Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 21 of 325
Found at i:6613336 original size:18 final size:17
Alignment explanation
Indices: 6613307--6613351 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
6613297 AAAAATATAA
*
6613307 AATAA-AATAAAAGGGT
1 AATAATAATAAAAAGGT
6613323 AATAATAATAAAAAGGT
1 AATAATAATAAAAAGGT
6613340 AATAAATAATAA
1 AAT-AATAATAA
6613352 TAATGTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (17 bp):
AATAATAATAAAAAGGT
Found at i:6613359 original size:18 final size:18
Alignment explanation
Indices: 6613312--6613366 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
6613302 TATAAAATAA
*
6613312 AATAAAAGGGTAAT-AAT
1 AATAAAAAGGTAATAAAT
6613329 AATAAAAAGGTAATAAAT
1 AATAAAAAGGTAATAAAT
* *
6613347 AATAATAATGTAAGTAAAT
1 AATAAAAAGGTAA-TAAAT
6613366 A
1 A
6613367 CGAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 13 0.39
18 14 0.42
19 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (18 bp):
AATAAAAAGGTAATAAAT
Found at i:6613454 original size:3 final size:3
Alignment explanation
Indices: 6613432--6613825 Score: 211
Period size: 3 Copynumber: 131.0 Consensus size: 3
6613422 TATGATTATG
* * *
6613432 ATA ATA GTA ATA AT- ACA ATA ATA ATA ATA A-A GTA GA-A AGTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA
* *
6613476 ATA ATA ATA ATA ATA CATTA ATA AGA ATA ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
6613522 ACA ATA ATA GAAA ATA ATA ATA AAA ATA AAA ATA AT- ATG TTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * ** *
6613567 AGG ATA ATA GTA ATA ATA ATA ATA ATA ATA GTA ATA AAA ATA GCA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6613615 ATA ATA GTA ATA TTG ATA ATAA ATA ATA ATA GTA A-A A-A ATA ACA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* *
6613659 ATA ATA ATA GAAA ATA ATAA ATA A-A A-A ATGA AGA ATA ATA ATA CATTA
1 ATA ATA ATA -ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA -A-TA
* ** * ** *
6613707 ATA ACA ATA A-A ATCA GGA ATA ATA ATA ATA AGA ACG ACA AT- ATAA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * * *
6613752 ATA ATA AT- ATA A-A AAA ATA ATA GTA ATA ATA ATA ATG ATG ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
6613798 ATA ATA ATA ATA GAAA ATA ATA GTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA
6613826 GTGAAAAAAA
Statistics
Matches: 293, Mismatches: 73, Indels: 50
0.70 0.18 0.12
Matches are distributed among these distances:
2 23 0.08
3 243 0.83
4 23 0.08
5 4 0.01
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6613661 original size:19 final size:19
Alignment explanation
Indices: 6613639--6613716 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 19
6613629 GATAATAAAT
*
6613639 AATAATAGTAAAAAATAAC
1 AATAATAATAAAAAATAAC
*
6613658 AATAATAATAGAAAAT---
1 AATAATAATAAAAAATAAC
*
6613674 AAT-A-AATAAAAAATGAAG
1 AATAATAATAAAAAAT-AAC
**
6613692 AATAATAATACATTAATAAC
1 AATAATAATA-AAAAATAAC
6613712 AATAA
1 AATAA
6613717 AATCAGGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
14 9 0.20
15 1 0.02
16 3 0.07
18 3 0.07
19 15 0.33
20 11 0.24
21 4 0.09
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (19 bp):
AATAATAATAAAAAATAAC
Found at i:6613696 original size:34 final size:35
Alignment explanation
Indices: 6613635--6613701 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
6613625 TATTGATAAT
6613635 AAATAATAATAGTAAAAAATAACAATAATAATAGA
1 AAATAATAATAGTAAAAAATAACAATAATAATAGA
*
6613670 AAATAATAA-A-TAAAAAATGAAGAATAATAATA
1 AAATAATAATAGTAAAAAAT-AACAATAATAATA
6613702 CATTAATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 8 0.27
34 13 0.43
35 9 0.30
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.22
Consensus pattern (35 bp):
AAATAATAATAGTAAAAAATAACAATAATAATAGA
Found at i:6613709 original size:32 final size:31
Alignment explanation
Indices: 6613630--6613734 Score: 88
Period size: 32 Copynumber: 3.2 Consensus size: 31
6613620 AGTAATATTG
* *
6613630 ATAATAAATAATAATAGTAAAAAATAACAATA
1 ATAATAAATAATAACA-TAAAAAATAAGAATA
6613662 ATAATAGAAAATAATAA-ATAAAAAATGAAGAATA
1 ATAAT---AAATAATAACATAAAAAAT-AAGAATA
* * *
6613696 ATAATACATTAATAACA-ATAAAATCAGGAATA
1 ATAATA-AATAATAACATAAAAAAT-AAGAATA
6613728 ATAATAA
1 ATAATAA
6613735 TAAGAACGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
31 2 0.03
32 30 0.48
33 9 0.15
34 12 0.19
35 9 0.15
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (31 bp):
ATAATAAATAATAACATAAAAAATAAGAATA
Found at i:6613839 original size:20 final size:20
Alignment explanation
Indices: 6613797--6613850 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
6613787 TGATGATAGT
* * *
6613797 AATAATAATAAT-AGAAAAT
1 AATAGTAATAATGAAAAAAA
*
6613816 AATAGTAATAGTGAAAAAAA
1 AATAGTAATAATGAAAAAAA
6613836 AATAGTAATAATGAA
1 AATAGTAATAATGAA
6613851 TTAATTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (20 bp):
AATAGTAATAATGAAAAAAA
Found at i:6618888 original size:24 final size:22
Alignment explanation
Indices: 6618858--6618912 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 22
6618848 ACTTGGTTTT
6618858 TTTTTTTTTTTTGTAAATGGAC
1 TTTTTTTTTTTTGTAAATGGAC
*
6618880 TTGTGTTTTTATTTGTAAATGGAC
1 TT-T-TTTTTTTTTGTAAATGGAC
6618904 TTTTTTTTT
1 TTTTTTTTT
6618913 ACCGGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 20 0.69
ACGTcount: A:0.16, C:0.04, G:0.15, T:0.65
Consensus pattern (22 bp):
TTTTTTTTTTTTGTAAATGGAC
Found at i:6625090 original size:20 final size:20
Alignment explanation
Indices: 6625043--6625090 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6625033 GTCACATCAA
6625043 TATTCTTATCCTGAATTTCAG
1 TATT-TTATCCTGAATTTCAG
* *
6625064 AAGTTTATCCTGAATTTCAG
1 TATTTTATCCTGAATTTCAG
6625084 TATTTTA
1 TATTTTA
6625091 ATTTGGATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (20 bp):
TATTTTATCCTGAATTTCAG
Found at i:6632618 original size:15 final size:15
Alignment explanation
Indices: 6632598--6632628 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6632588 CTGCTATGTT
*
6632598 TCATGATGAAGATGA
1 TCATGATAAAGATGA
6632613 TCATGATAAAGATGA
1 TCATGATAAAGATGA
6632628 T
1 T
6632629 GCTATTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (15 bp):
TCATGATAAAGATGA
Found at i:6636497 original size:45 final size:45
Alignment explanation
Indices: 6636433--6636561 Score: 181
Period size: 44 Copynumber: 2.9 Consensus size: 45
6636423 GGACAAACAC
*
6636433 ATGATGCCATAACATCTTTCAATTATGATCTTACTTATTTTTATT
1 ATGATGCCATAACATCTTTCAATTATGATCTTACTCATTTTTATT
*
6636478 ATGATGCCATAACATCTTTCAATTAT-AGTCTTACTCA-TTTTCTT
1 ATGATGCCATAACATCTTTCAATTATGA-TCTTACTCATTTTTATT
* ** *
6636522 ATAATGCCATAACATCTTTCAGCTATGGTCTTACTCATTT
1 ATGATGCCATAACATCTTTCAATTATGATCTTACTCATTT
6636562 ATTGCGTATA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
44 39 0.52
45 36 0.48
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAATTATGATCTTACTCATTTTTATT
Found at i:6639877 original size:52 final size:48
Alignment explanation
Indices: 6639801--6640007 Score: 181
Period size: 47 Copynumber: 4.2 Consensus size: 48
6639791 CCATGGCAGC
* * * * *
6639801 ATGTGAAATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCTTCGGAG
1 ATGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATC-G-G
*
6639852 AAATGTGATATGTGCTTCTGTATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCGG
* * *
6639902 -TGTGATATGTGCTACTGTATAAAACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCGG
* * * * *
6639949 -TGTGATATGTGATCCATG--TAAGACCATGGT-TGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTC-TGTATAAGACCAT-ATCTGGGATATGGCATCGG
6639995 TATGTGATATGTG
1 -ATGTGATATGTG
6640008 ACTATGTGCA
Statistics
Matches: 133, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
46 21 0.16
47 57 0.43
48 13 0.10
50 1 0.01
51 1 0.01
52 29 0.22
53 11 0.08
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (48 bp):
ATGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:6652144 original size:19 final size:19
Alignment explanation
Indices: 6652101--6652144 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6652091 GAAACTACAT
* **
6652101 AATTATTTAAAAAATTTTA
1 AATTTTTTAAAAAATTAAA
*
6652120 ATTTTTTTAAAAAATTAAA
1 AATTTTTTAAAAAATTAAA
6652139 AATTTT
1 AATTTT
6652145 AAAACAGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTTTTTAAAAAATTAAA
Found at i:6667191 original size:17 final size:18
Alignment explanation
Indices: 6667169--6667210 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6667159 CCATTAATAA
6667169 ATTTAATATGAA-TTTAT
1 ATTTAATATGAAGTTTAT
* *
6667186 ATTTAATTTTAAGTTTAT
1 ATTTAATATGAAGTTTAT
6667204 -TTTAATA
1 ATTTAATA
6667211 CATTTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTAATATGAAGTTTAT
Found at i:6677190 original size:17 final size:19
Alignment explanation
Indices: 6677170--6677206 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6677160 ATTTTACAAA
6677170 TAATTA-ATAAA-TTATAT
1 TAATTATATAAATTTATAT
*
6677187 TAATTATCTAAATTTATAT
1 TAATTATATAAATTTATAT
6677206 T
1 T
6677207 TCATATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTATATAAATTTATAT
Found at i:6677415 original size:26 final size:26
Alignment explanation
Indices: 6677386--6677438 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6677376 TTATAGCTTA
6677386 AGATTATATATTTCATATACCACAAT
1 AGATTATATATTTCATATACCACAAT
6677412 AGATTATATATTTCATATACCACAAT
1 AGATTATATATTTCATATACCACAAT
6677438 A
1 A
6677439 CAAACAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (26 bp):
AGATTATATATTTCATATACCACAAT
Found at i:6677775 original size:32 final size:32
Alignment explanation
Indices: 6677715--6677777 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
6677705 TTTCGGAGCC
* *
6677715 ACAACTCTTGTTTAGAATAGTTGTTGTTCAGA
1 ACAACTCTTGTTTAGAATAATTGATGTTCAGA
*
6677747 ACAACTGTTGTTTGAGAATAATT-ATGTTCAG
1 ACAACTCTTGTTT-AGAATAATTGATGTTCAG
6677778 GATAAGACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (32 bp):
ACAACTCTTGTTTAGAATAATTGATGTTCAGA
Found at i:6679668 original size:5 final size:5
Alignment explanation
Indices: 6679653--6679711 Score: 66
Period size: 5 Copynumber: 11.0 Consensus size: 5
6679643 TAACTTTTGT
6679653 TTTTA TCTTTA TTTTA TTTTA TTTTA TTTTA TTTTA CTTATT- TTTTA
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA TTTTA
6679700 TTATTAA TTTTA
1 TT-TT-A TTTTA
6679712 AAAAATTTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
4 2 0.04
5 30 0.62
6 11 0.23
7 5 0.10
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:6679680 original size:15 final size:15
Alignment explanation
Indices: 6679653--6679711 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 15
6679643 TAACTTTTGT
6679653 TTTTATCTTTATTTTA
1 TTTTAT-TTTATTTTA
6679669 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
6679684 TTTTACTTATT-TTTTA
1 TTTTA-TT-TTATTTTA
6679700 TTATTAATTTTA
1 TT-TT-ATTTTA
6679712 AAAAATTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
15 14 0.37
16 17 0.45
17 6 0.16
18 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:6679769 original size:21 final size:21
Alignment explanation
Indices: 6679714--6679778 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
6679704 TAATTTTAAA
* * **
6679714 AAATTTGAAATGTATATTTGA
1 AAATTTTAAATATATATTTTT
6679735 AATATTTTATAATATATATTTTT
1 AA-ATTTTA-AATATATATTTTT
6679758 AAATTTTAAATATATATTTTT
1 AAATTTTAAATATATATTTTT
6679779 GGAATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.39
22 11 0.29
23 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
AAATTTTAAATATATATTTTT
Found at i:6679793 original size:34 final size:35
Alignment explanation
Indices: 6679753--6679852 Score: 168
Period size: 35 Copynumber: 2.9 Consensus size: 35
6679743 ATAATATATA
*
6679753 TTTTT-AAATTTTAAATATATATTTTTGGAATTAT
1 TTTTTAAAATTTTAAATATATATTTTTGAAATTAT
6679787 TTTTTAAAATTTTAAATATATATTTTTGAAATTAT
1 TTTTTAAAATTTTAAATATATATTTTTGAAATTAT
*
6679822 TTTTTAAAATTTTAAATAT-TATTTTTTAAAT
1 TTTTTAAAATTTTAAATATATATTTTTGAAAT
6679853 ATTAAATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
34 16 0.25
35 47 0.75
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (35 bp):
TTTTTAAAATTTTAAATATATATTTTTGAAATTAT
Found at i:6679805 original size:56 final size:55
Alignment explanation
Indices: 6679738--6679893 Score: 153
Period size: 56 Copynumber: 2.8 Consensus size: 55
6679728 TATTTGAAAT
* * **
6679738 ATTTTATAATATATATTTTTAAATT-TTAAATATATATTTTTGGA-ATTATTTTTTAAA
1 ATTTTA-AATATATATTTTTAAATTATT--ATATAAAATTTTAAATATTATTTTTT-AA
* *
6679795 ATTTTAAATATATATTTTTGAAATTATTTTTTAAAATTTTAAATATTATTTTTTAA
1 ATTTTAAATATATATTTTT-AAATTATTATATAAAATTTTAAATATTATTTTTTAA
*
6679851 ATATTAAATATATATTTTT-AA-TA--ATATAAAATATTTAAATATT
1 ATTTTAAATATATATTTTTAAATTATTATATAAAAT-TTTAAATATT
6679894 TTAAATATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
51 7 0.08
52 10 0.12
53 2 0.02
54 2 0.02
56 42 0.49
57 21 0.24
58 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (55 bp):
ATTTTAAATATATATTTTTAAATTATTATATAAAATTTTAAATATTATTTTTTAA
Found at i:6679846 original size:21 final size:21
Alignment explanation
Indices: 6679817--6679885 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
6679807 TATTTTTGAA
*
6679817 ATTATTTTTTAAAATTTTAAAT
1 ATTA-TTTTTAAAATATTAAAT
*
6679839 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTAAAATATTAAAT
*
6679860 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTAA-AATATTAAAT
6679883 ATT
1 ATT
6679886 TAAATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.41
22 13 0.32
23 11 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:6679863 original size:23 final size:23
Alignment explanation
Indices: 6679817--6679901 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 23
6679807 TATTTTTGAA
*
6679817 ATTATTTTTTAAA-ATTTTAA-AT
1 ATTATTTTTTAAATA-TTAAATAT
6679839 ATTATTTTTTAAATATTAAATAT
1 ATTATTTTTTAAATATTAAATAT
* *
6679862 A-TATTTTTAATAATATAAAATAT
1 ATTATTTTTTA-AATATTAAATAT
*
6679885 -TTAAATATTTTAAATAT
1 ATT--ATTTTTTAAATAT
6679902 ATGACCTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
22 25 0.48
23 16 0.31
24 5 0.10
25 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATTTTTTAAATATTAAATAT
Found at i:6679972 original size:18 final size:19
Alignment explanation
Indices: 6679935--6679976 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6679925 GTTTTATAAT
6679935 ATTTTAAATGTATATTTTAA
1 ATTTTAAA-GTATATTTTAA
*
6679955 ATTTTAAA-TATTTTTTAA
1 ATTTTAAAGTATATTTTAA
6679973 ATTT
1 ATTT
6679977 GTTTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTAAAGTATATTTTAA
Found at i:6680004 original size:23 final size:22
Alignment explanation
Indices: 6679954--6680014 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 22
6679944 GTATATTTTA
6679954 AATTTTAAATATTTTTTAAATTT
1 AATTTTAAATA-TTTTTAAATTT
*
6679977 -GTTTTATAATA-TTTTAAATTAT
1 AATTTTA-AATATTTTTAAATT-T
6679999 AATTTTTAAATTATTT
1 AA-TTTTAAA-TATTT
6680015 AAAATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
21 9 0.30
22 6 0.20
23 6 0.20
24 7 0.23
25 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AATTTTAAATATTTTTAAATTT
Found at i:6680005 original size:14 final size:15
Alignment explanation
Indices: 6679980--6680012 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6679970 TAAATTTGTT
6679980 TTATAATATTTTAAA
1 TTATAATATTTTAAA
6679995 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
6680009 TTAT
1 TTAT
6680013 TTAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:6680013 original size:24 final size:24
Alignment explanation
Indices: 6679978--6680033 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
6679968 TTTAAATTTG
*
6679978 TTTTATAATATTTTAAAT-TATAAT
1 TTTTA-AATATTTAAAATATATAAT
*
6680002 TTTTAAATTATTTAAAATATATTAT
1 TTTTAAA-TATTTAAAATATATAAT
6680027 TTTTAAA
1 TTTTAAA
6680034 GATATGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.50
25 12 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTAAATATTTAAAATATATAAT
Found at i:6680051 original size:135 final size:135
Alignment explanation
Indices: 6679831--6680091 Score: 368
Period size: 135 Copynumber: 1.9 Consensus size: 135
6679821 TTTTTTAAAA
*
6679831 TTTTAAATATTATTTTTTAAATATTAAATATATATTTTTAATAATATAAAATATTTAAATATTTT
1 TTTTAAATATTATTTTATAAATATTAAATATATATTTTTAATAATATAAAATATTT-AATATTTT
* * *
6679896 AAATATATGACCTTTCAAATTTATTATTCGTTTTATAATATTTTAAATGTATATTTTAAATTTTA
65 AAAGATATGACATTTCAAATTTATTATTCGTTTTATAATATTTTAAATATATATTTTAAATTTTA
6679961 AATATT
130 AATATT
* * * *
6679967 TTTTAAAT-TTGTTTTATAATATTTTAAAT-TATAATTTTTAAATTATTTAAAATATATT-AT-T
1 TTTTAAATATTATTTTATAA-ATATTAAATATAT-ATTTTT-AATAATATAAAATAT-TTAATAT
*
6680028 TTTAAAGATATGACATTTCAAATTTATTATTTGTTTTATAATATTTTAAATATATATTTTAAAT
62 TTTAAAGATATGACATTTCAAATTTATTATTCGTTTTATAATATTTTAAATATATATTTTAAAT
6680092 ATTTTTAAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
135 73 0.65
136 24 0.21
137 13 0.12
138 2 0.02
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (135 bp):
TTTTAAATATTATTTTATAAATATTAAATATATATTTTTAATAATATAAAATATTTAATATTTTA
AAGATATGACATTTCAAATTTATTATTCGTTTTATAATATTTTAAATATATATTTTAAATTTTAA
ATATT
Found at i:6680086 original size:13 final size:13
Alignment explanation
Indices: 6680068--6680093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6680058 TTGTTTTATA
6680068 ATATTTTAAATAT
1 ATATTTTAAATAT
6680081 ATATTTTAAATAT
1 ATATTTTAAATAT
6680094 TTTTAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:6680136 original size:29 final size:29
Alignment explanation
Indices: 6680070--6680134 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
6680060 GTTTTATAAT
*
6680070 ATTTTAAATATATATTTTAAATATTTTTA
1 ATTTTAAATATATATTTTAAATATTATTA
* *
6680099 AATTTAAATA-ATTTTTTATAA-ATTATTA
1 ATTTTAAATATATATTTTA-AATATTATTA
6680127 ATTTTAAA
1 ATTTTAAA
6680135 ATTAATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTTTAAATATATATTTTAAATATTATTA
Found at i:6680168 original size:135 final size:133
Alignment explanation
Indices: 6679894--6680153 Score: 303
Period size: 135 Copynumber: 1.9 Consensus size: 133
6679884 TTTAAATATT
* * *
6679894 TTAAATATATGACCTTTCAAATTTATTATTCGTTTTATAATATTTTAAATGTATATTTTAAATTT
1 TTAAAGATATGACATTTCAAATTTATTATTCGTTTTATAATATTTTAAATATATATTTTAAATTT
* ** *
6679959 TAAATATTTTTTAAATTTGTTTTATAATATTTTAAATTATAATTTTTAAATTATTTAAAATATAT
66 TAAATA--TTTTAAATTTGTTTTATAATATTTTAAATTAAAATTAATAAAATATTTAAAATATAT
**
6680024 TATTT
129 TATAA
*
6680029 TTAAAGATATGACATTTCAAATTTATTATTTGTTTTATAATATTTTAAATATATATTTTAAATAT
1 TTAAAGATATGACATTTCAAATTTATTATTCGTTTTATAATATTTTAAATATATATTTT-AA-AT
* *
6680094 TTTTAA-A-TTTAAATAATT-TTTTATAA-ATTATTAATTTTAAAATTAATAAAGATATTTAAA
64 TTTAAATATTTTAAAT--TTGTTTTATAATATT-TTAA-ATTAAAATTAATAAA-ATATTTAAA
6680154 CGTTTTTAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
133 10 0.09
134 12 0.11
135 68 0.63
136 11 0.10
137 7 0.06
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (133 bp):
TTAAAGATATGACATTTCAAATTTATTATTCGTTTTATAATATTTTAAATATATATTTTAAATTT
TAAATATTTTAAATTTGTTTTATAATATTTTAAATTAAAATTAATAAAATATTTAAAATATATTA
TAA
Found at i:6683595 original size:30 final size:30
Alignment explanation
Indices: 6683550--6683627 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
6683540 CGAGCCACCT
* *
6683550 ATGTCCGAGTAATATGAAATCAAACCA-TCA
1 ATGTCCAAGTGATATGAAATCAAACCACT-A
* **
6683580 ATGTCC-AGATGATATGAACTTGAACCACTA
1 ATGTCCAAG-TGATATGAAATCAAACCACTA
6683610 ATGTCCAAGTGATATGAA
1 ATGTCCAAGTGATATGAA
6683628 CTACTCTGCG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.05
30 36 0.88
31 3 0.07
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (30 bp):
ATGTCCAAGTGATATGAAATCAAACCACTA
Found at i:6685783 original size:27 final size:27
Alignment explanation
Indices: 6685753--6685814 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
6685743 CCTATTAAAG
* *
6685753 AATATATT-AAAATTTTAAATTTTTTTT
1 AATATATTAAAAATTTT-AATATATTTT
*
6685780 AATATGTTAAAAATTTTAATATATTTT
1 AATATATTAAAAATTTTAATATATTTT
6685807 AATATATT
1 AATATATT
6685815 TAGTTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
AATATATTAAAAATTTTAATATATTTT
Found at i:6685877 original size:16 final size:16
Alignment explanation
Indices: 6685856--6685891 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6685846 CAACATTTTC
6685856 TTTTAACATATTTAAA
1 TTTTAACATATTTAAA
*
6685872 TTTTAATATATTTAAA
1 TTTTAACATATTTAAA
6685888 TTTT
1 TTTT
6685892 TTACGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAACATATTTAAA
Found at i:6686169 original size:16 final size:16
Alignment explanation
Indices: 6686138--6686167 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6686128 AAATATAAAT
6686138 ATATAACTATTATTTA
1 ATATAACTATTATTTA
6686154 ATATAA-TATTATTT
1 ATATAACTATTATTT
6686168 TATAACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATAACTATTATTTA
Found at i:6689576 original size:12 final size:12
Alignment explanation
Indices: 6689559--6689589 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6689549 GAAGCAGGAG
6689559 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
6689571 AGAAAAAGGGAA
1 AGAAAAAGAGAA
6689583 AGAAAAA
1 AGAAAAA
6689590 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:6690596 original size:38 final size:37
Alignment explanation
Indices: 6690549--6690622 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
6690539 GTACTGGTAC
*
6690549 CAACTTTACTTCG-GCTAGGCGATGAGACACTGGGTGT
1 CAACTTTACTTCGAACTA-GCGATGAGACACTGGGTGT
* *
6690586 CAACTATTACTTCGAACTATCGATGAGGCACTGGGTG
1 CAACT-TTACTTCGAACTAGCGATGAGACACTGGGTG
6690623 CCATATTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 5 0.16
38 24 0.75
39 3 0.09
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (37 bp):
CAACTTTACTTCGAACTAGCGATGAGACACTGGGTGT
Found at i:6691278 original size:20 final size:20
Alignment explanation
Indices: 6691255--6691292 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6691245 GTTAGTAAGT
6691255 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
6691275 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
6691293 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:6701047 original size:38 final size:39
Alignment explanation
Indices: 6700987--6701079 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
6700977 TGGATAGATT
* * *
6700987 CGATGAGGTACTAGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGGCACTGGGTACCAACTATTACTTCGAACTA-GC
*
6701025 CGATGAGGCACTGGGT-CTCAACTATTACTTCGAACTATC
1 CGATGAGGCACTGGGTAC-CAACTATTACTTCGAACTAGC
6701064 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
6701080 GCCATATTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 1 0.02
38 19 0.40
39 25 0.52
40 3 0.06
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTACTTCGAACTAGC
Found at i:6701207 original size:18 final size:18
Alignment explanation
Indices: 6701184--6701222 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6701174 AATAAAAAAA
6701184 AAATT-GAATTATGAATAG
1 AAATTGGAATTATG-ATAG
*
6701202 AAATTGGAATTGTGATAG
1 AAATTGGAATTATGATAG
6701220 AAA
1 AAA
6701223 GAGAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (18 bp):
AAATTGGAATTATGATAG
Found at i:6701733 original size:20 final size:20
Alignment explanation
Indices: 6701710--6701747 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6701700 GTTATTAAGT
6701710 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
6701730 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
6701748 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:6703095 original size:25 final size:24
Alignment explanation
Indices: 6703067--6703139 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 24
6703057 TATATTTTAA
6703067 ACTTGTTATATA-TTATTTTAAATT
1 ACTT-TTATATACTTATTTTAAATT
*
6703091 GACTTATATATTACTTATTTTAAAATT
1 -ACTTTTATA-TACTTATTTT-AAATT
6703118 A-TTTTATATACCTTATTTTAAA
1 ACTTTTATATA-CTTATTTTAAA
6703140 CCCCATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 9 0.21
25 20 0.48
26 8 0.19
27 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (24 bp):
ACTTTTATATACTTATTTTAAATT
Found at i:6703098 original size:20 final size:20
Alignment explanation
Indices: 6703054--6703099 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
6703044 CTTTTACATA
*
6703054 TTATA-TATTTTAAACTTGT
1 TTATATTATTTTAAACTTGC
6703073 TATATATTATTTTAAA-TTGAC
1 T-TATATTATTTTAAACTTG-C
6703094 TTATAT
1 TTATAT
6703100 ATTACTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTATATTATTTTAAACTTGC
Found at i:6703100 original size:22 final size:21
Alignment explanation
Indices: 6703055--6703103 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
6703045 TTTTACATAT
6703055 TATA-TATTTTAAACTTGTTA
1 TATATTATTTTAAACTTGTTA
6703075 TATATTATTTTAAA-TTGACTTA
1 TATATTATTTTAAACTTG--TTA
6703097 TATATTA
1 TATATTA
6703104 CTTATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATTATTTTAAACTTGTTA
Found at i:6717126 original size:36 final size:36
Alignment explanation
Indices: 6717086--6717158 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 36
6717076 TGTGAAGTGT
6717086 CCCTTGACATT-AGTAAAGGCCATAGATGA-AGAGAAG
1 CCCTTGAC-TTCAGTAAAGGCCATAGAT-ATAGAGAAG
6717122 CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
1 CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
6717158 C
1 C
6717159 TAAGTGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (36 bp):
CCCTTGACTTCAGTAAAGGCCATAGATATAGAGAAG
Found at i:6718937 original size:29 final size:30
Alignment explanation
Indices: 6718878--6718935 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6718868 TCCGAGCCTT
*
6718878 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6718908 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6718936 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6719165 original size:13 final size:13
Alignment explanation
Indices: 6719147--6719178 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6719137 TTTCCAGCAA
6719147 TTATGAATTTATT
1 TTATGAATTTATT
6719160 TTATGAATTTATT
1 TTATGAATTTATT
*
6719173 TGATGA
1 TTATGA
6719179 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6719386 original size:50 final size:50
Alignment explanation
Indices: 6719273--6719514 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6719263 ATTTGGGTAA
* * *
6719273 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6719329 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6719379 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6719429 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6719479 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6719515 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6719462 original size:100 final size:103
Alignment explanation
Indices: 6719273--6719522 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6719263 ATTTGGGTAA
6719273 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6719338 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6719379 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6719441 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6719479 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6719523 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6726518 original size:29 final size:30
Alignment explanation
Indices: 6726459--6726516 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6726449 TCCGAGCCTT
*
6726459 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6726489 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6726517 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6726746 original size:13 final size:13
Alignment explanation
Indices: 6726728--6726759 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6726718 TTTCCAGCAA
6726728 TTATGAATTTATT
1 TTATGAATTTATT
6726741 TTATGAATTTATT
1 TTATGAATTTATT
*
6726754 TGATGA
1 TTATGA
6726760 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6726974 original size:53 final size:53
Alignment explanation
Indices: 6726860--6726994 Score: 168
Period size: 53 Copynumber: 2.5 Consensus size: 53
6726850 GTAAAGAGAT
* * *
6726860 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTCAAGATGAGAGGA
* * *
6726913 CCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CCGATCACGA-GA-ATGA
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCC--TCAAGATGAGAGGA
6726965 CACCATGTAAGACCATGTCTGGGACATGGC
1 C-CCATGTAAGACCATGTCTGGGACATGGC
6726995 TTTGGCATGT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
52 5 0.07
53 63 0.88
54 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (53 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTCAAGATGAGAGGA
Found at i:6728805 original size:16 final size:16
Alignment explanation
Indices: 6728784--6728817 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6728774 AACATTTAAA
6728784 TAGATAATTAAACTAG
1 TAGATAATTAAACTAG
6728800 TAGATAATTAAACTAG
1 TAGATAATTAAACTAG
6728816 TA
1 TA
6728818 AAAATGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (16 bp):
TAGATAATTAAACTAG
Found at i:6737783 original size:18 final size:18
Alignment explanation
Indices: 6737756--6737804 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
6737746 GTGCCTAAAT
*
6737756 AGTAATCAGTAATGGTAGC
1 AGTAA-CAGTAACGGTAGC
6737775 AGTAACAGTAACGGTAGC
1 AGTAACAGTAACGGTAGC
6737793 AGTAACAGTAAC
1 AGTAACAGTAAC
6737805 AGTATTCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (18 bp):
AGTAACAGTAACGGTAGC
Found at i:6737785 original size:6 final size:6
Alignment explanation
Indices: 6737774--6737808 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6737764 GTAATGGTAG
* *
6737774 CAGTAA CAGTAA CGGTAG CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
6737809 TTCAACACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:6737838 original size:39 final size:39
Alignment explanation
Indices: 6737794--6737934 Score: 183
Period size: 39 Copynumber: 3.6 Consensus size: 39
6737784 AACGGTAGCA
* * *
6737794 GTAACAGTAACAGTATTCAACACACAAAGTGTTGAATTG
1 GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCG
* *
6737833 GTAACAGTAATAGTATTCGAGACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCG
* * * *
6737872 GTAATAGGAATAGTATTCGACACACAACGTGTCGAATCG
1 GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCG
* *
6737911 GTAACAGTAACAGTAGTCGGCACA
1 GTAACAGTAACAGTATTCGACACA
6737935 TAAGTGCCTG
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCG
Found at i:6743881 original size:12 final size:13
Alignment explanation
Indices: 6743853--6743886 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6743843 TTTGTAATTT
*
6743853 TTTAATATTTAAA
1 TTTAAAATTTAAA
6743866 TTTAAAATTT-AA
1 TTTAAAATTTAAA
6743878 TTTAAAATT
1 TTTAAAATT
6743887 CGACTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAAAATTTAAA
Found at i:6746978 original size:2 final size:2
Alignment explanation
Indices: 6746971--6746999 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6746961 TTGTTTCGCA
6746971 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6747000 TTCCCTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6753962 original size:25 final size:25
Alignment explanation
Indices: 6753934--6753984 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
6753924 TCATAGCAAG
6753934 ATATATTTCATGTATAACAATAATA
1 ATATATTTCATGTATAACAATAATA
6753959 ATATATTTCATGTATAACAATAATA
1 ATATATTTCATGTATAACAATAATA
6753984 A
1 A
6753985 CATAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATTTCATGTATAACAATAATA
Found at i:6758513 original size:20 final size:20
Alignment explanation
Indices: 6758445--6758513 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 20
6758435 TAAATATATA
* *
6758445 TATTTTTTAA-AATTAATTG
1 TATTTTTTAAGAAGTAATAG
* *
6758464 CATTTTTTAAGAAGAAATTATGG
1 TATTTTTTAAGAAGTAA-TA--G
*
6758487 TAGTTTTTAAGAAGTAATAG
1 TATTTTTTAAGAAGTAATAG
6758507 TATTTTT
1 TATTTTT
6758514 AAAGGATAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 9 0.24
20 11 0.29
21 1 0.03
22 2 0.05
23 15 0.39
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.49
Consensus pattern (20 bp):
TATTTTTTAAGAAGTAATAG
Found at i:6766391 original size:22 final size:23
Alignment explanation
Indices: 6766345--6766391 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
6766335 ATATCCAGTT
* *
6766345 GTAGTTATAGTATCAGTTAAGTA
1 GTAGTTAAAGTATCAGCTAAGTA
*
6766368 GTAGTTAAAG-ATCAGCTAATTA
1 GTAGTTAAAGTATCAGCTAAGTA
6766390 GT
1 GT
6766392 CGATTAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (23 bp):
GTAGTTAAAGTATCAGCTAAGTA
Found at i:6767956 original size:68 final size:68
Alignment explanation
Indices: 6767777--6768172 Score: 320
Period size: 68 Copynumber: 5.8 Consensus size: 68
6767767 TCTAAACTCG
* * * * * * *
6767777 TGTTTAACGTCCTGGCAAACTCTATTAGTTGT-CATAGTCGAGTTATGGTTTTACACACCTTGTA
1 TGTTTAATGTCCTGACAGACTCTATTGGTT-TCCATAGCCGAGCTATGGTCTT--ACACCTTGTA
**
6767841 ACCTTA
63 ACCCCA
* ** ** * * * ** *
6767847 T-TTGAATGTTTTGGTAGACTCTATTGGCTGCCTTAATCGAGCTATGGTCTTACACCTTATAACC
1 TGTTTAATGTCCTGACAGACTCTATTGGTTTCCATAGCCGAGCTATGGTCTTACACCTTGTAACC
6767911 CCA
66 CCA
* * *
6767914 TGTTTAATGTCTTGACGGGCTCTATTGGTTGT-CATAGCCGAGCTATGGTCTTACACCTTGTAAC
1 TGTTTAATGTCCTGACAGACTCTATTGGTT-TCCATAGCCGAGCTATGGTCTTACACCTTGTAAC
**
6767978 TTCA
65 CCCA
* * * * * *
6767982 TGTTTAATGTCATGGCAGATTCTATTGGTTGT-TATAGTCGAGCTATGGTCTTACATCTTGTAA-
1 TGTTTAATGTCCTGACAGACTCTATTGGTT-TCCATAGCCGAGCTATGGTCTTACACCTTGTAAC
6768045 CCCA
65 CCCA
* * * *
6768049 TGTTTAATGTCCTGGCAGACT-TCATTAGTTTCCATAACTGAGCTATGGTCTTACACCTTGTAAC
1 TGTTTAATGTCCTGACAGACTCT-ATTGGTTTCCATAGCCGAGCTATGGTCTTACACCTTGTAAC
*
6768113 CTCA
65 CCCA
* * * *
6768117 TGTTTAATATCCT-AGCGGACTCTATTGGTTTCCATCGTCGAGCTATGGTCTTACAC
1 TGTTTAATGTCCTGA-CAGACTCTATTGGTTTCCATAGCCGAGCTATGGTCTTACAC
6768173 ATTAAACCTC
Statistics
Matches: 261, Mismatches: 57, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
66 2 0.01
67 67 0.26
68 154 0.59
69 37 0.14
70 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (68 bp):
TGTTTAATGTCCTGACAGACTCTATTGGTTTCCATAGCCGAGCTATGGTCTTACACCTTGTAACC
CCA
Found at i:6768097 original size:135 final size:136
Alignment explanation
Indices: 6767777--6768180 Score: 397
Period size: 135 Copynumber: 3.0 Consensus size: 136
6767767 TCTAAACTCG
* * * ** * *
6767777 TGTTTAACGTCCTGGCAAACTCTATTAGTTGTCATAGTCGAGTTATGGTTTTACACACCTTGTAA
1 TGTTTAATGTCCTGACAGACTCTATTAGTTGTCATAACCGAGCTATGGTCTT--ACACCTTGTAA
* * * ** * * * * * *
6767842 CCTTAT-TTGAATGTTTTGGTAGACTCTATTGGCTGCCTTAATCGAGCTATGGTCTTACACCTTA
64 CCTCATGTTTAATATCATAGCAGACTCTATTGGTTTCCATAGTCGAGCTATGGTCTTACACCTTA
6767906 TAACCCCA
129 TAACCCCA
* * * * * *
6767914 TGTTTAATGTCTTGACGGGCTCTATTGGTTGTCATAGCCGAGCTATGGTCTTACACCTTGTAACT
1 TGTTTAATGTCCTGACAGACTCTATTAGTTGTCATAACCGAGCTATGGTCTTACACCTTGTAACC
* * * * * *
6767979 TCATGTTTAATGTCATGGCAGATTCTATTGGTTGT-TATAGTCGAGCTATGGTCTTACATCTTGT
66 TCATGTTTAATATCATAGCAGACTCTATTGGTT-TCCATAGTCGAGCTATGGTCTTACACCTTAT
6768043 AA-CCCA
130 AACCCCA
* *
6768049 TGTTTAATGTCCTGGCAGACT-TCATTAGTT-TCCATAACTGAGCTATGGTCTTACACCTTGTAA
1 TGTTTAATGTCCTGACAGACTCT-ATTAGTTGT-CATAACCGAGCTATGGTCTTACACCTTGTAA
* * * *
6768112 CCTCATGTTTAATATCCTAGCGGACTCTATTGGTTTCCATCGTCGAGCTATGGTCTTACACATTA
64 CCTCATGTTTAATATCATAGCAGACTCTATTGGTTTCCATAGTCGAGCTATGGTCTTACACCTTA
6768177 -AACC
129 TAACC
6768181 TCTTTTGAGG
Statistics
Matches: 219, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
134 5 0.02
135 124 0.57
136 48 0.22
137 42 0.19
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (136 bp):
TGTTTAATGTCCTGACAGACTCTATTAGTTGTCATAACCGAGCTATGGTCTTACACCTTGTAACC
TCATGTTTAATATCATAGCAGACTCTATTGGTTTCCATAGTCGAGCTATGGTCTTACACCTTATA
ACCCCA
Found at i:6769076 original size:16 final size:16
Alignment explanation
Indices: 6769055--6769107 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
6769045 ATCTAAAACC
6769055 AAATATTTAGAATTTA
1 AAATATTTAGAATTTA
**
6769071 AAATATTATA-AACCTA
1 AAATATT-TAGAATTTA
6769087 AAATAATTT-GAATTTA
1 AAAT-ATTTAGAATTTA
6769103 AAATA
1 AAATA
6769108 AAAAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 24 0.80
17 5 0.17
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (16 bp):
AAATATTTAGAATTTA
Found at i:6770616 original size:8 final size:8
Alignment explanation
Indices: 6770605--6770659 Score: 69
Period size: 8 Copynumber: 7.0 Consensus size: 8
6770595 TTTTCTAATA
*
6770605 TTATTTTT
1 TTATTATT
6770613 TTATTATT
1 TTATTATT
6770621 TTATTATT
1 TTATTATT
*
6770629 ATATTA--
1 TTATTATT
6770635 TTATTATT
1 TTATTATT
6770643 ATTATTATT
1 -TTATTATT
6770652 TTATTATT
1 TTATTATT
6770660 GTTTGGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 5 0.12
8 28 0.68
9 8 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTATTATT
Found at i:6770617 original size:11 final size:11
Alignment explanation
Indices: 6770603--6770709 Score: 85
Period size: 11 Copynumber: 9.8 Consensus size: 11
6770593 AATTTTCTAA
*
6770603 TATTATTTTTT
1 TATTATTTTAT
6770614 TATTATTTTAT
1 TATTATTTTAT
*
6770625 TATTATATTAT
1 TATTATTTTAT
6770636 TATTA--TTAT
1 TATTATTTTAT
6770645 TATTATTTTAT
1 TATTATTTTAT
* *
6770656 TATTGTTTGGA-
1 TATTATTT-TAT
* * *
6770667 TATTATATAAC
1 TATTATTTTAT
* *
6770678 TCTTGTTTTAT
1 TATTATTTTAT
*
6770689 TATTAATTTTGT
1 TATT-ATTTTAT
6770701 TATTATTTT
1 TATTATTTT
6770710 TAAAGACATT
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
9 9 0.12
10 1 0.01
11 56 0.74
12 10 0.13
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:6770619 original size:3 final size:3
Alignment explanation
Indices: 6770603--6770659 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
6770593 AATTTTCTAA
*
6770603 TAT TAT T-T TTT TAT TAT T-T TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6770648 TAT T-T TAT TAT T
1 TAT TAT TAT TAT T
6770660 GTTTGGATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
2 8 0.16
3 41 0.84
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:6773185 original size:20 final size:20
Alignment explanation
Indices: 6773142--6773187 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
6773132 AATTACTTAC
* *
6773142 TCAAATATAAAATTAAATAT
1 TCAAATATAAAATTAAACAA
**
6773162 TCAAATATAAAATTATCCAA
1 TCAAATATAAAATTAAACAA
6773182 TCAAAT
1 TCAAAT
6773188 GCAACTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.33
Consensus pattern (20 bp):
TCAAATATAAAATTAAACAA
Found at i:6774697 original size:21 final size:21
Alignment explanation
Indices: 6774673--6774725 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
6774663 CATTGTTTCT
6774673 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
6774694 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
6774715 AATCTCACCGC
1 AATCTCACCGC
6774726 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:6781763 original size:21 final size:21
Alignment explanation
Indices: 6781737--6781780 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
6781727 TAATGCACTT
6781737 ACAAGTGCAATCACTTTGCTC
1 ACAAGTGCAATCACTTTGCTC
*
6781758 ACAAGTGCAATCACTTTTCTC
1 ACAAGTGCAATCACTTTGCTC
6781779 AC
1 AC
6781781 TAAGCCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (21 bp):
ACAAGTGCAATCACTTTGCTC
Found at i:6783642 original size:24 final size:24
Alignment explanation
Indices: 6783598--6783651 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
6783588 ATGCAATGCT
*
6783598 ATATT-TATGTTTTAAATTGATTTA
1 ATATTATATGATTTAAATTGA-TTA
* *
6783622 ATATTATATGATTTATA-TGATTG
1 ATATTATATGATTTAAATTGATTA
6783645 ATATTAT
1 ATATTAT
6783652 GAGCAAGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 8 0.31
25 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (24 bp):
ATATTATATGATTTAAATTGATTA
Found at i:6783797 original size:42 final size:42
Alignment explanation
Indices: 6783742--6783905 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
6783732 TAGGGTTATG
6783742 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
6783784 TGTGATTTTGTGTAAGACCATGTCTGGGACATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* ** * * * *
6783826 TGAGACATCGTGTAAGACCATAACTGGGCTATCGGAATCGGTA
1 TGTGATTTCGTGTAAGACCATATCTGGGATAT-GGCATCGATA
** * *
6783869 TGTGATCCCATGTAAGACCATATCTAGGATATGGCAT
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCAT
6783906 TGACATCTTA
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 67 0.68
43 32 0.32
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:6783903 original size:85 final size:84
Alignment explanation
Indices: 6783749--6783905 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 84
6783739 ATGTGTGATT
* * **** * *
6783749 TCGTGTAAGACCATATCTGGGATATGGCATCGATATGTGATTTTGTGTAAGACCATGTCTGGGAC
1 TCGTGTAAGACCATAACTGGGATATGGAATCGATATGTGATCCCATGTAAGACCATATCTAGGAC
6783814 ATGGCATCGATATGAGACA
66 ATGGCATCGATATGAGACA
* *
6783833 TCGTGTAAGACCATAACTGGGCTATCGGAATCGGTATGTGATCCCATGTAAGACCATATCTAGGA
1 TCGTGTAAGACCATAACTGGGATAT-GGAATCGATATGTGATCCCATGTAAGACCATATCTAGGA
*
6783898 TATGGCAT
65 CATGGCAT
6783906 TGACATCTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 23 0.38
85 38 0.62
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (84 bp):
TCGTGTAAGACCATAACTGGGATATGGAATCGATATGTGATCCCATGTAAGACCATATCTAGGAC
ATGGCATCGATATGAGACA
Found at i:6787805 original size:64 final size:68
Alignment explanation
Indices: 6787722--6787872 Score: 188
Period size: 67 Copynumber: 2.3 Consensus size: 68
6787712 ATACTATGTG
* * * *
6787722 GTAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACCATGTAGACAAGAGAGCTACGGGAT-A
1 GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
6787783 AAT
66 AAT
* * *
6787786 GTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
1 GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
6787851 AAT
66 AAT
*
6787854 G--GCTAGGTCACATGGGTGG
1 GTAGCTAGGTCACATGTGTGG
6787873 TACTAAGTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
64 18 0.24
65 3 0.04
66 18 0.24
67 30 0.41
68 5 0.07
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.22
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
AAT
Found at i:6789930 original size:5 final size:6
Alignment explanation
Indices: 6789915--6789955 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
6789905 AATTATATGT
*
6789915 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
6789956 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:6790555 original size:15 final size:15
Alignment explanation
Indices: 6790528--6790573 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6790518 TTTTGCCCGG
6790528 GCTAAAAAGCCCAACA
1 GCTAAAAA-CCCAACA
*
6790544 TCTAAAAACCCAACA
1 GCTAAAAACCCAACA
**
6790559 GCCCAAAACCCAACA
1 GCTAAAAACCCAACA
6790574 ACCTCCAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (15 bp):
GCTAAAAACCCAACA
Found at i:6790594 original size:17 final size:16
Alignment explanation
Indices: 6790548--6790594 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
6790538 CCAACATCTA
*
6790548 AAAACCCAACAGC-CC
1 AAAACCCAACACCTCC
6790563 AAAACCCAACAACCTCC
1 AAAACCCAAC-ACCTCC
6790580 AAAACCCAATCACCT
1 AAAACCCAA-CACCT
6790595 AAACCCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 10 0.36
16 2 0.07
17 15 0.54
18 1 0.04
ACGTcount: A:0.47, C:0.45, G:0.02, T:0.06
Consensus pattern (16 bp):
AAAACCCAACACCTCC
Found at i:6790677 original size:22 final size:22
Alignment explanation
Indices: 6790652--6790713 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
6790642 CAAATATCTT
6790652 CACTCCAACCACTCCACTAAAC
1 CACTCCAACCACTCCACTAAAC
*
6790674 CACTCCAACCACCCCACTAAAC
1 CACTCCAACCACTCCACTAAAC
*
6790696 CA-TCCCAACTACTCCACT
1 CACT-CCAACCACTCCACT
6790714 TGCCTACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.15
Consensus pattern (22 bp):
CACTCCAACCACTCCACTAAAC
Found at i:6791119 original size:19 final size:18
Alignment explanation
Indices: 6791082--6791123 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
6791072 GGGGAGAGTG
*
6791082 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
6791100 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
6791119 TTATT
1 TTATT
6791124 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:6791219 original size:23 final size:23
Alignment explanation
Indices: 6791135--6791219 Score: 55
Period size: 23 Copynumber: 3.6 Consensus size: 23
6791125 CTAATACCAC
* *
6791135 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
6791158 TATTATAATACCTTTTCATTATTAT
1 TATTATTATA--TTTTTACTATTAT
* * * *
6791183 AACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
6791206 TATTATTATATTTT
1 TATTATTATATTTT
6791220 CCTTTTTTTG
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
22 1 0.02
23 29 0.66
24 9 0.20
25 5 0.11
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:6802125 original size:206 final size:206
Alignment explanation
Indices: 6801767--6802803 Score: 1808
Period size: 206 Copynumber: 5.0 Consensus size: 206
6801757 GATCTGACTA
* * *
6801767 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTTAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
6801831 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTTTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
6801896 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
6801961 TGTTTATACTG
196 TGTTTATACTG
6801972 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* *
6802037 TTGGCTTTTGCGTGCTTACGGTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
6802102 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGCCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
6802167 TGTTTATACTG
196 TGTTTATACTG
*
6802178 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACGAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* * * *
6802243 TTGGCTTCCGCGTGCTTACGCTAAAGTAAGTTTAAGATGATTTGGCATCTCTGTATTATCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * * *
6802308 ACAAGTCGAAGTTTGGCATCTCCATTTTGACCGAGAGCAGATACATAACAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
6802373 TGTTTATACTG
196 TGTTTATACTG
*
6802384 AAG-AAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAATACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
6802448 TTGGCTTTCGCGTGCTTACGCTAAAACAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * *
6802513 ACAAGTCAAAGTCTGGCATCTCTATTTCGACGGAAAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
*
6802578 TGTTTATACTA
196 TGTTTATACTG
* ** *
6802589 AAGTAAGATCCAAGATGATTTGGCATCCTCCTGCTTACAAGGAGCAAATCGAAGATATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
6802654 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAAAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
6802719 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
*
6802784 TGTTTATACCG
196 TGTTTATACTG
6802795 AAGCAAGAT
1 AAGCAAGAT
6802804 TTTCGACGGA
Statistics
Matches: 784, Mismatches: 46, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
205 194 0.25
206 590 0.75
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:6802576 original size:411 final size:412
Alignment explanation
Indices: 6801763--6802803 Score: 1816
Period size: 411 Copynumber: 2.5 Consensus size: 412
6801753 AGCAGATCTG
* *
6801763 ACTAAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGC
1 ACTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGC
* *
6801827 TTATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTTTGTATTGTCA
66 TGATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCA
6801892 GAGAACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
131 GAGAACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
6801957 CAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATC
196 CAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATC
* * *
6802022 GAAGACATAGCTGATTTGGCTTTTGCGTGCTTACGGTAAAGCAAGTCTAAGATGATTTGGCATCT
261 GAAGACATAGCTGATTTGGCTTTCGCGTGCTTACGCTAAAACAAGTCTAAGATGATTTGGCATCT
* *
6802087 CTGTATTGTCAGAGAACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCA
326 CTGTATTGTCAGAGAACAAGTCAAAGTCTGGCATCTCCATTTCGACGGAAAGCAGATACATAGCA
6802152 GATCTGCCCTTCAGATGTTTAT
391 GATCTGCCCTTCAGATGTTTAT
* *
6802174 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACGAGGAGCAAATCGAAGACATAGC
1 ACTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGC
* * * *
6802239 TGATTTGGCTTCCGCGTGCTTACGCTAAAGTAAGTTTAAGATGATTTGGCATCTCTGTATTATCA
66 TGATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCA
* * * *
6802304 GAGAACAAGTCGAAGTTTGGCATCTCCATTTTGACCGAGAGCAGATACATAACAGATCTGGCCTT
131 GAGAACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
6802369 CAGATGTTTATACTGAAG-AAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATC
196 CAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATC
*
6802433 GAATACATAGCTGATTTGGCTTTCGCGTGCTTACGCTAAAACAAGTCTAAGATGATTTGGCATCT
261 GAAGACATAGCTGATTTGGCTTTCGCGTGCTTACGCTAAAACAAGTCTAAGATGATTTGGCATCT
*
6802498 CTGTATTGTCAGAGAACAAGTCAAAGTCTGGCATCTCTATTTCGACGGAAAGCAGATACATAGCA
326 CTGTATTGTCAGAGAACAAGTCAAAGTCTGGCATCTCCATTTCGACGGAAAGCAGATACATAGCA
*
6802563 GATCTGGCCTTCAGATGTTTAT
391 GATCTGCCCTTCAGATGTTTAT
* ** *
6802585 ACTAAAGTAAGATCCAAGATGATTTGGCATCCTCCTGCTTACAAGGAGCAAATCGAAGATATAGC
1 ACTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGC
6802650 TGATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCA
66 TGATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCA
*
6802715 AAGAACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
131 GAGAACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
*
6802780 CAGATGTTTATACCGAAGCAAGAT
196 CAGATGTTTATACTGAAGCAAGAT
6802804 TTTCGACGGA
Statistics
Matches: 590, Mismatches: 38, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
411 394 0.67
412 196 0.33
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (412 bp):
ACTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGC
TGATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCA
GAGAACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
CAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATC
GAAGACATAGCTGATTTGGCTTTCGCGTGCTTACGCTAAAACAAGTCTAAGATGATTTGGCATCT
CTGTATTGTCAGAGAACAAGTCAAAGTCTGGCATCTCCATTTCGACGGAAAGCAGATACATAGCA
GATCTGCCCTTCAGATGTTTAT
Found at i:6802838 original size:61 final size:61
Alignment explanation
Indices: 6802743--6802864 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
6802733 GGCATCTCCA
6802743 TTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTTATACCGAAGCAAGAT
1 TTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTTATACCGAAGCAAGAT
6802804 TTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTTATACCGAAGCAAGAT
1 TTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTTATACCGAAGCAAGAT
6802865 CCAAGATGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (61 bp):
TTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTTATACCGAAGCAAGAT
Found at i:6803094 original size:45 final size:45
Alignment explanation
Indices: 6802998--6803094 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
6802988 AGATTGACGA
*
6802998 AGCAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
1 AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
* *
6803043 -GACAGATTTGGCGTTTCTGTATTAGACGGGGAGTAGATCAAAGAT
1 AG-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
6803088 AGCAGAT
1 AGCAGAT
6803095 ATCGCTTTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 1 0.02
45 45 0.96
46 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (45 bp):
AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
Found at i:6803419 original size:13 final size:13
Alignment explanation
Indices: 6803401--6803447 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
6803391 TCTTCACTCC
6803401 AACCACTCCACTA
1 AACCACTCCACTA
*
6803414 AACCACCCCACTA
1 AACCACTCCACTA
6803427 AACCAC-CC-C--
1 AACCACTCCACTA
6803436 AACCACTCCACT
1 AACCACTCCACT
6803448 TGCCTACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 6 0.20
10 2 0.07
11 2 0.07
12 2 0.07
13 18 0.60
ACGTcount: A:0.36, C:0.53, G:0.00, T:0.11
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:6803949 original size:23 final size:23
Alignment explanation
Indices: 6803865--6803949 Score: 55
Period size: 23 Copynumber: 3.6 Consensus size: 23
6803855 CTAATACCAC
* *
6803865 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
6803888 TATTATAATACCTTTTCATTATTAT
1 TATTATTATA--TTTTTACTATTAT
* * * *
6803913 AACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
6803936 TATTATTATATTTT
1 TATTATTATATTTT
6803950 CCTTTTTTTG
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
22 1 0.02
23 29 0.66
24 9 0.20
25 5 0.11
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:6807496 original size:38 final size:38
Alignment explanation
Indices: 6807449--6807529 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
6807439 ATATGCATAA
*
6807449 AATACCTTAGTCTTCTTGAGGTTCTTCATAAGCAACCC
1 AATAGCTTAGTCTTCTTGAGGTTCTTCATAAGCAACCC
6807487 AATAGCTTAGTCTTCTTGAGGTTCTTCATAAGCAACCC
1 AATAGCTTAGTCTTCTTGAGGTTCTTCATAAGCAACCC
6807525 AATAG
1 AATAG
6807530 TCTCTTCATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (38 bp):
AATAGCTTAGTCTTCTTGAGGTTCTTCATAAGCAACCC
Found at i:6808634 original size:6 final size:6
Alignment explanation
Indices: 6808624--6808708 Score: 143
Period size: 6 Copynumber: 14.2 Consensus size: 6
6808614 GTATATATAC
* * *
6808624 AGAGAG GGAGAG GGAGAG AGGGAG AGAGAG AGAGAG AGAGAG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
6808672 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG A
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG A
6808709 TTTGATACGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (6 bp):
AGAGAG
Found at i:6808635 original size:8 final size:8
Alignment explanation
Indices: 6808624--6808708 Score: 143
Period size: 8 Copynumber: 10.6 Consensus size: 8
6808614 GTATATATAC
*
6808624 AGAGAGGG
1 AGAGAGAG
*
6808632 AGAGGGAG
1 AGAGAGAG
*
6808640 AGAGGGAG
1 AGAGAGAG
6808648 AGAGAGAG
1 AGAGAGAG
6808656 AGAGAGAG
1 AGAGAGAG
6808664 AGAGAGAG
1 AGAGAGAG
6808672 AGAGAGAG
1 AGAGAGAG
6808680 AGAGAGAG
1 AGAGAGAG
6808688 AGAGAGAG
1 AGAGAGAG
6808696 AGAGAGAG
1 AGAGAGAG
6808704 AGAGA
1 AGAGA
6808709 TTTGATACGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 74 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (8 bp):
AGAGAGAG
Found at i:6808641 original size:14 final size:14
Alignment explanation
Indices: 6808624--6808708 Score: 143
Period size: 14 Copynumber: 6.1 Consensus size: 14
6808614 GTATATATAC
* *
6808624 AGAGAGGGAGAGGG
1 AGAGAGAGAGAGAG
*
6808638 AGAGAGGGAGAGAG
1 AGAGAGAGAGAGAG
6808652 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGAG
6808666 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGAG
6808680 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGAG
6808694 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGAG
6808708 A
1 A
6808709 TTTGATACGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 69 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (14 bp):
AGAGAGAGAGAGAG
Found at i:6808948 original size:3 final size:3
Alignment explanation
Indices: 6808940--6808986 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6808930 AACTTGAGGA
6808940 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
6808987 GCCGACGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:6809236 original size:63 final size:63
Alignment explanation
Indices: 6808970--6809223 Score: 388
Period size: 63 Copynumber: 4.1 Consensus size: 63
6808960 TGATGATGAT
* *
6808970 GATGATGATGATGATGAGCCGACGTTTGGAGGTGGAGGCGTTCGTAACCAAGAAGGAACTT--
1 GATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAGAAGGAACTTGA
*
6809031 GA-GATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAGTAGGAACTTGA
1 GATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAGAAGGAACTTGA
* * *
6809093 GATGATGATGATGATGATCCGACGTTTGGAGGTGGACGCGTCTGTAACCAAGAAGGAACTTTA
1 GATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAGAAGGAACTTGA
* ** * *
6809156 GATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCATTTGTAACGAAGAAGAAACTTGA
1 GATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAGAAGGAACTTGA
6809219 GATGA
1 GATGA
6809224 CGACGACGAT
Statistics
Matches: 177, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
60 55 0.31
61 2 0.01
62 2 0.01
63 118 0.67
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (63 bp):
GATGATGATGATGATGATCCGACGTTTGGAGGTGGAGGCGTCCGTAACCAAGAAGGAACTTGA
Found at i:6809242 original size:18 final size:18
Alignment explanation
Indices: 6809219--6809266 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
6809209 AGAAACTTGA
*
6809219 GATGACGACGACGATGAT
1 GATGACGACGACGATGAC
*
6809237 GATGACGACGAAGATGAC
1 GATGACGACGACGATGAC
6809255 GATGACG-CGACG
1 GATGACGACGACG
6809267 TTTCGAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.33, C:0.19, G:0.35, T:0.12
Consensus pattern (18 bp):
GATGACGACGACGATGAC
Found at i:6809243 original size:15 final size:15
Alignment explanation
Indices: 6809218--6809261 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
6809208 AAGAAACTTG
6809218 AGATGACGACGACGA
1 AGATGACGACGACGA
* *
6809233 TGATGATGACGACGA
1 AGATGACGACGACGA
*
6809248 AGATGACGATGACG
1 AGATGACGACGACG
6809262 CGACGTTTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.34, T:0.14
Consensus pattern (15 bp):
AGATGACGACGACGA
Found at i:6812198 original size:11 final size:11
Alignment explanation
Indices: 6812184--6812228 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
6812174 AGATAAATAT
6812184 TATTTTATTAA
1 TATTTTATTAA
*
6812195 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
6812208 TATTTTATTAT
1 TATTTTATTAA
6812219 TATTTTATTA
1 TATTTTATTA
6812229 GTATATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:6814029 original size:45 final size:45
Alignment explanation
Indices: 6813980--6814101 Score: 124
Period size: 45 Copynumber: 2.7 Consensus size: 45
6813970 TCCCAGAAAC
*
6813980 GAGTAAGACCATATCTAAAAGATGCTATGGCATCGA-AATTCAGAT
1 GAGTAAGACCATATCTGAAAGATGCTATGGCATC-ACAATTCAGAT
* * * * * *
6814025 GAGTAAGGCCATAGCTGAAAGACGATATGGCATCACGATTTAGAT
1 GAGTAAGACCATATCTGAAAGATGCTATGGCATCACAATTCAGAT
*
6814070 -ATGTAAGACCATAGT-TGAAAGATACTATGGCA
1 GA-GTAAGACCATA-TCTGAAAGATGCTATGGCA
6814102 ATATGACGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
44 2 0.03
45 60 0.97
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATATCTGAAAGATGCTATGGCATCACAATTCAGAT
Found at i:6814136 original size:46 final size:45
Alignment explanation
Indices: 6814073--6814231 Score: 228
Period size: 46 Copynumber: 3.5 Consensus size: 45
6814063 TTTAGATATG
* * *
6814073 TAAGACCATAGTTGAAAGATACTATGGCAATATGACGAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
* *
6814119 TAAAACCATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
* *
6814165 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGGAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
6814211 TAAGACCATGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
6814232 GAAATGAATA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 101 0.99
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:6814241 original size:29 final size:29
Alignment explanation
Indices: 6814203--6814258 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6814193 AACCTGACAG
*
6814203 GAAATAAATAAGACCATGGTTGAAAGATA
1 GAAATAAATAAGACCATAGTTGAAAGATA
* *
6814232 GAAATGAATAAGACCATAGTTGGAAGA
1 GAAATAAATAAGACCATAGTTGAAAGA
6814259 CACTATGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (29 bp):
GAAATAAATAAGACCATAGTTGAAAGATA
Found at i:6816278 original size:25 final size:25
Alignment explanation
Indices: 6816250--6816304 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
6816240 TTTGTGGAAA
* *
6816250 GCCACCACTGAATTATATATATACT
1 GCCACCACTGAATTACAGATATACT
* *
6816275 GCCACCACTGATTTGCAGATATACT
1 GCCACCACTGAATTACAGATATACT
6816300 GCCAC
1 GCCAC
6816305 TGCTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (25 bp):
GCCACCACTGAATTACAGATATACT
Found at i:6819757 original size:46 final size:44
Alignment explanation
Indices: 6819663--6819877 Score: 150
Period size: 46 Copynumber: 4.7 Consensus size: 44
6819653 GATCAGGTGT
6819663 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGC
* * **
6819709 CGATGCACGTCCCAGACATGTCTTACACTGGCTTAGGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GC
* * *
6819755 CGATGTATATCCCAGACATGTCTTACACTAACAC-TCGTC-TCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACACATC-TCGT--A-GC
* * * * * *
6819801 CGATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACT-G-ACACAT-CTCGTAGC
*
6819849 CGATGCATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
6819878 AGTTCACACA
Statistics
Matches: 134, Mismatches: 21, Indels: 28
0.73 0.11 0.15
Matches are distributed among these distances:
43 2 0.01
44 15 0.11
45 14 0.10
46 57 0.43
47 25 0.19
48 16 0.12
50 2 0.01
51 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGTAGC
Found at i:6821853 original size:3 final size:3
Alignment explanation
Indices: 6821845--6821869 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6821835 ATATTACTAG
6821845 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
6821870 AATAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6822176 original size:42 final size:42
Alignment explanation
Indices: 6822129--6822212 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
6822119 AGAAAAAGAA
6822129 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
1 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
6822171 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
1 AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
6822213 CTTAATTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.52, C:0.02, G:0.26, T:0.19
Consensus pattern (42 bp):
AAGAGAAAAGAAAAAGGAAGAATTAGAGTTTTAAGGTTCAAG
Found at i:6822450 original size:80 final size:80
Alignment explanation
Indices: 6822317--6822476 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
6822307 GTAAGTTTGT
6822317 ATAACTTGAATGAGTATGTAAATATGTTAATTTAAATGTTGTATTGTATTGTATATAATATATGA
1 ATAACTTGAATGAGTATGTAAATATGTTAATTTAAATGTTGTATTGTATTGTATATAATATATGA
6822382 AATTGAATATATGAA
66 AATTGAATATATGAA
6822397 ATAACTTGAATGAGTATGTAAATATGTTAATTTAAATGTTGTATTGTATTGTATATAATATATGA
1 ATAACTTGAATGAGTATGTAAATATGTTAATTTAAATGTTGTATTGTATTGTATATAATATATGA
6822462 AATTGAATATATGAA
66 AATTGAATATATGAA
6822477 TTATATAGAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.42
Consensus pattern (80 bp):
ATAACTTGAATGAGTATGTAAATATGTTAATTTAAATGTTGTATTGTATTGTATATAATATATGA
AATTGAATATATGAA
Found at i:6822710 original size:40 final size:39
Alignment explanation
Indices: 6822655--6822769 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 39
6822645 CCTTCTCGAG
6822655 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
*
6822695 AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * * * * *
6822734 TATATAAACTGGATAGGATATGTTCTTGATTCACTA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTA
6822770 TGGTAACTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.04
40 64 0.96
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:6825896 original size:16 final size:17
Alignment explanation
Indices: 6825865--6825897 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6825855 TTCATAAGTA
6825865 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
6825882 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
6825898 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:6826344 original size:92 final size:92
Alignment explanation
Indices: 6826183--6826359 Score: 291
Period size: 92 Copynumber: 1.9 Consensus size: 92
6826173 TTTGACATGA
* * * *
6826183 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
6826248 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATGTCACGC
* * *
6826275 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
6826340 CATGGTCTTATTCATTTCAT
66 CATGGTCTTATTCATTTCAT
6826360 ATCAGTGGTC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATGTCACGC
Found at i:6826357 original size:46 final size:46
Alignment explanation
Indices: 6826178--6826357 Score: 261
Period size: 46 Copynumber: 3.9 Consensus size: 46
6826168 TTGTCTTTGA
* * * * * *
6826178 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
6826224 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * *
6826270 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
6826316 CATGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
6826358 ATATCAGTGG
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:6826369 original size:23 final size:22
Alignment explanation
Indices: 6826333--6826384 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
6826323 CCATGGTATC
**
6826333 TTTCA-ATCATGGTCTTATTCA
1 TTTCATATCATGGTCTTACACA
6826354 TTTCATATCAGTGGTCTTACACA
1 TTTCATATCA-TGGTCTTACACA
6826377 TTTCATAT
1 TTTCATAT
6826385 TAGGTTGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 18 0.67
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (22 bp):
TTTCATATCATGGTCTTACACA
Found at i:6826380 original size:69 final size:69
Alignment explanation
Indices: 6826296--6826433 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
6826286 CTTTCAACCA
** * * * * **
6826296 TGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCATA
1 TGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
6826361 TCAG
66 TCAG
* *
6826365 TGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
6826430 TCAG
66 TCAG
6826434 GTTGCCATGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (69 bp):
TGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
TCAG
Found at i:6826415 original size:46 final size:46
Alignment explanation
Indices: 6826365--6826479 Score: 221
Period size: 46 Copynumber: 2.5 Consensus size: 46
6826355 TTCATATCAG
*
6826365 TGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
6826411 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
6826457 TGGTCTTACACATTTCATATCAG
1 TGGTCTTACACATTTCATATCAG
6826480 AGAGCACACT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
Found at i:6826872 original size:26 final size:26
Alignment explanation
Indices: 6826820--6826873 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
6826810 TCCCCTTTTT
*
6826820 ATTCAAATTATTTTCATACAATGAAC
1 ATTCAAATTATTTTCACACAATGAAC
6826846 ATTCAAATTATTTTCACATCAAT-AAC
1 ATTCAAATTATTTTCACA-CAATGAAC
6826872 AT
1 AT
6826874 ACATTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTCAAATTATTTTCACACAATGAAC
Found at i:6827843 original size:14 final size:14
Alignment explanation
Indices: 6827824--6827851 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6827814 CCCGTTTGTT
6827824 TCTATTGAAAATAG
1 TCTATTGAAAATAG
6827838 TCTATTGAAAATAG
1 TCTATTGAAAATAG
6827852 ACTCATTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
TCTATTGAAAATAG
Found at i:6831438 original size:16 final size:17
Alignment explanation
Indices: 6831407--6831439 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6831397 TTCATAAGTA
6831407 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
6831424 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
6831440 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:6831852 original size:46 final size:46
Alignment explanation
Indices: 6831724--6831854 Score: 192
Period size: 46 Copynumber: 2.8 Consensus size: 46
6831714 TTTGACATGA
* * * * * *
6831724 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
6831770 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
6831816 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
6831855 ATCAGTGGTC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.05
46 74 0.95
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
Found at i:6831897 original size:115 final size:115
Alignment explanation
Indices: 6831768--6831974 Score: 351
Period size: 115 Copynumber: 1.8 Consensus size: 115
6831758 TTTCTGTCAT
** *
6831768 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCA
**
6831833 ACCATGGTCTTATTCATTTCATATCAGTGGTCTTACACATTTCATATTAG
66 ACCATGGTCTTACACATTTCATATCAGTGGTCTTACACATTTCATATTAG
* *
6831883 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCA
6831948 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTACACATTTCATATCAG
6831975 AGAGCACACT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 85 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (115 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCATATCAGTGGTCTTACACATTTCATATTAG
Found at i:6831910 original size:46 final size:46
Alignment explanation
Indices: 6831860--6831974 Score: 221
Period size: 46 Copynumber: 2.5 Consensus size: 46
6831850 TTCATATCAG
*
6831860 TGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
6831906 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
1 TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
6831952 TGGTCTTACACATTTCATATCAG
1 TGGTCTTACACATTTCATATCAG
6831975 AGAGCACACT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
Found at i:6832368 original size:26 final size:26
Alignment explanation
Indices: 6832316--6832369 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
6832306 TCCCCTTTTT
*
6832316 ATTCAAATTATTTTCATACAATGAAC
1 ATTCAAATTATTTTCACACAATGAAC
6832342 ATTCAAATTATTTTCACATCAAT-AAC
1 ATTCAAATTATTTTCACA-CAATGAAC
6832368 AT
1 AT
6832370 ACATTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTCAAATTATTTTCACACAATGAAC
Found at i:6838855 original size:43 final size:42
Alignment explanation
Indices: 6838794--6838878 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
6838784 CTATTTTGTT
* * * *
6838794 GCGGTTGATTAGTGAGAGATATTGGTTTCTTCTTATAATATTA
1 GCGGTTCATCAGTGAGAGATACTGGTTT-TACTTATAATATTA
*
6838837 GCGGTTCATCAGTGAGAGATACTGGTTTTACTTATCATATTA
1 GCGGTTCATCAGTGAGAGATACTGGTTTTACTTATAATATTA
6838879 ACATATCTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 12 0.32
43 25 0.68
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (42 bp):
GCGGTTCATCAGTGAGAGATACTGGTTTTACTTATAATATTA
Found at i:6839003 original size:22 final size:22
Alignment explanation
Indices: 6838988--6839036 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6838978 AATATATATT
6838988 TATATTATTTGTAATAATTATA
1 TATATTATTTGTAATAATTATA
* *
6839010 TATATTATTTATTAA-AATTTTA
1 TATATTATTT-GTAATAATTATA
6839032 TATAT
1 TATAT
6839037 AATCATCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATTATTTGTAATAATTATA
Done.