Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 26 of 150
Found at i:6777856 original size:289 final size:281
Alignment explanation
Indices: 6777225--6777921 Score: 1056
Period size: 289 Copynumber: 2.4 Consensus size: 281
6777215 TAAAGGTATA
* *
6777225 ATAAAAGGTCTCAGACATCCAAGGAAGGATAAAAGCAGCACAAGCTCTCAAGCCCGGCGAAAAGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGA-AGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
*
6777290 GAAAGCTCTCAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
65 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
**
6777355 CCATACACATGAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTGA
130 CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTGA
* * *
6777420 AAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAATTGGATTTTCACGCGCAAATAAT
195 AAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATAAT
6777485 GAAAAACAACTATATACAAGTC
260 GAAAAACAACTATATACAAGTC
*
6777507 ATACAAGGTCTCAGACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAA-GAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
***
6777572 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTTGGA-TTATCATCATAAAC
65 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
* * * * *
6777636 CCATACACAACAAATATATTTTCCTTTGACTGAATTTTAAGAATATCGTTTATCAATTGAACTGA
130 CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTG-
* * * * *
6777701 ATAAAAAAAAGGGGGGAAAAATGTACAACCAGATTTCTGAGGAAGTGACTGGGTTTTCAAGCACA
194 --AAAAAAAA---GGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACA
*
6777766 AATAATG-AAAACAACAATCATATAGAAGTC
254 AATAATGAAAAACAAC--T-ATATACAAGTC
6777796 ATAAAAGGTCTCAGACATCCAAGGAAGGAAGGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAA-GAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
*
6777861 GAAAGCTCTTAGACGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCAT
65 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCAT
6777922 CGACTTTATA
Statistics
Matches: 375, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
281 72 0.19
282 106 0.28
284 8 0.02
286 8 0.02
287 51 0.14
288 1 0.00
289 119 0.32
290 10 0.03
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (281 bp):
ATAAAAGGTCTCAGACATCCAAGGAAGGAAGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGCG
AAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAACC
CATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGATTATCAATGGAACTGAA
AAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATAATG
AAAAACAACTATATACAAGTC
Found at i:6780501 original size:3 final size:3
Alignment explanation
Indices: 6780493--6780518 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6780483 ACGATGAAAA
6780493 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
6780519 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:6787455 original size:152 final size:152
Alignment explanation
Indices: 6787179--6787483 Score: 583
Period size: 152 Copynumber: 2.0 Consensus size: 152
6787169 TCATCAAATA
*
6787179 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAGAGGATG
1 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAAAGGATG
6787244 GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
66 GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
6787309 AATAAAATCTATTGAATGCTTT
131 AATAAAATCTATTGAATGCTTT
*
6787331 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTTTGTTGAAAAGGATG
1 ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAAAGGATG
*
6787396 GCAACAAGAAAGATGATGAAACCACAACCAAAGATGATATTTTTATACTTTTGAAAGCTAACAAG
66 GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
6787461 AATAAAATCTATTGAATGCTTT
131 AATAAAATCTATTGAATGCTTT
6787483 A
1 A
6787484 AAGAGAACTT
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (152 bp):
ACCATAAATGGACAAGATTTAGAGTTTCTTAGTGACTCTTGAAGGAGTCTCTGTTGAAAAGGATG
GCAACAAGAAAGATGATGAAACCACAACCAAAAATGATATTTTTATACTTTTGAAAGCTAACAAG
AATAAAATCTATTGAATGCTTT
Found at i:6793425 original size:29 final size:30
Alignment explanation
Indices: 6793391--6793468 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
6793381 AAGTTACAAA
* *
6793391 TTTAGTCCTTATACTTTT-ATTTGATCAAT
1 TTTAGTCCATATACTTTTAAATTGATCAAT
* * *
6793420 TTTAGTCCATGTACTTTTCAAATTGCTCACT
1 TTTAGTCCATATACTTTT-AAATTGATCAAT
*
6793451 TTTAGTCCCTATACTTTT
1 TTTAGTCCATATACTTTT
6793469 GTAATTATGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.40
31 24 0.60
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (30 bp):
TTTAGTCCATATACTTTTAAATTGATCAAT
Found at i:6796307 original size:30 final size:31
Alignment explanation
Indices: 6796234--6796316 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
6796224 ACATATATAA
* ** *
6796234 AAATAATAATTATCTACATATATATAGATTAT
1 AAATAATAATAAT-TACATATATATAGAAAAC
6796266 AAA-AA-AGATAATTACATATATATA-AAAAC
1 AAATAATA-ATAATTACATATATATAGAAAAC
6796295 AAATAATAATAATTACATATAT
1 AAATAATAATAATTACATATAT
6796317 TGAAATTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 5 0.11
30 29 0.66
31 7 0.16
32 3 0.07
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATAATAATAATTACATATATATAGAAAAC
Found at i:6796479 original size:17 final size:17
Alignment explanation
Indices: 6796457--6796500 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
6796447 TTAGGAAATA
6796457 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
6796474 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
6796491 -ATATGTATAT
1 AAAATGTATAT
6796501 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:6796526 original size:3 final size:3
Alignment explanation
Indices: 6796518--6796579 Score: 115
Period size: 3 Copynumber: 20.3 Consensus size: 3
6796508 ATGCAAATAG
6796518 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6796566 AAT AAT ATAT AAT A
1 AAT AAT A-AT AAT A
6796580 TATGCATGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6796675 original size:3 final size:3
Alignment explanation
Indices: 6796669--6796699 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6796659 TATAGTAGTT
*
6796669 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6796700 CTTAATAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6796689 original size:15 final size:15
Alignment explanation
Indices: 6796671--6796700 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6796661 TAGTAGTTAT
6796671 AATAATAATAATAAC
1 AATAATAATAATAAC
6796686 AATAATAATAATAAC
1 AATAATAATAATAAC
6796701 TTAATAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:6797085 original size:21 final size:20
Alignment explanation
Indices: 6797050--6797099 Score: 84
Period size: 21 Copynumber: 2.5 Consensus size: 20
6797040 TCACATCTTG
6797050 TAAGATTGC-ATATCATATC
1 TAAGATTGCAATATCATATC
6797069 TAAGATTGCATATATCATATC
1 TAAGATTGCA-ATATCATATC
6797090 TAAGATTGCA
1 TAAGATTGCA
6797100 CATCCTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.31
21 20 0.69
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (20 bp):
TAAGATTGCAATATCATATC
Found at i:6797330 original size:43 final size:43
Alignment explanation
Indices: 6797271--6797609 Score: 324
Period size: 43 Copynumber: 7.9 Consensus size: 43
6797261 GTTTTAAGAA
* * * *
6797271 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCA
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * * * * * *
6797314 AAAAACACCGCTAAAGGTCATGGCCTTTAGCGGCGCTTATGCT
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * *
6797357 ACAAACGCCGCTAAAGGCCATGGCTTTTAGCGGCGCTTGT-AT
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * * *
6797399 ATCAAACGCCGCTACAGACCATAACTTTTAGCGGCGCTTTTGCT
1 A-CAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
* * * * * *
6797443 ACAAATGCCGCTATAGGTCATG-GTCTTTAGCGGTGCTTTTTCT
1 ACAAACGCCGCTAAAGGCCATGACT-TTTAGCGGCGCTTTTCCT
* *
6797486 ACAAACGCCGCTACAGACCATGACTTTTAGCGGCGCTTTTGCC-
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTT-CCT
* * * *
6797529 ACAAACGCCACTAAAGACCATGACTTTTAGTGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
** * *
6797572 ACAAACGCCGCTAAAGTTCATGACTTTTGGCAGCGCTT
1 ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTT
6797610 CTATGCCACT
Statistics
Matches: 249, Mismatches: 41, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
42 5 0.02
43 240 0.96
44 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTCCT
Found at i:6797431 original size:129 final size:129
Alignment explanation
Indices: 6797271--6797593 Score: 396
Period size: 129 Copynumber: 2.5 Consensus size: 129
6797261 GTTTTAAGAA
** * * * *
6797271 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCAAAAAACACCGCTAAAGGTCATG
1 ACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCATG
* * *
6797336 GCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGGCCATGGCTTTTAGCGGCGCTTGT-AT
66 GCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTGTGAC
* * * * * *
6797399 ATCAAACGCCGCTACAGACCATAACTTTTAGCGGCGCTTTTGCTACAAATGCCGCTATAGGTCAT
1 A-CAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCAT
* * * * * * *
6797464 GGTCTTTAGCGGTGCTTTTTCTACAAACGCCGCTACAGACCATGACTTTTAGCGGCGCTTTTGCC
65 GGCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTGTGAC
* * * *
6797529 ACAAACGCCACTAAAGACCATGACTTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGTTCATG
1 ACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCATG
6797594 ACTTTTGGCA
Statistics
Matches: 162, Mismatches: 31, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
128 1 0.01
129 160 0.99
130 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (129 bp):
ACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGGTCATG
GCCTTTAGCGGCGCTTATGCTACAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTGTGAC
Found at i:6797822 original size:19 final size:19
Alignment explanation
Indices: 6797798--6797835 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6797788 TACAAAAATG
*
6797798 TTAAAAGTTAAAATGATAA
1 TTAAAAGTGAAAATGATAA
6797817 TTAAAAGTGAAAATGATAA
1 TTAAAAGTGAAAATGATAA
6797836 AAATATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (19 bp):
TTAAAAGTGAAAATGATAA
Found at i:6797989 original size:21 final size:21
Alignment explanation
Indices: 6797939--6797991 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6797929 TCTACGCTGG
*
6797939 TCTGCTTCCCTCGCTGCAACC
1 TCTGCTTCTCTCGCTGCAACC
* **
6797960 TCTGCTTCTCTCGTTGCCGCC
1 TCTGCTTCTCTCGCTGCAACC
6797981 TCTGCTTCTCT
1 TCTGCTTCTCT
6797992 TACTGCTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.04, C:0.43, G:0.15, T:0.38
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGCAACC
Found at i:6798002 original size:21 final size:21
Alignment explanation
Indices: 6797939--6798008 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
6797929 TCTACGCTGG
* * **
6797939 TCTGCTTCCCTCGCTGCAACC
1 TCTGCTTCTCTCACTGCCGCC
**
6797960 TCTGCTTCTCTCGTTGCCGCC
1 TCTGCTTCTCTCACTGCCGCC
* *
6797981 TCTGCTTCTCTTACTGCTGCC
1 TCTGCTTCTCTCACTGCCGCC
6798002 TCTGCTT
1 TCTGCTT
6798009 TAAGCTGCAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.04, C:0.41, G:0.16, T:0.39
Consensus pattern (21 bp):
TCTGCTTCTCTCACTGCCGCC
Found at i:6798075 original size:66 final size:66
Alignment explanation
Indices: 6798002--6798125 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
6797992 TACTGCTGCC
6798002 TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATA-CTTCCGTTGAACCTCAGCTTCTCTCGCTGTCG
1 TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTT-CGTTGAACCTCAGCTTCTCTCGCTGTCG
6798066 CA
65 CA
* * **
6798068 TCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCG
1 TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTCGTTGAACCTCAGCTTCTCTCG
6798126 ATGCTGCGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 50 0.94
67 3 0.06
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.40
Consensus pattern (66 bp):
TCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTCGTTGAACCTCAGCTTCTCTCGCTGTCGC
A
Found at i:6798144 original size:66 final size:66
Alignment explanation
Indices: 6798008--6798148 Score: 178
Period size: 66 Copynumber: 2.1 Consensus size: 66
6797998 TGCCTCTGCT
* * * *
6798008 TTAAGCTGCAGCTGGAGTTCTTCATACTTCCGTTGAACCTCAGCTTCTCTCGCTGTCGCATCTGC
1 TTAAGTTGTAGCTGGAGTTCTTCATACTTCCGTTGAACCTCAGCTTCTCTCGATGTCGCATCCGC
*
6798073 T
66 C
** *
6798074 TTAAGTTGTAGCTGGAGTTCTTCATATCTT-TTTTGAACCTCAGCTTCTCTCGATG-CTGCGTCC
1 TTAAGTTGTAGCTGGAGTTCTTCATA-CTTCCGTTGAACCTCAGCTTCTCTCGATGTC-GCATCC
6798137 GCC
64 GCC
6798140 TTAAGTTGT
1 TTAAGTTGT
6798149 GTAATTTGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
65 1 0.02
66 61 0.94
67 3 0.05
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (66 bp):
TTAAGTTGTAGCTGGAGTTCTTCATACTTCCGTTGAACCTCAGCTTCTCTCGATGTCGCATCCGC
C
Found at i:6803649 original size:9 final size:9
Alignment explanation
Indices: 6803629--6803813 Score: 163
Period size: 9 Copynumber: 21.3 Consensus size: 9
6803619 TATGTATTAA
*
6803629 GTAAGCTAT
1 GTAAGTTAT
*
6803638 GTAAGTTGT
1 GTAAGTTAT
6803647 GT-A-TTAT
1 GTAAGTTAT
6803654 GTAAGTTAT
1 GTAAGTTAT
6803663 GTAAGTTAT
1 GTAAGTTAT
** *
6803672 CAAAGTAAT
1 GTAAGTTAT
*
6803681 GTATGTTAT
1 GTAAGTTAT
6803690 GTAAG-T-T
1 GTAAGTTAT
6803697 GTAAGTTAT
1 GTAAGTTAT
*
6803706 -TATGTATTAT
1 GTAAG--TTAT
*
6803716 GTACGTTAT
1 GTAAGTTAT
6803725 GTAAGTTAT
1 GTAAGTTAT
6803734 GT-A-TTAT
1 GTAAGTTAT
*
6803741 GTAGGTTAT
1 GTAAGTTAT
*
6803750 GTAAGTTGT
1 GTAAGTTAT
*
6803759 GTAAGATAT
1 GTAAGTTAT
* *
6803768 TTAAGTTAC
1 GTAAGTTAT
*
6803777 GTAAGTTTT
1 GTAAGTTAT
6803786 GT-A-TTAT
1 GTAAGTTAT
6803793 GTAAGTTAT
1 GTAAGTTAT
6803802 GTAAGTTAT
1 GTAAGTTAT
6803811 GTA
1 GTA
6803814 TGCTATGTAT
Statistics
Matches: 139, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
7 22 0.16
8 10 0.07
9 100 0.72
10 4 0.03
11 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:6803657 original size:25 final size:25
Alignment explanation
Indices: 6803621--6803669 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
6803611 TATATATTTA
6803621 TGTATTAAGTAAGCTATGTAAGTTG
1 TGTATTAAGTAAGCTATGTAAGTTG
* *
6803646 TGTATTATGTAAGTTATGTAAGTT
1 TGTATTAAGTAAGCTATGTAAGTT
6803670 ATCAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (25 bp):
TGTATTAAGTAAGCTATGTAAGTTG
Found at i:6803739 original size:25 final size:25
Alignment explanation
Indices: 6803635--6803862 Score: 162
Period size: 25 Copynumber: 8.8 Consensus size: 25
6803625 TTAAGTAAGC
*
6803635 TATGTAAGTTGTGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
** *
6803660 TATGTAAGTTATCAAAGTAATGTATGT
1 TATGTAAGTTATGTAAGTTATGTA--T
6803687 TATGTAAG-T-TGTAAGTTATTATGTAT
1 TATGTAAGTTATGTAAG---TTATGTAT
*
6803713 TATGTACGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
6803738 TATGTAGGTTATGTAAGTTGTGTAAGA
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
6803765 TATTTAAGTTACGTAAGTTTTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
6803790 TATGTAAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
6803815 GCTATGT-A-TGATGTAAGTTGTTATGCTAT
1 --TATGTAAGTTATGTAA---GTTATG-TAT
*
6803844 TATGTAAGTTATGCAAGTT
1 TATGTAAGTTATGTAAGTT
6803863 TATATATAAG
Statistics
Matches: 163, Mismatches: 22, Indels: 35
0.74 0.10 0.16
Matches are distributed among these distances:
25 73 0.45
26 17 0.10
27 45 0.28
28 19 0.12
29 9 0.06
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:6803762 original size:62 final size:62
Alignment explanation
Indices: 6803646--6803768 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 62
6803636 ATGTAAGTTG
* *
6803646 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTA
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTAGGTTATGTAAGTTGTAAGATATTA
* ** *
6803708 TGTATTATGTACGTTATGTAAGTTAT-GTA-TTATGTAGGTTATGTAAGTTGTGTAAGATATT
1 TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTAGGTTATGTAAG-T-TGTAAGATATT
6803769 TAAGTTACGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 16 0.30
61 2 0.04
62 35 0.66
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (62 bp):
TGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTAGGTTATGTAAGTTGTAAGATATTA
Found at i:6803892 original size:130 final size:130
Alignment explanation
Indices: 6803659--6803893 Score: 287
Period size: 130 Copynumber: 1.8 Consensus size: 130
6803649 ATTATGTAAG
* * *
6803659 TTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTACGTTA
1 TTATGTAAGTTATCAAAGTAATGTATGCTATGTAAGATGTAAGTTATTATGTATTATGTAAGTTA
* * * * * *
6803724 TGTAAGTTATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTTACGTAAGTTTTGTA
66 TGCAAGTTATATATTATGAAGCTTATGTAACTTATGTAAGATATTTAAGTTACGTAAGTTTTGTA
** * * *
6803789 TTATGTAAGTTATGTAAGTTATGTATGCTATGTATGATGTAAGTTGTTATGCTATTATGTAAGTT
1 TTATGTAAGTTATCAAAGTAATGTATGCTATGTAAGATGTAAGTTATTATG-TATTATGTAAGTT
*
6803854 ATGCAAGTT-TATA-TAT-AAGCTTGTAGATAACTTATGTAAG
65 ATGCAAGTTATATATTATGAAGCTTAT-G-TAACTTATGTAAG
6803894 TTAATATGTA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
128 5 0.06
129 4 0.05
130 58 0.67
131 20 0.23
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (130 bp):
TTATGTAAGTTATCAAAGTAATGTATGCTATGTAAGATGTAAGTTATTATGTATTATGTAAGTTA
TGCAAGTTATATATTATGAAGCTTATGTAACTTATGTAAGATATTTAAGTTACGTAAGTTTTGTA
Found at i:6805548 original size:16 final size:16
Alignment explanation
Indices: 6805527--6805580 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
6805517 TTTCTTCGAC
*
6805527 GGTAGAGGAGTGCGAT
1 GGTAGAGGAATGCGAT
* *
6805543 GGTAGAGGACTGCGAC
1 GGTAGAGGAATGCGAT
* *
6805559 GGTCGACGAATGCGAT
1 GGTAGAGGAATGCGAT
6805575 GGTAGA
1 GGTAGA
6805581 CGATCGACGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.17
Consensus pattern (16 bp):
GGTAGAGGAATGCGAT
Found at i:6805898 original size:76 final size:80
Alignment explanation
Indices: 6805798--6806076 Score: 253
Period size: 84 Copynumber: 3.4 Consensus size: 80
6805788 AACCAAAATG
* * * * * *
6805798 AAACGTTGCGACGTTTTCAACATAGCGCCACTAATACCG-T-TG-AAGCAAAACGGCACTGTTTT
1 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATACCGATGTGCAAGCAAAACGACACCGTTTC
6805860 GTTT-AAAAACCCCA
66 GTTTAAAAAACCCCA
** *
6805874 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATGTCGTTAATGTGCCAGGCAAAACGACACCG
1 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATACCG---ATGTG-CAAGCAAAACGACACCG
*
6805939 TTTCGTTTAAAAAACCCGA
62 TTTCGTTTAAAAAACCCCA
* * * *
6805958 AAACTTTGCGGCGCTTTT-ACTATAGCGCCACTAATGCCATTAATGTGCCAGGCAAAACGACACC
1 AAACTTTGCGGCG-TTTTCACCATAGCGCCACTAATACC---GATGTG-CAAGCAAAACGACACC
* * *
6806022 GTTTCATTAAAAAAACCCCG
61 GTTTCGTTTAAAAAACCCCA
** * *
6806042 AAACTTTGCGGCGTTTTTGCCGTAGTGCCACTAAT
1 AAACTTTGCGGCGTTTTCACCATAGCGCCACTAAT
6806077 GTTGTTAATA
Statistics
Matches: 169, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
76 34 0.20
80 1 0.01
81 2 0.01
83 24 0.14
84 104 0.62
85 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (80 bp):
AAACTTTGCGGCGTTTTCACCATAGCGCCACTAATACCGATGTGCAAGCAAAACGACACCGTTTC
GTTTAAAAAACCCCA
Found at i:6805983 original size:84 final size:83
Alignment explanation
Indices: 6805842--6806121 Score: 348
Period size: 84 Copynumber: 3.3 Consensus size: 83
6805832 TACCGTTGAA
* * * *
6805842 GCAAAACGGCACTGTTTTGTTT-AAAAACCCCAAAACTTTGCGGCGTTTTCACCATAGCGCCACT
1 GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCGTTTT-ACCATAGCGCCACT
6805906 AATGTCGTTAATGTGCCAG
65 AATGTCGTTAATGTGCCAG
*
6805925 GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCGCTTTTACTATAGCGCCACT
1 GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCG-TTTTACCATAGCGCCACT
* *
6805990 AATGCCATTAATGTGCCAG
65 AATGTCGTTAATGTGCCAG
* * * * *
6806009 GCAAAACGACACCGTTTCATTAAAAAAACCCCG-AAACTTTGCGGCGTTTTTGCCGTAGTGCCAC
1 GCAAAACGACACCGTTTCGTTTAAAAAA-CCCGAAAACTTTGCGGCG-TTTTACCATAGCGCCAC
* *
6806073 TAATGTTGTTAATATGCCAG
64 TAATGTCGTTAATGTGCCAG
* * *
6806093 GAAAAACAACATCGTTTCGTTTACAAAAA
1 GCAAAACGACACCGTTTCGTTTA-AAAAA
6806122 TGATAAAAAC
Statistics
Matches: 170, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
83 19 0.11
84 138 0.81
85 13 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (83 bp):
GCAAAACGACACCGTTTCGTTTAAAAAACCCGAAAACTTTGCGGCGTTTTACCATAGCGCCACTA
ATGTCGTTAATGTGCCAG
Found at i:6806433 original size:47 final size:45
Alignment explanation
Indices: 6806336--6806434 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 45
6806326 ATACATAGTT
* * * *
6806336 TTTTTAAGTTATATTTATAAAATTAGATAAAATTAAAAAATTTTGT
1 TTTTTAAGTAATATCTATAAAAATAGATAAAATT-AAAAATTTTGG
6806382 TTTTTAAGTAATATCTATAAAAAATAGATAAAATT-AAAATTTTAGAG
1 TTTTTAAGTAATATCTAT-AAAAATAGATAAAATTAAAAATTTT-G-G
6806429 TTTTTA
1 TTTTTA
6806435 TATTTCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 8 0.17
46 17 0.37
47 21 0.46
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (45 bp):
TTTTTAAGTAATATCTATAAAAATAGATAAAATTAAAAATTTTGG
Found at i:6806925 original size:14 final size:15
Alignment explanation
Indices: 6806906--6806936 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6806896 GACCAACCCT
6806906 TAATCCCT-AATCCA
1 TAATCCCTAAATCCA
6806920 TAATCCCTAAATCCA
1 TAATCCCTAAATCCA
6806935 TA
1 TA
6806937 TATATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATCCCTAAATCCA
Found at i:6807248 original size:25 final size:25
Alignment explanation
Indices: 6807198--6807248 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
6807188 CCCCTAACCC
* *
6807198 TTAAACCTTAAATCCCAACCCTTAA
1 TTAAACCATAAATCCCAACCCATAA
*
6807223 TTAAACCAT-AATCCCTAATCCATAA
1 TTAAACCATAAATCCC-AACCCATAA
6807248 T
1 T
6807249 CCCTAAATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (25 bp):
TTAAACCATAAATCCCAACCCATAA
Found at i:6807259 original size:15 final size:15
Alignment explanation
Indices: 6807224--6807261 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
6807214 AACCCTTAAT
6807224 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
6807238 T-AATCCATAATCCC
1 TAAATCCATAATCCC
6807252 TAAATCCATA
1 TAAATCCATA
6807262 TATATTCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:6807685 original size:42 final size:41
Alignment explanation
Indices: 6807638--6807944 Score: 178
Period size: 41 Copynumber: 7.4 Consensus size: 41
6807628 CGGCGCCTTA
6807638 AAAAAACGCCACTAAAACCCGTAGCATTAGCGGCGCTTTATC
1 AAAAAACGCCACTAAAACCCG-AGCATTAGCGGCGCTTTATC
* *
6807680 AAAAAACGCCGCTAAAACCCGGAGCATTAGCGGCGCTTCA-C
1 AAAAAACGCCACTAAAACCC-GAGCATTAGCGGCGCTTTATC
* *** * *
6807721 ACTAAAACGCCACTAAAAGAGAAGAGCTTTGGCGGCGC-TTACTC
1 A-AAAAACGCCACT-AAA-ACCCGAGCATTAGCGGCGCTTTA-TC
* ** * * * *
6807765 -TAAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAAC
1 AAAAAACGCCACTAAAACCC-GAGCATTAGCGGCGCTTTATC
* * ** * *
6807806 AAAAACGACGCTA-AAAAACAAGAACATTAGCGGCGCTTCAT-
1 AAAAA--ACGCCACTAAAACCCGAGCATTAGCGGCGCTTTATC
* * * * *
6807847 AAAAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATC
1 AAAAAACGCCAC-TAAAACCCGAGCATTAGCGGCGCTTTATC
* ** * *
6807889 -AAAAACGCCGCTAAAACTCATATCATTAACGGCGCTTT-TC
1 AAAAAACGCCACTAAAAC-CCGAGCATTAGCGGCGCTTTATC
*
6807929 GAAAAACGCCACTAAA
1 AAAAAACGCCACTAAA
6807945 GCCACCGAAA
Statistics
Matches: 208, Mismatches: 41, Indels: 33
0.74 0.15 0.12
Matches are distributed among these distances:
39 4 0.02
40 8 0.04
41 88 0.42
42 79 0.38
43 22 0.11
44 7 0.03
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (41 bp):
AAAAAACGCCACTAAAACCCGAGCATTAGCGGCGCTTTATC
Found at i:6807855 original size:83 final size:82
Alignment explanation
Indices: 6807662--6807904 Score: 252
Period size: 83 Copynumber: 2.9 Consensus size: 82
6807652 AAACCCGTAG
* * * *
6807662 CATTAGCGGCGCTTTATCAAAAAACGCCGCTAAAACCCGGAGCATTAGCGGCGCTTCACACTAAA
1 CATTAGCGGCGC-TTAT-AAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCA-ACAAAA
* * * *
6807727 ACGCCACTAAAAGAGAAGAG
63 ACGCCGCTAAAAAACAAGAA
* * ** * * *
6807747 CTTTGGCGGCGCTTACTCTAAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAACAAAAAC
1 CATTAGCGGCGCTTA-TAAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCAACAAAAAC
*
6807812 GACGCTAAAAAACAAGAA
65 GCCGCTAAAAAACAAGAA
* * * * *
6807830 CATTAGCGGCGCTTCATAAAAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATCAAAAAC
1 CATTAGCGGCGCTT-ATAAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCAACAAAAAC
6807895 GCCGCTAAAA
65 GCCGCTAAAA
6807905 CTCATATCAT
Statistics
Matches: 129, Mismatches: 27, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
83 81 0.63
84 37 0.29
85 11 0.09
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTATAAAAAACGCCGCTAAAACCCAGAACATTAGCGGCGATTCAACAAAAACG
CCGCTAAAAAACAAGAA
Found at i:6807916 original size:41 final size:41
Alignment explanation
Indices: 6807639--6807944 Score: 242
Period size: 42 Copynumber: 7.4 Consensus size: 41
6807629 GGCGCCTTAA
*
6807639 AAAAACGCCACTAAAACCC-GTAGCATTAGCGGCGCTTTATC
1 AAAAACGCCGCTAAAACCCAG-AGCATTAGCGGCGCTTTATC
* *
6807680 AAAAAACGCCGCTAAAACCCGGAGCATTAGCGGCGCTTCA-C
1 -AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
* *** * *
6807721 ACTAAAACGCCACTAAAAGAGAAGAGCTTTGGCGGCGC-TTACTC
1 A--AAAACGCCGCTAAAA-CCCAGAGCATTAGCGGCGCTTTA-TC
* * * * * *
6807765 TAAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAAC
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
* * * * * *
6807806 AAAAACGACGCTAAAAAACAAGAACATTAGCGGCGCTTCATA
1 AAAAACGCCGCT-AAAACCCAGAGCATTAGCGGCGCTTTATC
* * * *
6807848 AAAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATC
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
* * * *
6807889 AAAAACGCCGCTAAAACTCATATCATTAACGGCGCTTT-TC
1 AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
*
6807929 GAAAAACGCCACTAAA
1 -AAAAACGCCGCTAAA
6807945 GCCACCGAAA
Statistics
Matches: 209, Mismatches: 46, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
40 3 0.01
41 93 0.44
42 98 0.47
43 14 0.07
44 1 0.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTATC
Found at i:6807934 original size:83 final size:82
Alignment explanation
Indices: 6807766--6807938 Score: 179
Period size: 83 Copynumber: 2.1 Consensus size: 82
6807756 CGCTTACTCT
* * * *
6807766 AAAACGCTGCTAAAACCCAGATCATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
1 AAAACGCCGCAAAAAACCAGAACATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
* *
6807831 ATTAGCGGCGCTTCATAA
66 ATTAACGGCGCTTCA-GA
* * * * ** * *
6807849 AAAACGCCGCAAAAAACCAGAACATTAGCGGCGTTTTATCAAAAACGCCGCTAAAACTC-ATATC
1 AAAACGCCGCAAAAAACCAGAACATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
6807913 ATTAACGGCGCTTTTC-GA
66 ATTAACGGCGC--TTCAGA
6807931 AAAACGCC
1 AAAACGCC
6807939 ACTAAAGCCA
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
82 22 0.30
83 49 0.66
84 3 0.04
ACGTcount: A:0.41, C:0.25, G:0.17, T:0.17
Consensus pattern (82 bp):
AAAACGCCGCAAAAAACCAGAACATTAGCGGCGATTGAACAAAAACGACGCTAAAAAACAAGAAC
ATTAACGGCGCTTCAGA
Found at i:6811147 original size:21 final size:21
Alignment explanation
Indices: 6811123--6811173 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
6811113 CATTGTTTCT
* *
6811123 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
6811144 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
6811165 AATCTCACC
1 AATCTCACC
6811174 ACCACCGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:6815088 original size:48 final size:49
Alignment explanation
Indices: 6814951--6815091 Score: 150
Period size: 48 Copynumber: 2.9 Consensus size: 49
6814941 TTTTTAGAGA
* *
6814951 ATTAATTAATTTCAA-AATATAATTATAATTTTTATTATTTATTTATTTTT
1 ATTAATTAATTTCAATAATGTAA-T-TAATTTTTATTATTTATATATTTTT
*
6815001 -TTAA-TAATTT--ATATATGTAATTAATGTTTTCATAATTTATATATTTTT
1 ATTAATTAATTTCAATA-ATGTAATTAAT-TTTT-ATTATTTATATATTTTT
* *
6815049 ATTAATTAATTTCAATAATGTAATT-ATTATTATTTTTTATATA
1 ATTAATTAATTTCAATAATGTAATTAATTTTTATTATTTATATA
6815092 AATGTAATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
46 5 0.06
47 6 0.08
48 36 0.47
49 11 0.14
50 8 0.10
51 8 0.10
52 3 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (49 bp):
ATTAATTAATTTCAATAATGTAATTAATTTTTATTATTTATATATTTTT
Found at i:6815090 original size:46 final size:43
Alignment explanation
Indices: 6814976--6815090 Score: 99
Period size: 50 Copynumber: 2.5 Consensus size: 43
6814966 AATATAATTA
* *
6814976 TAATTTTTATTATTTATT-TATTTTTTTAATAATTTATATATG
1 TAATTATTATTATTTTTTATATTTTTTTAATAATTTATATATG
* *
6815018 TAATTAATGTTTTCATAATTTATATATTTTTATTAATTAATTTCA-ATAATG
1 TAATT-AT-TATT-AT--TTTTTATATTTTT-TTAA-TAATTT-ATAT-ATG
6815069 TAATTATTATTATTTTTTATAT
1 TAATTATTATTATTTTTTATAT
6815091 AAATGTAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
42 5 0.09
43 1 0.02
44 3 0.05
45 2 0.04
46 8 0.14
47 3 0.05
48 9 0.16
49 7 0.12
50 10 0.18
51 9 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (43 bp):
TAATTATTATTATTTTTTATATTTTTTTAATAATTTATATATG
Found at i:6815118 original size:28 final size:27
Alignment explanation
Indices: 6815065--6815125 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
6815055 TAATTTCAAT
**
6815065 AATGTAATTATTATTATTTTTTATATA
1 AATGTAATTATTATTATAATTTATATA
*
6815092 AATGTAATTATTTTTTATAATTTATATA
1 AATGTAATTA-TTATTATAATTTATATA
*
6815120 TATGTA
1 AATGTA
6815126 CATGTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
AATGTAATTATTATTATAATTTATATA
Found at i:6815275 original size:12 final size:13
Alignment explanation
Indices: 6815234--6815279 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 13
6815224 TACATATATA
6815234 TATATATTTTAA-
1 TATATATTTTAAT
*
6815246 CATATATTTTAAT
1 TATATATTTTAAT
*
6815259 T-TATATTTT-TT
1 TATATATTTTAAT
6815270 TATATATTTT
1 TATATATTTT
6815280 CATAAATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 2 0.07
12 27 0.93
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TATATATTTTAAT
Found at i:6815538 original size:27 final size:26
Alignment explanation
Indices: 6815505--6815557 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
6815495 CATTGTCATT
*
6815505 GTTTATTTTTTTATGTATATTAGTTTC
1 GTTTATTTATTTATGTATATTA-TTTC
* *
6815532 GTTTATTTATTTGTTTATATTATTTC
1 GTTTATTTATTTATGTATATTATTTC
6815558 TATGTCATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (26 bp):
GTTTATTTATTTATGTATATTATTTC
Found at i:6815554 original size:13 final size:14
Alignment explanation
Indices: 6815520--6815557 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
6815510 TTTTTTTATG
6815520 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
6815535 TAT-TTATTT-GTT
1 TATATTATTTCGTT
6815547 TATATTATTTC
1 TATATTATTTC
6815558 TATGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:6822073 original size:2 final size:2
Alignment explanation
Indices: 6822066--6822101 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6822056 ATACAACTTT
6822066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6822102 TTAAGATTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6822659 original size:49 final size:50
Alignment explanation
Indices: 6822586--6822683 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 50
6822576 ATCTATTTAT
* * *
6822586 AGGTTGAAAAAACCTTATTCTAATAAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGTA
6822636 AGGTTG-AAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGT
1 AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGT
6822684 TCTATATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 39 0.87
50 6 0.13
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (50 bp):
AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAGATGAAGTATAGTA
Found at i:6824661 original size:36 final size:35
Alignment explanation
Indices: 6824621--6824692 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
6824611 CATCTCCGGA
6824621 GCTTGGCAAATAAGGAAAGTGATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTG-AGATAT
* *
6824657 GCTTGGCAAATATGGAAGGTGATCTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
6824692 G
1 G
6824693 TGATTCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
Found at i:6829788 original size:36 final size:35
Alignment explanation
Indices: 6829748--6829819 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
6829738 CATCTCCGGA
6829748 GCTTGGCAAATAAGGAAAGTAATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGTAATCTTTTG-AGATAT
* ** *
6829784 GCTTGGCAAATATGGAGGGTGATCTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGTAATCTTTTGAGATAT
6829819 G
1 G
6829820 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGTAATCTTTTGAGATAT
Found at i:6830583 original size:16 final size:17
Alignment explanation
Indices: 6830552--6830584 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6830542 TTACTTTCAA
6830552 TCCTTTATATTTTATTT
1 TCCTTTATATTTTATTT
*
6830569 TCCTTTGTA-TTTATTT
1 TCCTTTATATTTTATTT
6830585 ATTTATTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (17 bp):
TCCTTTATATTTTATTT
Found at i:6830682 original size:18 final size:17
Alignment explanation
Indices: 6830659--6830705 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
6830649 CTTACTATCA
6830659 TTATTATTATTATTTTAT
1 TTATTATTATTA-TTTAT
6830677 TTATTATTATCTATTTAT
1 TTATTATTAT-TATTTAT
*
6830695 GTATT-TTATTA
1 TTATTATTATTA
6830706 CAAATTGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 19 0.70
19 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTATTATTATTTAT
Found at i:6836142 original size:44 final size:44
Alignment explanation
Indices: 6836079--6836692 Score: 344
Period size: 44 Copynumber: 13.6 Consensus size: 44
6836069 ATTATGGTGC
* *
6836079 ATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGATGTGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
* * * * * *
6836123 ATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----ATG-T--GA
* ** * *
6836174 ATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGAAGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
* * * * * * * *
6836218 ATCTTATTTCTCTGAAGTTGCAATGGAACAAATTAAAGGTACAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-G---ATG-T--GA
* * **
6836269 ATCTTATCTCCCTGAAGTTGTAGTGGATCAGATTGAAGAACT-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
** * * ** *****
6836312 ATCTTATCTCTTTAAAGTTACAGTAAAGCAGATTGAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
* * *
6836356 ATCTAATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-TCACT-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT--GTGA
* * * * **
6836400 ATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAATATACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
* * * **
6836444 CTCTTATTTCCCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAT-A
1 ATCTTA--T--CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
* ** * * **
6836491 ATATTATCTCTTTGAAGTTGCAGTAGAGCAGATTGAAGTTACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
* * * *
6836535 CTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAG-GA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GTGA
* * *
6836579 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACT-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GTGA
* * **
6836623 ATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAG-TGACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
6836666 ATTCTTATAC-CCCTGAAGTTGCAGTGG
1 A-TCTTAT-CTCCCTGAAGTTGCAGTGG
6836693 GTTAGAACGG
Statistics
Matches: 437, Mismatches: 104, Indels: 58
0.73 0.17 0.10
Matches are distributed among these distances:
43 61 0.14
44 261 0.60
45 4 0.01
46 2 0.00
47 10 0.02
48 34 0.08
49 1 0.00
50 1 0.00
51 63 0.14
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTGA
Found at i:6836456 original size:88 final size:88
Alignment explanation
Indices: 6836268--6836692 Score: 410
Period size: 88 Copynumber: 4.8 Consensus size: 88
6836258 ACAAGCTACA
* * ** * *
6836268 AATCTTATCTCCCTGAAGTTGTAGTGGATCAGATTGAAG-AACTAATCTTATCTCTTTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACTAATCTTATCTCCCTGAAGTTG
** *** *
6836332 CAGTAAAGCAGATTGAAGCCACA
66 CAGTGGAGCAGATTGAAATTACG
* * * *
6836355 AATCTAATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACTAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACTAATCTTATCTCCCTGAAGTTG
*
6836420 TAGTGGAGCAGATT-AAATATACG
66 CAGTGGAGCAGATTGAAAT-TACG
* * * * * **
6836443 ACTCTTATTTCCCTTCCTGAAGTTGCAGTGGAGCAGATTAAAG-AAATAATATTATCTCTTTGAA
1 AATCTTA--T--CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACTAATCTTATCTCCCTGAA
* *
6836507 GTTGCAGTAGAGCAGATTGAAGTTACG
62 GTTGCAGTGGAGCAGATTGAAATTACG
* * * * ** *
6836534 ACTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAGGAATCTTATCTCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACTAATCTTATCTCCCTGAAGTTG
* *
6836599 CAGTGGAGCAGATTGAAGTTACT
66 CAGTGGAGCAGATTGAAATTACG
* * *
6836622 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGTGAC-AATTCTTATAC-CCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACTAA-TCTTAT-CTCCCTGAAGT
6836685 TGCAGTGG
64 TGCAGTGG
6836693 GTTAGAACGG
Statistics
Matches: 280, Mismatches: 48, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
87 68 0.24
88 136 0.49
89 2 0.01
90 1 0.00
91 42 0.15
92 31 0.11
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACTAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTGAAATTACG
Found at i:6836527 original size:179 final size:179
Alignment explanation
Indices: 6836279--6836612 Score: 470
Period size: 179 Copynumber: 1.9 Consensus size: 179
6836269 ATCTTATCTC
* * * * *
6836279 CCTGAAGTTGTAGTGGATCAGATTGAAGAACTAATCTTATCTCTTTAAAGTTACAGTAAAGCAGA
1 CCTGAAGTTGCAGTGGAGCAGATTAAAGAAATAATATTATCTCTTTAAAGTTACAGTAAAGCAGA
* * *
6836344 TTGAAGCCACAAATCTAATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACTAATCTTATCT
66 TTGAAGCCACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCACGAATCTTATCT
**
6836409 CCCTAAAGTTGTAGTGGAGCAGATTAAATATACGACTCTTATTTCCCTT
131 CCCTAAAGTTACAGTGGAGCAGATTAAATATACGACTCTTATTTCCCTT
* * *
6836458 CCTGAAGTTGCAGTGGAGCAGATTAAAGAAATAATATTATCTCTTTGAAGTTGCAGTAGAGCAGA
1 CCTGAAGTTGCAGTGGAGCAGATTAAAGAAATAATATTATCTCTTTAAAGTTACAGTAAAGCAGA
** * * * * * *
6836523 TTGAAGTTACGACTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAGGAATCTTATCT
66 TTGAAGCCACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCACGAATCTTATCT
*
6836588 CCCTGAAGTTACAGTGGAGCAGATT
131 CCCTAAAGTTACAGTGGAGCAGATT
6836613 GAAGTTACTA
Statistics
Matches: 133, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
179 133 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (179 bp):
CCTGAAGTTGCAGTGGAGCAGATTAAAGAAATAATATTATCTCTTTAAAGTTACAGTAAAGCAGA
TTGAAGCCACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCACGAATCTTATCT
CCCTAAAGTTACAGTGGAGCAGATTAAATATACGACTCTTATTTCCCTT
Found at i:6843901 original size:17 final size:19
Alignment explanation
Indices: 6843879--6843923 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
6843869 CTAAAATAGT
*
6843879 AACAAAATTA-GCAATAA-
1 AACAAAATTATACAATAAC
6843896 AACAAAAGTTATACAATAAC
1 AACAAAA-TTATACAATAAC
6843916 AACAAAAT
1 AACAAAAT
6843924 GGTAGCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.18
Consensus pattern (19 bp):
AACAAAATTATACAATAAC
Found at i:6848413 original size:29 final size:29
Alignment explanation
Indices: 6848371--6848429 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
6848361 AATTGGACTC
* *
6848371 GATACGTGAGAGGCCCAAAAACTCCTCAT
1 GATACGGGAAAGGCCCAAAAACTCCTCAT
6848400 GATACGGGAAAGGCCCAAAAACTCCTCAT
1 GATACGGGAAAGGCCCAAAAACTCCTCAT
6848429 G
1 G
6848430 CTAAATACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (29 bp):
GATACGGGAAAGGCCCAAAAACTCCTCAT
Found at i:6851873 original size:134 final size:134
Alignment explanation
Indices: 6851691--6851962 Score: 490
Period size: 134 Copynumber: 2.0 Consensus size: 134
6851681 AAAATTTCTA
*
6851691 AAATGTCATTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
1 AAATGTCACTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
* *
6851756 TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATGTTCATTGTATGAAAATT
66 TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATATTCATTATATGAAAATT
6851821 GATG
131 GATG
*
6851825 AAATGTCCCTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
1 AAATGTCACTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
* *
6851890 TCTTAAATGCCTGAAATGTTTGTTATTGATGTGAATATGATTTGAATATTCATTATATGAAAATT
66 TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATATTCATTATATGAAAATT
6851955 GATG
131 GATG
6851959 AAAT
1 AAAT
6851963 ATTGATATAT
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 132 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (134 bp):
AAATGTCACTGAATTCTAGTATTTTTGCAATTTAGCCTGGTAAGTTCGTGTAACTTGAATTATAT
TCTTAAATACCTGAAATGTTTGTTATTGATGTGAACATGATTTGAATATTCATTATATGAAAATT
GATG
Found at i:6853349 original size:27 final size:27
Alignment explanation
Indices: 6853319--6853380 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
6853309 AGAGGTGTAT
*
6853319 TGGATTAGAGGTGTAATGGAATAGAGG
1 TGGAATAGAGGTGTAATGGAATAGAGG
6853346 TGGAATAGAGGTGTAATGGAATAGAGG
1 TGGAATAGAGGTGTAATGGAATAGAGG
*
6853373 TGTAATAG
1 TGGAATAG
6853381 CAAATCAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (27 bp):
TGGAATAGAGGTGTAATGGAATAGAGG
Found at i:6853365 original size:16 final size:16
Alignment explanation
Indices: 6853298--6853378 Score: 91
Period size: 16 Copynumber: 5.4 Consensus size: 16
6853288 TTTGGTTCGC
* *
6853298 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
6853314 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
6853330 TGTAATGGAATAGA-G
1 TGTAATGGAATAGAGG
6853345 -G---TGGAATAGAGG
1 TGTAATGGAATAGAGG
6853357 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
6853373 TGTAAT
1 TGTAAT
6853379 AGCAAATCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
11 9 0.16
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 45 0.78
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:6853414 original size:45 final size:44
Alignment explanation
Indices: 6853357--6853466 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
6853347 GGAATAGAGG
6853357 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAAT-GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
6853402 TGTAATGAAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATG-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
6853446 TG----GAATAGAGGTGTAATAGCA
1 TGTAATGAATAGAGGTGTAATAGCA
6853467 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 19 0.34
45 21 0.38
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTAATGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:6853464 original size:39 final size:40
Alignment explanation
Indices: 6853360--6853466 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 40
6853350 ATAGAGGTGT
6853360 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
* * ***
6853400 AATGTAATGAAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTG
1 AATG----G-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
6853444 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
6853467 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 19 0.35
45 15 0.28
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
Found at i:6853620 original size:25 final size:25
Alignment explanation
Indices: 6853588--6853642 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
6853578 TAATTTAATC
*
6853588 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
6853612 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
6853637 ATATAT
1 ATATAT
6853643 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:6853846 original size:26 final size:28
Alignment explanation
Indices: 6853817--6853877 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6853807 TATGAATTTG
*
6853817 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
6853843 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
6853871 TAAAATT
1 TATAATT
6853878 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:6853880 original size:44 final size:42
Alignment explanation
Indices: 6853817--6853959 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
6853807 TATGAATTTG
6853817 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
6853861 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
6853908 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
6853952 TATAATTT
1 TATAATTT
6853960 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:6853887 original size:91 final size:90
Alignment explanation
Indices: 6853792--6853999 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 90
6853782 TAATTACAAC
* * * *
6853792 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
6853857 AATATATAATTTCATAAAATTATTGA
65 AATATATAATTTCATAAAATTATTAA
*
6853883 TAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
6853948 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTATTAA
6853974 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
6854000 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 85 0.81
92 20 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTATTAA
Found at i:6853974 original size:47 final size:47
Alignment explanation
Indices: 6853824--6853980 Score: 128
Period size: 47 Copynumber: 3.4 Consensus size: 47
6853814 TTGTATAATT
* * * * *
6853824 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* ** * *
6853871 TAAAATTATTGATAAT-AAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATTTAATA-ATG-ATATATA-ATTTCA
* *
6853915 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
6853962 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
6853981 ATGTTCTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
43 5 0.06
44 15 0.19
45 13 0.16
46 12 0.15
47 31 0.38
48 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:6858056 original size:11 final size:11
Alignment explanation
Indices: 6858013--6858071 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
6858003 AATGAAACCC
*
6858013 TAATATAATAT
1 TAATCTAATAT
* *
6858024 TAATCTAACAC
1 TAATCTAATAT
*
6858035 TAACCTCTAATGT
1 TAA--TCTAATAT
6858048 TAATCTAATAT
1 TAATCTAATAT
*
6858059 TTATCTAATAT
1 TAATCTAATAT
6858070 TA
1 TA
6858072 GTGTCGACAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 29 0.78
13 8 0.22
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (11 bp):
TAATCTAATAT
Found at i:6859935 original size:27 final size:29
Alignment explanation
Indices: 6859899--6859974 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 29
6859889 GGAAAAAGAT
6859899 AGAGAAAGGGAT-AGG-GAAAGAGAAAGG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAGG
*
6859926 AGAGATAGGGATAAGGAGAAAGAGAAAGAG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAG-G
* * *
6859956 AAAGAGAGAGATAAGGAGA
1 AGAGAAAGGGATAAGGAGA
6859975 GGAGAGAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 11 0.26
28 3 0.07
29 11 0.26
30 17 0.40
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (29 bp):
AGAGAAAGGGATAAGGAGAAAGAGAAAGG
Found at i:6859981 original size:78 final size:76
Alignment explanation
Indices: 6859899--6860041 Score: 169
Period size: 78 Copynumber: 1.9 Consensus size: 76
6859889 GGAAAAAGAT
* * * * *
6859899 AGAGAAAGGGATAGGGAAAGAGAAAGGAGAGATAGGGATAAGGAGAAAGAGAAAGAGAAAGAGAG
1 AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAGGCAGAAGGAG-AAG-GAAAGAGAAAGAGAG
6859964 AGATAAGGAGAGG
64 AGATAAGGAGAGG
* * * * * *
6859977 AGAGAGAGGGAAAAGGAGAGAGAGAGGAGGGAAAGGCAGAAGGAGAAGGAAAGGGAGAGAGAGAG
1 AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAGGCAGAAGGAGAAGGAAAGAGAAAGAGAGAG
6860042 GAGAGAGAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
76 15 0.28
77 3 0.06
78 36 0.67
ACGTcount: A:0.50, C:0.01, G:0.46, T:0.03
Consensus pattern (76 bp):
AGAGAAAGGGAAAAGGAAAGAGAAAGGAGAGAAAGGCAGAAGGAGAAGGAAAGAGAAAGAGAGAG
ATAAGGAGAGG
Found at i:6859984 original size:21 final size:20
Alignment explanation
Indices: 6859952--6860047 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
6859942 AGAAAGAGAA
* *
6859952 AGAGAAAGAGAGAGATAAGG
1 AGAGAGAGAGAGAGAAAAGG
*
6859972 AGAGGAGAGAGAGGGAAAAGG
1 AGA-GAGAGAGAGAGAAAAGG
*
6859993 AGAGAGAGAG-GAGGGAAAGG
1 AGAGAGAGAGAGA-GAAAAGG
*
6860013 CAGA-AG-GAGA-AGGAAAGGG
1 -AGAGAGAGAGAGA-GAAAAGG
6860032 AGAGAGAGAGGAGAGA
1 AGAGAGAGA-GAGAGA
6860048 GAGAAGCAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
18 3 0.05
19 13 0.21
20 20 0.33
21 24 0.39
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.49, T:0.01
Consensus pattern (20 bp):
AGAGAGAGAGAGAGAAAAGG
Found at i:6859999 original size:18 final size:18
Alignment explanation
Indices: 6859976--6860042 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
6859966 ATAAGGAGAG
6859976 GAGAGAGAGGGAAAAGGA
1 GAGAGAGAGGGAAAAGGA
*
6859994 GAGAGAGAGGAGGGAAAGGCA
1 GAGAGAGA-G-GGAAAAGG-A
* *
6860015 GA-AGGAGAAGGAAAGGGA
1 GAGA-GAGAGGGAAAAGGA
6860033 GAGAGAGAGG
1 GAGAGAGAGG
6860043 AGAGAGAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 16 0.41
19 8 0.21
20 8 0.21
21 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.52, T:0.00
Consensus pattern (18 bp):
GAGAGAGAGGGAAAAGGA
Found at i:6860019 original size:27 final size:27
Alignment explanation
Indices: 6859971--6860022 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
6859961 GAGAGATAAG
* *
6859971 GAGAGGAGAGAGAGGGAAAAGGAGAGA
1 GAGAGGAGAGAAAGGCAAAAGGAGAGA
* *
6859998 GAGAGGAGGGAAAGGCAGAAGGAGA
1 GAGAGGAGAGAAAGGCAAAAGGAGA
6860023 AGGAAAGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.52, T:0.00
Consensus pattern (27 bp):
GAGAGGAGAGAAAGGCAAAAGGAGAGA
Found at i:6866081 original size:49 final size:49
Alignment explanation
Indices: 6866009--6866108 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
6865999 GTATCATCTA
*
6866009 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGATTAGGTT
1 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGACTAGGTT
6866058 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGACTAGGTT
1 ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGACTAGGTT
6866107 AC
1 AC
6866109 TAAATGTTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (49 bp):
ACAATTTAGATGTAATACCCGTAGCCTGTTTCTGTCGTCAGACTAGGTT
Found at i:6866396 original size:20 final size:21
Alignment explanation
Indices: 6866371--6866417 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
6866361 TAGCCCAAAC
*
6866371 TGTGTGATTA-TCCACACGCT
1 TGTGTGACTACTCCACACGCT
6866391 TGTGTGACTACTCCACACGCT
1 TGTGTGACTACTCCACACGCT
*
6866412 CGTGTG
1 TGTGTG
6866418 CGTAGATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (21 bp):
TGTGTGACTACTCCACACGCT
Found at i:6867040 original size:9 final size:9
Alignment explanation
Indices: 6867026--6867092 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
6867016 GTAGTGATTC
6867026 AATTCGGTT
1 AATTCGGTT
*
6867035 AATTCGGGT
1 AATTCGGTT
6867044 AATTCGGTT
1 AATTCGGTT
**
6867053 AATTTAAG-T
1 AA-TTCGGTT
*
6867062 AATTCAGTT
1 AATTCGGTT
6867071 AATTCGGTT
1 AATTCGGTT
*
6867080 AGTTCGGTT
1 AATTCGGTT
6867089 AATT
1 AATT
6867093 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 4 0.08
9 41 0.85
10 3 0.06
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:6891208 original size:16 final size:16
Alignment explanation
Indices: 6891189--6891236 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6891179 CGTTTTTTTT
6891189 TTAAATTTTGAGTTAA
1 TTAAATTTTGAGTTAA
*
6891205 TTAAA--TTGAGTTAT
1 TTAAATTTTGAGTTAA
* *
6891219 TTAATTTTTTAGTTAA
1 TTAAATTTTGAGTTAA
6891235 TT
1 TT
6891237 TAGATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.46
16 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
TTAAATTTTGAGTTAA
Found at i:6896655 original size:19 final size:19
Alignment explanation
Indices: 6896615--6896656 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6896605 TGTATGTAAT
*
6896615 ATATATTATGTTAACTATA
1 ATATATTATGTTAACTAAA
*
6896634 ATATA-TATGTTATATTAAA
1 ATATATTATGTTA-ACTAAA
6896653 ATAT
1 ATAT
6896657 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATATTATGTTAACTAAA
Found at i:6900604 original size:108 final size:107
Alignment explanation
Indices: 6900448--6900758 Score: 457
Period size: 108 Copynumber: 2.9 Consensus size: 107
6900438 TTCAAGAGGT
* *
6900448 TATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCATGTTCCTCGAATT
1 TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTCTCGAATT
6900511 TCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAGGA
66 TCCAAACGC-AAACATTGCCTTATTTTGAAATTTTTGAAAGGA
* *
6900554 TATTTGGCTCTTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
1 TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATG-TTTCTCGAAT
*
6900619 TTCCAAACGCAAACATTGCCTTATTTTGAAATTTTTGAAATGA
65 TTCCAAACGCAAACATTGCCTTATTTTGAAATTTTTGAAAGGA
* **
6900662 TATTTGGCTATTTGGTTGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACAT-TTTCTTAAA
1 TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGG--CATGTTTCTCGAA
* * *
6900726 TTTCCAAACGCTAAATATTGCCTCATTTAGAAA
64 TTTCCAAACGC-AAACATTGCCTTATTTTGAAA
6900759 AATTTTCCTT
Statistics
Matches: 186, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
106 22 0.12
108 125 0.67
109 37 0.20
110 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (107 bp):
TATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTCTCGAATT
TCCAAACGCAAACATTGCCTTATTTTGAAATTTTTGAAAGGA
Found at i:6901059 original size:2 final size:2
Alignment explanation
Indices: 6901047--6901111 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
6901037 GTAAGATAAA
*
6901047 AT AT A- AT AT AT AT AT AA 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 AT AT AT AT AT AT
6901088 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
6901112 GAATAAGTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6901262 original size:3 final size:3
Alignment explanation
Indices: 6901254--6901324 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
6901244 AAGCTATTAT
* * *
6901254 ATA ATA ATA AT- ATG ATA AGTA ACA ATA AT- ATAA ACA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA AT-A ATA
* *
6901300 ATA GTA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
6901325 AATTACTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.07
3 43 0.80
4 7 0.13
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6901318 original size:18 final size:17
Alignment explanation
Indices: 6901254--6901320 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
6901244 AAGCTATTAT
* *
6901254 ATAATAATAATATGATA
1 ATAAAAATAATATAATA
* *
6901271 AGTAACAATAATATAAACA
1 A-TAAAAATAATAT-AATA
6901290 ATAATAAATAATAGTAATA
1 ATAA-AAATAATA-TAATA
6901309 ATAAAAATAATA
1 ATAAAAATAATA
6901321 ATAAAATTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 22 0.54
19 17 0.41
20 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (17 bp):
ATAAAAATAATATAATA
Found at i:6902639 original size:41 final size:41
Alignment explanation
Indices: 6902576--6902680 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 41
6902566 CTTAATTTAA
* *
6902576 CAGATTCACCGGCACTTGGCCTGCTAGGCTTATAACTTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
6902618 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
6902659 CAGATCACCGGCACTTAGCCTG
1 CAGATCACCGGCACTTAGCCTG
6902681 ATAGACGTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
41 56 0.93
42 4 0.07
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:6903578 original size:20 final size:20
Alignment explanation
Indices: 6903549--6903586 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6903539 ATGTATACAT
6903549 AATTTCATACTTTCAAATCA
1 AATTTCATACTTTCAAATCA
* *
6903569 AATTTTATACTTTTAAAT
1 AATTTCATACTTTCAAAT
6903587 TTTACTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTCATACTTTCAAATCA
Found at i:6905832 original size:44 final size:44
Alignment explanation
Indices: 6905784--6906110 Score: 164
Period size: 44 Copynumber: 7.4 Consensus size: 44
6905774 AAAATTCGCC
* *
6905784 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* ** * *
6905828 ATCTTCAATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * * * ****
6905869 CTGGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCCCC
1 AT--CTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGTA
* *
6905916 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * * * *
6905960 ATCTTCAATCTATTCCACTGCTGCCCAAGGAGATAAAAT-TTTT
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
** * * * * * * * **
6906003 GGCTTTAATATACTCCACTGTAAC--CACAGTGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTA
* * * *
6906048 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
*
6906092 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
6906111 GCCAACCAGG
Statistics
Matches: 198, Mismatches: 71, Indels: 28
0.67 0.24 0.09
Matches are distributed among these distances:
41 3 0.02
42 4 0.02
43 34 0.17
44 123 0.62
45 31 0.16
46 2 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
Found at i:6905960 original size:132 final size:132
Alignment explanation
Indices: 6905723--6906323 Score: 892
Period size: 132 Copynumber: 4.6 Consensus size: 132
6905713 CGCAACGTTG
** *
6905723 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATTCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * ****
6905788 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
6905853 CA
131 CA
* *
6905855 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCCCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * ***
6905920 TCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
6905985 CA
131 CA
* * ** * * *
6905987 AGGAGATAAAATTTTTGGCTTTAATATACTCCACTGTAACCACAGTGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
6906052 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
6906117 CA
131 CA
* * *
6906119 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCTATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* *
6906184 TCGATCTACT-C-C-A---CTTAGGGAGATAAGATCTGAAATCTTCAATCTATTTCACTGCCAAC
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
6906243 CA
131 CA
*
6906245 GGGAGATAG-ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
6906309 TCGATCTGCTCCACT
66 TCGATCTGCTCCACT
6906324 GTCAATGCAG
Statistics
Matches: 429, Mismatches: 37, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
125 62 0.14
126 57 0.13
127 1 0.00
129 1 0.00
130 1 0.00
131 1 0.00
132 306 0.71
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
CA
Found at i:6906122 original size:44 final size:43
Alignment explanation
Indices: 6906074--6906252 Score: 124
Period size: 38 Copynumber: 4.2 Consensus size: 43
6906064 ACTACTGCTT
*
6906074 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTG-CAACC
* * *
6906118 AGGGAGAT-AGAATTACTG---GCTTCAATGTACTCCACTGTAATCAC
1 AGGGAGATAAG-A-T-CTGAAATCTTCAATCTACTCCACTGCAA-C-C
* * ** * *
6906162 AGGGAGGTAAAATCTGCTATCTTCGATCTACTCCACT-----T
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCAACC
* *
6906200 AGGGAGATAAGATCTGAAATCTTCAATCTATTTCACTGCCAACC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTG-CAACC
6906244 AGGGAGATA
1 AGGGAGATA
6906253 GATTACTGGC
Statistics
Matches: 102, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
38 30 0.29
42 5 0.05
43 20 0.20
44 27 0.26
45 17 0.17
46 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (43 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCAACC
Found at i:6907802 original size:15 final size:15
Alignment explanation
Indices: 6907761--6907804 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6907751 CCACTCATTC
6907761 ATTTTTTCTTTTCTTT
1 ATTTTTTCTTTT-TTT
*
6907777 -TTTCTTCTTTTTTT
1 ATTTTTTCTTTTTTT
*
6907791 ATTTTTTGTTTTTT
1 ATTTTTTCTTTTTT
6907805 GAATCTGGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (15 bp):
ATTTTTTCTTTTTTT
Found at i:6912265 original size:109 final size:109
Alignment explanation
Indices: 6912067--6912382 Score: 485
Period size: 109 Copynumber: 2.9 Consensus size: 109
6912057 AAAATTCAAG
* * * *
6912067 AGGATATTTGGCTATTTGGTTAAACGAG--AAAGCAAAACCTAGCACATTAGGGCACG-TTCCTC
1 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
6912129 GAATTTCTAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
*
6912173 AGGATATTTGGCTATTTGGTTTAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
6912238 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
* * *
6912282 AGGATATTTGGCTATTTAGTTGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * * * *
6912347 GAATTTCCAAATGCTAAATATTGCCTCATTTAGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
6912383 AATTTTCCTT
Statistics
Matches: 193, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
106 27 0.14
108 25 0.13
109 141 0.73
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
Found at i:6912553 original size:37 final size:33
Alignment explanation
Indices: 6912502--6912574 Score: 83
Period size: 37 Copynumber: 2.1 Consensus size: 33
6912492 ATACCATAAC
6912502 AAATAAATAAATAAACTAAAACATAAAAAAGACATAT
1 AAATAAATAAATAAA-T-AAACATAAAAAA-ACA-AT
* * *
6912539 AAATAGATACATAAATGAACATAAAAAAACAAT
1 AAATAAATAAATAAATAAACATAAAAAAACAAT
6912572 AAA
1 AAA
6912575 GGAAAATAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 5 0.15
34 3 0.09
35 11 0.33
36 1 0.03
37 13 0.39
ACGTcount: A:0.70, C:0.08, G:0.04, T:0.18
Consensus pattern (33 bp):
AAATAAATAAATAAATAAACATAAAAAAACAAT
Found at i:6912678 original size:2 final size:2
Alignment explanation
Indices: 6912666--6912750 Score: 113
Period size: 2 Copynumber: 44.0 Consensus size: 2
6912656 GTAAGATAAA
* * * *
6912666 AT AT A- AT AT AT AT AT AA AT AT AC AT AT -T TT A- AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6912705 AT AT AT AT AT AT 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 AT AT AT AT AT AT
6912747 AT AT
1 AT AT
6912751 GAATAAGTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
1 3 0.04
2 70 0.96
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6912939 original size:19 final size:18
Alignment explanation
Indices: 6912915--6912956 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6912905 GATAAGTAAC
6912915 AATAATA-TAAACAATAATA
1 AATAATAGTAAA-AATAA-A
6912934 AATAATAGTAAAAATAAA
1 AATAATAGTAAAAATAAA
6912952 AATAA
1 AATAA
6912957 AAATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAATAGTAAAAATAAA
Found at i:6912948 original size:12 final size:12
Alignment explanation
Indices: 6912915--6912965 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
6912905 GATAAGTAAC
* *
6912915 AATAATATAAAC
1 AATAATAAAAAT
6912927 AATAAT--AAAT
1 AATAATAAAAAT
*
6912937 AATAGTAAAAAT
1 AATAATAAAAAT
*
6912949 AAAAATAAAAAT
1 AATAATAAAAAT
6912961 AATAA
1 AATAA
6912966 AATTACTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 8 0.25
12 24 0.75
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:6914689 original size:16 final size:16
Alignment explanation
Indices: 6914668--6914703 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
6914658 AAGTTAACCA
6914668 TTTATTAAA-ATATGTT
1 TTTATTAAAGATAT-TT
6914684 TTTATTAAAGATATTT
1 TTTATTAAAGATATTT
6914700 TTTA
1 TTTA
6914704 GAATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTATTAAAGATATTT
Found at i:6914919 original size:14 final size:14
Alignment explanation
Indices: 6914900--6914939 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6914890 TTGATTGCCA
6914900 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
6914914 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
6914928 GGAAAATGTTTT
1 GTAAAATGTTTT
6914940 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:6914948 original size:20 final size:20
Alignment explanation
Indices: 6914923--6914962 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6914913 CGTAAAATGA
*
6914923 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
6914943 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
6914963 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:6914952 original size:34 final size:35
Alignment explanation
Indices: 6914908--6914974 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6914898 CAGTAAAATG
* *
6914908 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
6914942 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
6914975 CTGTTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:6918728 original size:6 final size:6
Alignment explanation
Indices: 6918717--6918746 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6918707 GTTCAGATGC
6918717 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
6918747 TTATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:6923827 original size:11 final size:11
Alignment explanation
Indices: 6923811--6923835 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6923801 GGCCCTATAT
6923811 TATAAAGAAAG
1 TATAAAGAAAG
6923822 TATAAAGAAAG
1 TATAAAGAAAG
6923833 TAT
1 TAT
6923836 CAATGCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (11 bp):
TATAAAGAAAG
Found at i:6924309 original size:2 final size:2
Alignment explanation
Indices: 6924296--6924333 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6924286 TAGCTGGGGA
*
6924296 AT AT AC AT 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 AT AT AT AT
6924334 TGCTTTCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6949372 original size:27 final size:27
Alignment explanation
Indices: 6949294--6949372 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
6949284 TGAAGGGGGT
*
6949294 GTGGTGCTTATCTGATAGGCGGCACCA
1 GTGGTGCCTATCTGATAGGCGGCACCA
*** * * **
6949321 GTGACCCCTATCTCATAGGCAGCACTG
1 GTGGTGCCTATCTGATAGGCGGCACCA
*
6949348 GTGGTGCCTATCTGATAAGCGGCAC
1 GTGGTGCCTATCTGATAGGCGGCAC
6949373 ACCTAGTATA
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (27 bp):
GTGGTGCCTATCTGATAGGCGGCACCA
Found at i:6952609 original size:17 final size:18
Alignment explanation
Indices: 6952570--6952610 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6952560 CTAAATCTAC
6952570 AATTCTGTTGTAAACAGG
1 AATTCTGTTGTAAACAGG
*
6952588 AATTCTGTTGTGAACA-G
1 AATTCTGTTGTAAACAGG
6952605 AATTCT
1 AATTCT
6952611 TATCTCAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (18 bp):
AATTCTGTTGTAAACAGG
Found at i:6953596 original size:21 final size:22
Alignment explanation
Indices: 6953550--6953596 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
6953540 GAACTATTTC
* *
6953550 ATCAGTATCATCACCAGTGATT
1 ATCAGTATCATCAACAGTGATA
6953572 ATCA-TATCATCAACA-TAGATA
1 ATCAGTATCATCAACAGT-GATA
6953593 ATCA
1 ATCA
6953597 AGCATATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCAGTATCATCAACAGTGATA
Found at i:6954481 original size:63 final size:63
Alignment explanation
Indices: 6954381--6954508 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
6954371 TACATGAATA
*
6954381 ACTTCATCAGTGGGAGTATCAACAGAGTCGGGGGTACTTACCTCTTAGATATCCAGTGGGGTC
1 ACTTCATCAGTGGGAGTATCAACAGAGTCGGGAGTACTTACCTCTTAGATATCCAGTGGGGTC
6954444 ACTTCATCAGTGGGAGTATCAACAGAGTCGGGAGTACTTACCTCTTAGATATCCAGTGGGGTC
1 ACTTCATCAGTGGGAGTATCAACAGAGTCGGGAGTACTTACCTCTTAGATATCCAGTGGGGTC
6954507 AC
1 AC
6954509 CTCAGCAGGC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (63 bp):
ACTTCATCAGTGGGAGTATCAACAGAGTCGGGAGTACTTACCTCTTAGATATCCAGTGGGGTC
Found at i:6956885 original size:17 final size:18
Alignment explanation
Indices: 6956846--6956886 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6956836 CTAAATCTAC
6956846 AATTCTGTTGTAAACAGG
1 AATTCTGTTGTAAACAGG
*
6956864 AATTCTGTTGTGAACA-G
1 AATTCTGTTGTAAACAGG
6956881 AATTCT
1 AATTCT
6956887 TATCTCAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (18 bp):
AATTCTGTTGTAAACAGG
Found at i:6957063 original size:16 final size:17
Alignment explanation
Indices: 6957031--6957065 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6957021 AACTTAGTCG
6957031 AAGTATAAACGATGTAT
1 AAGTATAAACGATGTAT
*
6957048 AAGTATATAC-ATGTAT
1 AAGTATAAACGATGTAT
6957064 AA
1 AA
6957066 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGTATAAACGATGTAT
Found at i:6957773 original size:41 final size:41
Alignment explanation
Indices: 6957716--6957905 Score: 292
Period size: 41 Copynumber: 4.6 Consensus size: 41
6957706 AAATAAGATG
6957716 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
6957757 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
*
6957798 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTGAATTA
1 TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
6957839 CTTCAGACTTTATGTCTAGCAGGCTT-AGTGCCGGTGAAATG
1 TTTCAGACTTTACGTCTAGCAGGCTTGA-TGCCGGTGAATTA
* * *
6957880 TATCAGACCTTATGTCTAGCAGGCTT
1 TTTCAGACTTTACGTCTAGCAGGCTT
6957906 TGTGTCGGTG
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 1 0.01
41 138 0.99
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:6957915 original size:41 final size:41
Alignment explanation
Indices: 6957713--6957956 Score: 253
Period size: 41 Copynumber: 6.0 Consensus size: 41
6957703 TGAAAATAAG
*
6957713 ATGTTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAA
1 ATGTATCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAA
* * *
6957754 TTATTTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAA
1 ATGTATCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAA
* * * *
6957795 TTATTTCAGACTTTACGTCTAGCAGGCTTGATGCCAGTG-A
1 ATGTATCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAA
*
6957835 AT-TACTTCAGACTTTATGTCTAGCAGGCTT-AGTGCCGGTGAA
1 ATGTA--TCAGACTTTACGTCTAGCAGGCTTGA-TGCCGGTGAA
* * * *
6957877 ATGTATCAGACCTTATGTCTAGCAGGCTTTG-TGTCGGTGGA
1 ATGTATCAGACTTTACGTCTAGCAGGC-TTGATGCCGGTGAA
* * ** * *
6957918 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTACGTCTAGCAGGCTTGATGCCGGTG
6957957 TTTTATACAA
Statistics
Matches: 178, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 165 0.93
42 5 0.03
43 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
ATGTATCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAA
Found at i:6960346 original size:62 final size:62
Alignment explanation
Indices: 6960190--6960357 Score: 255
Period size: 62 Copynumber: 2.7 Consensus size: 62
6960180 CAATGTACCT
* * **
6960190 AATTTATATTACAAATTTTGTTCCAATTTTTAATAATGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAACAA
* *
6960252 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATGATAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAACAA
* * *
6960314 AATTTATATTACAAAGTTTGTTACAAGTTTTAGTGTTTTAATGT
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGT
6960358 TGTAATGTTG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAGTGTTGTAATGTATTTAATTTATATAACAA
Found at i:6961584 original size:14 final size:14
Alignment explanation
Indices: 6961565--6961592 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6961555 CAAATTACAT
6961565 GTTAGAATAGTATC
1 GTTAGAATAGTATC
6961579 GTTAGAATAGTATC
1 GTTAGAATAGTATC
6961593 ATTAAAAAAA
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:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:6963908 original size:6 final size:6
Alignment explanation
Indices: 6963899--6963934 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
6963889 GTAAAATCGA
*
6963899 TTTTGA TTTTG- TTTTGC TTTTGC TTTTGC TTTTGC T
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC T
6963935 CAAATCTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.03, C:0.11, G:0.17, T:0.69
Consensus pattern (6 bp):
TTTTGC
Found at i:6963933 original size:18 final size:17
Alignment explanation
Indices: 6963899--6963934 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6963889 GTAAAATCGA
6963899 TTTTGATTTTGTTTTGC
1 TTTTGATTTTGTTTTGC
*
6963916 TTTTGCTTTTGCTTTTGC
1 TTTTGATTTTG-TTTTGC
6963934 T
1 T
6963935 CAAATCTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.03, C:0.11, G:0.17, T:0.69
Consensus pattern (17 bp):
TTTTGATTTTGTTTTGC
Found at i:6965205 original size:23 final size:23
Alignment explanation
Indices: 6965175--6965360 Score: 198
Period size: 23 Copynumber: 7.9 Consensus size: 23
6965165 GTGTTATAAT
*
6965175 GTTCATGTTTTGGTTTCTATTAA
1 GTTCATGTTTTGGTTTCTGTTAA
*
6965198 GTTCATGTTTTAGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
6965221 GTTCATGTTTTGGTTTATGTGTTA
1 GTTCATGTTTTGGTTTCTGT-TAA
* *
6965245 --TAATGTTCAT-GTTTCTGTTAA
1 GTTCATGTT-TTGGTTTCTGTTAA
*
6965266 GTTCATGTTTTGGTTTTTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
6965289 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
6965312 GTTCATGTTTAGGTTTATGTGTTATAA
1 GTTCATGTTTTGG-TT-TCTG-T-TAA
*
6965339 TGTTCATGTTTTGGTTTATGTT
1 -GTTCATGTTTTGGTTTCTGTT
6965361 TTGGTTTCTG
Statistics
Matches: 136, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.01
22 14 0.10
23 90 0.66
24 5 0.04
25 4 0.03
26 4 0.03
27 5 0.04
28 12 0.09
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.57
Consensus pattern (23 bp):
GTTCATGTTTTGGTTTCTGTTAA
Found at i:6965265 original size:45 final size:45
Alignment explanation
Indices: 6965210--6965349 Score: 196
Period size: 45 Copynumber: 3.1 Consensus size: 45
6965200 TCATGTTTTA
6965210 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
* *
6965255 GTTTCTGTTAAGTTCATGTTTTGGTTT-T-TGTTAAGTTCATGTT-TT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTT-A--TAATGTTCAT
*
6965300 GGTTTCTGTTAAGTTCATGTTTAGGTTTATGTGTTATAATGTTCAT
1 -GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
6965346 GTTT
1 GTTT
6965350 TGGTTTATGT
Statistics
Matches: 83, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
43 4 0.05
44 2 0.02
45 38 0.46
46 33 0.40
47 2 0.02
48 4 0.05
ACGTcount: A:0.16, C:0.06, G:0.21, T:0.56
Consensus pattern (45 bp):
GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
Found at i:6965330 original size:91 final size:86
Alignment explanation
Indices: 6965175--6965385 Score: 314
Period size: 91 Copynumber: 2.4 Consensus size: 86
6965165 GTGTTATAAT
* *
6965175 GTTCATGTTTTGGTTTCTATTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTTGGTTTATG
1 GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTAGGTTTATG
6965240 TGTTATAATGTTCATGTTTCTG
66 TGTTATAATGTTCATGTTT-TG
* *
6965262 TTAAGTTCATGTTTTGGTTTTTGTTAAGTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTT
1 ----GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTAGGTT
6965327 TATGTGTTATAATGTTCATGTTTTG
62 TATGTGTTATAATGTTCATGTTTTG
* * *
6965352 GTTTATGTTTTGGTTTCTGTTCAGTTGATGTTTT
1 GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTT
6965386 TCTGTATTAA
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
86 30 0.27
90 2 0.02
91 80 0.71
ACGTcount: A:0.15, C:0.07, G:0.21, T:0.57
Consensus pattern (86 bp):
GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTAGGTTTATG
TGTTATAATGTTCATGTTTTG
Found at i:6965389 original size:19 final size:20
Alignment explanation
Indices: 6965365--6965406 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
6965355 TATGTTTTGG
*
6965365 TTTCTG-TTCAGTTGATGTT
1 TTTCTGATTAAGTTGATGTT
6965384 TTTCTGTATTAAGTTGATGTT
1 TTTCTG-ATTAAGTTGATGTT
6965405 TT
1 TT
6965407 CCATTTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.14, C:0.07, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTCTGATTAAGTTGATGTT
Found at i:6965476 original size:19 final size:20
Alignment explanation
Indices: 6965452--6965493 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
6965442 CATGTTTTGG
6965452 TTTCTG-TTAAGTTGATGTT
1 TTTCTGATTAAGTTGATGTT
6965471 TTTCTGTATTAAGTTGATGTT
1 TTTCTG-ATTAAGTTGATGTT
6965492 TT
1 TT
6965494 CCCATACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTCTGATTAAGTTGATGTT
Found at i:6966391 original size:131 final size:131
Alignment explanation
Indices: 6966244--6966805 Score: 941
Period size: 131 Copynumber: 4.3 Consensus size: 131
6966234 TAAAGTTTGG
*
6966244 ATATTTTTTATTTTTAATATTCTAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
* *
6966309 TGCATAAAACTAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATTATTATATTTTT
66 TGCATAAAAATAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATTATTTTATTTTT
6966374 A
131 A
6966375 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
* *
6966440 TGCATAAAACTAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATTAAAATTTTTTA
66 TGCATAAAAATAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATT---A--TTTTA
6966505 TTTTTA
126 TTTTTA
*
6966511 GTATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
* *
6966576 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
66 TGCATAAAAATAATTAAATTATATATTTAAAAATTAATTAAATTAAATT-AAATTATTTTATTTT
6966641 TA
130 TA
* *
6966643 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTCTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
*
6966708 TGCATAAAAATAATTAAATTATGTA-TTAACAAATTAATTAAATTAAATTAAATT-TTTTATTTT
66 TGCATAAAAATAATTAAATTATATATTTAA-AAATTAATTAAATTAAATTAAATTATTTTATTTT
6966771 T-
130 TA
6966772 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
6966806 ATAAAAACAA
Statistics
Matches: 413, Mismatches: 11, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
129 34 0.08
130 10 0.02
131 125 0.30
132 116 0.28
134 1 0.00
136 122 0.30
137 5 0.01
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (131 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
TGCATAAAAATAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATTATTTTATTTTT
A
Found at i:6966516 original size:16 final size:16
Alignment explanation
Indices: 6966492--6966531 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6966482 TTAAATTAAA
*
6966492 TTAAAATTTTTTATTT
1 TTAATATTTTTTATTT
*
6966508 TTAGTATTTTTTATTT
1 TTAATATTTTTTATTT
6966524 TTAATATT
1 TTAATATT
6966532 CCAATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTAATATTTTTTATTT
Found at i:6966534 original size:136 final size:135
Alignment explanation
Indices: 6966244--6966805 Score: 925
Period size: 136 Copynumber: 4.3 Consensus size: 135
6966234 TAAAGTTTGG
*
6966244 ATATTTTTTATTTTTAATATTCTAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
* * *
6966309 TGCATAAAACTAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATT--A--TTATAT
66 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATTAAATTTTTTAT
6966370 TTTTA
131 TTTTA
6966375 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
*
6966440 TGCATAAAACTAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATTAAAATTTTTTA
66 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATT-AAATTTTTTA
6966505 TTTTTA
130 TTTTTA
*
6966511 GTATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
*
6966576 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATT-AA--AATTTTTTTAT
66 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATTAAATTTTTTAT
6966638 TTTTA
131 TTTTA
* *
6966643 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTCTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
* *
6966708 TGCATAAAAATAATTAAATTATGTA-TTA-ACA--AATT-AATTAAATTAAATTAAATTTTTTAT
66 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATTAAATTTTTTAT
6966768 TTTT-
131 TTTTA
6966772 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
6966806 ATAAAAACAA
Statistics
Matches: 411, Mismatches: 12, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
127 9 0.02
128 6 0.01
129 34 0.08
130 16 0.04
131 120 0.29
132 101 0.25
134 1 0.00
135 2 0.00
136 122 0.30
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (135 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATTAAATTTTTTAT
TTTTA
Found at i:6966649 original size:16 final size:16
Alignment explanation
Indices: 6966630--6966663 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6966620 AAATTAAAAT
6966630 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
6966646 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
6966662 TT
1 TT
6966664 CCAATTTATT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:6966757 original size:268 final size:260
Alignment explanation
Indices: 6966244--6966805 Score: 962
Period size: 267 Copynumber: 2.1 Consensus size: 260
6966234 TAAAGTTTGG
*
6966244 ATATTTTTTATTTTTAATATTCTAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
*
6966309 TGCATAAAACTAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATTATTATATTTTT
66 TGCATAAAAATAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATTATTATATTTTT
*
6966374 AATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAA
131 AATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTCTTAAAATAAAAATAATTAA
* *
6966439 ATGCATAAAACTAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAATTAAAATTTTTT
196 ATGCATAAAAATAATTAAATTATATA-TTA-ACA--AATT-AATTAAATTAAATT-AAATTTTTT
6966504 ATTTTT
255 ATTTTT
6966510 AGTATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAA
1 A-TATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAA
* * *
6966575 ATGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATTAAAATTTTTTTATTT
65 ATGCATAAAAATAATTAAATTATATATTTAAAAATTAATTAAATTAAATT-AAATTATTATATTT
*
6966640 TTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTCTTAAAATAAAAATAATT
129 TTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTCTTAAAATAAAAATAATT
*
6966705 AAATGCATAAAAATAATTAAATTATGTATTAACAAATTAATTAAATTAAATTAAATTTTTTATTT
194 AAATGCATAAAAATAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAATTTTTTATTT
6966770 TT
259 TT
6966772 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
6966806 ATAAAAACAA
Statistics
Matches: 284, Mismatches: 10, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
261 33 0.12
262 16 0.06
263 14 0.05
264 4 0.01
266 3 0.01
267 113 0.40
268 101 0.36
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (260 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
TGCATAAAAATAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAATTATTATATTTTT
AATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTCTTAAAATAAAAATAATTAA
ATGCATAAAAATAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAATTTTTTATTTTT
Found at i:6966777 original size:15 final size:16
Alignment explanation
Indices: 6966755--6966792 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
6966745 TTAAATTAAA
6966755 TTAA-ATTTTTTATTT
1 TTAATATTTTTTATTT
6966770 TT-ATATTTTTTATTT
1 TTAATATTTTTTATTT
6966785 TTAATATT
1 TTAATATT
6966793 CCAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTAATATTTTTTATTT
Found at i:6966786 original size:16 final size:15
Alignment explanation
Indices: 6966755--6966792 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6966745 TTAAATTAAA
6966755 TTAA-ATTTTTTATT
1 TTAATATTTTTTATT
*
6966769 TTTATATTTTTTATTT
1 TTAATATTTTTTA-TT
6966785 TTAATATT
1 TTAATATT
6966793 CCAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 8 0.40
16 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTAATATTTTTTATT
Found at i:6969182 original size:49 final size:49
Alignment explanation
Indices: 6969125--6969228 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
6969115 TCATGTGTTA
* * * *
6969125 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
6969174 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
6969223 TAATTT
1 TAATTT
6969229 GTTTTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:6970792 original size:119 final size:120
Alignment explanation
Indices: 6970615--6971015 Score: 696
Period size: 120 Copynumber: 3.4 Consensus size: 120
6970605 GTAGATTATG
6970615 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
1 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
* * * *
6970680 AAATTTTATTAAATTATATATTTTTATTGAATTATAGTTAATAATTATTATTTTA
66 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTA
* *
6970735 GATTATATTTTATAGTATTATAT-TTATGATTATAGTAAATTCATATAAGAATATTTAATATTAA
1 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
* *
6970799 GAATGTTATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATTTTA
66 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTA
*
6970854 AATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
1 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
* *
6970919 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATTTA
66 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTA
6970974 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATT
1 AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATT
6971016 AAAATTTAAT
Statistics
Matches: 264, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
119 110 0.42
120 154 0.58
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTA
Done.