Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 149 of 213
Found at i:44836194 original size:32 final size:32
Alignment explanation
Indices: 44836130--44836194 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
44836120 CAAATTAGAA
* ** *
44836130 TTTCGAGTTAATCAAATCAAGTTTTTCGAGTT
1 TTTCGAGTCAATCAAATCAAGTAATTCAAGTT
44836162 TTTCGAGTCAACTCAAA-CAAGTAATTCAAGTT
1 TTTCGAGTCAA-TCAAATCAAGTAATTCAAGTT
44836194 T
1 T
44836195 CAAGTTCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
TTTCGAGTCAATCAAATCAAGTAATTCAAGTT
Found at i:44836879 original size:19 final size:19
Alignment explanation
Indices: 44836843--44836881 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44836833 AATTCGAAAC
*
44836843 AAAATAGAAAAGTAAGGTT
1 AAAATAGAAAAGCAAGGTT
44836862 AAAATAGAAAA-CAGAGGTT
1 AAAATAGAAAAGCA-AGGTT
44836881 A
1 A
44836882 CACAACTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.59, C:0.03, G:0.21, T:0.18
Consensus pattern (19 bp):
AAAATAGAAAAGCAAGGTT
Found at i:44840490 original size:30 final size:30
Alignment explanation
Indices: 44840428--44840490 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
44840418 ACTTATTTTA
*
44840428 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
44840458 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
44840488 TTG
1 TTG
44840491 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:44840594 original size:18 final size:20
Alignment explanation
Indices: 44840573--44840613 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
44840563 GAAATATTTA
*
44840573 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
44840591 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
44840611 TTT
1 TTT
44840614 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:44840644 original size:12 final size:12
Alignment explanation
Indices: 44840614--44840646 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
44840604 TATATATTTT
44840614 AAAATT-ATATA
1 AAAATTAATATA
44840625 AAAA-TAATATA
1 AAAATTAATATA
44840636 AAAATTAATAT
1 AAAATTAATAT
44840647 GGACAGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:44857296 original size:27 final size:27
Alignment explanation
Indices: 44857265--44857442 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44857255 TAAATTGTAC
44857265 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44857292 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44857318 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44857346 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44857374 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44857401 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44857428 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44857443 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44857379 original size:82 final size:81
Alignment explanation
Indices: 44857266--44857421 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44857256 AAATTGTACA
* *
44857266 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44857330 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44857347 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44857412 TGCGAGTTGA
65 TGCGAATTGA
44857422 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44857433 original size:82 final size:81
Alignment explanation
Indices: 44857262--44857442 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44857252 GATTAAATTG
* *
44857262 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44857327 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44857343 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44857407 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44857425 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44857443 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44864924 original size:16 final size:16
Alignment explanation
Indices: 44864893--44864934 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
44864883 TAATAATAAC
44864893 TAATATATAA-ATATAT
1 TAAT-TATAATATATAT
*
44864909 TTATTATAATATATAT
1 TAATTATAATATATAT
44864925 TAATTATAAT
1 TAATTATAAT
44864935 CAACTTTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATAATATATAT
Found at i:44866392 original size:3 final size:3
Alignment explanation
Indices: 44866384--44866454 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
44866374 AGAGGATCTC
44866384 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
44866432 GAA GAA GAA GAA GAA GAC GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
44866455 TCCCATAGAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44867748 original size:6 final size:5
Alignment explanation
Indices: 44867723--44867789 Score: 70
Period size: 5 Copynumber: 13.4 Consensus size: 5
44867713 AAATGCTCGT
44867723 GAAAA -AAAA GAAAA GAAAA GACAAA G-AAA G-AAA -AAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GA-AAA GAAAA GAAAA GAAAA GAAAA GAAAA
44867770 GAAAAA GAAGAA GAAGAA GA
1 G-AAAA GAA-AA GAA-AA GA
44867790 GAATAGCATA
Statistics
Matches: 56, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
4 14 0.25
5 23 0.41
6 19 0.34
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:44867789 original size:28 final size:28
Alignment explanation
Indices: 44867725--44867778 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
44867715 ATGCTCGTGA
*
44867725 AAAAAAAGAAAAGAAAAGACAAAGAAAG
1 AAAAAAAGAAAAGAAAAGAAAAAGAAAG
44867753 AAAAAAAGAAAAGAAAAGAAAAAGAA
1 AAAAAAAGAAAAGAAAAGAAAAAGAA
44867779 GAAGAAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAAGAAAAGAAAAAGAAAG
Found at i:44871634 original size:31 final size:31
Alignment explanation
Indices: 44871109--44871623 Score: 644
Period size: 31 Copynumber: 16.7 Consensus size: 31
44871099 ATCCAATGCT
* * * *
44871109 CAAATC-AATTTGGCAATATATATCCACATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
44871139 CGAATCAAATTCGGTAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
44871170 CAAATC-AATTTGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
44871200 CAAATCAAATTTGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
44871231 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
44871262 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
44871292 CAAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
44871323 CAAATCAAATTCAGCAATGTATAT-TAATATA
1 CAAATCAAATTCGGCAATGTATATCT-ATATA
*
44871354 CAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
44871385 CAAATCAATTTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
44871416 GAAACCAAATTTGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
44871447 CAAATCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
44871478 CAATTCTAATTCAGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
44871509 CAATTCAACTTCGGCAATATATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
44871540 CAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
44871571 CAAATCAAATTCGCCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
44871602 CAAATC-AATTAGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
44871624 AAACATATAC
Statistics
Matches: 425, Mismatches: 55, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
30 74 0.17
31 350 0.82
32 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:44883837 original size:78 final size:77
Alignment explanation
Indices: 44883725--44884150 Score: 519
Period size: 78 Copynumber: 5.5 Consensus size: 77
44883715 TAGAAATACA
* * * * *
44883725 GTGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGATGATTATTCAGGTTTTGTACCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
*
44883790 AGGCTGGGTGCG
66 AGGCTGTGTGCG
* * * * * *
44883802 AATGATTATTCGGGTTATGAGCCTATCAGGCTGTGTGCCGGTGATTATTCAGTCTATGTGCCTAG
1 -GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAG
* * ***
44883867 CAAGATGCAAGCAG
65 CAGGCTGTGTGC-G
* *
44883881 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGAGTGCCGATGATTATTCAGGCTATGTGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
44883946 AGGCTGTGTGCCG
66 AGGCTGTGTG-CG
* * *
44883959 GTGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGATGATTATTCAAGCTATGTGCCTAGT
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
44884024 AGGCTGTGTGCTG
66 AGGCTGTGTGC-G
* * * *
44884037 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTGGTGATTATTCGGGCTATGTGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
* *
44884102 AAGTTGTGTGTCG
66 AGGCTGTGTG-CG
* * * *
44884115 ATGATTATTCGGGCTATATGCCTAGCAAGTTGTGTG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
44884151 TCGGTGTATT
Statistics
Matches: 297, Mismatches: 47, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
77 1 0.00
78 293 0.99
79 3 0.01
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (77 bp):
GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATGTGCCTAGC
AGGCTGTGTGCG
Found at i:44884149 original size:117 final size:116
Alignment explanation
Indices: 44883725--44884150 Score: 505
Period size: 117 Copynumber: 3.6 Consensus size: 116
44883715 TAGAAATACA
* * * * * *
44883725 GTGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGATGATTATTCAGGTTTTGTACCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* * *
44883790 AGGCTGGGTGCGAATGATTATTCGGG-TTATGAGCCTATCAGGCTGTGTGCCG
66 AGGCTGTGTGCG-ATGATTATTCGGGCTT-TGTGCCTAGCAGGCTGTGTGCCG
* * *** * *
44883842 GTGATTATTCAGTCTATGTGCCTAGCAAGATGCAAG-CAGGTGATTATTCGGGCTATGTGCCTAG
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTC-GATGATTATTCAGGCTATGTGCCTAG
* * * *
44883906 CAGGTTGAGTGCCGATGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGCCG
65 CAGGCTGTGTG-CGATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * * * *
44883959 GTGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGATGATTATTCAAGCTATGTGCCTAGT
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* *
44884024 AGGCTGTGTGCTGGTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTG
66 AGGCTGTGTGC-GATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * *
44884076 GTGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTCGATGATTATTCGGGCTATATGCCTAGC
1 GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
* *
44884141 AAGTTGTGTG
66 AGGCTGTGTG
44884151 TCGGTGTATT
Statistics
Matches: 259, Mismatches: 45, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
116 2 0.01
117 253 0.98
118 4 0.02
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (116 bp):
GTGATTATTCGGGCTATGTGCCTAGCAAGATGTGTGTCGATGATTATTCAGGCTATGTGCCTAGC
AGGCTGTGTGCGATGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
Found at i:44884153 original size:39 final size:38
Alignment explanation
Indices: 44883726--44884150 Score: 454
Period size: 39 Copynumber: 10.9 Consensus size: 38
44883716 AGAAATACAG
*
44883726 TGATTGTTCGGGCTATGTGCCTAGCAGGCTGTGTGTCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * * * *
44883765 TGATTATTCAGGTTTTGTACCTAGCAGGCTGGGTGCGAA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCG-A
* * * *
44883804 TGATTATTCGGGTTATGAGCCTATCAGGCTGTGTGCCGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * * * *** *
44883843 TGATTATTCAGTCTATGTGCCTAGCAAGATGCAAGCAGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
44883882 TGATTATTCGGGCTATGTGCCTAGCAGGTTGAGTGCCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* *
44883921 TGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGCCGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
*
44883960 TGATTATTCGGGCTATGTGCCTAGCAGGGTGTGTGCCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
** * *
44883999 TGATTATTCAAGCTATGTGCCTAGTAGGCTGTGTGCTGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
44884038 TGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCTGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGC-GA
* *
44884077 TGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTCGA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG-CGA
* * *
44884116 TGATTATTCGGGCTATATGCCTAGCAAGTTGTGTG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
44884151 TCGGTGTATT
Statistics
Matches: 328, Mismatches: 52, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
38 4 0.01
39 320 0.98
40 4 0.01
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (38 bp):
TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCGA
Found at i:44889699 original size:299 final size:299
Alignment explanation
Indices: 44889146--44890042 Score: 1234
Period size: 299 Copynumber: 3.0 Consensus size: 299
44889136 AGTCACGATA
* *
44889146 GATTTCATATCTGG--T--CTGTAACTCCGAGAAAGAAAGATTCAATCT-GAGGGATTGTTGACA
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGA-TGATTGTTGATA
* * * * * *
44889206 GATTGACGAAAACGAAACATTTTATTCTAATCAGAACATACTATACCCTTGAGAGATTAGTAGAA
65 GATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAA
* * * ** * *
44889271 CTATATGGGTCTGAGATTGTGACATTACACGAAG-TTCTGACATCTATTATTTCTAATCAAGATA
130 CTATATGTGTCTGAGATTGTGAGATTACACGAAGTTTC-AACATCTATTATTTCGGATCGAGATC
* ** *
44889335 TGAGATTTATATCGAGATTTTATAGCAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGC
194 TGAGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGC
* * *
44889400 ACCACGATTCATCCTCAGACTGACGGGTAATCAAAACGAGT
259 ACCGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
*
44889441 GATTTCGTATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
** *
44889506 ATTGAAGAAATCGGCACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAACAGAAC
66 ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
*
44889571 TATATGTGCCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
131 TATATGTGTCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
* * * * *
44889636 AGATTTACATTGAGATTTTGGAACAAAATTCATGAGGCTTTACGTACTAAGCTTAATTTCAGCAT
196 AGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGCAC
*
44889701 CGCGATTCATCCTCAGACTGACAGGCAATCAGAACGAGT
261 CGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
* * *
44889740 GATTTCATATTTGGTTTACCTGTAACTCCGAGAAATAAAGATTGAATCTGGATGATTGTTGATAG
1 GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
* * * *
44889805 ATTGATGAAATCGAAACATTTTACTCCAATCAGAATAGACTACACCCTTGAGAGATTAGCAAAAC
66 ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
* * * * **
44889870 TATATGTGTCTGAGATTGTGAGATTACACGGAGTTCCAGCATCTATTATTTTGGATCGAGATCCA
131 TATATGTGTCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
* *
44889935 AGATTTACATCGAGATTTTGGAGA-AAACTTCACT-AGGCTTTAGGCATTAAGCTTAATTTCAAC
196 AGATTTACATCGAGATTTTGGA-ACAAACTTCA-TGAGGCTTTAGGCACTAAGCTTAATTTCAGC
* * * *
44889998 ACTGCGTTTCATCCTCAGATTGACGAGCAATCAGAACGAGT
259 ACCGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
44890039 GATT
1 GATT
44890043 CAAATTTTGG
Statistics
Matches: 531, Mismatches: 63, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
295 13 0.02
297 1 0.00
299 510 0.96
300 7 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (299 bp):
GATTTCATATCTGGTTTACCTGTAACTCCGAGAAAGAAAGATTCAATCTGGATGATTGTTGATAG
ATTGAAGAAATCGAAACATTTTATTCCAATCAGAACAGACTACACCCTTGAGAGATTAGCAGAAC
TATATGTGTCTGAGATTGTGAGATTACACGAAGTTTCAACATCTATTATTTCGGATCGAGATCTG
AGATTTACATCGAGATTTTGGAACAAACTTCATGAGGCTTTAGGCACTAAGCTTAATTTCAGCAC
CGCGATTCATCCTCAGACTGACGGGCAATCAGAACGAGT
Found at i:44892049 original size:23 final size:23
Alignment explanation
Indices: 44892019--44892062 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
44892009 GTGCCTAGCA
44892019 GGCTGTGTGC-GGATGATTATTTG
1 GGCTGTGTGCTGG-TGATTATTTG
44892042 GGCTGTGTGCTGGTGATTATT
1 GGCTGTGTGCTGGTGATTATT
44892063 CAGGCTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.11, C:0.09, G:0.39, T:0.41
Consensus pattern (23 bp):
GGCTGTGTGCTGGTGATTATTTG
Found at i:44892068 original size:23 final size:23
Alignment explanation
Indices: 44892017--44892068 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
44892007 ATGTGCCTAG
44892017 CAGGCTGTGTGCGGATGATTATT
1 CAGGCTGTGTGCGGATGATTATT
**
44892040 TGGGCTGTGTGCTGG-TGATTATT
1 CAGGCTGTGTGC-GGATGATTATT
44892063 CAGGCT
1 CAGGCT
44892069 ACGTTCCTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.13, C:0.13, G:0.37, T:0.37
Consensus pattern (23 bp):
CAGGCTGTGTGCGGATGATTATT
Found at i:44892085 original size:39 final size:39
Alignment explanation
Indices: 44892042--44892329 Score: 254
Period size: 39 Copynumber: 7.4 Consensus size: 39
44892032 TGATTATTTG
* * *
44892042 GGCTGTGTGCTGGTGATTATTCAGGCTACGTTCCTAGTA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
** * * *
44892081 GGCTGCATG-TAGGTGATTATTCAGGCGATGTGCCAAGCC
1 GGCTGTGTGCT-GGTGATTATTCAGGCTATGTGCCTAGCA
** * * * *
44892120 GGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* * * * *
44892159 GGCTGTGTGCTAGTGAATATTCGGGTTATGTGCCTAGCT
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* ** *
44892198 GGCTGTATGCTGGTGATTATTCAGGCTATGTATCTTGCA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* * *
44892237 GGCTGTGTGCCGGTGATTATTCGGGCTATGTGCCTAGTA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* * * * * *
44892276 GTCTGTGTTCCGATGATTATTCAGGCTATATGCTTAGCA
1 GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
* *
44892315 GGATGTGTGCCGGTG
1 GGCTGTGTGCTGGTG
44892330 TATGAAAAAT
Statistics
Matches: 196, Mismatches: 51, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
38 1 0.01
39 195 0.99
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (39 bp):
GGCTGTGTGCTGGTGATTATTCAGGCTATGTGCCTAGCA
Found at i:44892248 original size:117 final size:117
Alignment explanation
Indices: 44892042--44892283 Score: 281
Period size: 117 Copynumber: 2.1 Consensus size: 117
44892032 TGATTATTTG
* * *
44892042 GGCTGTGTGCTGGTGATTATTCAGGCTACGTTCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
1 GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
* *
44892107 GATGTGCCAAGCCGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
66 GATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
* * * *
44892159 GGCTGTGTGCTAGTGAATATTCGGGTTATGTGCCTAGCT-GGCTGTATGCT-GGTGATTATTCAG
1 GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAG-TAGGCTGCATG-TAGGTGATTATTCAG
* * ** ** * * *
44892222 GCTATGTATCTTGCAGGCTGTGTGCCGGTGATTATTCGGGCTATGTGCCTAGTA
64 GCGATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
*
44892276 GTCTGTGT
1 GGCTGTGT
44892284 TCCGATGATT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
117 102 0.98
118 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (117 bp):
GGCTGTGTGCTAGTGAATATTCAGGCTACGTGCCTAGTAGGCTGCATGTAGGTGATTATTCAGGC
GATGTACCAAGCAGGCTGCATGCCGATGATTATTCGGGCTATATGCCTAGCA
Found at i:44894719 original size:440 final size:440
Alignment explanation
Indices: 44893893--44894773 Score: 1564
Period size: 440 Copynumber: 2.0 Consensus size: 440
44893883 GAATGAACCT
* *
44893893 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTTCGTATGATGCATGACTAATATGT
1 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
* *
44893958 TGCGTACTTAAAGGTAAACTCTACAGTTCCATAACCTTAATCTTCTCACCCTTAAGGTTGAAGTA
66 TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
*
44894023 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTGCTGAATTTTGTGGT
131 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
44894088 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
196 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
44894153 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
261 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
* **
44894218 AATGGTGTTCCACATTAATGGCAATGGTGTAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
326 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
* ** *
44894283 TAATTTTGAAAGAAGTAGGTTAGCAAACTCTATTTGGAGTGGAAGAAGGA
391 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
* * *
44894333 AGACTGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGTATAACTTATATGT
1 AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
44894398 TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
66 TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
* *
44894463 AGCAACATGTTTATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTATTGAATTTTGTGGT
131 AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
* * *
44894528 AATGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAGAGGGTGCTAGATGA
196 AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
*
44894593 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTATCATTTTTAAAAGAGGAAGCATTCC
261 AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
*
44894658 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTGGGACTTCTTTAAGTCC
326 AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
44894723 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
391 GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
44894773 A
1 A
44894774 TTTCTTGAGT
Statistics
Matches: 419, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
440 419 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (440 bp):
AGACCGCAAGAAACTAGGGATGTTACACCTGATGTATTTCTCCGTATGATGCATAACTAATATGT
TGCGTACTTAAAGGTAAACTCTACAGTTCCACAACCTTAATCTTCTCACCCTTAAGGTTCAAGTA
AGCAACATGTTCATAGAGTGTCCATTGATAAAGTTAGTAAGTGTGGAGCTACTGAATTTTGTGGT
AACGTGAGTGATGACCCAACCAAGGCAGAATATTGGTTGGAAAATACTCAAAGGGTGCTAGATAA
AATGTTGTGCTCCATTGAAGATTTTTTATGGTGTACGGTACCATTTTTAAAAGAGGAAGCATTCC
AATGGTGGTCCACATTAATGGCAATGGTACAGAAAGAAAGAATCAATTAGGACTTCTTTAAGTCC
GAATTTAAAAAGAAGTAGGTTAGCAAACGCTATTTGGAGTGGAAGAAGGA
Found at i:44898357 original size:299 final size:299
Alignment explanation
Indices: 44897819--44898411 Score: 904
Period size: 299 Copynumber: 2.0 Consensus size: 299
44897809 GGATTTCGTA
* *
44897819 TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAGATTGATGAA
1 TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAAATTGATCAA
* *
44897884 ATCGATACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAATTATATGTAT
66 ATCGACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGTAT
* * * *
44897949 CTTAGATTGTGAGATTACATGGAGTTCCGACATCTATTATTTTGAATTGAGATCCGATATTTACA
131 CTGAGATTGTGAGATTACACGGAGTTCCGACATCTATTATTTTGAATCGAGATCCGAGATTTACA
* * * *
44898014 TCGAGATTTTGGAGCAAACTTAATGAGGCTTTAAGCACTAAGCTTAATTTCAGCACTGCATTTCA
196 TCAAGATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCA
* *
44898079 TCTTCAGACTGACGGGCAATCAGAATGAATGATTTTTTT
261 TCCTCAGACTGACGGGCAATCAGAACGAATGATTTTTTT
* * *
44898118 TCTGGTTTACTTGTAACTCCGAGAAAGAAAGATTCAATAC-GGGTGATTGTTGACAAATTGA-CA
1 TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAAT-CTGGGTGATTGTTGACAAATTGATCA
* * * *
44898181 AAGTCGGCACATTTTATTCCAATTAGAATATACTACACCCTTGAGAGATTAGCAGAACTATATGT
65 AA-TCGACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGT
* *
44898246 GTCTGAGATTGTGAGATTACACGGAGTTTCGACATCTATTATTTT-AGATCGAGATCCGAGATTT
129 ATCTGAGATTGTGAGATTACACGGAGTTCCGACATCTATTATTTTGA-ATCGAGATCCGAGATTT
*
44898310 ACATCAAGATTTTGGAGCAAACTTTACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATT
193 ACATCAAGATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATT
* *
44898375 TCATCCTCAGACTGACGGGGAATCAGAACGAGTGATT
258 TCATCCTCAGACTGACGGGCAATCAGAACGAATGATT
44898412 CTGTAACAGC
Statistics
Matches: 265, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
298 4 0.02
299 260 0.98
300 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (299 bp):
TCTGGTTTACCTATAACTCCGACAAAGAAAGATTCAATCTGGGTGATTGTTGACAAATTGATCAA
ATCGACACATTTTATTCCAATTAGAACAAACTACACCCTTGAGAGATTACCAGAACTATATGTAT
CTGAGATTGTGAGATTACACGGAGTTCCGACATCTATTATTTTGAATCGAGATCCGAGATTTACA
TCAAGATTTTGGAGCAAACTTAACGAGGCTTTAAGAACTAAGCTTAATTTCAACACTGCATTTCA
TCCTCAGACTGACGGGCAATCAGAACGAATGATTTTTTT
Found at i:44899657 original size:50 final size:50
Alignment explanation
Indices: 44899598--44899884 Score: 361
Period size: 50 Copynumber: 5.8 Consensus size: 50
44899588 GGCAGTGAGT
* * *
44899598 GTGCCAGTGTAAGACCATGTCTGGCACATGGCATCGGCACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
*
44899648 GTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* * *
44899698 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCA-ATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CAGAGGA
* *
44899748 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACAGATGAGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGA-G-GA
* * * *
44899800 GT-C-AGTGTAAGATCATGTCTGGGACATGGCATCGGCTC---TAGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* * *
44899845 GTGCCAATGTAAGACCATGTCCGGGACATGGCATCGGCAC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
44899885 CGATATACGA
Statistics
Matches: 209, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
45 4 0.02
46 1 0.00
47 34 0.16
49 2 0.01
50 161 0.77
51 3 0.01
52 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
Found at i:44899750 original size:100 final size:99
Alignment explanation
Indices: 44899602--44899884 Score: 410
Period size: 100 Copynumber: 2.9 Consensus size: 99
44899592 GTGAGTGTGC
* *
44899602 CAGTGTAAGACCATGTCTGGCACATGGCATCGGCACAGACCGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACC-ATGAGTGCTAGTGTAAGACCATG
*
44899667 TCTAGGACATGGCATCGGCACAGACAGAGGAGAGT
65 TCTGGGACATGGCATCGGCACAGACAGAGGAGAGT
*
44899702 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCAATGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACC-ATGAGTGCTAGTGTAAGACCATG
* * *
44899767 TCTGGGACATGGCATTGGCACGGACAGATGAGAGT
65 TCTGGGACATGGCATCGGCACAGACAGAGGAGAGT
* * * *
44899802 CAGTGTAAGATCATGTCTGGGACATGGCATCGGCTCTAG---ATGAGTGCCAATGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGACCATGAGTGCTAGTGTAAGACCATG
*
44899864 TCCGGGACATGGCATCGGCAC
65 TCTGGGACATGGCATCGGCAC
44899885 CGATATACGA
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
97 40 0.24
100 125 0.75
101 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCATGAGTGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCACAGACAGAGGAGAGT
Found at i:44906297 original size:16 final size:16
Alignment explanation
Indices: 44906276--44906356 Score: 153
Period size: 16 Copynumber: 5.1 Consensus size: 16
44906266 TTCGCTGTAT
44906276 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
44906292 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
44906308 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
44906324 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
44906340 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
44906356 T
1 T
44906357 AGCAAATCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 63 1.00
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:44906399 original size:45 final size:44
Alignment explanation
Indices: 44906335--44906425 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
44906325 GGAATAGAGG
44906335 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
44906380 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
44906424 TG
1 TG
44906426 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.42
45 24 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:44906640 original size:54 final size:54
Alignment explanation
Indices: 44906581--44907096 Score: 263
Period size: 66 Copynumber: 8.7 Consensus size: 54
44906571 ATATTTAAAC
*
44906581 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAACAATATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAATATTCTTA
** * *
44906635 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATAT-A-ACT-TAAAA-AT-ATTCT-
*
44906699 AA
53 TA
*
44906701 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAA-ATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAA-AAATATTCTTA
** * *
44906755 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATAT-A-ACT-TAAAA-AT-ATTCT-
*
44906819 AA
53 TA
*
44906821 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAACAAA-ATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAA-AAATATTCTTA
* ** * *
44906875 ATAATTAATATTCTTATATGAATATACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATA----T-TA--AATATATTTTAATTAAAATATAT-A-ACT-TAAAA-AT-ATTCT-
*
44906939 AA
53 TA
*
44906941 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAA-ATTCTTA
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAA-AAATATTCTTA
** * *
44906995 ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATT-TG
1 ATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATAT-A-ACT-TAAAA-AT-ATTCT-
*
44907059 AA
53 TA
44907061 ATAATTAATATTAAATATATTTTAATTAAAATATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATAT
44907097 GATTTAATAA
Statistics
Matches: 353, Mismatches: 48, Indels: 117
0.68 0.09 0.23
Matches are distributed among these distances:
54 58 0.16
55 15 0.04
56 12 0.03
57 24 0.07
58 4 0.01
59 56 0.16
61 56 0.16
62 5 0.01
63 27 0.08
64 16 0.05
65 18 0.05
66 62 0.18
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (54 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAAAAATATTCTTA
Found at i:44906742 original size:18 final size:17
Alignment explanation
Indices: 44906715--44906749 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44906705 TTAATATTAA
*
44906715 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44906733 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44906750 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44906982 original size:18 final size:17
Alignment explanation
Indices: 44906955--44906989 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44906945 TTAATATTAA
*
44906955 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44906973 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44906990 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44907121 original size:120 final size:120
Alignment explanation
Indices: 44906581--44907110 Score: 1006
Period size: 120 Copynumber: 4.4 Consensus size: 120
44906571 ATATTTAAAC
* * *
44906581 ATAATTAATATTAAATATATTTTAATTAAAATATATAACTTAACAATATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
44906646 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
44906701 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
44906766 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
*
44906821 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAACAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
44906886 TCTTATATGAATATACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
44906941 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
44907006 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
*
44907061 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
44907111 TAAAATAATT
Statistics
Matches: 402, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 402 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
Found at i:44907157 original size:101 final size:93
Alignment explanation
Indices: 44907051--44907333 Score: 342
Period size: 91 Copynumber: 3.0 Consensus size: 93
44907041 ACTATAAAAG
* * * *
44907051 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
44907115 ATAATTATAACTAATAAATTTTCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTTTCTTATATGAATTTAT
* *
44907152 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
44907215 AATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTTTCTTATATGAATTTAT
* *
44907243 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
44907306 AATAATAAAATGTTCTTATATGAATTTA
66 AATAAT-AAATTTTCTTATATGAATTTA
44907334 CTAAAATCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 13
0.87 0.07 0.07
Matches are distributed among these distances:
91 90 0.54
92 23 0.14
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTTTCTTATATGAATTTAT
Found at i:44907161 original size:47 final size:46
Alignment explanation
Indices: 44907092--44907259 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
44907082 TTAATTAAAA
*
44907092 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
44907139 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* *
44907187 TA-AT-AA--TATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
44907230 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
44907260 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 19 0.20
45 5 0.05
46 5 0.05
47 40 0.42
48 14 0.15
49 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:44907181 original size:26 final size:28
Alignment explanation
Indices: 44907151--44907313 Score: 86
Period size: 26 Copynumber: 5.6 Consensus size: 28
44907141 TATGAATTTG
*
44907151 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
44907177 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
* *
44907205 TAAAATTCTTAATAATAAATTTTCTTATATGAATT-TA
1 TATAA-T-TTAATAAT-AA------TATAT-AATTACA
* *
44907242 TACAATTTAA-AATAAT-TA-ATATTAAA
1 TATAATTTAATAATAATATATA-ATTACA
* *
44907268 TATAATTTAATAATGATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
44907296 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
44907314 AATGTTCTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 22 0.21
27 12 0.11
28 22 0.21
29 3 0.03
30 17 0.16
31 2 0.02
33 2 0.02
34 3 0.03
35 4 0.04
36 1 0.01
37 10 0.09
38 4 0.04
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:44907221 original size:91 final size:91
Alignment explanation
Indices: 44907126--44907333 Score: 353
Period size: 91 Copynumber: 2.3 Consensus size: 91
44907116 TAATTATAAC
* * * *
44907126 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
44907191 AATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
44907217 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
44907282 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
44907308 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
44907334 CTAAAATCAA
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 90 0.82
92 20 0.18
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:44907293 original size:44 final size:43
Alignment explanation
Indices: 44907151--44907293 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 43
44907141 TATGAATTTG
* *
44907151 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * *
44907195 TATAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
44907242 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
44907286 TATAATTT
1 TATAATTT
44907294 CATAAAATTC
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 33 0.43
45 7 0.09
46 7 0.09
47 23 0.30
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:44907308 original size:47 final size:47
Alignment explanation
Indices: 44907176--44907314 Score: 146
Period size: 47 Copynumber: 3.0 Consensus size: 47
44907166 TTATTATTAC
*
44907176 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
44907223 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
44907267 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
44907314 A
1 A
44907315 ATGTTCTTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
44 21 0.30
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:44910398 original size:13 final size:13
Alignment explanation
Indices: 44910380--44910405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44910370 TGCTTTTGAG
44910380 TTCAAAAATAATT
1 TTCAAAAATAATT
44910393 TTCAAAAATAATT
1 TTCAAAAATAATT
44910406 CTGATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCAAAAATAATT
Found at i:44912249 original size:30 final size:30
Alignment explanation
Indices: 44912213--44912279 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
44912203 CGATTAACTC
*
44912213 AAACAAATAATGCAATACAGGCAAGAATCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
44912243 AAACAAATAATGCAATACAGGCAAGAACCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
44912273 AAACAAA
1 AAACAAA
44912280 CTATTTAGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.57, C:0.18, G:0.15, T:0.10
Consensus pattern (30 bp):
AAACAAATAATGCAATACAGGCAAGAACCG
Found at i:44925852 original size:3 final size:3
Alignment explanation
Indices: 44925844--44925871 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44925834 TCCATTTTCC
44925844 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
44925872 TTCAATTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:44928788 original size:10 final size:9
Alignment explanation
Indices: 44928761--44928820 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
44928751 GTCAATCAAT
44928761 AATT-TAAA
1 AATTATAAA
44928769 AATTATAAA
1 AATTATAAA
*
44928778 AATTTTAAA
1 AATTATAAA
*
44928787 AAAT-TAAA
1 AATTATAAA
*
44928795 ATTTA-AAA
1 AATTATAAA
*
44928803 AAATATAAA
1 AATTATAAA
44928812 AATTCATAA
1 AATT-ATAA
44928821 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 16 0.39
9 21 0.51
10 4 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:44928797 original size:16 final size:17
Alignment explanation
Indices: 44928761--44928812 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
44928751 GTCAATCAAT
*
44928761 AATTT-AAAAATTATAAA
1 AATTTAAAAAAATAT-AA
*
44928778 AATTTTAAAAAAT-TAA
1 AATTTAAAAAAATATAA
44928794 AATTTAAAAAAATATAA
1 AATTTAAAAAAATATAA
44928811 AA
1 AA
44928813 ATTCATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 14 0.45
17 11 0.35
18 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTTAAAAAAATATAA
Found at i:44928813 original size:26 final size:26
Alignment explanation
Indices: 44928764--44928829 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 26
44928754 AATCAATAAT
* * *
44928764 TTAAAAATTATAAAAATTTTAAAAAA
1 TTAAAAATTAAAAAAATATAAAAAAA
*
44928790 TTAAAATTTAAAAAAATAT--AAAAA
1 TTAAAAATTAAAAAAATATAAAAAAA
* *
44928814 TTCATAATTAAAAAAA
1 TTAAAAATTAAAAAAA
44928830 AACATAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 18 0.53
26 16 0.47
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAAATTAAAAAAATATAAAAAAA
Found at i:44930508 original size:36 final size:36
Alignment explanation
Indices: 44930481--44930558 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
44930471 TTTGATTATT
*
44930481 AAATTTTGAATTATTTAGTGATAAAATTTAATGATA
1 AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
* * *
44930517 AAATTTAGGATTATTTAGTGATAATATTT-AGGA-A
1 AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
44930551 AAATTTAG
1 AAATTTAG
44930559 CTAAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 9 0.24
35 3 0.08
36 26 0.68
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (36 bp):
AAATTTAGAATTATTTAGTGATAAAATTTAATGATA
Found at i:44930538 original size:23 final size:23
Alignment explanation
Indices: 44930506--44930549 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
44930496 TAGTGATAAA
44930506 ATTTAATGATAAAATTTAGGATT
1 ATTTAATGATAAAATTTAGGATT
* *
44930529 ATTTAGTGATAATATTTAGGA
1 ATTTAATGATAAAATTTAGGA
44930550 AAAATTTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (23 bp):
ATTTAATGATAAAATTTAGGATT
Found at i:44930546 original size:13 final size:13
Alignment explanation
Indices: 44930492--44930547 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
44930482 AATTTTGAAT
44930492 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
44930505 AATTTAATGATAA
1 TATTTAGTGATAA
*
44930518 AATTTAG-GAT--
1 TATTTAGTGATAA
44930528 TATTTAGTGATAA
1 TATTTAGTGATAA
44930541 TATTTAG
1 TATTTAG
44930548 GAAAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 3 0.08
13 24 0.67
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:44933824 original size:27 final size:27
Alignment explanation
Indices: 44933766--44933999 Score: 137
Period size: 27 Copynumber: 8.7 Consensus size: 27
44933756 CATCTTGGCT
* * **
44933766 GACTATCCCGTGTTTACTGTCCCAGCG
1 GACTAACCCGTGTTTACTATCCCAATG
* *
44933793 AACTACCCCGTGTTTACTATCCCAATG
1 GACTAACCCGTGTTTACTATCCCAATG
* * * * *
44933820 GACTAACCTGTGTTTAATGTCCTAATA
1 GACTAACCCGTGTTTACTATCCCAATG
* ** ***
44933847 GTCTAATTCGTGTTTACTATCCCAGCA
1 GACTAACCCGTGTTTACTATCCCAATG
* * * * * *
44933874 GACTAACTCATGTTTAATGTTCCGATG
1 GACTAACCCGTGTTTACTATCCCAATG
* **
44933901 GACTAACCCGTGTTTACTGTCCCGGTG
1 GACTAACCCGTGTTTACTATCCCAATG
* ****
44933928 GACTAACCTGTGTTTACTATCTTGCTG
1 GACTAACCCGTGTTTACTATCCCAATG
* * *
44933955 GACTAACCCGTGTTTAATATCCCGA-C
1 GACTAACCCGTGTTTACTATCCCAATG
*
44933981 AACCTAACCCGTGTTTACT
1 GA-CTAACCCGTGTTTACT
44934000 GTCTCGACAG
Statistics
Matches: 157, Mismatches: 49, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
26 1 0.01
27 156 0.99
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (27 bp):
GACTAACCCGTGTTTACTATCCCAATG
Found at i:44933859 original size:54 final size:54
Alignment explanation
Indices: 44933794--44933977 Score: 160
Period size: 54 Copynumber: 3.4 Consensus size: 54
44933784 GTCCCAGCGA
* *
44933794 ACTACCCCGTGTTTACTATCCCAATGGACTAACCTGTGTTTAATG-TCCTAATAG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTAATGTTCC-AATAG
* ** ** * * *
44933848 TCTAATTCGTGTTTACTATCCCAGCAGACTAA-CTCATGTTTAATGTTCCGATGG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCT-GTGTTTAATGTTCCAATAG
* * * * *
44933902 ACTAACCCGTGTTTACTGTCCCGGTGGACTAACCTGTGTTTACTATCTTGC--TGG
1 ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTA--ATGTTCCAATAG
*
44933956 ACTAACCCGTGTTTAATATCCC
1 ACTAACCCGTGTTTACTATCCC
44933978 GACAACCTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
53 2 0.02
54 91 0.88
55 5 0.05
56 5 0.05
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
ACTAACCCGTGTTTACTATCCCAGTGGACTAACCTGTGTTTAATGTTCCAATAG
Found at i:44933888 original size:81 final size:81
Alignment explanation
Indices: 44933774--44933922 Score: 192
Period size: 81 Copynumber: 1.8 Consensus size: 81
44933764 CTGACTATCC
* * * * *
44933774 CGTGTTTACTGTCCCAGCGAACTACCCCGTGTTTACTATCCCAATGGACTAACCTGTGTTTAATG
1 CGTGTTTACTATCCCAGCGAACTAACCCATGTTTAATATCCCAATGGACTAACCCGTGTTTAATG
44933839 TCCTAATAGTCTAATT
66 TCCTAATAGTCTAATT
* * * * *
44933855 CGTGTTTACTATCCCAGC-AGACTAACTCATGTTTAATGTTCCGATGGACTAACCCGTGTTTACT
1 CGTGTTTACTATCCCAGCGA-ACTAACCCATGTTTAATATCCCAATGGACTAACCCGTGTTTAAT
44933919 GTCC
65 GTCC
44933923 CGGTGGACTA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.02
81 56 0.98
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (81 bp):
CGTGTTTACTATCCCAGCGAACTAACCCATGTTTAATATCCCAATGGACTAACCCGTGTTTAATG
TCCTAATAGTCTAATT
Found at i:44944177 original size:13 final size:13
Alignment explanation
Indices: 44944155--44944187 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44944145 AAATTTAATC
*
44944155 ATTAAGAATATAT
1 ATTAATAATATAT
44944168 ATTAATAATATAT
1 ATTAATAATATAT
44944181 A-TAATAA
1 ATTAATAA
44944188 ACTTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTAATAATATAT
Found at i:44946806 original size:3 final size:3
Alignment explanation
Indices: 44946798--44946878 Score: 135
Period size: 3 Copynumber: 26.7 Consensus size: 3
44946788 GTTTTGCTAT
44946798 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
44946846 TTT TTC TTC TTC TTC TTTC TTC TTC CTC TTC TT
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TT
44946879 TTTCACACTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 70 0.96
4 3 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:44960342 original size:15 final size:14
Alignment explanation
Indices: 44960324--44960386 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 14
44960314 CCTTTTTTCT
44960324 TTTCTTTCCTTTTTG
1 TTTCTTT-CTTTTTG
44960339 TTTCTTTC-TTTT-
1 TTTCTTTCTTTTTG
* *
44960351 TTTCATT-TTTTTC
1 TTTCTTTCTTTTTG
*
44960364 TTTCTATTTCTTTTTA
1 TTTC--TTTCTTTTTG
44960380 TTTCTTT
1 TTTCTTT
44960387 ATTTGTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
12 10 0.25
13 8 0.20
14 4 0.10
15 9 0.22
16 9 0.22
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTCTTTCTTTTTG
Found at i:44960345 original size:10 final size:9
Alignment explanation
Indices: 44960316--44960386 Score: 52
Period size: 10 Copynumber: 7.1 Consensus size: 9
44960306 TTTCATTCCC
44960316 TTTTTTCTT
1 TTTTTTCTT
*
44960325 TTCTTTCCTT
1 TT-TTTTCTT
44960335 TTTGTTTCTTTCT
1 TTT-TTTC--T-T
*
44960348 TTTTTTCAT
1 TTTTTTCTT
44960357 TTTTTTCTT
1 TTTTTTCTT
*
44960366 TCTATTTCTT
1 T-TTTTTCTT
44960376 TTTATTTCTT
1 TTT-TTTCTT
44960386 T
1 T
44960387 ATTTGTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
9 14 0.29
10 26 0.53
12 5 0.10
13 4 0.08
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.79
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:44960361 original size:9 final size:8
Alignment explanation
Indices: 44960316--44960378 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
44960306 TTTCATTCCC
44960316 TTTTTTCT
1 TTTTTTCT
44960324 TTTCTTTC-
1 TTT-TTTCT
* *
44960332 CTTTTTGT
1 TTTTTTCT
*
44960340 TTCTTTCT
1 TTTTTTCT
44960348 TTTTTTCAT
1 TTTTTTC-T
44960357 TTTTTTCT
1 TTTTTTCT
44960365 TTCTATTTCT
1 TT-T-TTTCT
44960375 TTTT
1 TTTT
44960379 ATTTCTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
7 3 0.07
8 20 0.45
9 14 0.32
10 7 0.16
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:44960361 original size:41 final size:42
Alignment explanation
Indices: 44960316--44960395 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
44960306 TTTCATTCCC
* *
44960316 TTTTTTCTTTTCT-TTCCTTTTTGTTTCTTTCTTT-TTTTCAT
1 TTTTTTC-TTTCTATTCCTTTTTATTTCTTTATTTGTTTTCAT
*
44960357 TTTTTTCTTTCTATTTCTTTTTATTTCTTTATTTGTTTT
1 TTTTTTCTTTCTATTCCTTTTTATTTCTTTATTTGTTTT
44960396 ATTATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 5 0.15
41 25 0.74
42 4 0.12
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.79
Consensus pattern (42 bp):
TTTTTTCTTTCTATTCCTTTTTATTTCTTTATTTGTTTTCAT
Found at i:44960374 original size:31 final size:32
Alignment explanation
Indices: 44960316--44960376 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
44960306 TTTCATTCCC
* *
44960316 TTTTTTCTTTTCTTTCCTTTTTGTTTCTTTCT
1 TTTTTTCTTTTCTTTCCTTTCTATTTCTTTCT
44960348 TTTTTTCATTTT-TTT-CTTTCTATTTCTTT
1 TTTTTTC-TTTTCTTTCCTTTCTATTTCTTT
44960377 TTATTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 12 0.46
32 10 0.38
33 4 0.15
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (32 bp):
TTTTTTCTTTTCTTTCCTTTCTATTTCTTTCT
Found at i:44960377 original size:24 final size:24
Alignment explanation
Indices: 44960319--44960382 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
44960309 CATTCCCTTT
* *
44960319 TTTCTTTTCTTTCCTTTTTGTTTC
1 TTTCTTTTCTTTTCATTTTGTTTC
44960343 TTTC-TTT-TTTTCATTTT-TTTC
1 TTTCTTTTCTTTTCATTTTGTTTC
*
44960364 TTTCTATTTCTTTTTATTT
1 TTTCT-TTTCTTTTCATTT
44960383 CTTTATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.24
22 8 0.24
23 6 0.18
24 12 0.35
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTCTTTTCTTTTCATTTTGTTTC
Found at i:44960921 original size:4 final size:4
Alignment explanation
Indices: 44960904--44960940 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
44960894 TCTTTCCATC
* *
44960904 TTCT TTCC TTCT TTCT TTCT TTCT TTCC TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
44960941 GCATTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTCT
Found at i:44960921 original size:12 final size:12
Alignment explanation
Indices: 44960892--44960940 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
44960882 AAACGTGCAT
*
44960892 TTTCTTTCCATC
1 TTTCTTTCCTTC
44960904 -TTCTTTCCTTC
1 TTTCTTTCCTTC
*
44960915 TTTCTTTCTTTC
1 TTTCTTTCCTTC
* *
44960927 TTTCCTTCTTTC
1 TTTCTTTCCTTC
44960939 TT
1 TT
44960941 GCATTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCTTTCCTTC
Found at i:44963895 original size:52 final size:48
Alignment explanation
Indices: 44963880--44964078 Score: 257
Period size: 46 Copynumber: 4.2 Consensus size: 48
44963870 AAGTGGAAAT
* *
44963880 TGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--AAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAAAG
44963926 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---AAAAG
* *
44963978 TGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--AAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAAAG
** *
44964024 TGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--AAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAAAG
44964070 TGATAAGTG
1 TGATAAGTG
44964079 GCTACACTTA
Statistics
Matches: 140, Mismatches: 7, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
46 96 0.69
52 44 0.31
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (48 bp):
TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAAAG
Found at i:44963982 original size:98 final size:98
Alignment explanation
Indices: 44963810--44964078 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
44963800 TTTGAGTACT
*
44963810 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
44963875 GAAATTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
44963908 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
44963973 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
44964006 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
44964071 GATAAGTG
65 GAAAAGTG
44964079 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:44964086 original size:37 final size:37
Alignment explanation
Indices: 44964042--44964187 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
44964032 GATAGCTTTA
*
44964042 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
44964079 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
44964116 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
44964153 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
44964188 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:44965507 original size:21 final size:21
Alignment explanation
Indices: 44965483--44965523 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44965473 CACAGGTTGA
*
44965483 TGTGCCTTAACATAAGGCTGT
1 TGTGCCTTAACACAAGGCTGT
*
44965504 TGTGGCTTAACACAAGGCTG
1 TGTGCCTTAACACAAGGCTG
44965524 CGTGTTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (21 bp):
TGTGCCTTAACACAAGGCTGT
Found at i:44966970 original size:14 final size:14
Alignment explanation
Indices: 44966951--44966978 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44966941 TAATTTAGTT
44966951 AGTGGATGTGCATG
1 AGTGGATGTGCATG
44966965 AGTGGATGTGCATG
1 AGTGGATGTGCATG
44966979 GCTTGGTAAT
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:0.21, C:0.07, G:0.43, T:0.29
Consensus pattern (14 bp):
AGTGGATGTGCATG
Found at i:44967431 original size:21 final size:20
Alignment explanation
Indices: 44967390--44967431 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
44967380 TTAAATTGAG
*
44967390 AAATGTGTAAATTCTGTAGT
1 AAATGTGTAAATTCTGAAGT
*
44967410 AAATGTGTGAAATTGTGAAGT
1 AAATGTGT-AAATTCTGAAGT
44967431 A
1 A
44967432 TATGGGCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (20 bp):
AAATGTGTAAATTCTGAAGT
Found at i:44967935 original size:25 final size:25
Alignment explanation
Indices: 44967886--44967961 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 25
44967876 GTCATTAGGG
* * *
44967886 TTATCGATTC-CAACTCTTATGAGC
1 TTATCGATACTCAGCTCGTATGAGC
44967910 TTATCGATACTCAGCTCGTATGAGC
1 TTATCGATACTCAGCTCGTATGAGC
* * * * *
44967935 TTACCGTTATTCAGCTCGGAGGAGC
1 TTATCGATACTCAGCTCGTATGAGC
44967960 TT
1 TT
44967962 CCCGTTTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 9 0.21
25 34 0.79
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
TTATCGATACTCAGCTCGTATGAGC
Found at i:44970204 original size:21 final size:21
Alignment explanation
Indices: 44970179--44970232 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
44970169 GACAATTAAA
*
44970179 GACACACGAGAAGAATTATCC
1 GACACACGACAAGAATTATCC
*
44970200 GACACACGACAAGAATTATCT
1 GACACACGACAAGAATTATCC
*
44970221 GACACAAGACAA
1 GACACACGACAA
44970233 AGTGATAGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (21 bp):
GACACACGACAAGAATTATCC
Found at i:44972749 original size:28 final size:28
Alignment explanation
Indices: 44972683--44972751 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
44972673 GTGATTTTTA
*
44972683 ATGAAATTGTCAATTAGGGGTTAAATTG
1 ATGAAATTGTAAATTAGGGGTTAAATTG
*
44972711 AT-AAATGTGTAAATTATGTGG-TAAATGTG
1 ATGAAAT-TGTAAATTA-GGGGTTAAAT-TG
44972740 -TGAAATTGTAAA
1 ATGAAATTGTAAA
44972752 ATATATGGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 4 0.11
28 22 0.63
29 9 0.26
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.36
Consensus pattern (28 bp):
ATGAAATTGTAAATTAGGGGTTAAATTG
Found at i:44973277 original size:25 final size:25
Alignment explanation
Indices: 44973230--44973310 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
44973220 TTCTGGCTTT
* *
44973230 TATGAGCTTACAGATACTCAGCTCG
1 TATGAGCTTACCGTTACTCAGCTCG
* *
44973255 TATGAGCTTACCGTTATTTAGCTCG
1 TATGAGCTTACCGTTACTCAGCTCG
* * *
44973280 GAGGAGCTTACCGTTTA-TC-GCTCA
1 TATGAGCTTACCG-TTACTCAGCTCG
44973304 TATGAGC
1 TATGAGC
44973311 ATACATGTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 9 0.20
25 33 0.73
26 3 0.07
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (25 bp):
TATGAGCTTACCGTTACTCAGCTCG
Found at i:44975198 original size:3 final size:3
Alignment explanation
Indices: 44975190--44975229 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
44975180 ATTTACCCTT
44975190 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44975230 AGAGGCCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44979013 original size:90 final size:90
Alignment explanation
Indices: 44978829--44979031 Score: 243
Period size: 90 Copynumber: 2.3 Consensus size: 90
44978819 CCCTCAAATT
* * * * *
44978829 TTTTCAAAAAAAGTAATTAAGTTC-TTGCTTTTTTTTTACACTCATTTGAGCACTTAAACTTTCA
1 TTTTCAAAAAAAGCAATTAAG-CCACTACTTTTTTTTTACACTCATTGGAGCACTTAAACTTTCA
* *
44978893 AAATGCATCAAAAAATCCCTTAAACC
65 AAATGCATCAAAAAATCCATCAAACC
* * *
44978919 TTTTCGAAGAAAA-CAATTAAGCCACTACTTTTTTTTTGCACTCAATTGGA-TACTTAAACTTTC
1 TTTTC-AAAAAAAGCAATTAAGCCACTACTTTTTTTTTACACTC-ATTGGAGCACTTAAACTTTC
*
44978982 AAAATGCATCAAAAAGA-CCATCAAACT
64 AAAATGCATCAAAAA-ATCCATCAAACC
44979009 TTTTCAAAAAAAGCAATTAAGCC
1 TTTTCAAAAAAAGCAATTAAGCC
44979032 CCTGCTTAGG
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
89 7 0.07
90 77 0.80
91 12 0.12
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (90 bp):
TTTTCAAAAAAAGCAATTAAGCCACTACTTTTTTTTTACACTCATTGGAGCACTTAAACTTTCAA
AATGCATCAAAAAATCCATCAAACC
Found at i:44979127 original size:29 final size:29
Alignment explanation
Indices: 44979068--44979122 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
44979058 AAATAGAATC
* *
44979068 AATAAAAGATATAAATATTATTAAATTTT
1 AATAAAAAATATAAATATTATAAAATTTT
44979097 AATAAAAAATA-AAATATTA-AAAATTT
1 AATAAAAAATATAAATATTATAAAATTT
44979123 ATTAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 8 0.33
29 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAAATATAAATATTATAAAATTTT
Found at i:44979167 original size:19 final size:19
Alignment explanation
Indices: 44979136--44979205 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
44979126 AAAAGTTAGA
*
44979136 AAAAAATAT-AAAAATCGT
1 AAAAAATATAAAAAATTGT
44979154 AAAAAATATAAAAAATTGT
1 AAAAAATATAAAAAATTGT
* *
44979173 -AAAATTTTATAAAAATTGT
1 AAAAAATATA-AAAAATTGT
44979192 AAAAAAATATAAAA
1 -AAAAAATATAAAA
44979206 TATATGGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 16 0.37
19 17 0.40
20 3 0.07
21 7 0.16
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAAAATATAAAAAATTGT
Found at i:44979574 original size:7 final size:7
Alignment explanation
Indices: 44979562--44979586 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44979552 TATTTCTAAA
44979562 ATTTATT
1 ATTTATT
44979569 ATTTATT
1 ATTTATT
44979576 ATTTATT
1 ATTTATT
44979583 ATTT
1 ATTT
44979587 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTATT
Found at i:44979593 original size:14 final size:15
Alignment explanation
Indices: 44979561--44979593 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
44979551 GTATTTCTAA
44979561 AATTTATTATTTATT
1 AATTTATTATTTATT
44979576 -ATTTATTATTT-TT
1 AATTTATTATTTATT
44979589 AATTT
1 AATTT
44979594 TTAATAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.12
14 15 0.88
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
AATTTATTATTTATT
Found at i:44979728 original size:92 final size:90
Alignment explanation
Indices: 44979601--44979781 Score: 238
Period size: 92 Copynumber: 2.0 Consensus size: 90
44979591 TTTTTAATAA
* * *
44979601 GAGCAGGGGCTTAAATGCTTTTTTGAAAAATTTTGAGAGTATTTTTGATGCATTTTGAAAGTTTA
1 GAGCAGAGGCTTAAATGCTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTTCA
*
44979666 AGTACCCAATTGAGTGA-AAAAAAAG
66 AATACCCAATTGAGT-ATAAAAAAAG
* * * *
44979691 GAGCAGAGGCTTAATTGCTGTTTTTTGAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTT
1 GAGCAGAGGCTTAAATGC--TTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTT
**
44979756 CAAATACTTAATTGAGTATAAAAAAA
64 CAAATACCCAATTGAGTATAAAAAAA
44979782 TGAGGAGCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 16 0.21
91 1 0.01
92 61 0.78
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (90 bp):
GAGCAGAGGCTTAAATGCTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTGAAAGTTCA
AATACCCAATTGAGTATAAAAAAAG
Found at i:44979890 original size:13 final size:13
Alignment explanation
Indices: 44979872--44979896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44979862 CTACATAATA
44979872 TATAAAAATATAT
1 TATAAAAATATAT
44979885 TATAAAAATATA
1 TATAAAAATATA
44979897 AAACCGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TATAAAAATATAT
Found at i:44982022 original size:9 final size:9
Alignment explanation
Indices: 44982010--44982068 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
44982000 AAAATAAAAA
44982010 AATTCGGGT
1 AATTCGGGT
44982019 AATTCGGGT
1 AATTCGGGT
*
44982028 ATTTTTC-GGT
1 A--ATTCGGGT
*
44982038 AATTCGGTT
1 AATTCGGGT
*
44982047 AATTCGGTT
1 AATTCGGGT
44982056 AATTCGGGT
1 AATTCGGGT
44982065 AATT
1 AATT
44982069 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:44982040 original size:19 final size:19
Alignment explanation
Indices: 44982016--44982071 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
44982006 AAAAAATTCG
44982016 GGTAATTCGGGTATTTTTC
1 GGTAATTCGGGTATTTTTC
**
44982035 GGTAATTC-GGT-TAATTC
1 GGTAATTCGGGTATTTTTC
44982052 GGTTAATTCGGGTAATTTTT
1 GG-TAATTCGGGT-ATTTTT
44982072 AACCAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 6 0.21
18 9 0.31
19 11 0.38
21 3 0.10
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.46
Consensus pattern (19 bp):
GGTAATTCGGGTATTTTTC
Found at i:44983165 original size:44 final size:44
Alignment explanation
Indices: 44983095--44983185 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
44983085 ACTTTGTTTC
* * *
44983095 TTAGTTTCCCACTTAAACTCTTATTAGTGTGGGTTATTTTAATA
1 TTAGTTTCACACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
*
44983139 TTAGTTTCACATTTAAACGT-TGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCACACTTAAAC-TCTGATTAGTGTAGGTTATTTTAATA
44983183 TTA
1 TTA
44983186 CTGGACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (44 bp):
TTAGTTTCACACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:44985217 original size:94 final size:94
Alignment explanation
Indices: 44985056--44985249 Score: 379
Period size: 94 Copynumber: 2.1 Consensus size: 94
44985046 CTGATTAGTG
44985056 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
1 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
44985121 GAAAGATAACTCATTACAAATTTAGGTAT
66 GAAAGATAACTCATTACAAATTTAGGTAT
44985150 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
1 TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
*
44985215 GAAAGATAACTCATTACAGATTTAGGTAT
66 GAAAGATAACTCATTACAAATTTAGGTAT
44985244 TAGGTT
1 TAGGTT
44985250 TTGCAAGCTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 99 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (94 bp):
TAGGTTATTTTAATATTATTTAACTTGTGAATTTAGCCTATAAATAGGTCATTTTTTCCACCCTA
GAAAGATAACTCATTACAAATTTAGGTAT
Found at i:44988917 original size:6 final size:6
Alignment explanation
Indices: 44988906--44988934 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44988896 CAAAAGAATT
44988906 AAAAGG AAAAGG AAAAGG AAAAGG AAAAG
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAG
44988935 CTTACAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:44992850 original size:24 final size:24
Alignment explanation
Indices: 44992823--44992925 Score: 93
Period size: 24 Copynumber: 4.1 Consensus size: 24
44992813 ACAAAGAATG
*
44992823 TATGAACATATATAAATTATAAAA
1 TATGAAAATATATAAATTATAAAA
*
44992847 TATGAAAATATAAAAATTATAAAA
1 TATGAAAATATATAAATTATAAAA
*
44992871 TAT-AAATGTATATAAAATATATAAAAA
1 TATGAAA-ATATAT-AAAT-TAT-AAAA
* *
44992898 CTATGAAAATA-AAATAATAATAAAA
1 -TATGAAAATATATA-AATTATAAAA
44992923 TAT
1 TAT
44992926 ATACATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.05
24 32 0.49
25 8 0.12
26 6 0.09
27 8 0.12
28 5 0.08
29 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
TATGAAAATATATAAATTATAAAA
Found at i:44992886 original size:17 final size:17
Alignment explanation
Indices: 44992830--44992926 Score: 80
Period size: 16 Copynumber: 5.8 Consensus size: 17
44992820 ATGTATGAAC
*
44992830 ATATATAAATTAT-AAA
1 ATATATAAAATATAAAA
*
44992846 ATAT-GAAAATATAAAA
1 ATATATAAAATATAAAA
*
44992862 AT-TATAAAATATAAAT
1 ATATATAAAATATAAAA
*
44992878 GTATATAAAATATATAAA
1 ATATATAAAATATA-AAA
44992896 A-ACTATGAAAATA-AAATA
1 ATA-TAT-AAAATATAAA-A
44992914 ATA-ATAAAATATA
1 ATATATAAAATATA
44992927 TACATAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
15 7 0.11
16 26 0.40
17 17 0.26
18 8 0.12
19 7 0.11
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (17 bp):
ATATATAAAATATAAAA
Found at i:44992890 original size:7 final size:7
Alignment explanation
Indices: 44992832--44992891 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
44992822 GTATGAACAT
44992832 ATATAAA
1 ATATAAA
*
44992839 TTATAAA
1 ATATAAA
44992846 ATATGAAA
1 ATAT-AAA
44992854 ATATAAAA
1 ATAT-AAA
44992862 ATTATAAA
1 A-TATAAA
44992870 ATATAAA
1 ATATAAA
44992877 TGTATATAAA
1 ---ATATAAA
44992887 ATATA
1 ATATA
44992892 TAAAAACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 20 0.44
8 15 0.33
9 3 0.07
10 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (7 bp):
ATATAAA
Found at i:44992893 original size:26 final size:26
Alignment explanation
Indices: 44992831--44992927 Score: 66
Period size: 26 Copynumber: 3.8 Consensus size: 26
44992821 TGTATGAACA
44992831 TATATAAAT-TAT-AAA-ATATGAAAA
1 TATA-AAATATATAAAATATATGAAAA
*
44992855 TATAAAA-ATTATAAAATATA--AATGTA
1 TATAAAATA-TATAAAATATATGAA--AA
44992881 TATAAAATATATAAAA-ACTATGAAAA
1 TATAAAATATATAAAATA-TATGAAAA
*
44992907 TAAAATAATA-ATAAAATATAT
1 TATAA-AATATATAAAATATAT
44992928 ACATAATATG
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
23 3 0.05
24 9 0.16
25 4 0.07
26 34 0.59
27 6 0.10
28 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (26 bp):
TATAAAATATATAAAATATATGAAAA
Found at i:44992921 original size:35 final size:35
Alignment explanation
Indices: 44992846--44992928 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
44992836 AAATTATAAA
* * *
44992846 ATATGAAA-ATATAAAAATTATAAAATATAAATGT
1 ATATAAAATATATAAAAACTATAAAATATAAATAT
44992880 ATATAAAATATATAAAAACTATGAAAATA-AAATA-
1 ATATAAAATATATAAAAACTAT-AAAATATAAATAT
44992914 ATAATAAAATATATA
1 AT-ATAAAATATATA
44992929 CATAATATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
34 9 0.21
35 28 0.65
36 6 0.14
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (35 bp):
ATATAAAATATATAAAAACTATAAAATATAAATAT
Found at i:44993010 original size:3 final size:3
Alignment explanation
Indices: 44993002--44993054 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
44992992 GCGTGTAGAT
44993002 ATA ATA ATA ATA ATA TATA AT- ATA ACT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
44993047 ATG ATA AT
1 ATA ATA AT
44993055 GCTATTGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 37 0.84
4 4 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:44993657 original size:17 final size:16
Alignment explanation
Indices: 44993617--44993657 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
44993607 TAAAAACAAG
44993617 AAAGAAAATAAAAAGA
1 AAAGAAAATAAAAAGA
44993633 ACAA-AAAAGTAAAAAGA
1 A-AAGAAAA-TAAAAAGA
44993650 AAAGAAAA
1 AAAGAAAA
44993658 ACGGAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAGAAAATAAAAAGA
Found at i:44996804 original size:22 final size:20
Alignment explanation
Indices: 44996756--44996804 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
44996746 TAAAAAATGT
44996756 TGAAATGTTGAAAACCTTGA
1 TGAAATGTTGAAAACCTTGA
* * *
44996776 AGCAATGTTGAAGAAATCTTGA
1 TGAAATGTTG-A-AAACCTTGA
44996798 TGAAATG
1 TGAAATG
44996805 GTGTTATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 13 0.59
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (20 bp):
TGAAATGTTGAAAACCTTGA
Found at i:44997034 original size:20 final size:20
Alignment explanation
Indices: 44996970--44997033 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
44996960 AACCTGACAT
* * *
44996970 GTATCGATATTTTTAAGAGG
1 GTATCGATAATTTTAAAATG
44996990 GTATCGATAATTTTATAAAAT-
1 GTATCGATAA-TTT-TAAAATG
*
44997011 -TATTGATAATTTTAAAATG
1 GTATCGATAATTTTAAAATG
44997030 GTAT
1 GTAT
44997034 TAATACCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.17
19 3 0.08
20 20 0.56
21 3 0.08
22 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATAATTTTAAAATG
Found at i:44998239 original size:13 final size:12
Alignment explanation
Indices: 44998217--44998261 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
44998207 TAACTAATGA
44998217 AAAGAAATAAAT
1 AAAGAAATAAAT
*
44998229 AAAGAAAATAAAC
1 AAAG-AAATAAAT
44998242 AAATGAAATAAAT
1 AAA-GAAATAAAT
*
44998255 CAAGAAA
1 AAAGAAA
44998262 CCAATTAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 19 0.68
14 1 0.04
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.13
Consensus pattern (12 bp):
AAAGAAATAAAT
Found at i:44998245 original size:17 final size:17
Alignment explanation
Indices: 44998199--44998245 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
44998189 TAGAGAAGTA
* *
44998199 AAAATAAATAACTAATG
1 AAAATAAATAAATAAAG
*
44998216 AAAAGAAATAAATAAAG
1 AAAATAAATAAATAAAG
*
44998233 AAAATAAACAAAT
1 AAAATAAATAAAT
44998246 GAAATAAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAATAAAG
Found at i:45004991 original size:18 final size:17
Alignment explanation
Indices: 45004964--45005002 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
45004954 ATTAAAATGT
*
45004964 AAAAATTAAATTAAAAC
1 AAAAATTAAAATAAAAC
*
45004981 AAAAATATAAAATAAAAT
1 AAAAAT-TAAAATAAAAC
45004999 AAAA
1 AAAA
45005003 TAAAAATGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATTAAAATAAAAC
Found at i:45005001 original size:23 final size:24
Alignment explanation
Indices: 45004965--45005009 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
45004955 TTAAAATGTA
*
45004965 AAAATTAAATTAAAACAAAAATAT
1 AAAATTAAAATAAAACAAAAATAT
*
45004989 AAAA-TAAAATAAAATAAAAAT
1 AAAATTAAAATAAAACAAAAAT
45005010 GGCTCAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAATTAAAATAAAACAAAAATAT
Found at i:45005269 original size:59 final size:59
Alignment explanation
Indices: 45005202--45005320 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
45005192 CCATTTTCCT
* *
45005202 ATTATTTAGCTGACAAATTGGAGTGATTGTTTTAAACTAAGATTTACTAAATTAATCTA
1 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
45005261 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
1 ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
45005320 A
1 A
45005321 CTAAAGAACT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (59 bp):
ATTATTTAGCCGACAAATTGGAGTGATTATTTTAAACTAAGATTTACTAAATTAATCTA
Found at i:45006273 original size:10 final size:11
Alignment explanation
Indices: 45006252--45006276 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45006242 ATTTGTTCGA
45006252 TTTTCACTTTT
1 TTTTCACTTTT
45006263 TTTTCACTTTT
1 TTTTCACTTTT
45006274 TTT
1 TTT
45006277 GCTCCCAAAT
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCACTTTT
Found at i:45010204 original size:15 final size:16
Alignment explanation
Indices: 45010166--45010209 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
45010156 TATTTAAAAA
45010166 ATAAAAAATATAAATTT
1 ATAAAAAATA-AAATTT
* *
45010183 TTTAAAAATAAAA-TT
1 ATAAAAAATAAAATTT
45010198 ATAAAAAATAAA
1 ATAAAAAATAAA
45010210 CTCTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.52
16 3 0.13
17 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAAATAAAATTT
Found at i:45010236 original size:32 final size:31
Alignment explanation
Indices: 45010160--45010236 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
45010150 TTTTCATATT
* * *
45010160 TAAAAAATAAAAAATATAAATTTTTTAAAAA
1 TAAAAAATAAAAAAAATAAACTCTTTAAAAA
* * *
45010191 T-AAAATTATAAAAAATAAACTCTTTAAAAT
1 TAAAAAATAAAAAAAATAAACTCTTTAAAAA
45010221 TCAAAAAATAAAAAAA
1 T-AAAAAATAAAAAAA
45010237 TATTTAAAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 24 0.67
31 1 0.03
32 11 0.31
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (31 bp):
TAAAAAATAAAAAAAATAAACTCTTTAAAAA
Found at i:45020378 original size:7 final size:6
Alignment explanation
Indices: 45020336--45020396 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
45020326 CAAAAACAAC
* * *
45020336 TAAAAA TAAAAA TAAACA TAAACA TAAACA TAAAAA TTAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA -TAAAAA TAAAAA
*
45020385 TAAAAC TAAAAA
1 TAAAAA TAAAAA
45020397 AGAAATAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 44 0.88
7 6 0.12
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:45021965 original size:33 final size:32
Alignment explanation
Indices: 45021903--45021965 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
45021893 GGTAGCAAGA
**
45021903 ATAATAAAAATAAAATAATAAAATTACTAAAT
1 ATAATAAAAATAAAATAATAAAAAAACTAAAT
45021935 ATAATAAAAAATAAAATAA-AAATAAAACTAA
1 ATAAT-AAAAATAAAATAATAAA-AAAACTAA
45021966 GCATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (32 bp):
ATAATAAAAATAAAATAATAAAAAAACTAAAT
Found at i:45023370 original size:25 final size:25
Alignment explanation
Indices: 45023322--45023370 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45023312 ACTGTTATTT
* * *
45023322 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
45023347 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
45023371 TTTATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:45023485 original size:27 final size:27
Alignment explanation
Indices: 45023418--45023485 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
45023408 ATTTTACTAC
45023418 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
45023445 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
45023470 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
45023486 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:45031006 original size:87 final size:87
Alignment explanation
Indices: 45030680--45030996 Score: 508
Period size: 87 Copynumber: 3.6 Consensus size: 87
45030670 AGAACAGATC
*
45030680 AGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
**
45030745 TGCCTTCCTATATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * *
45030767 AGTAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATGGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
45030832 TGCCTTCCTGCATTGACAGCGA
66 TGCCTTCCTGCATTGACAGCGA
* * * * *
45030854 AGCAGATCGAGAATAAAACCCTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* *
45030919 TGCCTTCCTGCATTAACAGTGA
66 TGCCTTCCTGCATTGACAGCGA
*
45030941 AGCAGATCGAAAACAAAGCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGAT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT
45030997 GACAAATCTT
Statistics
Matches: 210, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 210 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCTTCCTGCATTGACAGCGA
Found at i:45031286 original size:44 final size:42
Alignment explanation
Indices: 45031214--45031511 Score: 158
Period size: 44 Copynumber: 6.9 Consensus size: 42
45031204 ATTGAAGCTG
* * *
45031214 ATAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAGTA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-A
* * ** * *
45031257 ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-T--CGC
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
* * *
45031297 ATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAA-A
1 AT-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGA
* * * ** * *
45031342 ACAAGTCTTATCCCCCTAAAGTCACAGTGGGGCAGACTGAAAAAGA
1 ATAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--TAAAGA
* *
45031388 A-AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATTTG-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA--AGA
* * * *
45031431 ATAATCCTATCTCCCTCAAGTTGTAGTGGAACAGATTAAAGTA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-A
* * * *
45031474 ATCGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATT
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
45031512 GCATCAAGTC
Statistics
Matches: 191, Mismatches: 46, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.01
41 30 0.16
42 2 0.01
43 10 0.05
44 139 0.73
45 5 0.03
46 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
Found at i:45032211 original size:20 final size:19
Alignment explanation
Indices: 45032177--45032216 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
45032167 AAAAGAATTA
45032177 AAGGAAAAGAAAAAATCAG
1 AAGGAAAAGAAAAAATCAG
45032196 AAGGAAAAGAAAAAAATCAG
1 AAGGAAAAG-AAAAAATCAG
45032216 A
1 A
45032217 CTTTGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (19 bp):
AAGGAAAAGAAAAAATCAG
Found at i:45032980 original size:18 final size:18
Alignment explanation
Indices: 45032928--45032981 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
45032918 TTTTTTTTAC
*
45032928 TATTTTTCGTTATTACTAT
1 TATTTTTAG-TATTACTAT
*
45032947 TATTTTATTATATATTACTAT
1 TA-TTT-TTA-GTATTACTAT
45032968 TATTTTTAGTATTA
1 TATTTTTAGTATTA
45032982 TAGATTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 6 0.21
21 13 0.45
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (18 bp):
TATTTTTAGTATTACTAT
Found at i:45033000 original size:25 final size:25
Alignment explanation
Indices: 45032952--45033000 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45032942 ACTATTATTT
* * *
45032952 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
45032977 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
45033001 TTTATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:45033115 original size:27 final size:27
Alignment explanation
Indices: 45033048--45033115 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
45033038 ATTTTACTAC
45033048 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
45033075 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
45033100 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
45033116 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:45035209 original size:60 final size:60
Alignment explanation
Indices: 45035118--45035235 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 60
45035108 TCTATGGCCC
* * * * * *
45035118 GTGTAACTCATTGACTTGTAATTAAAGTTCAAAAATTAACTCCAGTATTCACATGGCCGT
1 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCCGT
45035178 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCC
1 GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCC
45035236 ATGTCGCTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (60 bp):
GTGTAACTCATTAACTTATAAGTAAAATTCAAAAATTAACTCCAATATTCACACGGCCGT
Found at i:45038192 original size:19 final size:20
Alignment explanation
Indices: 45038170--45038230 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 20
45038160 AAATTTAAAC
*
45038170 TAAAATGAAAAT-ATAAAAA
1 TAAAATAAAAATAATAAAAA
45038189 TAAAATAAAAATAATAAAAA
1 TAAAATAAAAATAATAAAAA
** *
45038209 T-GGAT-AAATTAATAAAAA
1 TAAAATAAAAATAATAAAAA
45038227 TAAA
1 TAAA
45038231 GTGTTCCTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 13 0.38
19 13 0.38
20 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAATAAAAA
Found at i:45039004 original size:15 final size:17
Alignment explanation
Indices: 45038984--45039030 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
45038974 ACTACAAAAA
45038984 ATTTATTATT-AAT-AT
1 ATTTATTATTCAATAAT
*
45038999 ATTTATAATTGCAATAAAT
1 ATTTATTATT-CAAT-AAT
45039018 ATTTATTATTCAA
1 ATTTATTATTCAA
45039031 ATATTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.35
17 3 0.12
18 3 0.12
19 11 0.42
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTATTATTCAATAAT
Found at i:45039099 original size:16 final size:16
Alignment explanation
Indices: 45039068--45039104 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
45039058 ATGTGAATAA
45039068 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
45039084 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
45039100 TATTA
1 TATTA
45039105 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:45039128 original size:18 final size:18
Alignment explanation
Indices: 45039090--45039125 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45039080 TTATTATTTT
*
45039090 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
45039108 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
45039126 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:45039134 original size:12 final size:12
Alignment explanation
Indices: 45039119--45039174 Score: 71
Period size: 12 Copynumber: 4.7 Consensus size: 12
45039109 AAAATTTAAA
45039119 TATTAAATAATT
1 TATTAAATAATT
45039131 TATTAAAATAA-T
1 TATT-AAATAATT
*
45039143 AATTAAATAATT
1 TATTAAATAATT
45039155 ATATT-AATAATT
1 -TATTAAATAATT
45039167 TATTAAAT
1 TATTAAAT
45039175 GACTAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 10 0.26
12 19 0.50
13 9 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTAAATAATT
Found at i:45039860 original size:23 final size:23
Alignment explanation
Indices: 45039834--45039881 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
45039824 TATTTCTAGG
*
45039834 ATTGCATGCAACTCTACTCAATT
1 ATTGCATACAACTCTACTCAATT
*
45039857 ATTGCATACAACTCTACTCAGTT
1 ATTGCATACAACTCTACTCAATT
45039880 AT
1 AT
45039882 GTCTAATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (23 bp):
ATTGCATACAACTCTACTCAATT
Found at i:45043288 original size:42 final size:42
Alignment explanation
Indices: 45043237--45043376 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
45043227 TTTTAGAAAT
*
45043237 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTACAA
1 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTACAC
* * ** **
45043279 AAACGCCGCTAAAGGTCATGATCTTTAGCGGTACTTCTCCCAC
1 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTT-TTACAC
* * * **
45043322 AAACGCCACTATAAAG--ATGGCTTTTAGCGGCGCTTTTTGAC
1 AAACGCCGCTA-AAAGTCATGACCTTTAGCGGCGCTTTTACAC
45043363 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
45043377 ACATGACTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 3 0.04
41 13 0.17
42 46 0.59
43 13 0.17
44 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTACAC
Found at i:45044450 original size:43 final size:43
Alignment explanation
Indices: 45044396--45044556 Score: 227
Period size: 43 Copynumber: 3.7 Consensus size: 43
45044386 TTTATATAAA
* * * *
45044396 AAACGCCGCTAAAGATCATGACCTTTAACGGCACTTTTATCAC
1 AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTTTGTCAC
*
45044439 AAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTTTGTCAC
45044482 AAACGCTGCTAAAGAACATGACCTTTAGCGG-AGCTTTTGTCAC
1 AAACGCTGCTAAAGAACATGACCTTTAGCGGCA-CTTTTGTCAC
* *
45044525 TAACG-TCGTTAAAGAACATGACCTTTAGCGGC
1 AAACGCT-GCTAAAGAACATGACCTTTAGCGGC
45044557 GCTTCTCGCA
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.01
43 106 0.99
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTTTGTCAC
Found at i:45044502 original size:86 final size:86
Alignment explanation
Indices: 45044394--45044593 Score: 257
Period size: 86 Copynumber: 2.3 Consensus size: 86
45044384 AATTTATATA
*
45044394 AAAAACGCCGCTAAAGATCATGACCTTTAACGGCA-CTTTTATCACAAACG-CTGCTAAAGAACA
1 AAAAACGCCGCTAAAGAACATGACCTTTAACGG-AGCTTTTATCACAAACGTC-GCTAAAGAACA
*
45044457 TGACCTTTAGCGGCGCTT-TTGTC
64 TGACCTTTAGCGGCGCTTCTCG-C
* * * * * *
45044480 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGAGCTTTTGTCACTAACGTCGTTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAACGGAGCTTTTATCACAAACGTCGCTAAAGAACATG
45044545 ACCTTTAGCGGCGCTTCTCGC
66 ACCTTTAGCGGCGCTTCTCGC
*
45044566 AAAAACGCCGCTAAA-AACAT-AACTTTAA
1 AAAAACGCCGCTAAAGAACATGACCTTTAA
45044594 AAAAATTATT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
84 6 0.06
85 6 0.06
86 84 0.85
87 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAACGGAGCTTTTATCACAAACGTCGCTAAAGAACATG
ACCTTTAGCGGCGCTTCTCGC
Found at i:45049352 original size:7 final size:7
Alignment explanation
Indices: 45049342--45049393 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
45049332 CACTAACTCT
*
45049342 TAACCTC
1 TAACCCC
45049349 TAACCCC
1 TAACCCC
45049356 TAACCCC
1 TAACCCC
* *
45049363 AAATCCC
1 TAACCCC
45049370 TAACCCC
1 TAACCCC
**
45049377 TAACTAC
1 TAACCCC
45049384 TAACCCC
1 TAACCCC
45049391 TAA
1 TAA
45049394 ACCTTATTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCCC
Done.