTTCCCCTCTCAAATCTCAGTC
1 TTAACTTTCCTTCTTTCCTTCCCCTCTCAAATCTCAGTC
6084715 T
1 T
6084716 CAATAGCCCA
Statistics
Matches: 61, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
30 23 0.38
31 1 0.02
33 1 0.02
34 5 0.08
35 5 0.08
36 1 0.02
38 1 0.02
39 24 0.39
ACGTcount: A:0.17, C:0.36, G:0.03, T:0.45
Consensus pattern (39 bp):
TTAACTTTCCTTCTTTCCTTCCCCTCTCAAATCTCAGTC
Found at i:6084667 original size:30 final size:30
Alignment explanation
Indices: 6084631--6084692 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
6084621 TTCCTTCCCC
6084631 TCTCAAATCTCAGTCTTAACTTTCCTTCTT
1 TCTCAAATCTCAGTCTTAACTTTCCTTCTT
6084661 TCTCAAATCTCAGTCTTAACTTTCCTTCTT
1 TCTCAAATCTCAGTCTTAACTTTCCTTCTT
6084691 TC
1 TC
6084693 CTTCCCCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.31, G:0.03, T:0.47
Consensus pattern (30 bp):
TCTCAAATCTCAGTCTTAACTTTCCTTCTT
Found at i:6087644 original size:24 final size:24
Alignment explanation
Indices: 6087617--6087667 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
6087607 ATGACATAAC
6087617 ATAGCCAAATACTCCATATGAGAG
1 ATAGCCAAATACTCCATATGAGAG
6087641 ATAGCCAAATACTCCATATGAGAG
1 ATAGCCAAATACTCCATATGAGAG
6087665 ATA
1 ATA
6087668 ACTTTTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
ATAGCCAAATACTCCATATGAGAG
Found at i:6087850 original size:30 final size:30
Alignment explanation
Indices: 6087785--6087921 Score: 109
Period size: 30 Copynumber: 4.6 Consensus size: 30
6087775 TTTATTAATT
* *
6087785 TATTTAAATAATTTTTTATATTTT-A-TTA
1 TATTTAAATAAATTTTTAAATTTTAATTTA
* *
6087813 CATTTAAATAAATTTTTAAATTTTAATTTG
1 TATTTAAATAAATTTTTAAATTTTAATTTA
* * *
6087843 TATTTAAATAAATTCTT-AATCTCTAACTTA
1 TATTTAAATAAATTTTTAAAT-TTTAATTTA
* ** * *
6087873 TATATAAATAAATTCATAACTTTTAATTTG
1 TATTTAAATAAATTTTTAAATTTTAATTTA
** *
6087903 TACATAAATAAACTTTTAA
1 TATTTAAATAAATTTTTAA
6087922 TATAAATTAA
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
28 21 0.24
29 4 0.05
30 59 0.69
31 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (30 bp):
TATTTAAATAAATTTTTAAATTTTAATTTA
Found at i:6087994 original size:29 final size:30
Alignment explanation
Indices: 6087934--6087999 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
6087924 TAAATTAATT
6087934 TTTATTTGAATATAAATCAAAAAATAAAAA
1 TTTATTTGAATATAAATCAAAAAATAAAAA
**
6087964 TTTATTTGTGTAT-AAT-AAAAATATAAAAA
1 TTTATTTGAATATAAATCAAAAA-ATAAAAA
6087993 TTTATTT
1 TTTATTT
6088000 TAAAAAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 5 0.15
29 17 0.52
30 11 0.33
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTATTTGAATATAAATCAAAAAATAAAAA
Found at i:6094406 original size:50 final size:49
Alignment explanation
Indices: 6094248--6094457 Score: 205
Period size: 50 Copynumber: 4.2 Consensus size: 49
6094238 CTTTTTTTTG
*
6094248 TTTTGTAAATTAGCATTTAATTATAAAAATAAAATAATTATAATATAATTAT
1 TTTTGTAAATTAGCATTTAATTATAAAAATGAAAT-ATTATAATATAA-T-T
* * *
6094300 TTTTGCAAATTAGCATTTAATTATAGAAAATG--A-ATTAT-A-CTCATT
1 TTTTGTAAATTAGCATTTAATTATA-AAAATGAAATATTATAATATAATT
* * *
6094345 TTTTGTAAATTAGTATTTAATTATATAAATGAAATATTATAATAAAATT
1 TTTTGTAAATTAGCATTTAATTATAAAAATGAAATATTATAATATAATT
* * * * *
6094394 GCTTTGTAAATTAACATTTAATTATATAGATTAAATATTATAATATAATTAT
1 -TTTTGTAAATTAGCATTTAATTATAAAAATGAAATATTATAATATAA-T-T
*
6094446 TTTTATAAATTA
1 TTTTGTAAATTA
6094458 ACGTTCAATT
Statistics
Matches: 131, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.04
45 24 0.18
46 2 0.02
47 7 0.05
48 2 0.02
49 8 0.06
50 41 0.31
51 12 0.09
52 25 0.19
53 5 0.04
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (49 bp):
TTTTGTAAATTAGCATTTAATTATAAAAATGAAATATTATAATATAATT
Found at i:6094564 original size:23 final size:21
Alignment explanation
Indices: 6094536--6094581 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6094526 TTTGAAAATT
*
6094536 TATATTACATCTATATATATATA
1 TATATTACAT-TACA-ATATATA
*
6094559 TATATTATATTACAATATATA
1 TATATTACATTACAATATATA
6094580 TA
1 TA
6094582 AATATCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 9 0.43
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTACATTACAATATATA
Found at i:6094813 original size:21 final size:20
Alignment explanation
Indices: 6094789--6094839 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6094779 TGAAATATGG
*
6094789 ATTTTATTTTCTTAATAGATA
1 ATTTTATTTT-TTAATAAATA
* *
6094810 ATTTTAATTGTTTACTAAATA
1 ATTTT-ATTTTTTAATAAATA
6094831 ATTTTATTT
1 ATTTTATTT
6094840 AAAAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 18 0.72
22 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (20 bp):
ATTTTATTTTTTAATAAATA
Found at i:6095385 original size:26 final size:27
Alignment explanation
Indices: 6095344--6095394 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
6095334 ATATTAATCG
* *
6095344 AATATATTTACGAATA-TATATAAATA
1 AATATATTTACAAATAGTAAATAAATA
*
6095370 AATATATTTATAAATAGTAAATAAA
1 AATATATTTACAAATAGTAAATAAA
6095395 CTATAACCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (27 bp):
AATATATTTACAAATAGTAAATAAATA
Found at i:6095422 original size:14 final size:14
Alignment explanation
Indices: 6095388--6095430 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6095378 TATAAATAGT
* *
6095388 AAATAAACTATAACC
1 AAATAAACTTTAA-A
*
6095403 AAATAAATTTTAAA
1 AAATAAACTTTAAA
6095417 AAATAAACTTTAAA
1 AAATAAACTTTAAA
6095431 TGAATATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAACTTTAAA
Found at i:6096007 original size:30 final size:30
Alignment explanation
Indices: 6095973--6096035 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
6095963 TTTTTAAAAA
*
6095973 TTTATGTAAGATATT-AAGAATTCAAACAAT
1 TTTATGTAAGACATTGAA-AATTCAAACAAT
** *
6096003 TTTATGTGTGACATTGAAAATTCAAATAAT
1 TTTATGTAAGACATTGAAAATTCAAACAAT
6096033 TTT
1 TTT
6096036 TCATATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTATGTAAGACATTGAAAATTCAAACAAT
Found at i:6098228 original size:18 final size:18
Alignment explanation
Indices: 6098205--6098241 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6098195 AAAGAACAGG
*
6098205 GTTACTGCTAATGTAGAA
1 GTTACTGCTAAAGTAGAA
*
6098223 GTTACTGTTAAAGTAGAA
1 GTTACTGCTAAAGTAGAA
6098241 G
1 G
6098242 AGCCTAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.32
Consensus pattern (18 bp):
GTTACTGCTAAAGTAGAA
Found at i:6099944 original size:2 final size:2
Alignment explanation
Indices: 6099939--6099973 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6099929 CTCTCTCTTC
*
6099939 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6099974 AAAGAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6104429 original size:3 final size:3
Alignment explanation
Indices: 6104374--6104414 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
6104364 AGCAATTTTA
* * *
6104374 GCT GCT GGT TCT GGT GCT GCT GCT GCT GCT GCT GCT GCT GC
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GC
6104415 AGCCACCGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.29, G:0.37, T:0.34
Consensus pattern (3 bp):
GCT
Found at i:6104725 original size:28 final size:27
Alignment explanation
Indices: 6104671--6104728 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
6104661 TGAGAGAGTT
*
6104671 TTGGTTTTTTCTTGTGTTTGGTGTTTG
1 TTGGTTTTTTCTTGTGTTTGGTCTTTG
*
6104698 TTGGTTTGTTTC-TGTGTTTTTGTCTTTG
1 TTGGTTT-TTTCTTGTG-TTTGGTCTTTG
6104726 TTG
1 TTG
6104729 TAAGAAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.00, C:0.05, G:0.28, T:0.67
Consensus pattern (27 bp):
TTGGTTTTTTCTTGTGTTTGGTCTTTG
Found at i:6109056 original size:20 final size:20
Alignment explanation
Indices: 6109015--6109056 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
6109005 AATTTTTATA
* *
6109015 AATATATAAGAAAAATATAT
1 AATAAATAAGAAAAATAGAT
6109035 AATAAATAA-AAAATATAGAT
1 AATAAATAAGAAAA-ATAGAT
6109055 AA
1 AA
6109057 CATGAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
AATAAATAAGAAAAATAGAT
Found at i:6109404 original size:8 final size:9
Alignment explanation
Indices: 6109378--6109413 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6109368 CATTTTTTTA
6109378 TATCTTATT
1 TATCTTATT
*
6109387 TGTCTTATT
1 TATCTTATT
6109396 TAT-TTATT
1 TATCTTATT
6109404 TATCTTATT
1 TATCTTATT
6109413 T
1 T
6109414 TATGTTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (9 bp):
TATCTTATT
Found at i:6109672 original size:22 final size:21
Alignment explanation
Indices: 6109641--6109681 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6109631 AAAATCAAGA
6109641 CAATTCTAAAAATTAATTAAAT
1 CAATTCTAAAAA-TAATTAAAT
* *
6109663 CAATTTTAAAGATAATTAA
1 CAATTCTAAAAATAATTAA
6109682 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (21 bp):
CAATTCTAAAAATAATTAAAT
Found at i:6111497 original size:34 final size:34
Alignment explanation
Indices: 6111455--6111524 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
6111445 AATTCAAAGT
*
6111455 AAGAACAATCATAAAAACATATTATTGTAACGTA
1 AAGAACAATCATAAAAACATATTATTGTAACATA
6111489 AAGAACAATCATAAAAACATATTATTGTAACATA
1 AAGAACAATCATAAAAACATATTATTGTAACATA
6111523 AA
1 AA
6111525 TAATTAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (34 bp):
AAGAACAATCATAAAAACATATTATTGTAACATA
Found at i:6113048 original size:35 final size:35
Alignment explanation
Indices: 6113002--6113072 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
6112992 GTTCGATTCT
*
6113002 TATTCTTAAGGTACATTCATCATCTTTCTTGGTTA
1 TATTCTTAAGGTACATTCATCATCTTTCTTAGTTA
6113037 TATTCTTAAGGTACATTCATCATCTTTCTTAGTTA
1 TATTCTTAAGGTACATTCATCATCTTTCTTAGTTA
6113072 T
1 T
6113073 CCATACTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (35 bp):
TATTCTTAAGGTACATTCATCATCTTTCTTAGTTA
Found at i:6121925 original size:56 final size:56
Alignment explanation
Indices: 6121852--6121959 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
6121842 GAATGTTTAA
* *
6121852 ATTGAACCTTGATTTTGTTTTTCTGGAGTTATTGCAAATTTCAAATTATCACTTGG
1 ATTGAACCTTGATTTTGTTTTTCTGGAGTTATTGCAAAGTTCAAAGTATCACTTGG
6121908 ATTGAACCTTGATTTTGTTTTTCTGGAGTTATTGCAAAGTTCAAAGTATCAC
1 ATTGAACCTTGATTTTGTTTTTCTGGAGTTATTGCAAAGTTCAAAGTATCAC
6121960 AATTGTTTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (56 bp):
ATTGAACCTTGATTTTGTTTTTCTGGAGTTATTGCAAAGTTCAAAGTATCACTTGG
Found at i:6123452 original size:47 final size:46
Alignment explanation
Indices: 6123398--6123494 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 46
6123388 ATTTACTTAC
*
6123398 TTTTTATTTTTTCTTTGATCCGATATTGTAGAATTATACCAAAAGA
1 TTTTTATTTTTTCTTTAATCCGATATTGTAGAATTATACCAAAAGA
*
6123444 GTTTTTATTTTTTCTTTAATCTGATATTGTAGAATTATACCAAAAGA
1 -TTTTTATTTTTTCTTTAATCCGATATTGTAGAATTATACCAAAAGA
6123491 TTTT
1 TTTT
6123495 AATCATCCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 4 0.08
47 44 0.92
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (46 bp):
TTTTTATTTTTTCTTTAATCCGATATTGTAGAATTATACCAAAAGA
Found at i:6135558 original size:21 final size:21
Alignment explanation
Indices: 6135514--6135560 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6135504 AATTATTTAT
*
6135514 AATTTATAATTATATAAAATA
1 AATTTATAATTATATAAAACA
*
6135535 AATTTATATTTATA-AATAACA
1 AATTTATAATTATATAA-AACA
6135556 AATTT
1 AATTT
6135561 CTACATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTATAATTATATAAAACA
Found at i:6137243 original size:17 final size:19
Alignment explanation
Indices: 6137205--6137244 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
6137195 AATTGATTCC
6137205 ATAAAATAAAAACTCAAGTA
1 ATAAAATAAAAACT-AAGTA
6137225 ATAAAATAAAAA-T-AGTA
1 ATAAAATAAAAACTAAGTA
6137242 ATA
1 ATA
6137245 GATAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAAAATAAAAACTAAGTA
Found at i:6137381 original size:19 final size:19
Alignment explanation
Indices: 6137357--6137396 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6137347 AAAAATTAAG
6137357 ATAGTATTATTTCAGTCCT
1 ATAGTATTATTTCAGTCCT
*
6137376 ATAGTATTATTTCGGTCCT
1 ATAGTATTATTTCAGTCCT
6137395 AT
1 AT
6137397 TTTCTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.47
Consensus pattern (19 bp):
ATAGTATTATTTCAGTCCT
Found at i:6142228 original size:17 final size:17
Alignment explanation
Indices: 6142206--6142240 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6142196 AAATTTTAAT
6142206 ATATT-AAATATTAAATA
1 ATATTAAAATA-TAAATA
6142223 ATATTAAAATATAAATA
1 ATATTAAAATATAAATA
6142240 A
1 A
6142241 AAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATTAAAATATAAATA
Found at i:6146829 original size:12 final size:12
Alignment explanation
Indices: 6146789--6146831 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6146779 GGCCGGAGTC
*
6146789 GGATGATGAGGA
1 GGATGATGAAGA
*
6146801 GGAAGATGAAGA
1 GGATGATGAAGA
*
6146813 GGATGATGATGA
1 GGATGATGAAGA
*
6146825 AGATGAT
1 GGATGAT
6146832 CCAGGGAGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.19
Consensus pattern (12 bp):
GGATGATGAAGA
Found at i:6149173 original size:21 final size:21
Alignment explanation
Indices: 6149149--6149189 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6149139 AAAGAGAAGT
* *
6149149 GATGATGCAGAGGAGGATGAG
1 GATGATGAAGAGGAAGATGAG
6149170 GATGATGAAGAGGAAGATGA
1 GATGATGAAGAGGAAGATGA
6149190 TGTTGTTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.44, T:0.15
Consensus pattern (21 bp):
GATGATGAAGAGGAAGATGAG
Found at i:6153513 original size:137 final size:133
Alignment explanation
Indices: 6153223--6153640 Score: 451
Period size: 137 Copynumber: 3.2 Consensus size: 133
6153213 AATTATTTGT
* * * *
6153223 AAAAACGCCTTAAATGATCA-TTT-TTTTTA-TACCTTAATCGATCAATCATTGATGGAGTTTTT
1 AAAAACACCTTAAATGATCATTTTATTTTTATTACCTTAATTGATCAATCATTTAAGGA-TTTTT
* * * * * **
6153285 GTACACAAACCCCTTAATTGAGACA--TT-TTTTTTTTTTATAATTGATCATCTCAGGCATTGAT
65 ATACACAAACTCCTTAATTGAGACATTTTATTTTTTTTTTATAACTGATCATTTAAGGCATTTTT
6153347 GTAC
130 GTAC
* *
6153351 ATAAACGCCTTAAATGATCATTTTATTTTTATTACGCTTTAATTGATCAATCATTTAAGGCATTT
1 AAAAACACCTTAAATGATCATTTTATTTTTATTAC-C-TTAATTGATCAATCATTTAAGG-ATTT
*
6153416 CTT-TACACAAAATCCTTAATTGAGACATTTTATTTTATTTTTTATAACTGATCATTTAAGGCAT
63 -TTATACACAAACTCCTTAATTGAGACATTTTATTTT-TTTTTTATAACTGATCATTTAAGGCAT
*
6153480 TTTTATAC
126 TTTTGTAC
* * *
6153488 AAAAACACCTTAAATGATAATTTTATTTTTTTTACACCTTAATTGATCAATCATTTAAGGTGTTT
1 AAAAACACCTTAAATGATCATTTTATTTTTATT--ACCTTAATTGATCAATCATTTAAGG-ATTT
* * * * *
6153553 TTATACACAAACTCTTTAATTAAGACATTTTA---TTTTTTTATAACTAATCTTTTAAGGCGTTT
63 TTATACACAAACTCCTTAATTGAGACATTTTATTTTTTTTTTATAACTGATCATTTAAGGCATTT
*
6153615 TTGTAT
128 TTGTAC
**
6153621 TGAAACACCTTAAATGATCA
1 AAAAACACCTTAAATGATCA
6153641 ATCATTTAAG
Statistics
Matches: 247, Mismatches: 29, Indels: 23
0.83 0.10 0.08
Matches are distributed among these distances:
128 19 0.08
129 3 0.01
130 6 0.02
131 3 0.01
132 1 0.00
133 91 0.37
134 4 0.02
135 2 0.01
136 6 0.02
137 109 0.44
138 1 0.00
139 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (133 bp):
AAAAACACCTTAAATGATCATTTTATTTTTATTACCTTAATTGATCAATCATTTAAGGATTTTTA
TACACAAACTCCTTAATTGAGACATTTTATTTTTTTTTTATAACTGATCATTTAAGGCATTTTTG
TAC
Found at i:6153589 original size:71 final size:69
Alignment explanation
Indices: 6153245--6153592 Score: 251
Period size: 71 Copynumber: 5.1 Consensus size: 69
6153235 AATGATCATT
* * * * *
6153245 TTTTTTATACCTTAATCGATCAATCATTGATGG-AGTTTTTGTACACAAACCCCTTAATTGAGAC
1 TTTTTT-TACCTTAATTGATCAATCATTTAAGGCA-TTTTTATACACAAACTCCTTAATTGAGAC
*
6153309 ATTTTT
64 ATTTTA
* ** * * * * *
6153315 TTTTTTTA---TAATTGATC-ATC---TCAGGCATTGATGTACATAAACGCCTTAAATGA-TCAT
1 TTTTTTTACCTTAATTGATCAATCATTTAAGGCATTTTTATACACAAACTCCTTAATTGAGACAT
6153372 TTTA
66 TTTA
*
6153376 TTTTTATTACGCTTTAATTGATCAATCATTTAAGGCATTTCTT-TACACAAAATCCTTAATTGAG
1 TTTTT-TTAC-C-TTAATTGATCAATCATTTAAGGCATTT-TTATACACAAACTCCTTAATTGAG
6153440 ACATTTTA
62 ACATTTTA
* * * * * * *
6153448 TTTTATTT---TTTA-T-AACTGATCATTTAAGGCATTTTTATACAAAAACACCTTAAATGATA-
1 TTTT-TTTACCTTAATTGATC-AATCATTTAAGGCATTTTTATACACAAACTCCTTAATTGAGAC
6153507 ATTTTA
64 ATTTTA
** * *
6153513 TTTTTTTTACACCTTAATTGATCAATCATTTAAGGTGTTTTTATACACAAACTCTTTAATTAAGA
1 -TTTTTTT--ACCTTAATTGATCAATCATTTAAGGCATTTTTATACACAAACTCCTTAATTGAGA
6153578 CATTTTA
63 CATTTTA
6153585 TTTTTTTA
1 TTTTTTTA
6153593 TAACTAATCT
Statistics
Matches: 215, Mismatches: 38, Indels: 51
0.71 0.12 0.17
Matches are distributed among these distances:
61 11 0.05
62 26 0.12
63 1 0.00
65 16 0.07
66 46 0.21
67 12 0.06
68 3 0.01
69 3 0.01
70 9 0.04
71 65 0.30
72 22 0.10
73 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.46
Consensus pattern (69 bp):
TTTTTTTACCTTAATTGATCAATCATTTAAGGCATTTTTATACACAAACTCCTTAATTGAGACAT
TTTA
Found at i:6153735 original size:101 final size:102
Alignment explanation
Indices: 6153521--6153741 Score: 275
Period size: 101 Copynumber: 2.2 Consensus size: 102
6153511 TATTTTTTTT
* * * *
6153521 ACACCTTAATTGATCAATCATTTAAGGTGTTTTTATACACAAACTCTTTAATTAAGACATTTTAT
1 ACACCTTAAATGATCAATCATTTAAGGCGTTTCTATACACAAAATCTTTAATTAAGACA--TTAT
* * * * * **
6153586 TTTTTTATAACTAATCTTTTAAGGCGTTTTTGTATTGAA
64 TTTTTTATAACTAATCATTTAAGACATTTCTATACAGAA
* *
6153625 ACACCTTAAATGATCAATCATTTAAGGCGTTTCTATACACAAAATGTCTTAATTGAGACA-T-TT
1 ACACCTTAAATGATCAATCATTTAAGGCGTTTCTATACACAAAATCT-TTAATTAAGACATTATT
*
6153688 TTTTTATAACTAATCATTTAAGATATTTCTATACAGAA
65 TTTTTATAACTAATCATTTAAGACATTTCTATACAGAA
6153726 ACACCTTAAATGATCA
1 ACACCTTAAATGATCA
6153742 TTTAGTTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
101 48 0.47
102 1 0.01
104 42 0.41
105 11 0.11
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.41
Consensus pattern (102 bp):
ACACCTTAAATGATCAATCATTTAAGGCGTTTCTATACACAAAATCTTTAATTAAGACATTATTT
TTTTATAACTAATCATTTAAGACATTTCTATACAGAA
Found at i:6169354 original size:21 final size:21
Alignment explanation
Indices: 6169309--6169354 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
6169299 TCAAAAGTCA
*
6169309 ATTAATTTTATTATATTAAAT
1 ATTAATTTTATTATATTAAAC
6169330 ATTAATTTTTATT-TAATT-AAC
1 ATTAA-TTTTATTAT-ATTAAAC
6169351 ATTA
1 ATTA
6169355 TTAGTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTAATTTTATTATATTAAAC
Found at i:6173982 original size:33 final size:33
Alignment explanation
Indices: 6173917--6173988 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
6173907 TGATCCACCG
* *
6173917 CCATCAAATTCAACACAAGATAGCTCACCAGCA
1 CCATCAAATTCAACACAAGATAACTCAACAGCA
* * *
6173950 CCATCAAGTTCATCACAGGATAACTCAACAGCA
1 CCATCAAATTCAACACAAGATAACTCAACAGCA
6173983 CCATCA
1 CCATCA
6173989 TCAACACCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (33 bp):
CCATCAAATTCAACACAAGATAACTCAACAGCA
Found at i:6174120 original size:45 final size:45
Alignment explanation
Indices: 6174017--6174120 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
6174007 CCACCACCAC
* * * *
6174017 CACCACTATCACCATCCCCACCACCTTCACCACAGTCATCAGCAT
1 CACCACCATCACCATCCCCACCACCTCCACAACAATCATCAGCAT
* * *
6174062 CATCATCATCACCATCCCCACCACCTCCACAACAATCATCATCAT
1 CACCACCATCACCATCCCCACCACCTCCACAACAATCATCAGCAT
*
6174107 CACCACCACCACCA
1 CACCACCATCACCA
6174121 CCACCTAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.50, G:0.02, T:0.16
Consensus pattern (45 bp):
CACCACCATCACCATCCCCACCACCTCCACAACAATCATCAGCAT
Found at i:6177359 original size:2 final size:2
Alignment explanation
Indices: 6177354--6177379 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6177344 GCGCACATAC
6177354 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6177380 GAATGTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6183245 original size:32 final size:32
Alignment explanation
Indices: 6183192--6183252 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
6183182 TGAGTTATTT
* *
6183192 TTTTATTGTTTTTTGTATGCATGTGTTGTTTG
1 TTTTATTATTTTTTGTATGCATGTATTGTTTG
*
6183224 TTTTATTA-TTTTTGTTTTGCATGTATTGT
1 TTTTATTATTTTTTG-TATGCATGTATTGT
6183253 ATAAGTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.11, C:0.03, G:0.18, T:0.67
Consensus pattern (32 bp):
TTTTATTATTTTTTGTATGCATGTATTGTTTG
Found at i:6183308 original size:11 final size:11
Alignment explanation
Indices: 6183281--6183324 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
6183271 GGTTCCTAAG
6183281 TTTTGGTATTG-
1 TTTTGG-ATTGA
6183292 TGTTTGGATTGA
1 T-TTTGGATTGA
6183304 TTTTGGATTGA
1 TTTTGGATTGA
6183315 TTTTGGATTG
1 TTTTGGATTG
6183325 TTGTTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 25 0.81
12 6 0.19
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (11 bp):
TTTTGGATTGA
Found at i:6186598 original size:15 final size:16
Alignment explanation
Indices: 6186574--6186606 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6186564 TTTTGTTTTA
6186574 TTTTATAATTTCACAT
1 TTTTATAATTTCACAT
6186590 TTTTA-AATTTCACAT
1 TTTTATAATTTCACAT
6186605 TT
1 TT
6186607 AAAAAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTATAATTTCACAT
Found at i:6187185 original size:16 final size:16
Alignment explanation
Indices: 6187170--6187382 Score: 111
Period size: 16 Copynumber: 13.4 Consensus size: 16
6187160 TTAGCATTTC
*
6187170 AAGGTTTTAGGGTTTC
1 AAGGTTTTAGGGTTTT
* * * *
6187186 ACGATTTTAAGGTTTC
1 AAGGTTTTAGGGTTTT
*
6187202 GAGGTTTTAGGG-TTT
1 AAGGTTTTAGGGTTTT
* *
6187217 --GGTACTTTAGTGCTTT
1 AAGGT--TTTAGGGTTTT
*
6187233 -AGGATTTTAGGGTTTC
1 AAGG-TTTTAGGGTTTT
*
6187249 AA-GTTTTAAGGTTTT
1 AAGGTTTTAGGGTTTT
* * *
6187264 AAAGTTTTAAGATTTT
1 AAGGTTTTAGGGTTTT
* *
6187280 GAGATTTTTAGGGTTTT
1 AAG-GTTTTAGGGTTTT
6187297 AAGGTTTTAGGGTTTT
1 AAGGTTTTAGGGTTTT
*
6187313 AAGGTTTT-GGATTTT
1 AAGGTTTTAGGGTTTT
*
6187328 AAGGTTTT-GAAGTTTT
1 AAGGTTTTAG-GGTTTT
* *
6187344 -AGGTTTTTGAGATTTT
1 AAGGTTTTAG-GGTTTT
* *
6187360 TAGGATTTTAAGGTTTT
1 AAGG-TTTTAGGGTTTT
6187377 -AGGTTT
1 AAGGTTT
6187383 CAAAGTTTTA
Statistics
Matches: 155, Mismatches: 30, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
13 3 0.02
15 45 0.29
16 79 0.51
17 23 0.15
18 5 0.03
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.50
Consensus pattern (16 bp):
AAGGTTTTAGGGTTTT
Found at i:6187329 original size:15 final size:15
Alignment explanation
Indices: 6187293--6187350 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
6187283 ATTTTTAGGG
*
6187293 TTTTAAGGTTTTAGGG
1 TTTTAAGGTTTT-GGA
6187309 TTTTAAGGTTTTGGA
1 TTTTAAGGTTTTGGA
*
6187324 TTTTAAGGTTTTGAA
1 TTTTAAGGTTTTGGA
6187339 GTTTT-AGGTTTT
1 -TTTTAAGGTTTT
6187351 TGAGATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
15 23 0.59
16 16 0.41
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
TTTTAAGGTTTTGGA
Found at i:6187333 original size:23 final size:23
Alignment explanation
Indices: 6187293--6187513 Score: 80
Period size: 23 Copynumber: 9.4 Consensus size: 23
6187283 ATTTTTAGGG
*
6187293 TTTTAAGGTTTTAGGGTTTTAAGG-
1 TTTTAAGGTTTTAAGGTTTT--GGA
*
6187317 TTTT--GGATTTTAAGGTTTTGAA
1 TTTTAAGG-TTTTAAGGTTTTGGA
* *
6187339 GTTTT-AGGTTTTTGAGATTTTTAGGA
1 -TTTTAAGG-TTTTAAG-GTTTT-GGA
***
6187365 TTTTAAGGTTTT-AGGTTTCAAA
1 TTTTAAGGTTTTAAGGTTTTGGA
* ** *
6187387 GTTTTAAGATTTCGAGGTTTTAGA
1 -TTTTAAGGTTTTAAGGTTTTGGA
*
6187411 TTTTAAGGTTTCCAA-GTTTTGGA
1 TTTTAAGGTTT-TAAGGTTTTGGA
* * *
6187434 TTTTAAGGTTTCAAAGTTTTAGGG
1 TTTTAAGGTTTTAAGGTTTT-GGA
* * *
6187458 TTTGAA-ATTTTAAGGTTTTGTAA
1 TTTTAAGGTTTTAAGGTTTTG-GA
* * *
6187481 TTTTAAAGTCTTGAGGTTTTAGG-
1 TTTTAAGGTTTTAAGGTTTT-GGA
*
6187504 TCTTAAGGTT
1 TTTTAAGGTT
6187514 GAGAGTGTTA
Statistics
Matches: 150, Mismatches: 32, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
21 1 0.01
22 7 0.05
23 83 0.55
24 41 0.27
25 13 0.09
26 5 0.03
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (23 bp):
TTTTAAGGTTTTAAGGTTTTGGA
Found at i:6187398 original size:31 final size:30
Alignment explanation
Indices: 6187357--6187454 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 30
6187347 TTTTTGAGAT
*
6187357 TTTTAGGATTTTAAGGTTTTAGGTTTCAAAG
1 TTTTAAGATTTT-AGGTTTTAGGTTTCAAAG
* * * *
6187388 TTTTAAGATTTCGAGGTTTTAGATTTTAAGG
1 TTTTAAGATTT-TAGGTTTTAGGTTTCAAAG
*
6187419 TTTCCAAG-TTTT-GGATTTTAAGGTTTCAAAG
1 TTT-TAAGATTTTAGG-TTTT-AGGTTTCAAAG
6187450 TTTTA
1 TTTTA
6187455 GGGTTTGAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
29 2 0.04
30 5 0.10
31 42 0.81
32 3 0.06
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.49
Consensus pattern (30 bp):
TTTTAAGATTTTAGGTTTTAGGTTTCAAAG
Found at i:6187398 original size:72 final size:73
Alignment explanation
Indices: 6187244--6187444 Score: 225
Period size: 72 Copynumber: 2.8 Consensus size: 73
6187234 GGATTTTAGG
* *
6187244 GTTTCAAG-TTTTAAGGTTTTAAAGTTTTAAGATTTTGAGATTTTTAGGGTTTTAAGGTTTTAGG
1 GTTTTAAGATTTTAAGGTTTTAAAGTTTTAAGATTTTGAGATTTTTAGGATTTTAAGGTTTTAGG
* *
6187308 GTTTTAAG
66 GTTTCAAA
* * * *
6187316 GTTTT-GGATTTTAAGGTTTTGAAGTTTTAGGTTTTTGAGATTTTTAGGATTTTAAGGTTTTA-G
1 GTTTTAAGATTTTAAGGTTTTAAAGTTTTAAGATTTTGAGATTTTTAGGATTTTAAGGTTTTAGG
6187379 GTTTCAAA
66 GTTTCAAA
** * * ** *
6187387 GTTTTAAGATTTCGAGGTTTTAGA-TTTTAAGGTTTCCA-AGTTTT-GGATTTTAAGGTTT
1 GTTTTAAGATTTTAAGGTTTTAAAGTTTTAAGATTTTGAGATTTTTAGGATTTTAAGGTTT
6187445 CAAAGTTTTA
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
69 14 0.13
70 5 0.05
71 23 0.21
72 67 0.61
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (73 bp):
GTTTTAAGATTTTAAGGTTTTAAAGTTTTAAGATTTTGAGATTTTTAGGATTTTAAGGTTTTAGG
GTTTCAAA
Found at i:6187476 original size:8 final size:8
Alignment explanation
Indices: 6187237--6187476 Score: 133
Period size: 8 Copynumber: 30.5 Consensus size: 8
6187227 TGCTTTAGGA
*
6187237 TTTTAGGG
1 TTTTAAGG
*
6187245 TTTCAA-G
1 TTTTAAGG
6187252 TTTTAAGG
1 TTTTAAGG
*
6187260 TTTTAAAG
1 TTTTAAGG
*
6187268 TTTTAAGA
1 TTTTAAGG
* *
6187276 TTTTGAGAT
1 TTTTAAG-G
*
6187285 TTTTAGGG
1 TTTTAAGG
6187293 TTTTAAGG
1 TTTTAAGG
*
6187301 TTTTAGGG
1 TTTTAAGG
6187309 TTTTAAGG
1 TTTTAAGG
6187317 TTTT--GG
1 TTTTAAGG
6187323 ATTTTAAGG
1 -TTTTAAGG
6187332 TTTTGAA-G
1 TTTT-AAGG
6187340 TTTT-AGG
1 TTTTAAGG
* *
6187347 TTTTTGAGA
1 -TTTTAAGG
*
6187356 TTTTTAGG
1 TTTTAAGG
6187364 ATTTTAAGG
1 -TTTTAAGG
6187373 TTTT-AGG
1 TTTTAAGG
* *
6187380 TTTCAAAG
1 TTTTAAGG
*
6187388 TTTTAAGA
1 TTTTAAGG
**
6187396 TTTCGAGG
1 TTTTAAGG
*
6187404 TTTT-AGA
1 TTTTAAGG
6187411 TTTTAAGG
1 TTTTAAGG
*
6187419 TTTCCAA-G
1 TTT-TAAGG
6187427 TTTT--GG
1 TTTTAAGG
6187433 ATTTTAAGG
1 -TTTTAAGG
* *
6187442 TTTCAAAG
1 TTTTAAGG
*
6187450 TTTTAGGG
1 TTTTAAGG
* *
6187458 TTTGAA-A
1 TTTTAAGG
6187465 TTTTAAGG
1 TTTTAAGG
6187473 TTTT
1 TTTT
6187477 GTAATTTTAA
Statistics
Matches: 173, Mismatches: 41, Indels: 36
0.69 0.16 0.14
Matches are distributed among these distances:
6 4 0.02
7 32 0.18
8 115 0.66
9 22 0.13
ACGTcount: A:0.24, C:0.03, G:0.23, T:0.50
Consensus pattern (8 bp):
TTTTAAGG
Found at i:6188668 original size:17 final size:19
Alignment explanation
Indices: 6188649--6188684 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6188639 TCTTTTCCAC
6188649 TTTT-CTTTTTCTTCCTCT
1 TTTTCCTTTTTCTTCCTCT
*
6188667 TTTTCCTTTTTTTTCCTC
1 TTTTCCTTTTTCTTCCTC
6188685 AATTTCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTCCTTTTTCTTCCTCT
Found at i:6190559 original size:35 final size:35
Alignment explanation
Indices: 6190519--6190700 Score: 125
Period size: 35 Copynumber: 5.2 Consensus size: 35
6190509 GCCAGTTGAG
* *
6190519 AAATAAATATGACTAGGACTGAACCATGAGTCAAA
1 AAATAAAGATGACTAGGACTGAACCATAAGTCAAA
* *
6190554 GAATAAAGATGACTAGGACTGAGCCATAAGTCAAA
1 AAATAAAGATGACTAGGACTGAACCATAAGTCAAA
* ** * * * *
6190589 AAATAAAAACAACTAGAACTGAATCACAAGTTAAA
1 AAATAAAGATGACTAGGACTGAACCATAAGTCAAA
* * * * * ****
6190624 GAATAATGATGACT-GAGATTGAGCCACAAGTTGTG
1 AAATAAAGATGACTAG-GACTGAACCATAAGTCAAA
* **
6190659 AAATAATA-ATGATTAGGACTGAACTGTAAGTCAAA
1 AAATAA-AGATGACTAGGACTGAACCATAAGTCAAA
6190694 AAATAAA
1 AAATAAA
6190701 AAAAATCGAG
Statistics
Matches: 107, Mismatches: 37, Indels: 7
0.71 0.25 0.05
Matches are distributed among these distances:
34 2 0.02
35 104 0.97
36 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (35 bp):
AAATAAAGATGACTAGGACTGAACCATAAGTCAAA
Found at i:6192192 original size:27 final size:28
Alignment explanation
Indices: 6192139--6192197 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
6192129 ATCGTCTCAT
* *
6192139 TTTTCATTTTTCATTTTATTGTGTTTTG
1 TTTTCATTTTTCATTTTATTGTCTTTTA
*
6192167 TTTTCA-TTTTCATTTT-TCTTTCTTTTA
1 TTTTCATTTTTCATTTTAT-TGTCTTTTA
6192194 TTTT
1 TTTT
6192198 GTTTTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 20 0.74
28 6 0.22
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.75
Consensus pattern (28 bp):
TTTTCATTTTTCATTTTATTGTCTTTTA
Found at i:6192202 original size:5 final size:5
Alignment explanation
Indices: 6192189--6192227 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
6192179 TTTTTCTTTC
* * *
6192189 TTTTA TTTTG TTTTG TTTTA TTTTG TTTTA TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
6192228 TACTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:6192207 original size:15 final size:15
Alignment explanation
Indices: 6192152--6192227 Score: 73
Period size: 15 Copynumber: 4.9 Consensus size: 15
6192142 TCATTTTTCA
* *
6192152 TTTTATTGTGTTTTG
1 TTTTATTTTATTTTG
6192167 TTTTCATTTTCATTTT-
1 TTTT-ATTTT-ATTTTG
*
6192183 TCTTTCTTTTATTTTG
1 T-TTTATTTTATTTTG
*
6192199 TTTTGTTTTATTTTG
1 TTTTATTTTATTTTG
*
6192214 TTTTATTTTGTTTT
1 TTTTATTTTATTTT
6192228 TACTTTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
15 34 0.67
16 10 0.20
17 7 0.14
ACGTcount: A:0.08, C:0.05, G:0.09, T:0.78
Consensus pattern (15 bp):
TTTTATTTTATTTTG
Found at i:6192237 original size:10 final size:10
Alignment explanation
Indices: 6192152--6192227 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
6192142 TCATTTTTCA
*
6192152 TTTTATTGTG
1 TTTTATTTTG
* *
6192162 TTTTGTTTTCA
1 TTTTATTTT-G
6192173 TTTTCATTTT-
1 TTTT-ATTTTG
* *
6192183 TCTTTCTTTTA
1 T-TTTATTTTG
*
6192194 TTTTGTTTTG
1 TTTTATTTTG
6192204 TTTTATTTTG
1 TTTTATTTTG
6192214 TTTTATTTTG
1 TTTTATTTTG
6192224 TTTT
1 TTTT
6192228 TACTTTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
10 42 0.78
11 8 0.15
12 4 0.07
ACGTcount: A:0.08, C:0.05, G:0.09, T:0.78
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:6194568 original size:16 final size:16
Alignment explanation
Indices: 6194547--6194577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6194537 AAATCAATTC
6194547 AAATCATCATAATCAT
1 AAATCATCATAATCAT
*
6194563 AAATCATCATTATCA
1 AAATCATCATAATCA
6194578 ATCGTTTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATCATCATAATCAT
Found at i:6205106 original size:16 final size:16
Alignment explanation
Indices: 6205071--6205105 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
6205061 TTTTATTTAA
6205071 TTTTATAATTTCACAT
1 TTTTATAATTTCACAT
6205087 TTTTA-AATTTCACAT
1 TTTTATAATTTCACAT
6205102 TTTT
1 TTTT
6205106 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTATAATTTCACAT
Found at i:6205775 original size:8 final size:8
Alignment explanation
Indices: 6205749--6205832 Score: 64
Period size: 8 Copynumber: 10.5 Consensus size: 8
6205739 AGGTTTGGAA
6205749 TTTTAAGG
1 TTTTAAGG
* *
6205757 TTTCAAAG
1 TTTTAAGG
6205765 TTTTAAGG
1 TTTTAAGG
*
6205773 TTTTAAGAT
1 TTTTAAG-G
*
6205782 TTTTAGGG
1 TTTTAAGG
6205790 TTTTAAGG
1 TTTTAAGG
6205798 TTTT--GG
1 TTTTAAGG
*
6205804 ATTTTAAAG
1 -TTTTAAGG
* *
6205813 TTTCAAAG
1 TTTTAAGG
*
6205821 TTTTAGGG
1 TTTTAAGG
6205829 TTTT
1 TTTT
6205833 GAGTTTTTGG
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
6 2 0.03
7 4 0.07
8 46 0.78
9 7 0.12
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.51
Consensus pattern (8 bp):
TTTTAAGG
Found at i:6205791 original size:17 final size:17
Alignment explanation
Indices: 6205749--6205801 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
6205739 AGGTTTGGAA
* *
6205749 TTTTAAGGTTTCAA-AG
1 TTTTAAGGTTTTAAGAT
6205765 TTTTAAGGTTTTAAGAT
1 TTTTAAGGTTTTAAGAT
* *
6205782 TTTTAGGGTTTTAAGGT
1 TTTTAAGGTTTTAAGAT
6205799 TTT
1 TTT
6205802 GGATTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.53
Consensus pattern (17 bp):
TTTTAAGGTTTTAAGAT
Found at i:6205809 original size:56 final size:55
Alignment explanation
Indices: 6205727--6205848 Score: 160
Period size: 56 Copynumber: 2.2 Consensus size: 55
6205717 TGCTTTAGTA
* *
6205727 TTTTAGTGTTTT-AGGTTTGGAATTTTAAGGTTTCAAAGTTTTAAGGTTTTAAGAT
1 TTTTAGGGTTTTAAGGTTTGGAATTTTAAAGTTTCAAAGTTTTAAGGTTTTAAG-T
* *
6205782 TTTTAGGGTTTTAAGGTTTTGG-ATTTTAAAGTTTCAAAGTTTTAGGGTTTTGAGT
1 TTTTAGGGTTTTAAGG-TTTGGAATTTTAAAGTTTCAAAGTTTTAAGGTTTTAAGT
*
6205837 TTTT-GGATTTTA
1 TTTTAGGGTTTTA
6205849 GAGTTTCGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
54 7 0.12
55 16 0.27
56 32 0.53
57 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.52
Consensus pattern (55 bp):
TTTTAGGGTTTTAAGGTTTGGAATTTTAAAGTTTCAAAGTTTTAAGGTTTTAAGT
Found at i:6205831 original size:39 final size:39
Alignment explanation
Indices: 6205782--6205861 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
6205772 GTTTTAAGAT
6205782 TTTTAGGGTTTTAAGGTTTTGGATTTTAAAGTTTCAAAG
1 TTTTAGGGTTTTAAGGTTTTGGATTTTAAAGTTTCAAAG
* * * *
6205821 TTTTAGGGTTTTGAGTTTTTGGATTTTAGAGTTTCGAAG
1 TTTTAGGGTTTTAAGGTTTTGGATTTTAAAGTTTCAAAG
6205860 TT
1 TT
6205862 GTTTAAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (39 bp):
TTTTAGGGTTTTAAGGTTTTGGATTTTAAAGTTTCAAAG
Found at i:6206655 original size:2 final size:2
Alignment explanation
Indices: 6206648--6206675 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6206638 TAAAAATGTG
6206648 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
6206676 ATAGAATAAC
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:6215910 original size:22 final size:21
Alignment explanation
Indices: 6215885--6215928 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
6215875 ATCTGAAATT
6215885 AATAAAATATTAATTTTTTTAAA
1 AATAAAATATT-A-TTTTTTAAA
6215908 ATATAAAATATTATTTTTTAA
1 A-ATAAAATATTATTTTTTAA
6215929 TATAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATAAAATATTATTTTTTAAA
Found at i:6215951 original size:16 final size:17
Alignment explanation
Indices: 6215924--6215956 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6215914 AATATTATTT
*
6215924 TTTAATATAAATTTAAA
1 TTTAATATAAATATAAA
6215941 TTTAA-ATAAATATAAA
1 TTTAATATAAATATAAA
6215957 ATATATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAATATAAATATAAA
Found at i:6216255 original size:19 final size:18
Alignment explanation
Indices: 6216227--6216271 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
6216217 TTTAGGTGAA
6216227 TTTTATTTTGCTTTACAT
1 TTTTATTTTGCTTTACAT
* *
6216245 TTTTCATTTTGTTTTATAT
1 TTTT-ATTTTGCTTTACAT
6216264 TTTGTATT
1 TTT-TATT
6216272 CCAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.17
19 18 0.78
20 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (18 bp):
TTTTATTTTGCTTTACAT
Found at i:6218374 original size:27 final size:27
Alignment explanation
Indices: 6218338--6218391 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6218328 TCTATTATAA
* *
6218338 AATAATATAA-AATAAACTCTTATAAAT
1 AATAAAATAACAATAAA-ACTTATAAAT
*
6218365 AATAAAATAACAGTAAAACTTATAAAT
1 AATAAAATAACAATAAAACTTATAAAT
6218392 CTACAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (27 bp):
AATAAAATAACAATAAAACTTATAAAT
Found at i:6221594 original size:28 final size:28
Alignment explanation
Indices: 6221562--6221622 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
6221552 AGTTATGATG
* *
6221562 TTGTTAAATAGCTGTTGATGTTCTATTT
1 TTGTTAAATAGCTATTGATGTTCTAATT
*
6221590 TTGTTAAATAGCTATTTATGTTCTAATT
1 TTGTTAAATAGCTATTGATGTTCTAATT
6221618 TTGTT
1 TTGTT
6221623 GATGTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.56
Consensus pattern (28 bp):
TTGTTAAATAGCTATTGATGTTCTAATT
Found at i:6246788 original size:52 final size:52
Alignment explanation
Indices: 6246721--6246827 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
6246711 CTAATGTAAA
*
6246721 TTGACTTGCAAGAGAAGAATTCTAA-AAGGAAAAGGATTCTTAATAGGCAAGT
1 TTGACTTACAAGAGAAGAATTCTAAGAA-GAAAAGGATTCTTAATAGGCAAGT
* * * *
6246773 TTGACTTACAGGAGAAGAATTCTAAGAAGAGAGGGATTCTTAATGGGCAAGT
1 TTGACTTACAAGAGAAGAATTCTAAGAAGAAAAGGATTCTTAATAGGCAAGT
6246825 TTG
1 TTG
6246828 TATGGTTATA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 47 0.96
53 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (52 bp):
TTGACTTACAAGAGAAGAATTCTAAGAAGAAAAGGATTCTTAATAGGCAAGT
Found at i:6247723 original size:11 final size:11
Alignment explanation
Indices: 6247707--6247737 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
6247697 AATCCCATAA
6247707 GAGATTTGTTT
1 GAGATTTGTTT
6247718 GAGATTTGTTT
1 GAGATTTGTTT
6247729 GAGATTTGT
1 GAGATTTGT
6247738 CAGATATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:6247848 original size:52 final size:51
Alignment explanation
Indices: 6247762--6247918 Score: 206
Period size: 52 Copynumber: 3.0 Consensus size: 51
6247752 TGGACAAGAA
* * * *
6247762 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAA-AGGATTCTTAATAGGCAAGTTT
6247814 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAA-GAAAAGGATTCTTAATAGGCAAGTTT
* * * * *
6247866 GACTTACAGGAGAAGAATTCTAAGAAGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAA-AAGAAAAGGATTCTTAATAGGCAAGTTT
6247918 G
1 G
6247919 TATGGTTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 88 0.94
53 6 0.06
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:6248966 original size:33 final size:33
Alignment explanation
Indices: 6248929--6249032 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 33
6248919 TATTTTTTTG
* *
6248929 AAAATAAATTTTTGATAAATTATATAA-TTTTCA
1 AAAATAAATTTTTGAAAAATGATA-AACTTTTCA
* *
6248962 AAAATAAATTTATGAAAAATGATAAATCTTTTCG
1 AAAATAAATTTTTGAAAAATGATAAA-CTTTTCA
* *
6248996 AAAATAAATTTTT-AAAAACTTAT-GACTTTTCA
1 AAAATAAATTTTTGAAAAA-TGATAAACTTTTCA
6249028 AAAAT
1 AAAAT
6249033 TCATTTACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
32 13 0.22
33 27 0.45
34 20 0.33
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (33 bp):
AAAATAAATTTTTGAAAAATGATAAACTTTTCA
Found at i:6249164 original size:33 final size:33
Alignment explanation
Indices: 6249127--6249231 Score: 95
Period size: 34 Copynumber: 3.1 Consensus size: 33
6249117 TAAAAAGTCA
**
6249127 ATAATATTTCGAAATTTATTTTAAAAAAATTAT
1 ATAATATTTAAAAATTTATTTTAAAAAAATTAT
* * *
6249160 ATAATTTTTTAAAATTTTATTTTTAAAAAATT-T
1 ATAA-TATTTAAAAATTTATTTTAAAAAAATTAT
* * **
6249193 ATGATATTTTATAAATTTATTTTCAAAAATTTTAT
1 ATAATA-TTTAAAAATTTATTTT-AAAAAAATTAT
6249228 ATAA
1 ATAA
6249232 AAAAATAATT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
32 1 0.02
33 22 0.40
34 28 0.51
35 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (33 bp):
ATAATATTTAAAAATTTATTTTAAAAAAATTAT
Found at i:6249188 original size:34 final size:34
Alignment explanation
Indices: 6249138--6249231 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
6249128 TAATATTTCG
*
6249138 AAATTTATTTTAAAAAAATTATATAATTTTTTA-
1 AAATTTATTTTAAAAAAATTATATAATATTTTAT
* *
6249171 AAATTTTATTTTTAAAAAATT-TATGATATTTTAT
1 AAA-TTTATTTTAAAAAAATTATATAATATTTTAT
**
6249205 AAATTTATTTTCAAAAATTTTATATAA
1 AAATTTATTTT-AAAAAAATTATATAA
6249232 AAAAATAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
33 21 0.42
34 25 0.50
35 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (34 bp):
AAATTTATTTTAAAAAAATTATATAATATTTTAT
Found at i:6253906 original size:17 final size:18
Alignment explanation
Indices: 6253873--6253907 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6253863 AAACATGATG
*
6253873 TTGGCATGAAGTGGATAT
1 TTGGCATGAACTGGATAT
6253891 TTGGCATG-ACTGGATAT
1 TTGGCATGAACTGGATAT
6253908 GCAATGATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.31, T:0.34
Consensus pattern (18 bp):
TTGGCATGAACTGGATAT
Found at i:6257297 original size:16 final size:17
Alignment explanation
Indices: 6257258--6257290 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6257248 GTTTTACTTG
6257258 ATAAA-AAAAGATAAAA
1 ATAAATAAAAGATAAAA
6257274 ATAAATAAAA-ATAAAA
1 ATAAATAAAAGATAAAA
6257290 A
1 A
6257291 ACAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
ATAAATAAAAGATAAAA
Found at i:6258529 original size:2 final size:2
Alignment explanation
Indices: 6258522--6258551 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6258512 TACGTAAATA
6258522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6258552 CTACAGATTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6264501 original size:16 final size:16
Alignment explanation
Indices: 6264476--6264557 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 16
6264466 GAGTGAAGTG
6264476 AAAAAAAATGAAAAGA
1 AAAAAAAATGAAAAGA
6264492 AAAAAGAATGATGAAAA-A
1 AAAAA-AA--ATGAAAAGA
*
6264510 ATAAGAAAATGAAAAGA
1 A-AAAAAAATGAAAAGA
6264527 AAAAAAAATGTGAAAAAGA
1 AAAAAAAA--TG-AAAAGA
*
6264546 AAAGAAAATGAA
1 AAAAAAAATGAA
6264558 GGCTCAAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
16 20 0.36
17 6 0.11
18 6 0.11
19 23 0.42
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (16 bp):
AAAAAAAATGAAAAGA
Found at i:6264502 original size:35 final size:35
Alignment explanation
Indices: 6264480--6264557 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 35
6264470 GAAGTGAAAA
*
6264480 AAAATGAAAAGAAAAAAGAATGATGAAAAAATAAG
1 AAAATGAAAAGAAAAAAAAATGATGAAAAAATAAG
*
6264515 AAAATGAAAAGAAAAAAAAATG-TGAAAAAGAAAAG
1 AAAATGAAAAGAAAAAAAAATGATGAAAAA-ATAAG
6264550 AAAATGAA
1 AAAATGAA
6264558 GGCTCAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 7 0.17
35 33 0.82
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (35 bp):
AAAATGAAAAGAAAAAAAAATGATGAAAAAATAAG
Found at i:6264505 original size:19 final size:19
Alignment explanation
Indices: 6264483--6264548 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 19
6264473 GTGAAAAAAA
6264483 ATGAAAAGAAAAAAGAATG
1 ATGAAAAGAAAAAAGAATG
* *
6264502 ATG-AAA-AAATAAGAA-A
1 ATGAAAAGAAAAAAGAATG
*
6264518 ATGAAAAGAAAAAAAAATG
1 ATGAAAAGAAAAAAGAATG
6264537 -TGAAAAAGAAAA
1 ATG-AAAAGAAAA
6264549 GAAAATGAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 11 0.29
18 12 0.32
19 12 0.32
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.11
Consensus pattern (19 bp):
ATGAAAAGAAAAAAGAATG
Found at i:6264532 original size:24 final size:24
Alignment explanation
Indices: 6264505--6264553 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6264495 AAGAATGATG
*
6264505 AAAAAATAAGAAAATGAAAAGAAA
1 AAAAAATAAGAAAAAGAAAAGAAA
**
6264529 AAAAAATGTGAAAAAGAAAAGAAA
1 AAAAAATAAGAAAAAGAAAAGAAA
6264553 A
1 A
6264554 TGAAGGCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (24 bp):
AAAAAATAAGAAAAAGAAAAGAAA
Found at i:6266385 original size:18 final size:19
Alignment explanation
Indices: 6266363--6266410 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
6266353 AATCTTTGAA
6266363 CTTTTACAAATTTTTAAAT
1 CTTTTACAAATTTTTAAAT
* *
6266382 -TTTTACGAATTTTTGAAT
1 CTTTTACAAATTTTTAAAT
*
6266400 CTCTTACAAAT
1 CTTTTACAAAT
6266411 CTTGAATCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.50
Consensus pattern (19 bp):
CTTTTACAAATTTTTAAAT
Found at i:6266429 original size:18 final size:19
Alignment explanation
Indices: 6266408--6266476 Score: 74
Period size: 18 Copynumber: 3.8 Consensus size: 19
6266398 ATCTCTTACA
6266408 AATC-TTGAATCTTATGTG
1 AATCTTTGAATCTTATGTG
*
6266426 AATCTTTGAATCTT-TGCG
1 AATCTTTGAATCTTATGTG
* *
6266444 AATC-TT-AAGTATTTTGTG
1 AATCTTTGAA-TCTTATGTG
6266462 AATCTTTGAATCTTA
1 AATCTTTGAATCTTA
6266477 AAATTTTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.05
17 5 0.12
18 18 0.44
19 14 0.34
20 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
AATCTTTGAATCTTATGTG
Found at i:6266490 original size:25 final size:27
Alignment explanation
Indices: 6266434--6266492 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
6266424 TGAATCTTTG
* *
6266434 AATCTTTGCGAATCTTAAGTATTTTGTG
1 AATCTTT-CGAATCTTAAGAATTTTGTA
6266462 AATCTTT-GAATCTTAA-AATTTTGTA
1 AATCTTTCGAATCTTAAGAATTTTGTA
6266487 AATCTT
1 AATCTT
6266493 AAATCACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.45
26 9 0.31
28 7 0.24
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (27 bp):
AATCTTTCGAATCTTAAGAATTTTGTA
Found at i:6266564 original size:18 final size:19
Alignment explanation
Indices: 6266543--6266625 Score: 82
Period size: 19 Copynumber: 4.5 Consensus size: 19
6266533 TTTTCAAAAT
6266543 TTTGAAT-TTTTACGAATA
1 TTTGAATCTTTTACGAATA
* ** *
6266561 TTTGAATCTCTTGTGAATC
1 TTTGAATCTTTTACGAATA
6266580 TTTGAAT-TTTTACGAAT-
1 TTTGAATCTTTTACGAATA
* * *
6266597 CTTGAATCTTTTGCAAATA
1 TTTGAATCTTTTACGAATA
6266616 TTTGAATCTT
1 TTTGAATCTT
6266626 AAATCTTGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
17 6 0.12
18 22 0.43
19 23 0.45
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (19 bp):
TTTGAATCTTTTACGAATA
Found at i:6266584 original size:55 final size:55
Alignment explanation
Indices: 6266515--6266624 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 55
6266505 AATCTTGAAA
* *
6266515 CTTGTGAATCTTTGAACTTTTT-CAAAATTTTGAAT-TTTTACGAATATTTGAATCT
1 CTTGTGAATCTTTGAA-TTTTTAC-AAATCTTGAATCTTTTACAAATATTTGAATCT
* *
6266570 CTTGTGAATCTTTGAATTTTTACGAATCTTGAATCTTTTGCAAATATTTGAATCT
1 CTTGTGAATCTTTGAATTTTTACAAATCTTGAATCTTTTACAAATATTTGAATCT
6266625 TAAATCTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 14 0.29
55 35 0.71
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (55 bp):
CTTGTGAATCTTTGAATTTTTACAAATCTTGAATCTTTTACAAATATTTGAATCT
Found at i:6266636 original size:33 final size:33
Alignment explanation
Indices: 6266594--6266676 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
6266584 AATTTTTACG
*
6266594 AATCTTGAATCTTTTGCAAATATTTGAATCTT-A
1 AATCTTGAATCTTTTGCAAATA-TTGAAACTTCA
**
6266627 AATCTTGAATCACTTGCAAATATTGAAACTTGCA
1 AATCTTGAATCTTTTGCAAATATTGAAACTT-CA
6266661 AATCTTTGAA-CTTTTG
1 AATC-TTGAATCTTTTG
6266677 TGAATCTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
32 8 0.19
33 20 0.48
34 9 0.21
35 5 0.12
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (33 bp):
AATCTTGAATCTTTTGCAAATATTGAAACTTCA
Found at i:6266659 original size:16 final size:16
Alignment explanation
Indices: 6266607--6266663 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
6266597 CTTGAATCTT
*
6266607 TTGCAAATATTTGAATC
1 TTGCAAATA-TTGAAAC
*
6266624 TT--AAATCTTGAATCAC
1 TTGCAAATATTGAA--AC
6266640 TTGCAAATATTGAAAC
1 TTGCAAATATTGAAAC
6266656 TTGCAAAT
1 TTGCAAAT
6266664 CTTTGAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 13 0.39
17 2 0.06
18 9 0.27
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (16 bp):
TTGCAAATATTGAAAC
Found at i:6266714 original size:36 final size:36
Alignment explanation
Indices: 6266562--6266909 Score: 172
Period size: 36 Copynumber: 9.8 Consensus size: 36
6266552 TTACGAATAT
* * *
6266562 TTGAATCTCTTGTGAATCTTTGAATTTTTACGAATC
1 TTGAATCTCTTGTGAATCTTTGAACTTTTGCAAATC
* ** * *
6266598 TTGAATCTTTTGCAAATATTTGAA-TCTT--AAATC
1 TTGAATCTCTTGTGAATCTTTGAACTTTTGCAAATC
* ** *
6266631 TTGAATCACTTGCAAAT-ATTGAAAC--TTGCAAATC
1 TTGAATCTCTTGTGAATCTTTG-AACTTTTGCAAATC
* *
6266665 TTTGAA-CTTTTGTGAATCTTTGAACTTTTGCAAATT
1 -TTGAATCTCTTGTGAATCTTTGAACTTTTGCAAATC
* **
6266701 TTGAATCTCTTGTGAAT-ATTGAATCACTTGCAAATC
1 TTGAATCTCTTGTGAATCTTTGAA-CTTTTGCAAATC
* *
6266737 TTGAA--ACTTGTGAATCTTTGAACTTTTGCGAATC
1 TTGAATCTCTTGTGAATCTTTGAACTTTTGCAAATC
* * ** * *
6266771 TTAAAAT-TTTTACGAATC-TTGAATCTCTTACAAATC
1 TT-GAATCTCTTGTGAATCTTTGAA-CTTTTGCAAATC
* *
6266807 ATTGAATCT-TTGTGAAT-TTTGAATCTTTTACGAATC
1 -TTGAATCTCTTGTGAATCTTTGAA-CTTTTGCAAATC
* * * * **
6266843 TTTGAAATTTTTTGCGAGTC-TTGAATCACTTGCAAATC
1 -TTG-AATCTCTTGTGAATCTTTGAA-CTTTTGCAAATC
6266881 -TGAAATCTCTTGTGAAT-TATTGAACTTTT
1 TTG-AATCTCTTGTGAATCT-TTGAACTTTT
6266910 TGTGAACCTT
Statistics
Matches: 238, Mismatches: 52, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
32 5 0.02
33 21 0.09
34 35 0.15
35 33 0.14
36 112 0.47
37 12 0.05
38 20 0.08
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (36 bp):
TTGAATCTCTTGTGAATCTTTGAACTTTTGCAAATC
Found at i:6266753 original size:88 final size:87
Alignment explanation
Indices: 6266570--6266814 Score: 282
Period size: 88 Copynumber: 2.8 Consensus size: 87
6266560 ATTTGAATCT
* * *
6266570 CTTGTGAATCTTTGAATTTTTACGAATC-TTGAATCTTTTGCAAATATTTGAA--TC-TTAAATC
1 CTTGTGAATCTTTGAACTTTTGCGAATCTTTGAA-CTTTTGCAAAT-TTTGAATCTCTTTAAATA
6266631 TTGAATCACTTGCAAATATTGAAA
64 TTGAATCACTTGCAAATATTGAAA
** * *
6266655 CTTGCAAATCTTTGAACTTTTGTGAATCTTTGAACTTTTGCAAATTTTGAATCTCTTGTGAATAT
1 CTTGTGAATCTTTGAACTTTTGCGAATCTTTGAACTTTTGCAAATTTTGAATCTCTT-TAAATAT
*
6266720 TGAATCACTTGCAAATCTTGAAA
65 TGAATCACTTGCAAATATTGAAA
** * * * * *
6266743 CTTGTGAATCTTTGAACTTTTGCGAATCTTAAAATTTTTACGAATCTTGAATCTCTTACAAATCA
1 CTTGTGAATCTTTGAACTTTTGCGAATCTTTGAACTTTTGCAAATTTTGAATCTCTT-TAAAT-A
6266808 TTGAATC
64 TTGAATC
6266815 TTTGTGAATT
Statistics
Matches: 134, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
84 6 0.04
85 34 0.25
86 7 0.05
87 1 0.01
88 78 0.58
89 8 0.06
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (87 bp):
CTTGTGAATCTTTGAACTTTTGCGAATCTTTGAACTTTTGCAAATTTTGAATCTCTTTAAATATT
GAATCACTTGCAAATATTGAAA
Found at i:6266771 original size:18 final size:18
Alignment explanation
Indices: 6266520--6266853 Score: 108
Period size: 18 Copynumber: 18.9 Consensus size: 18
6266510 TGAAACTTGT
*
6266520 GAATCTTTGAACTTTTTC
1 GAATCTTTGAACTTTTGC
* * *
6266538 AAAAT-TTTGAATTTTTAC
1 -GAATCTTTGAACTTTTGC
* * *
6266556 GAATATTTGAATCTCTTGT
1 GAATCTTTGAA-CTTTTGC
* *
6266575 GAATCTTTGAATTTTTAC
1 GAATCTTTGAACTTTTGC
6266593 GAATC-TTGAATCTTTTGC
1 GAATCTTTGAA-CTTTTGC
* * *
6266611 AAATATTTGAA-TCTT--
1 GAATCTTTGAACTTTTGC
* **
6266626 AAATC-TTGAATCACTTGC
1 GAATCTTTGAA-CTTTTGC
* *
6266644 AAAT-ATTGAAAC--TTGC
1 GAATCTTTG-AACTTTTGC
* *
6266660 AAATCTTTGAACTTTTGT
1 GAATCTTTGAACTTTTGC
6266678 GAATCTTTGAACTTTTGC
1 GAATCTTTGAACTTTTGC
* * *
6266696 AAAT-TTTGAATCTCTTGT
1 GAATCTTTGAA-CTTTTGC
* **
6266714 GAAT-ATTGAATCACTTGC
1 GAATCTTTGAA-CTTTTGC
* *
6266732 AAATC-TTGAAAC--TTGT
1 GAATCTTTG-AACTTTTGC
6266748 GAATCTTTGAACTTTTGC
1 GAATCTTTGAACTTTTGC
** * *
6266766 GAATCTTAAAATTTTTAC
1 GAATCTTTGAACTTTTGC
* *
6266784 GAATC-TTGAATCTCTTAC
1 GAATCTTTGAA-CTTTTGC
* * *
6266802 AAATCATTGAA-TCTTTGT
1 GAATCTTTGAACT-TTTGC
*
6266820 GAAT-TTTGAATCTTTTAC
1 GAATCTTTGAA-CTTTTGC
*
6266838 GAATCTTTGAAATTTT
1 GAATCTTTGAACTTTT
6266854 TTGCGAGTCT
Statistics
Matches: 238, Mismatches: 52, Indels: 51
0.70 0.15 0.15
Matches are distributed among these distances:
14 5 0.02
15 4 0.02
16 24 0.10
17 32 0.13
18 136 0.57
19 37 0.16
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (18 bp):
GAATCTTTGAACTTTTGC
Found at i:6266772 original size:140 final size:138
Alignment explanation
Indices: 6266485--6266758 Score: 331
Period size: 140 Copynumber: 2.0 Consensus size: 138
6266475 TAAAATTTTG
* ** *
6266485 TAAATCTTAAATCACTTGCAAATCTTGAAACTTGTGAATCTTTGAACTTTTTCAAAATTTTGAAT
1 TAAATCTTAAATCACTTGCAAATATTGAAACTTGCAAATCTTTGAACTTTTT-AAAATTTTGAAC
* * ** * * *
6266550 TTTTACGAATATTTGAATCTCTTGTGAATCTTTGAATTTTTACGAATCTTGAATCTTTTGCAAAT
65 TTTTACAAATATTTGAATCTCTTGTGAATCATTGAATACTTACAAATCTTGAAACTTGTG-AAAT
6266615 ATTTGAATCT
129 ATTTGAATCT
* *
6266625 TAAATCTTGAATCACTTGCAAATATTGAAACTTGCAAATCTTTGAACTTTTGT-GAATCTTTGAA
1 TAAATCTTAAATCACTTGCAAATATTGAAACTTGCAAATCTTTGAACTTTT-TAAAAT-TTTGAA
* *
6266689 CTTTTGCAAAT-TTTGAATCTCTTGTGAAT-ATTGAATCACTTGCAAATCTTGAAACTTGTG-AA
64 CTTTTACAAATATTTGAATCTCTTGTGAATCATTGAAT-ACTTACAAATCTTGAAACTTGTGAAA
*
6266751 TCTTTGAA
128 TATTTGAA
6266759 CTTTTGCGAA
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
137 9 0.08
138 6 0.05
139 38 0.33
140 61 0.53
141 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (138 bp):
TAAATCTTAAATCACTTGCAAATATTGAAACTTGCAAATCTTTGAACTTTTTAAAATTTTGAACT
TTTACAAATATTTGAATCTCTTGTGAATCATTGAATACTTACAAATCTTGAAACTTGTGAAATAT
TTGAATCT
Found at i:6266894 original size:74 final size:72
Alignment explanation
Indices: 6266654--6266909 Score: 233
Period size: 70 Copynumber: 3.6 Consensus size: 72
6266644 AAATATTGAA
* * * ** * **
6266654 ACTTGCAAATCTTTG-AA-CTTTTGTGAATCTTTGAACTTTTGCAAAT-TTTGAATCTCTTGTGA
1 ACTTGCAAATC-TTGAAATCTCTTGTGAAT-TTTGAACTTTTACGAATCTTAAAAT-TTTTACGA
*
6266716 ATATTGAATC
63 ATCTTGAATC
*
6266726 ACTTGCAAATCTTGAAA---CTTGTGAATCTTTGAACTTTTGCGAATCTTAAAATTTTTACGAAT
1 ACTTGCAAATCTTGAAATCTCTTGTGAAT-TTTGAACTTTTACGAATCTTAAAATTTTTACGAAT
6266788 CTTGAATC
65 CTTGAATC
* * * *
6266796 TCTTACAAATCATTG-AATCT-TTGTGAATTTTGAATCTTTTACGAATCTTTGAAATTTTTTGCG
1 ACTTGCAAATC-TTGAAATCTCTTGTGAATTTTGAA-CTTTTACGAATC-TT-AAAATTTTTACG
*
6266859 AGTCTTGAATC
62 AATCTTGAATC
6266870 ACTTGCAAATC-TGAAATCTCTTGTGAATTATTGAACTTTT
1 ACTTGCAAATCTTGAAATCTCTTGTGAATT-TTGAACTTTT
6266910 TGTGAACCTT
Statistics
Matches: 156, Mismatches: 16, Indels: 22
0.80 0.08 0.11
Matches are distributed among these distances:
70 50 0.32
71 17 0.11
72 34 0.22
73 7 0.04
74 43 0.28
75 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (72 bp):
ACTTGCAAATCTTGAAATCTCTTGTGAATTTTGAACTTTTACGAATCTTAAAATTTTTACGAATC
TTGAATC
Found at i:6267081 original size:22 final size:21
Alignment explanation
Indices: 6267018--6267115 Score: 60
Period size: 22 Copynumber: 4.6 Consensus size: 21
6267008 AATCGAGAGT
*
6267018 TTTTGAATTT--AATTACGAA
1 TTTTGAATTTCAAATTATGAA
* * *
6267037 GTTCTGAACTTCAAGTTGA-GAA
1 -TTTTGAATTTCAAATT-ATGAA
6267059 TTCTTGAATTTCAAATTATGAA
1 TT-TTGAATTTCAAATTATGAA
* *
6267081 TGTTTAAATTTTC-AATTGTGAA
1 T-TTTGAA-TTTCAAATTATGAA
6267103 CTTTTGAATTTCA
1 -TTTTGAATTTCA
6267116 GTTACGAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
20 8 0.13
21 7 0.12
22 38 0.63
23 7 0.12
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (21 bp):
TTTTGAATTTCAAATTATGAA
Found at i:6276198 original size:52 final size:52
Alignment explanation
Indices: 6276131--6276260 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
6276121 TGAACAAAAA
* * *
6276131 GACTTGCAAAAGAAAAATTTTAA-A-AAAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAAAATTTTAAGAGAAAAAG-G-ATTCTTAATAGGCAAGTTT
* * *
6276183 GACTTACAAGAGAAAAATTTTAAGAGGAAATGGATTCTTAATATGCAAGTTT
1 GACTTACAAGAGAAAAATTTTAAGAGAAAAAGGATTCTTAATAGGCAAGTTT
* *
6276235 GACTTAC-AGAAAAAAAATTCTAAGAG
1 GACTTACAAG-AGAAAAATTTTAAGAG
6276261 GAGAGTGATT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
51 2 0.03
52 59 0.88
53 2 0.03
54 4 0.06
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.28
Consensus pattern (52 bp):
GACTTACAAGAGAAAAATTTTAAGAGAAAAAGGATTCTTAATAGGCAAGTTT
Found at i:6276285 original size:52 final size:52
Alignment explanation
Indices: 6276164--6276287 Score: 155
Period size: 52 Copynumber: 2.4 Consensus size: 52
6276154 AAAAAAGAGA
* *
6276164 ATTCTTAATAGGTAAGTTTGACTTACAAGAGAAAAATTTTAAGAGGAAATGG
1 ATTCTTAATAGGTAAGTTTGACTTACAAGAAAAAAATTCTAAGAGGAAATGG
* * *
6276216 ATTCTTAATATGCAAGTTTGACTTAC-AGAAAAAAAATTCTAAGAGGAGA-GTG
1 ATTCTTAATAGGTAAGTTTGACTTACAAG-AAAAAAATTCTAAGAGGAAATG-G
6276268 ATTCTTAAT-GAGTAAGTTTG
1 ATTCTTAATAG-GTAAGTTTG
6276288 TATAGTTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
51 3 0.05
52 59 0.95
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (52 bp):
ATTCTTAATAGGTAAGTTTGACTTACAAGAAAAAAATTCTAAGAGGAAATGG
Found at i:6276893 original size:25 final size:25
Alignment explanation
Indices: 6276865--6276912 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6276855 AAAATGTGAG
* *
6276865 AAGAGCCGATGGTTTGAGATATGAA
1 AAGAGCCGATAGTTCGAGATATGAA
**
6276890 AAGAGTTGATAGTTCGAGATATG
1 AAGAGCCGATAGTTCGAGATATG
6276913 GGAAGAGCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.31, T:0.27
Consensus pattern (25 bp):
AAGAGCCGATAGTTCGAGATATGAA
Found at i:6277305 original size:52 final size:52
Alignment explanation
Indices: 6277225--6277345 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
6277215 AATTCTAAAA
* *
6277225 GAAAGAGGATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAAAATTTTAAGAG
1 GAAAGA-GATTCTTAATAGGTAAATTTGACTTACAAGAGAAAAATTTTAAGAG
* *
6277278 GAAAGAGATTCTTAATAGGTAAATTTGACTTACAAGAGAAGAATTTTAAGAT
1 GAAAGAGATTCTTAATAGGTAAATTTGACTTACAAGAGAAAAATTTTAAGAG
6277330 GAAAGAGATTCTTAAT
1 GAAAGAGATTCTTAAT
6277346 GGGCAAGTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
52 58 0.91
53 6 0.09
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (52 bp):
GAAAGAGATTCTTAATAGGTAAATTTGACTTACAAGAGAAAAATTTTAAGAG
Found at i:6291660 original size:56 final size:56
Alignment explanation
Indices: 6291574--6291681 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
6291564 AATGGGATGA
6291574 AAGTGTGGGGCTGCAAATACATACTAAAGTCTTCGAAACCAGTCGTCAAGTTAGTG
1 AAGTGTGGGGCTGCAAATACATACTAAAGTCTTCGAAACCAGTCGTCAAGTTAGTG
* *
6291630 AAGTGTGGGGCTGCAAATACATACTAAAGTCTTTGAAACCAGTCGTGAAGTT
1 AAGTGTGGGGCTGCAAATACATACTAAAGTCTTCGAAACCAGTCGTCAAGTT
6291682 GTTCATTATG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (56 bp):
AAGTGTGGGGCTGCAAATACATACTAAAGTCTTCGAAACCAGTCGTCAAGTTAGTG
Found at i:6292961 original size:28 final size:28
Alignment explanation
Indices: 6292873--6292961 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 28
6292863 AATGATAATA
* * *
6292873 TATTATGAATAAATAAATTTTTAAATATCAT
1 TATTAT-ATTAAA-AAATTTTAAAAT-TTAT
* * *
6292904 T-TTA-ATTAATAAA-TTTATAATTTAAA
1 TATTATATTAAAAAATTTTAAAATTT-AT
6292930 TATTATATTAAAAAATTTTAAAATTTAT
1 TATTATATTAAAAAATTTTAAAATTTAT
6292958 TATT
1 TATT
6292962 GCATTTAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
25 1 0.02
26 8 0.18
27 6 0.13
28 17 0.38
29 9 0.20
30 3 0.07
31 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
TATTATATTAAAAAATTTTAAAATTTAT
Found at i:6295761 original size:18 final size:18
Alignment explanation
Indices: 6295748--6295796 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
6295738 AAATATTATT
6295748 TTAAATATAAATATAAAA
1 TTAAATATAAATATAAAA
*
6295766 TTAAATATAAATTTAAATAA
1 TTAAATATAAATAT-AA-AA
*
6295786 TTAATTATAAA
1 TTAAATATAAA
6295797 AATATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAATATAAATATAAAA
Found at i:6296934 original size:75 final size:76
Alignment explanation
Indices: 6296810--6296964 Score: 294
Period size: 75 Copynumber: 2.1 Consensus size: 76
6296800 ATTTTCATCC
*
6296810 TTTCAAGACCTTCGATATTTCCACGTCATTTTTCTTTTTTAATTTTCATTCAATTTTCTGAAAAA
1 TTTCAAGACCATCGATATTTCCACGTCATTTTTCTTTTTTAATTTTCATTCAATTTTCTGAAAAA
6296875 GGGACCCACGT
66 GGGACCCACGT
6296886 TTTCAAGACCATC-ATATTTCCACGTCATTTTTCTTTTTTAATTTTCATTCAATTTTCTGAAAAA
1 TTTCAAGACCATCGATATTTCCACGTCATTTTTCTTTTTTAATTTTCATTCAATTTTCTGAAAAA
6296950 GGGACCCACGT
66 GGGACCCACGT
6296961 TTTC
1 TTTC
6296965 TTATTTTTTA
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 66 0.85
76 12 0.15
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (76 bp):
TTTCAAGACCATCGATATTTCCACGTCATTTTTCTTTTTTAATTTTCATTCAATTTTCTGAAAAA
GGGACCCACGT
Found at i:6297413 original size:6 final size:6
Alignment explanation
Indices: 6297363--6297419 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
6297353 CAAGTTATAA
* * * * * *
6297363 AGCAAA AGCAAC AGCAAG AGCAAC AACAAC AGCAAC ACCATC AGCAGC
1 AGCAAC AGCAAC AGCAAC AGCAAC AGCAAC AGCAAC AGCAAC AGCAAC
6297411 AGCAAC AGC
1 AGCAAC AGC
6297420 TCCTTGGTCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.49, C:0.32, G:0.18, T:0.02
Consensus pattern (6 bp):
AGCAAC
Found at i:6301877 original size:2 final size:2
Alignment explanation
Indices: 6301870--6301900 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6301860 TCTATTGGTA
6301870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6301901 AAACTAGCAG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6304776 original size:22 final size:21
Alignment explanation
Indices: 6304741--6304799 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
6304731 AAATTGAAGT
* *
6304741 TTGTGAATTTGAAGTGACAAGC
1 TTGTGAAATTGAAGTG-CAACC
* *
6304763 TTGTGAAATCGAAGCTGCTACC
1 TTGTGAAATTGAAG-TGCAACC
6304785 TTGTGAAATTGAAGT
1 TTGTGAAATTGAAGT
6304800 TGTTACCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (21 bp):
TTGTGAAATTGAAGTGCAACC
Found at i:6304806 original size:22 final size:22
Alignment explanation
Indices: 6304762--6304808 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6304752 AAGTGACAAG
6304762 CTTGTGAAATCGAAGCTGCTAC
1 CTTGTGAAATCGAAGCTGCTAC
* * *
6304784 CTTGTGAAATTGAAGTTGTTAC
1 CTTGTGAAATCGAAGCTGCTAC
6304806 CTT
1 CTT
6304809 CACGAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (22 bp):
CTTGTGAAATCGAAGCTGCTAC
Found at i:6307075 original size:30 final size:30
Alignment explanation
Indices: 6307023--6307098 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
6307013 GGTATAACTG
* *
6307023 CTGCTTTGGTCACTGTAG-ATGGTGTGACTA
1 CTGCTTTAGTCACT-TTGCATGGTGTGACTA
* *
6307053 CTGTTTTAGTCACTTTGCATGGTGTGACTG
1 CTGCTTTAGTCACTTTGCATGGTGTGACTA
*
6307083 CTGCTTTGGTCACTTT
1 CTGCTTTAGTCACTTT
6307099 TGGTGATGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.42
Consensus pattern (30 bp):
CTGCTTTAGTCACTTTGCATGGTGTGACTA
Found at i:6311486 original size:114 final size:113
Alignment explanation
Indices: 6311255--6311893 Score: 445
Period size: 114 Copynumber: 5.7 Consensus size: 113
6311245 TCGATCTTGG
* * * * * * * * * **
6311255 TCATCTTTAAACTCACGACATCAGTTCAGTTATTTATTTACGACCTT-AACTCGGTCTTGATCGT
1 TCATCTTCAGACTCGCGGCATCAGTTCA-TCATTTATCTACGA-CTTCGACTCGATCTTGGTCAC
* * * * * ** * *
6311319 CTTTAGACTTGCGACATCATCCTAGTTATCTGTTCTCGATTC-GGATCAGA
64 CTTTAGACTCGCGACATCATCCCAATCATCTGATCTTAACTCAGG-TCAAA
* * ** * *
6311369 TCATTTTTAGACTCATGGCATTAGTTCGATCATTTATTTACGACTTCGACTCGATCTTGGTCACC
1 TCATCTTCAGACTCGCGGCATCAGTTC-ATCATTTATCTACGACTTCGACTCGATCTTGGTCACC
* * * * * * *
6311434 TTTAGACTCACGATATCATCTCAGTCATTTGATCTCAACTTAGGTCAAA
65 TTTAGACTCGCGACATCATCCCAATCATCTGATCTTAACTCAGGTCAAA
* * * *
6311483 TCATCTTCAGACTCGCGGCATCA-ATC--CAGTCTA--TA--ACCTCAACTCGATCTTGGTCACC
1 TCATCTTCAGACTCGCGGCATCAGTTCATCA-TTTATCTACGACTTCGACTCGATCTTGGTCACC
* * * *
6311541 TTTAGACTCGCGACATCGTCCCAATCATCTGATCTTGACTCAAGTCAGA
65 TTTAGACTCGCGACATCATCCCAATCATCTGATCTTAACTCAGGTCAAA
* * * * * *
6311590 TCATCTTCAGTCTCGCGACATTAGTTCAGTCATTTATCTACTACTTCGACTCAATCTTAGTCA-C
1 TCATCTTCAGACTCGCGGCATCAGTTCA-TCATTTATCTACGACTTCGACTCGATCTTGGTCACC
* *
6311654 TTTCAGACTCGCGGCATCATCCCACTCATCTGATCTTAACTCAGGTCAAA
65 TTT-AGACTCGCGACATCATCCCAATCATCTGATCTTAACTCAGGTCAAA
* * * * * * *
6311704 TCATCTTCAGACTCACAGCATCAGTCTAATAAGTTATCTATGATCTT-GACTCGATCTTGGTCGC
1 TCATCTTCAGACTCGCGGCATCAGT-TCATCATTTATCTACGA-CTTCGACTCGATCTTGGTCAC
* * * * * * * * * *
6311768 CTTCAAACTCGTGACATCGTCTCAATCATTTGCTCTTGACTTAGGTCATA
64 CTTTAGACTCGCGACATCATCCCAATCATCTGATCTTAACTCAGGTCAAA
* * * * * * *
6311818 TTATCTTCAGACTCGTGGCATCAGTTCGATCATTTATCTATGATTTCGACTCGATTTTGATCACT
1 TCATCTTCAGACTCGCGGCATCAGTTC-ATCATTTATCTACGACTTCGACTCGATCTTGGTCACC
*
6311883 TTTTGACTCGC
65 TTTAGACTCGC
6311894 AGTATTGTCT
Statistics
Matches: 408, Mismatches: 99, Indels: 36
0.75 0.18 0.07
Matches are distributed among these distances:
107 79 0.19
108 2 0.00
109 2 0.00
110 5 0.01
111 5 0.01
112 2 0.00
113 12 0.03
114 290 0.71
115 11 0.03
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.35
Consensus pattern (113 bp):
TCATCTTCAGACTCGCGGCATCAGTTCATCATTTATCTACGACTTCGACTCGATCTTGGTCACCT
TTAGACTCGCGACATCATCCCAATCATCTGATCTTAACTCAGGTCAAA
Found at i:6311868 original size:228 final size:221
Alignment explanation
Indices: 6311364--6311869 Score: 550
Period size: 221 Copynumber: 2.3 Consensus size: 221
6311354 TCGATTCGGA
* * * * * * *
6311364 TCAGATCATTTTTAGACTCATGGCATTAGTTCGATCATTTATTTACGACTTCGACTCGATCTTGG
1 TCAGATCATCTTCAGACTCGTGGCATTAGTTCGATCATTTATCTATGACTTCGACTCAATCTTAG
* * * * *
6311429 TCACCTTTAGACTCACGATATCATCTCAGTCATTTGATCTCAACTTAGGTCAAATCATCTTCAGA
66 TCACCTTTAGACTCACGACATCATCCCACTCATCTGATCTCAACTCAGGTCAAATCATCTTCAGA
* * * * *
6311494 CTCGCGGCATCAATCCAGTCTATAACCTCAACTCGATCTTGGTCACCTTTAGACTCGCGACATCG
131 CTCACAGCATCAATCAAGTCTATAACCTCAACTCGATCTTGGTCACCTTCAAACTCGCGACATCG
6311559 TCCCAATCATCTGATCTTGACTCAAG
196 TCCCAATCATCTGATCTTGACTCAAG
* * *
6311585 TCAGATCATCTTCAGTCTCGCGACATTAGTTC-AGTCATTTATCTACT-ACTTCGACTCAATCTT
1 TCAGATCATCTTCAGACTCGTGGCATTAGTTCGA-TCATTTATCTA-TGACTTCGACTCAATCTT
* * *
6311648 AGTCA-CTTTCAGACTCGCGGCATCATCCCACTCATCTGATCTTAACTCAGGTCAAATCATCTTC
64 AGTCACCTTT-AGACTCACGACATCATCCCACTCATCTGATCTCAACTCAGGTCAAATCATCTTC
* * * ** *
6311712 AGACTCACAGCATCAGTCTAATAAGTTATCTATGATCTTGACTCGATCTTGGTCGCCTTCAAACT
128 AGACTCACAGCATCAATC----AAG---TCTATAACCTCAACTCGATCTTGGTCACCTTCAAACT
* * * * * *
6311777 CGTGACATCGTCTCAATCATTTGCTCTTGACTTAGG
186 CGCGACATCGTCCCAATCATCTGATCTTGACTCAAG
* * * *
6311813 TCATATTATCTTCAGACTCGTGGCATCAGTTCGATCATTTATCTATGATTTCGACTC
1 TCAGATCATCTTCAGACTCGTGGCATTAGTTCGATCATTTATCTATGACTTCGACTC
6311870 GATTTTGATC
Statistics
Matches: 231, Mismatches: 42, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
220 5 0.02
221 116 0.50
225 2 0.01
227 1 0.00
228 106 0.46
229 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (221 bp):
TCAGATCATCTTCAGACTCGTGGCATTAGTTCGATCATTTATCTATGACTTCGACTCAATCTTAG
TCACCTTTAGACTCACGACATCATCCCACTCATCTGATCTCAACTCAGGTCAAATCATCTTCAGA
CTCACAGCATCAATCAAGTCTATAACCTCAACTCGATCTTGGTCACCTTCAAACTCGCGACATCG
TCCCAATCATCTGATCTTGACTCAAG
Found at i:6312234 original size:3 final size:3
Alignment explanation
Indices: 6312218--6312381 Score: 151
Period size: 3 Copynumber: 55.0 Consensus size: 3
6312208 ATAGTATGTC
*
6312218 ATT ATT ATAC ATT ATT A-T ATT A-T AGTT ATT ATT ATT ATT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * * * * *
6312263 ATT ATC ATC ATT ATAT ATC A-T AGT ATAT GTT ATAT ACT ATT GTT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT AT-T ATT AT-T ATT ATT ATT ATT
*
6312310 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
6312358 CTT ATT ATT -TT ATT -TT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
6312382 CTTTTTTTTC
Statistics
Matches: 133, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
2 11 0.08
3 111 0.83
4 11 0.08
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:6312249 original size:9 final size:9
Alignment explanation
Indices: 6312190--6312381 Score: 155
Period size: 9 Copynumber: 21.2 Consensus size: 9
6312180 TACTATAATG
*
6312190 TTATTATTT
1 TTATTATTA
6312199 TTATATATTA
1 TTAT-TATTA
*
6312209 -TAGTATGTCA
1 TTATTAT-T-A
*
6312219 TTATTATACA
1 TTATTAT-TA
6312229 TTATTA-TA
1 TTATTATTA
6312237 TTA-TAGTTA
1 TTATTA-TTA
6312246 TTATTATTA
1 TTATTATTA
6312255 TTATTATTA
1 TTATTATTA
* *
6312264 TTATCATCA
1 TTATTATTA
*
6312273 TTATATATCA
1 TTAT-TATTA
* *
6312283 -TAGTATATG
1 TTATTAT-TA
*
6312292 TTATATACTA
1 TTAT-TATTA
*
6312302 TTGTTATTA
1 TTATTATTA
6312311 TTATTATTA
1 TTATTATTA
6312320 TTATTATTA
1 TTATTATTA
6312329 TTATTATTA
1 TTATTATTA
*
6312338 TTATTATCA
1 TTATTATTA
6312347 TTATTATTA
1 TTATTATTA
*
6312356 TTCTTATTA
1 TTATTATTA
6312365 TT-TTATT-
1 TTATTATTA
6312372 TTATT-TTA
1 TTATTATTA
6312380 TT
1 TT
6312382 CTTTTTTTTC
Statistics
Matches: 149, Mismatches: 21, Indels: 27
0.76 0.11 0.14
Matches are distributed among these distances:
7 6 0.04
8 19 0.13
9 93 0.62
10 24 0.16
11 7 0.05
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
TTATTATTA
Found at i:6312252 original size:12 final size:11
Alignment explanation
Indices: 6312160--6312381 Score: 115
Period size: 12 Copynumber: 20.1 Consensus size: 11
6312150 TTAGCTAAGA
*
6312160 TATTATTACTTT
1 TATTATTA-TAT
* *
6312172 TATTAGTATAC
1 TATTATTATAT
*
6312183 TATAATGT-TAT
1 TATTAT-TATAT
*
6312194 TATTTTTATA-
1 TATTATTATAT
6312204 TATTA-TAGTAT
1 TATTATTA-TAT
6312215 GTCATTATTATA-
1 -T-ATTATTATAT
*
6312227 CATTATTATAT
1 TATTATTATAT
*
6312238 TA-TAGT-TAT
1 TATTATTATAT
6312247 TATTATTATTAT
1 TATTATTA-TAT
6312259 TATTATTATCAT
1 TATTATTAT-AT
*
6312271 CATTA-TATAT
1 TATTATTATAT
* *
6312281 CA-TAGTATA-
1 TATTATTATAT
* *
6312290 TGTTA-TATAC
1 TATTATTATAT
*
6312300 TATTGTTATTAT
1 TATTATTA-TAT
6312312 TATTATTATTAT
1 TATTATTA-TAT
6312324 TATTATTATTAT
1 TATTATTA-TAT
6312336 TATTATTATCAT
1 TATTATTAT-AT
*
6312348 TATTATTATTCT
1 TATTATTA-TAT
*
6312360 TATTATTTTAT
1 TATTATTATAT
*
6312371 T-TTATTTTAT
1 TATTATTATAT
6312381 T
1 T
6312382 CTTTTTTTTC
Statistics
Matches: 168, Mismatches: 23, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
9 13 0.08
10 45 0.27
11 24 0.14
12 77 0.46
13 7 0.04
14 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (11 bp):
TATTATTATAT
Found at i:6313114 original size:25 final size:26
Alignment explanation
Indices: 6313086--6313141 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
6313076 TTTTTAATTT
6313086 TTTTTCA-TTTTT-TTAACTCATT-TTA
1 TTTTTCAGTTTTTGTT--CTCATTATTA
6313111 TTTTT-AGTTTTTGTTCTCATTATTA
1 TTTTTCAGTTTTTGTTCTCATTATTA
6313136 TTTTTC
1 TTTTTC
6313142 GATCTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
24 7 0.26
25 18 0.67
26 2 0.07
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTTTCAGTTTTTGTTCTCATTATTA
Found at i:6314220 original size:18 final size:18
Alignment explanation
Indices: 6314181--6314221 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6314171 AAATCAATAG
*
6314181 ATAAAAAATAAAATTGAC
1 ATAAAAAATAAAAATGAC
6314199 ATAAAAAATAAATAATGA-
1 ATAAAAAATAAA-AATGAC
6314217 ATAAA
1 ATAAA
6314222 TAATTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (18 bp):
ATAAAAAATAAAAATGAC
Found at i:6317157 original size:60 final size:60
Alignment explanation
Indices: 6317061--6317178 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
6317051 TACTAAGTTA
* * * *
6317061 CTCTTTTCCTAATTTCTAATTCTTAGAAAACTGTAATTTTTAAAATCATCAATTTAATAT
1 CTCTTTTACTAATTTCTAATTCTTAGAAAACCGTAATTTTTAAAACCAACAATTTAATAT
*
6317121 CTCTTTTACTAATTTCTGATTCTTAGAAAACCGTAATTTTTAAAACCAACAATTTAAT
1 CTCTTTTACTAATTTCTAATTCTTAGAAAACCGTAATTTTTAAAACCAACAATTTAAT
6317179 TTTATATTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (60 bp):
CTCTTTTACTAATTTCTAATTCTTAGAAAACCGTAATTTTTAAAACCAACAATTTAATAT
Found at i:6318194 original size:15 final size:15
Alignment explanation
Indices: 6318174--6318206 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6318164 GTCAACTTTC
6318174 AAGATCTATGTCGGG
1 AAGATCTATGTCGGG
6318189 AAGATCTATGTCGGG
1 AAGATCTATGTCGGG
6318204 AAG
1 AAG
6318207 GTATCTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.24
Consensus pattern (15 bp):
AAGATCTATGTCGGG
Found at i:6328157 original size:15 final size:15
Alignment explanation
Indices: 6328137--6328165 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6328127 GATTAGAGCA
6328137 ATATATATCTAAACT
1 ATATATATCTAAACT
6328152 ATATATATCTAAAC
1 ATATATATCTAAAC
6328166 AATGTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATATATCTAAACT
Done.