Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 16 of 295
Found at i:5014961 original size:17 final size:17
Alignment explanation
Indices: 5014935--5015013 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 17
5014925 AAAATTAGAA
5014935 AAAAACTATAAAAATCAT
1 AAAAA-TATAAAAATCAT
5014953 AAAAATATATTAAAAAAT-AT
1 -AAAA-ATA-T-AAAAATCAT
*
5014973 AAAATTTTATAAAAATCAT
1 AAAA--ATATAAAAATCAT
5014992 AAAAATAT-AAAATGCAT
1 AAAAATATAAAAAT-CAT
5015009 AAAAA
1 AAAAA
5015014 GAACTTTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.10
17 11 0.21
18 6 0.12
19 17 0.33
20 7 0.13
21 6 0.12
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (17 bp):
AAAAATATAAAAATCAT
Found at i:5015224 original size:8 final size:9
Alignment explanation
Indices: 5015210--5015385 Score: 56
Period size: 9 Copynumber: 18.6 Consensus size: 9
5015200 CTTTTTACGA
5015210 ATTTTATAT
1 ATTTTATAT
5015219 -TTTTATAT
1 ATTTTATAT
5015227 ATTTT-TAT
1 ATTTTATAT
* *
5015235 AATTTTCTTACG
1 -ATTTT-ATA-T
* *
5015247 ACTTTATAAA
1 ATTTTAT-AT
5015257 ATTTTATATT
1 ATTTTATA-T
* *
5015267 TTTTTCTAT
1 ATTTTATAT
5015276 ATTTTATACT
1 ATTTTATA-T
*
5015286 -TTTTTTAT
1 ATTTTATAT
5015294 AATTTTTATAT
1 -A-TTTTATAT
* *
5015305 ATTTTTTTT
1 ATTTTATAT
*
5015314 AATTTTTAGTAA
1 -A-TTTTA-TAT
*
5015326 ATTTTAAAT
1 ATTTTATAT
5015335 ATTTT-TAT
1 ATTTTATAT
*
5015343 ATTTTTATTAA
1 A-TTTTA-TAT
*
5015354 AATTTA-AT
1 ATTTTATAT
*
5015362 AATTTTATAA
1 -ATTTTATAT
*
5015372 ATTTTATAA
1 ATTTTATAT
5015381 ATTTT
1 ATTTT
5015386 TAAATGTGAT
Statistics
Matches: 123, Mismatches: 25, Indels: 38
0.66 0.13 0.20
Matches are distributed among these distances:
8 16 0.13
9 58 0.47
10 26 0.21
11 22 0.18
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
ATTTTATAT
Found at i:5015227 original size:10 final size:10
Alignment explanation
Indices: 5015214--5015348 Score: 79
Period size: 10 Copynumber: 13.8 Consensus size: 10
5015204 TTACGAATTT
5015214 TATATTTTTA
1 TATATTTTTA
5015224 TATATTTTTA
1 TATATTTTTA
5015234 TA-ATTTTCT-
1 TATATTTT-TA
* *
5015243 TACGA-CTTTA
1 TA-TATTTTTA
* *
5015253 TAAAATTTTA
1 TATATTTTTA
* *
5015263 TATTTTTTTC
1 TATATTTTTA
5015273 TATA-TTTTA
1 TATATTTTTA
*
5015282 TACTTTTTTTA
1 TA-TATTTTTA
5015293 TA-ATTTTTA
1 TATATTTTTA
5015302 TATATTTTT-
1 TATATTTTTA
*
5015311 TTTAATTTTTA
1 TAT-ATTTTTA
*
5015322 GTA-AATTTTA
1 -TATATTTTTA
*
5015332 AATATTTTTA
1 TATATTTTTA
5015342 TAT-TTTT
1 TATATTTT
5015349 ATTAAAATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
9 30 0.31
10 57 0.59
11 8 0.08
12 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (10 bp):
TATATTTTTA
Found at i:5015231 original size:39 final size:38
Alignment explanation
Indices: 5015188--5015350 Score: 118
Period size: 39 Copynumber: 4.2 Consensus size: 38
5015178 TGGTACAATA
5015188 ATTTTTATAATTCTTTTTACGAATTTTATATTTTTATAT
1 ATTTTTATAATT-TTTTTACGAATTTTATATTTTTATAT
* * * *
5015227 ATTTTTATAATTTTCTTACGACTTTATAAAATTTTATAT
1 ATTTTTATAATTTTTTTACGAATTT-TATATTTTTATAT
* * * ***
5015266 TTTTTTCT-ATATTTTATACTTTTTTTATAATTTTTATAT
1 ATTTTTATAAT-TTTTTTACGAATTTTAT-ATTTTTATAT
* * *
5015305 ATTTTTTTTAATTTTTAGTA--AATTTTAAATATTTT-TAT
1 A-TTTTTATAATTTTT-TTACGAATTTTATAT-TTTTATAT
5015343 ATTTTTAT
1 ATTTTTAT
5015351 TAAAATTTAA
Statistics
Matches: 97, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
37 6 0.06
38 21 0.22
39 56 0.58
40 10 0.10
41 4 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (38 bp):
ATTTTTATAATTTTTTTACGAATTTTATATTTTTATAT
Found at i:5015281 original size:19 final size:19
Alignment explanation
Indices: 5015256--5015319 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
5015246 GACTTTATAA
5015256 AATTTTATATTTTTTTCTAT
1 AATTTTATATTTTTTT-TAT
*
5015276 -ATTTTATACTTTTTTTAT
1 AATTTTATATTTTTTTTAT
5015294 AATTTTTATATATTTTTTT-T
1 AA-TTTTATAT-TTTTTTTAT
5015314 AATTTT
1 AATTTT
5015320 TAGTAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.08
19 19 0.49
20 10 0.26
21 7 0.18
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
AATTTTATATTTTTTTTAT
Found at i:5015291 original size:11 final size:11
Alignment explanation
Indices: 5015277--5015320 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
5015267 TTTTTCTATA
*
5015277 TTTTATACTTT
1 TTTTATAATTT
5015288 TTTTATAATTT
1 TTTTATAATTT
*
5015299 TTATAT-ATTT
1 TTTTATAATTT
5015309 TTTT-TAATTT
1 TTTTATAATTT
5015319 TT
1 TT
5015321 AGTAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 1 0.03
10 13 0.45
11 15 0.52
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:5015300 original size:20 final size:19
Alignment explanation
Indices: 5015211--5015358 Score: 88
Period size: 20 Copynumber: 7.6 Consensus size: 19
5015201 TTTTTACGAA
*
5015211 TTTTAT-ATTTTTATATAT
1 TTTTATAATTTTTATATTT
***
5015229 TTTTATAATTTTCT-TACGA
1 TTTTATAATTTT-TATATTT
* *
5015248 CTTTATAAAATTTTATATTT
1 TTTTAT-AATTTTTATATTT
*
5015268 TTTTCT-ATATTTTATACTTT
1 TTTTATAAT-TTTTATA-TTT
5015288 TTTTATAATTTTTATATATT
1 TTTTATAATTTTTATAT-TT
* **
5015308 TTTTTTAATTTTTAGTA-AA
1 TTTTATAATTTTTA-TATTT
*
5015327 TTTTAAATATTTTTATATTT
1 TTTTATA-ATTTTTATATTT
*
5015347 TTATTAAAATTT
1 TT-TTATAATTT
5015359 AATAATTTTA
Statistics
Matches: 99, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
18 7 0.07
19 28 0.28
20 55 0.56
21 9 0.09
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTATATTT
Found at i:5015340 original size:28 final size:28
Alignment explanation
Indices: 5015287--5015390 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
5015277 TTTTATACTT
* * *
5015287 TTTTTATAATTTTTATATATTTTTTTTAA
1 TTTTTATAAATTTTAAATA-ATTTTTTAA
5015316 TTTTTAGTAAATTTTAAAT-A-TTTTTATA
1 TTTTTA-TAAATTTTAAATAATTTTTTA-A
* *
5015344 TTTTTATTAAAATTT-AATAATTTTATAA
1 TTTTTA-TAAATTTTAAATAATTTTTTAA
*
5015372 ATTTTATAAATTTTTAAAT
1 TTTTTATAAA-TTTTAAAT
5015391 GTGATTGTGG
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
27 13 0.21
28 24 0.39
29 14 0.23
30 10 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTTATAAATTTTAAATAATTTTTTAA
Found at i:5015375 original size:17 final size:17
Alignment explanation
Indices: 5015353--5015390 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
5015343 ATTTTTATTA
5015353 AAATTTAAT-AATTTTAT
1 AAATTTAATAAATTTT-T
*
5015370 AAATTTTATAAATTTTT
1 AAATTTAATAAATTTTT
5015387 AAAT
1 AAAT
5015391 GTGATTGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTAATAAATTTTT
Found at i:5015385 original size:38 final size:39
Alignment explanation
Indices: 5015288--5015387 Score: 116
Period size: 38 Copynumber: 2.6 Consensus size: 39
5015278 TTTATACTTT
* * ** *
5015288 TTTTATAATTTTTATATATTTTTTTTAATTTTTAGTAAA
1 TTTTATAAATTTTATATATTTTTATTAAAATTTAATAAA
5015327 TTTTA-AATATTTT-TATATTTTTATTAAAATTTAAT-AA
1 TTTTATAA-ATTTTATATATTTTTATTAAAATTTAATAAA
*
5015364 TTTTATAAATTTTATAAATTTTTA
1 TTTTATAAATTTTATATATTTTTA
5015388 AATGTGATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
37 12 0.23
38 31 0.60
39 9 0.17
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTATAAATTTTATATATTTTTATTAAAATTTAATAAA
Found at i:5015389 original size:8 final size:9
Alignment explanation
Indices: 5015288--5015390 Score: 61
Period size: 9 Copynumber: 11.1 Consensus size: 9
5015278 TTTATACTTT
*
5015288 TTTTATAAT
1 TTTTATAAA
*
5015297 TTTTATATATT
1 TTTTATA-A-A
* *
5015308 TTTTTTAAT
1 TTTTATAAA
5015317 TTTTAGTAAA
1 TTTTA-TAAA
5015327 TTTTA-AATA
1 TTTTATAA-A
*
5015336 TTTT-TATAT
1 TTTTATA-AA
5015345 TTTTATTAAA
1 TTTTA-TAAA
*
5015355 ATTTA-ATAA
1 TTTTATA-AA
5015364 TTTTATAAA
1 TTTTATAAA
5015373 TTTTATAAA
1 TTTTATAAA
5015382 TTTT-TAAA
1 TTTTATAAA
5015390 T
1 T
5015391 GTGATTGTGG
Statistics
Matches: 77, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
8 8 0.10
9 43 0.56
10 17 0.22
11 9 0.12
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAA
Found at i:5024659 original size:11 final size:11
Alignment explanation
Indices: 5024643--5024697 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
5024633 AAGAAAAAAA
5024643 TTATTGTTTTC
1 TTATTGTTTTC
5024654 TTATTGTTTTC
1 TTATTGTTTTC
** *
5024665 CCATTATTTTAC
1 TTATTGTTTT-C
5024677 -TATTGTTTT-
1 TTATTGTTTTC
*
5024686 TTGTTGTTTTC
1 TTATTGTTTTC
5024697 T
1 T
5024698 CACTATTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.23
11 26 0.74
12 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (11 bp):
TTATTGTTTTC
Found at i:5024705 original size:32 final size:33
Alignment explanation
Indices: 5024644--5024706 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
5024634 AGAAAAAAAT
*
5024644 TATTGTTTTCTTATTGTTTTCCCATTATTTTAC
1 TATTGTTTTCTTATTGTTTTCCCACTATTTTAC
* *
5024677 TATTGTTTT-TTGTTGTTTTCTCACTATTTT
1 TATTGTTTTCTTATTGTTTTCCCACTATTTT
5024707 GTTACCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (33 bp):
TATTGTTTTCTTATTGTTTTCCCACTATTTTAC
Found at i:5027671 original size:2 final size:2
Alignment explanation
Indices: 5027664--5027689 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5027654 TGAGCACTCC
5027664 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
5027690 ATACACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5038196 original size:33 final size:32
Alignment explanation
Indices: 5038101--5038196 Score: 81
Period size: 33 Copynumber: 2.9 Consensus size: 32
5038091 TAAAATAAAA
*
5038101 ATTTTAAATATTTTTAAGTAATAAATATT-AATTAT
1 ATTTTAAATA--TTTAAAT-AT-AATATTAAATTAT
* * *
5038136 -TTATAAA-ATTTAATTAGAATATATAAATTAT
1 ATTTTAAATATTTAAATATAATAT-TAAATTAT
5038167 ATTTTAAATATTTAAATATAACTATTAAAT
1 ATTTTAAATATTTAAATATAA-TATTAAAT
5038197 ATTTGTAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
29 5 0.10
30 2 0.04
31 12 0.24
32 6 0.12
33 16 0.32
34 9 0.18
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTTTAAATATTTAAATATAATATTAAATTAT
Found at i:5043211 original size:16 final size:16
Alignment explanation
Indices: 5043190--5043221 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5043180 TCTTTCATGA
*
5043190 TTCCCAGTGGAATAGC
1 TTCCCAATGGAATAGC
5043206 TTCCCAATGGAATAGC
1 TTCCCAATGGAATAGC
5043222 AAATTTGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (16 bp):
TTCCCAATGGAATAGC
Found at i:5056337 original size:109 final size:109
Alignment explanation
Indices: 5056196--5056463 Score: 466
Period size: 109 Copynumber: 2.4 Consensus size: 109
5056186 AGCTCAGTAA
*
5056196 GTTAGGGCACGATTTTTTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAA
1 GTTAGGGCACG-TTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAA
5056261 AGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
65 AGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
5056306 GTTAGGGCACGTTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAAA
1 GTTAGGGCACGTTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAAA
5056371 GGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
66 GGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
* ** *
5056415 GTTAGGGCACGTTTTCTCGAACTTTCCT-AACGCGAAATATTGCTTTTAT
1 GTTAGGGCACGTTTTCTCGAA-TTTTCTAAATACGAAATATTGCCTTTAT
5056464 GAAAGAATTG
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
109 136 0.89
110 16 0.11
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (109 bp):
GTTAGGGCACGTTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAAA
GGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
Found at i:5056683 original size:15 final size:15
Alignment explanation
Indices: 5056663--5056692 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5056653 AATAATAATT
5056663 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
5056678 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
5056693 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:5056799 original size:21 final size:21
Alignment explanation
Indices: 5056770--5056809 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5056760 AAAAGAAAAA
* *
5056770 AATATATATATTAATAATAGT
1 AATAAATATAATAATAATAGT
*
5056791 AATAAATATAATAGTAATA
1 AATAAATATAATAATAATA
5056810 AATAGAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AATAAATATAATAATAATAGT
Found at i:5056801 original size:15 final size:15
Alignment explanation
Indices: 5056783--5056813 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5056773 ATATATATTA
5056783 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
5056798 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
5056813 A
1 A
5056814 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:5056823 original size:25 final size:25
Alignment explanation
Indices: 5056763--5056841 Score: 63
Period size: 24 Copynumber: 3.1 Consensus size: 25
5056753 ACTAAAGAAA
* *
5056763 AGAAAAAAATATATATATTAATAAT
1 AGAAAATAATATATATAGTAATAAT
*
5056788 AG-TAATAA-ATATAATAGTAATAAAT
1 AGAAAATAATATAT-ATAGTAAT-AAT
* *
5056813 AGAAAATAATAGTACATTAATAATAAT
1 AGAAAATAATA-TATA-TAGTAATAAT
5056840 AG
1 AG
5056842 TATATGTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 4 0.10
24 11 0.26
25 7 0.17
26 5 0.12
27 7 0.17
28 8 0.19
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (25 bp):
AGAAAATAATATATATAGTAATAAT
Found at i:5057105 original size:15 final size:15
Alignment explanation
Indices: 5057085--5057140 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
5057075 AATATAATCA
5057085 TAGTAATAATAGTTG
1 TAGTAATAATAGTTG
* *
5057100 TAGTAATAATAATAG
1 TAGTAATAATAGTTG
*
5057115 TAAG-AAAAATAGTTG
1 T-AGTAATAATAGTTG
*
5057130 TAATAATAATA
1 TAGTAATAATA
5057141 TAACAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 1 0.03
15 29 0.91
16 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (15 bp):
TAGTAATAATAGTTG
Found at i:5057108 original size:27 final size:26
Alignment explanation
Indices: 5057078--5057153 Score: 71
Period size: 30 Copynumber: 2.7 Consensus size: 26
5057068 AAAAGAAAAT
*
5057078 ATAATCATAGTAATAATAGTTGTAGTA
1 ATAAT-ATAGTAATAATAGTTGTAATA
*
5057105 ATAATAATAGTAAGAAAAATAGTTGTAATA
1 ATAAT-ATAGT---AATAATAGTTGTAATA
**
5057135 ATAATATAACAATAATAGT
1 ATAATATAGTAATAATAGT
5057154 AATATAACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
26 8 0.20
27 10 0.25
29 3 0.08
30 19 0.47
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (26 bp):
ATAATATAGTAATAATAGTTGTAATA
Found at i:5057115 original size:12 final size:12
Alignment explanation
Indices: 5057100--5057230 Score: 84
Period size: 12 Copynumber: 10.2 Consensus size: 12
5057090 ATAATAGTTG
5057100 TAGTAATAATAA
1 TAGTAATAATAA
* *
5057112 TAGTAAGAAAAA
1 TAGTAATAATAA
5057124 TAGTTGTAATAATAA
1 TA---GTAATAATAA
*
5057139 TA-TAACAATAA
1 TAGTAATAATAA
*
5057150 TAGTAATATAACAA
1 TAGT-A-ATAATAA
*
5057164 GAGAATAATAATAA
1 TAG--TAATAATAA
*
5057178 TAATAATAATAA
1 TAGTAATAATAA
5057190 TAGTAATGGAGATAA
1 TAGTAAT--A-ATAA
* *
5057205 TAATAATAATGA
1 TAGTAATAATAA
*
5057217 TACTAATAATAA
1 TAGTAATAATAA
5057229 TA
1 TA
5057231 TAAATAAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
11 10 0.11
12 43 0.47
13 2 0.02
14 15 0.16
15 21 0.23
16 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (12 bp):
TAGTAATAATAA
Found at i:5057138 original size:3 final size:3
Alignment explanation
Indices: 5057130--5057230 Score: 82
Period size: 3 Copynumber: 33.7 Consensus size: 3
5057120 AAAATAGTTG
* * * * *
5057130 TAA TAA TAA T-A TAA CAA TAA TAG TAA T-A TAA CAA -GA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
5057175 TAA TAA TAA TAA TAA TAG TAA TGGAGA TAA TAA TAA TAA TGA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA T--A-A TAA TAA TAA TAA TAA TAA TAA
5057223 TAA TAA TA
1 TAA TAA TA
5057231 TAAATAAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
2 5 0.06
3 69 0.88
4 1 0.01
5 1 0.01
6 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:5057156 original size:17 final size:17
Alignment explanation
Indices: 5057130--5057233 Score: 75
Period size: 17 Copynumber: 5.8 Consensus size: 17
5057120 AAAATAGTTG
5057130 TAATAATAATATAACAA
1 TAATAATAATATAACAA
*
5057147 TAATAGTAATATAACAA
1 TAATAATAATATAACAA
* * *
5057164 -GAGAATAATAATAATAA
1 TAATAATAAT-ATAACAA
*
5057181 TAATAATAATAGTAATGGAGA
1 TAATAATAATA-TAA--CA-A
* * *
5057202 TAATAATAATAATGATAC
1 TAATAATAAT-ATAACAA
5057220 TAATAATAATATAA
1 TAATAATAATATAA
5057234 ATAAAAATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
16 6 0.09
17 26 0.38
18 20 0.29
19 1 0.01
20 1 0.01
21 13 0.19
22 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.30
Consensus pattern (17 bp):
TAATAATAATATAACAA
Found at i:5065449 original size:31 final size:31
Alignment explanation
Indices: 5065414--5065472 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
5065404 AAATTATTAT
5065414 TTTAGAATATTT-TTAAAATTTTTATATATTC
1 TTTAGAAT-TTTCTTAAAATTTTTATATATTC
*
5065445 TTTAGAATTTTCTTAAAATTTTTTTATA
1 TTTAGAATTTTCTTAAAATTTTTATATA
5065473 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTAGAATTTTCTTAAAATTTTTATATATTC
Found at i:5065517 original size:27 final size:25
Alignment explanation
Indices: 5065466--5065526 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
5065456 CTTAAAATTT
*
5065466 TTTTATAATTTTTAAAAAATATAAA
1 TTTTAAAATTTTTAAAAAATATAAA
* *
5065491 TTTTGAAATTTTTAAAAATATTTTAAA
1 TTTTAAAATTTTTAAAAA-A-TATAAA
5065518 TTTTAAAAT
1 TTTTAAAAT
5065527 CTATTTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.53
26 1 0.03
27 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTAAAATTTTTAAAAAATATAAA
Found at i:5065531 original size:19 final size:20
Alignment explanation
Indices: 5065490--5065536 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
5065480 AAAAATATAA
5065490 ATTTTGAAATTTTTAAAAAT
1 ATTTTGAAATTTTTAAAAAT
*
5065510 ATTTT-AAA-TTTTAAAATCT
1 ATTTTGAAATTTTTAAAA-AT
5065529 ATTTTGAA
1 ATTTTGAA
5065537 TATCTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:5067507 original size:39 final size:40
Alignment explanation
Indices: 5067464--5067545 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 40
5067454 AAACATTATT
* *
5067464 TAATAAAATATTTATTATATTTAT--TTGTGTTTTTTAATA
1 TAATAAAACATTTATTATATTTATGGTAGTG-TTTTTAATA
*
5067503 TAATAAAGCATTTATTATATTTATGGTAGTGTTTTTAATA
1 TAATAAAACATTTATTATATTTATGGTAGTGTTTTTAATA
5067543 TAA
1 TAA
5067546 ACACTTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 22 0.58
40 12 0.32
41 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.54
Consensus pattern (40 bp):
TAATAAAACATTTATTATATTTATGGTAGTGTTTTTAATA
Found at i:5073075 original size:9 final size:9
Alignment explanation
Indices: 5073063--5073111 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
5073053 AATTTAGCTT
*
5073063 TTTTAAAAA
1 TTTTAAATA
*
5073072 TTTTAAAAAA
1 TTTT-AAATA
*
5073082 TTTTAATTA
1 TTTTAAATA
*
5073091 TTTTAAATT
1 TTTTAAATA
5073100 TTTTAAATA
1 TTTTAAATA
5073109 TTT
1 TTT
5073112 AATGACATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTTAAATA
Found at i:5077446 original size:22 final size:22
Alignment explanation
Indices: 5077390--5077447 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
5077380 TTATTTGTTG
* *
5077390 TTATTTTATTATTATATTATTA
1 TTATTTTATTATTATATAACTA
* * *
5077412 TTATTTGGA-TATTGTATAACTC
1 TTATTT-TATTATTATATAACTA
5077434 TTATTTTATTATTA
1 TTATTTTATTATTA
5077448 ATTTTGCTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATTTTATTATTATATAACTA
Found at i:5079587 original size:15 final size:15
Alignment explanation
Indices: 5079564--5079594 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5079554 ATGTTATTTT
*
5079564 TTTGGAAGGTGGATG
1 TTTGAAAGGTGGATG
5079579 TTTGAAAGGTGGATG
1 TTTGAAAGGTGGATG
5079594 T
1 T
5079595 AGAGGGGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (15 bp):
TTTGAAAGGTGGATG
Found at i:5097151 original size:17 final size:17
Alignment explanation
Indices: 5097129--5097162 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5097119 ATCCACTAAT
*
5097129 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5097146 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5097163 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5101790 original size:17 final size:17
Alignment explanation
Indices: 5101768--5101801 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5101758 ATCCACTAAT
*
5101768 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5101785 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5101802 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5105496 original size:20 final size:21
Alignment explanation
Indices: 5105459--5105497 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
5105449 TTCATTTGGA
* *
5105459 AAAAAGTATTTTTGAAAAGCC
1 AAAAAGTATTCTTCAAAAGCC
5105480 AAAAAGT-TTCTTCAAAAG
1 AAAAAGTATTCTTCAAAAG
5105498 TTGTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (21 bp):
AAAAAGTATTCTTCAAAAGCC
Found at i:5107967 original size:35 final size:35
Alignment explanation
Indices: 5107921--5107989 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
5107911 ACTTCAATAT
*
5107921 TATTAATAATTATAATATAGTATGTATTGTAGATA
1 TATTAATAATTATAAAATAGTATGTATTGTAGATA
*
5107956 TATTATTAATTATAAAATAGTATGTATTGTAGAT
1 TATTAATAATTATAAAATAGTATGTATTGTAGAT
5107990 TAATGAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (35 bp):
TATTAATAATTATAAAATAGTATGTATTGTAGATA
Found at i:5109856 original size:23 final size:23
Alignment explanation
Indices: 5109826--5109871 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5109816 TCCATGCCGC
5109826 TTGATTGATTAAAAAAGTGAAGA
1 TTGATTGATTAAAAAAGTGAAGA
5109849 TTGATTGATTAAAAAAGTGAAGA
1 TTGATTGATTAAAAAAGTGAAGA
5109872 GATTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (23 bp):
TTGATTGATTAAAAAAGTGAAGA
Found at i:5116081 original size:11 final size:11
Alignment explanation
Indices: 5116065--5116098 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
5116055 CAAGGAGAGA
5116065 AGGGAGAGGAG
1 AGGGAGAGGAG
5116076 AGGGAGAGGGAG
1 AGGGAGA-GGAG
*
5116088 AGGCAGAGGAG
1 AGGGAGAGGAG
5116099 GTGGTGCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.35, C:0.03, G:0.62, T:0.00
Consensus pattern (11 bp):
AGGGAGAGGAG
Found at i:5116942 original size:18 final size:18
Alignment explanation
Indices: 5116919--5116953 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5116909 AGTATGTTGT
5116919 GTTTTTATTATCTTTTTG
1 GTTTTTATTATCTTTTTG
* *
5116937 GTTTTTTTTTTCTTTTT
1 GTTTTTATTATCTTTTT
5116954 TGAGAAATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.80
Consensus pattern (18 bp):
GTTTTTATTATCTTTTTG
Found at i:5120058 original size:253 final size:252
Alignment explanation
Indices: 5119724--5120211 Score: 645
Period size: 253 Copynumber: 1.9 Consensus size: 252
5119714 AGCCGAGTGA
* * * * *
5119724 AATTTTGAAGGGATATTTGATTATTTTAAACAATCGAGCAATTGCTACCCAACACGTTAGGGCAT
1 AATTTCGAAGGAAAATTTGATTATTTTAAACAATCGA-CAATTGCAACCCAACACGTTAGGGCAC
* * * * * *
5119789 GATCCCACAAATTGCCAAATACCGAATATCGCCTTCGTTTTAGGGATTTTAAAAGACACGAGCGA
65 GATCCCACAAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGATTTTAAAAGAAACGAACGA
* * **
5119854 AATTTCAAAGTGATATTCGATTATTTTGAGCAAATGTGAAATTGCAACCCAACACGTTAGGGCAC
130 AATTTCAAAGAGAAATTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGGCAC
5119919 GATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTTTGAATGG
195 GATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTTTGAATGG
* * *
5119977 AATTTCGAAGGAAAATTTGATTATTTTGAGCAAATGCGA-AATTGCAACCCAACACGTTAGGTCA
1 AATTTCGAAGGAAAATTTGATTATTTTAAAC-AAT-CGACAATTGCAACCCAACACGTTAGGGCA
** * * * * * * *
5120041 CGATTTCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGAAATGAATG
64 CGATCCCACAAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGATTTTAAAAGAAACGAACG
* * *
5120106 GAATTTCGAAGAGAAATTTGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGGCA
129 AAATTTCAAAGAGAAATTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGGCA
* * *
5120171 CGATTCCGCGAATTGCCGAACATCAAATTTCGTCTTCGTTT
194 CGATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTT
5120212 TGAAGAATTT
Statistics
Matches: 200, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
253 194 0.97
254 3 0.01
255 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (252 bp):
AATTTCGAAGGAAAATTTGATTATTTTAAACAATCGACAATTGCAACCCAACACGTTAGGGCACG
ATCCCACAAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGATTTTAAAAGAAACGAACGAA
ATTTCAAAGAGAAATTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGGCACG
ATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTTTGAATGG
Found at i:5120175 original size:130 final size:128
Alignment explanation
Indices: 5119724--5120211 Score: 569
Period size: 130 Copynumber: 3.8 Consensus size: 128
5119714 AGCCGAGTGA
* * * * *
5119724 AATTTTGAAGGGATATTTGATTATTTTAAAC-AAT-CGAGCAATTGCTACCCAACACGTTAGGGC
1 AATTTCGAA-GGAAATTTGATTATTTTGAGCAAATGCGA--AATTGCAACCCAACACGTTAGGGC
* * * * * * * * ** * * **
5119787 ATGATCCCACAAATTGCCAAATACCGAATATCGCCTTCGTTTTAGGGATTTTAAAAGACACGAGC
63 ACGATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGA-ATGAAT
*
5119852 GA
127 GG
* * * *
5119854 AATTTCAAAGTGATATTCGATTATTTTGAGCAAATGTGAAATTGCAACCCAACACGTTAGGGCAC
1 AATTTCGAAG-GAAATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCAC
*
5119919 GATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTT------TTGAATGG
65 GATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGAATGAATGG
*
5119977 AATTTCGAAGGAAAATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGTCAC
1 AATTTCGAAGG-AAATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCAC
*
5120042 GATTTCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGAAATGAATGG
65 GATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAG-AATGAATGG
*
5120107 AATTTCGAAGAGAAATTTGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGGCAC
1 AATTTCGAAG-GAAATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCAC
* * *
5120172 GATTCCGCGAATTGCCGAACATCAAATTTCGTCTTCGTTT
65 GATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTT
5120212 TGAAGAATTT
Statistics
Matches: 310, Mismatches: 36, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
122 1 0.00
123 110 0.35
129 1 0.00
130 192 0.62
131 4 0.01
132 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (128 bp):
AATTTCGAAGGAAATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACG
ATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGAATGAATGG
Found at i:5138100 original size:60 final size:59
Alignment explanation
Indices: 5138027--5138145 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 59
5138017 CAAAAAGCAA
5138027 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGATTGTCCTCTTATCCTG
1 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTG-TTGTCCTCTTATCCTG
5138087 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGTTGTCCTCTTATCCTG
1 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGTTGTCCTCTTATCCTG
5138146 AGGCCTAGAC
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 16 0.27
60 43 0.73
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (59 bp):
GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGTTGTCCTCTTATCCTG
Found at i:5146893 original size:46 final size:46
Alignment explanation
Indices: 5146826--5147042 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
5146816 TGGCAACCTG
*
5146826 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* * *
5146872 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
5146918 TGTGTAAGACCATGCTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
5146964 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
5147010 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
5147043 TCACGTCAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 152 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:5147020 original size:138 final size:130
Alignment explanation
Indices: 5146780--5147042 Score: 348
Period size: 138 Copynumber: 2.0 Consensus size: 130
5146770 GTGCTCTCTG
* *
5146780 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
1 ATATGAAATGTGTAAGACCATGCTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGTTGA
* * * * *
5146845 AAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTA
66 AAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCTA
* *
5146910 ATATGAGATGTGTAAGACCATGCTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACC
1 ATATGAAATGTGTAAGACCATGCTTGAAAGATACCATGGCAACCTG---TG---AG--TAAGACC
*
5146975 ATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTAT
58 ATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACACCAT
5147039 GGCA
122 GGCA
5147043 TCACGTCAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
130 43 0.38
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.59
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (130 bp):
ATATGAAATGTGTAAGACCATGCTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGTTGA
AAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACCTA
Found at i:5149907 original size:17 final size:18
Alignment explanation
Indices: 5149883--5149927 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
5149873 TAAATTCTTT
5149883 TAAATTCACACAAATCTC
1 TAAATTCACACAAATCTC
* *
5149901 T-AATTCA-AAAAATTTC
1 TAAATTCACACAAATCTC
5149917 TAAATTCACAC
1 TAAATTCACAC
5149928 TTGACTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.36
17 12 0.55
18 2 0.09
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATTCACACAAATCTC
Found at i:5151660 original size:42 final size:42
Alignment explanation
Indices: 5151609--5151718 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 42
5151599 CATAGTTCAA
* *
5151609 CTATAGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAGCCCAG
*
5151651 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
5151693 CTATGGTCTTACACGA-A-TCACATATC
1 CTATGGTCTTACAC-ATATTCACATATC
5151719 TCACTGATGC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
41 10 0.16
42 51 0.82
43 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
Found at i:5151745 original size:46 final size:47
Alignment explanation
Indices: 5151636--5151796 Score: 160
Period size: 47 Copynumber: 3.6 Consensus size: 47
5151626 TTCACATAAT
* * *
5151636 GATGCCATAGCCCAGCTATGGTCTTACAC-AT---AT-TCAT-ATATC
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATAT-ATCACATC
* * *
5151678 GATGCCATAGCCCAGCTATGGTCTTACACGAATCA-CATATCTCAC-T-
1 GATGCCATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCACATC
* *
5151724 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACATC
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATC
5151771 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
5151797 TACAGAAATC
Statistics
Matches: 102, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
42 29 0.28
44 3 0.03
45 11 0.11
46 27 0.26
47 30 0.29
48 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATC
Found at i:5151780 original size:47 final size:47
Alignment explanation
Indices: 5151675--5151801 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
5151665 ATATTCATAT
* * * * *
5151675 ATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 ATCGATGCCATATCCCAGATATGGTCTTATAC-AGTCACATATATCAC
5151723 -T-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC
1 ATCGATGCCATATCCCAGATATGGTCTTATACAGTCA-CATATATCAC
5151768 ATCGATGCCATATCCCAGATATGGTCTTATACAG
1 ATCGATGCCATATCCCAGATATGGTCTTATACAG
5151802 AAATCACTTG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
44 1 0.01
45 11 0.15
46 27 0.38
47 32 0.45
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (47 bp):
ATCGATGCCATATCCCAGATATGGTCTTATACAGTCACATATATCAC
Found at i:5151868 original size:31 final size:31
Alignment explanation
Indices: 5151825--5151942 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
5151815 CTTGTCACTT
* *
5151825 GTAGTCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
5151856 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
5151887 GTAGCCGAAACTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
5151918 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
5151943 TGTCATTTGT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:5158409 original size:17 final size:18
Alignment explanation
Indices: 5158376--5158419 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
5158366 TTAAAAAATA
5158376 TATAAAATTTGGAATTTT
1 TATAAAATTTGGAATTTT
5158394 TATAAATATTT-G-ATTTT
1 TATAAA-ATTTGGAATTTT
*
5158411 TAAAAAATT
1 TATAAAATT
5158420 ATTTTGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 7 0.29
19 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TATAAAATTTGGAATTTT
Found at i:5158455 original size:17 final size:18
Alignment explanation
Indices: 5158429--5158469 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
5158419 TATTTTGAAC
5158429 TTTT-TTTTGG-ATTTTT
1 TTTTGTTTTGGAATTTTT
5158445 TTTTGTTTTGGAATTTTT
1 TTTTGTTTTGGAATTTTT
5158463 TTTTGTT
1 TTTTGTT
5158470 GAGAGAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 6 0.26
18 13 0.57
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (18 bp):
TTTTGTTTTGGAATTTTT
Found at i:5158990 original size:22 final size:24
Alignment explanation
Indices: 5158965--5159008 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5158955 GATTTTAGTC
5158965 TTTA-TATTTTTA-TTTTTAAAAA
1 TTTATTATTTTTACTTTTTAAAAA
*
5158987 TTTATTTTTTTTACTTTTTAAA
1 TTTATTATTTTTACTTTTTAAA
5159009 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATTATTTTTACTTTTTAAAAA
Found at i:5161344 original size:20 final size:18
Alignment explanation
Indices: 5161315--5161359 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5161305 TAATGGTTAT
*
5161315 ATTTTAATATTTAAAATATA
1 ATTTTTATA-TTAAAATA-A
*
5161335 ATTTTTATATTCAAATAA
1 ATTTTTATATTAAAATAA
5161353 ATTTTTA
1 ATTTTTA
5161360 CAAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTATATTAAAATAA
Found at i:5163194 original size:3 final size:3
Alignment explanation
Indices: 5163186--5163227 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
5163176 GTTCAAACCT
5163186 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
5163228 ACCAACCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:5165350 original size:27 final size:27
Alignment explanation
Indices: 5165320--5165372 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5165310 TGAACTATTC
*
5165320 TATTTATGTTCTTAATTA-TATTAATTA
1 TATTTATATT-TTAATTATTATTAATTA
*
5165347 TATTTATATTTTATTTATTATTAATT
1 TATTTATATTTTAATTATTATTAATT
5165373 TAGGGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TATTTATATTTTAATTATTATTAATTA
Found at i:5168497 original size:31 final size:30
Alignment explanation
Indices: 5168462--5168525 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
5168452 TTTTTTTAAA
5168462 TATATATTTTTT-AAAATTTTATATAACTTTT
1 TATATATTTTTTGAAAA-TTTATATAA-TTTT
* *
5168493 TATATTTTTTTTGAAAATTTATGTAATTTT
1 TATATATTTTTTGAAAATTTATATAATTTT
5168523 TAT
1 TAT
5168526 TTTTATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 19 0.63
32 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (30 bp):
TATATATTTTTTGAAAATTTATATAATTTT
Found at i:5172796 original size:2 final size:2
Alignment explanation
Indices: 5172791--5172817 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5172781 AATGAAAAAA
5172791 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
5172818 AAAGGGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5173075 original size:2 final size:2
Alignment explanation
Indices: 5173068--5173102 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5173058 TTTGCACAGG
5173068 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
5173103 GCAATGATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5173314 original size:18 final size:19
Alignment explanation
Indices: 5173280--5173316 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5173270 CTATATAATT
*
5173280 AAATTTATAACTTATTTAA
1 AAATTAATAACTTATTTAA
5173299 AAATTAATAA-TTATTTAA
1 AAATTAATAACTTATTTAA
5173317 TATATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTAATAACTTATTTAA
Found at i:5179188 original size:14 final size:14
Alignment explanation
Indices: 5179169--5179195 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5179159 AATGCAAAAA
5179169 AAAAAAAAAAAAGC
1 AAAAAAAAAAAAGC
5179183 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
5179196 GAAGTTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGC
Found at i:5183553 original size:43 final size:43
Alignment explanation
Indices: 5183505--5183590 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
5183495 ATGTAAACGA
5183505 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
1 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
5183548 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
1 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
5183591 TTTCTAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (43 bp):
CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
Found at i:5183671 original size:51 final size:53
Alignment explanation
Indices: 5183598--5183698 Score: 152
Period size: 51 Copynumber: 1.9 Consensus size: 53
5183588 AACTTTCTAA
5183598 AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAA-AAGGCCAAAACAAC
1 AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAAGAAGGCCAAAACAAC
* * * *
5183650 AAAACCCAGAA-TAATTGAATCAAAGTTGAATAAAAAAGAAGGGCAAAAC
1 AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAAGAAGGCCAAAAC
5183699 TGCAAGCAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 23 0.52
52 21 0.48
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (53 bp):
AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAAGAAGGCCAAAACAAC
Found at i:5184439 original size:27 final size:29
Alignment explanation
Indices: 5184383--5184451 Score: 99
Period size: 27 Copynumber: 2.4 Consensus size: 29
5184373 CATTTTATTT
5184383 TTTTATTTAAAAAATTAGATAAATTAATCA
1 TTTTATTTAAAAAA-TAGATAAATTAATCA
*
5184413 TTTTATTTAAAAAA-A-ATAAATTGATCA
1 TTTTATTTAAAAAATAGATAAATTAATCA
5184440 TTTTA-TTAAAAA
1 TTTTATTTAAAAA
5184452 TTTTATCTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 7 0.18
27 16 0.42
28 1 0.03
30 14 0.37
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTTATTTAAAAAATAGATAAATTAATCA
Found at i:5193404 original size:3 final size:3
Alignment explanation
Indices: 5193396--5193430 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
5193386 ATTACATCCA
5193396 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5193431 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5197769 original size:3 final size:3
Alignment explanation
Indices: 5197761--5197795 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
5197751 ATTACATCCA
5197761 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5197796 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5207350 original size:3 final size:3
Alignment explanation
Indices: 5207342--5207373 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
5207332 GCCCAGATTT
5207342 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
5207374 TCTCTTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:5208178 original size:17 final size:17
Alignment explanation
Indices: 5208156--5208189 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5208146 ATCCACTAAT
*
5208156 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5208173 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5208190 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5212817 original size:17 final size:17
Alignment explanation
Indices: 5212795--5212828 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5212785 ATCCACTAAT
*
5212795 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5212812 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5212829 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5217527 original size:19 final size:19
Alignment explanation
Indices: 5217498--5217550 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
5217488 GCACATCAAT
*
5217498 AAATATTTAAAAATTTAA-A
1 AAAT-TTTAAAAATTAAATA
5217517 AAATTTCT-AAAATTAAATA
1 AAATTT-TAAAAATTAAATA
5217536 AAATTTTAAAAATTA
1 AAATTTTAAAAATTA
5217551 TTTAAAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTTAAAAATTAAATA
Found at i:5217530 original size:18 final size:18
Alignment explanation
Indices: 5217495--5217546 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
5217485 GGCGCACATC
* *
5217495 AATAAATATTTAAAAATTT
1 AATAAA-ATTTTAAAATTA
5217514 AA-AAAATTTCTAAAATTA
1 AATAAAATTT-TAAAATTA
5217532 AATAAAATTTTAAAA
1 AATAAAATTTTAAAA
5217547 ATTATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 16 0.55
19 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAAATTTTAAAATTA
Found at i:5217556 original size:19 final size:19
Alignment explanation
Indices: 5217498--5217557 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
5217488 GCACATCAAT
*
5217498 AAATATTTAAAAATT-TAAA
1 AAAT-TTTAAAAATTATATA
*
5217517 AAATTTCT-AAAATTAAATA
1 AAATTT-TAAAAATTATATA
*
5217536 AAATTTTAAAAATTATTTA
1 AAATTTTAAAAATTATATA
5217555 AAA
1 AAA
5217558 CATATAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 9 0.26
19 25 0.74
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTTAAAAATTATATA
Found at i:5218284 original size:207 final size:211
Alignment explanation
Indices: 5217924--5218394 Score: 763
Period size: 207 Copynumber: 2.2 Consensus size: 211
5217914 TTTAATGCTG
* * *
5217924 CATATTTCATCCAGATAAAGTATGTATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
1 CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
*
5217989 TTATAAAACAATATGTTATTTGGAAATTAACTATTATTGTAATGAGATACATGTTTTATTAGGTA
66 TTATAAAACAATATGTTATTTGGAAATTAACAATTATTGTAATGAGATACATGTTTTATTAGGTA
5218054 TAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGC-G-TA-ATATAT-ATATAATCATATT
131 TAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCAGATATATATATAATATAATCATATT
* * *
5218115 AGTGAATCTGTTAATG
196 ACTGAATCTGCTAATA
* **
5218131 CGTACTTCATCCGGATAAAGTACACATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
1 CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
*
5218196 TTATAAAATAATATGTTATTTGAGAAA-TAACAATTATTGTAATGAGATACATGTTTTATTAGGT
66 TTATAAAACAATATGTTATTTG-GAAATTAACAATTATTGTAATGAGATACATGTTTTATTAGGT
5218260 ATAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCATGTATATATATATAAATATAATCA
130 ATAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCA-G-ATATATATAT-AATATAATCA
5218325 TATTACTGAATCTGCTAATA
192 TATTACTGAATCTGCTAATA
*
5218345 CATACTTCATCCGGATAAAATATGCATTATTAAAATTAAATTAAAATATT
1 CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATT
5218395 TTTTAAAAAC
Statistics
Matches: 241, Mismatches: 15, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
207 156 0.65
208 4 0.02
209 1 0.00
211 2 0.01
212 6 0.02
214 72 0.30
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (211 bp):
CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
TTATAAAACAATATGTTATTTGGAAATTAACAATTATTGTAATGAGATACATGTTTTATTAGGTA
TAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCAGATATATATATAATATAATCATATT
ACTGAATCTGCTAATA
Found at i:5218861 original size:31 final size:31
Alignment explanation
Indices: 5218822--5218909 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
5218812 GATTAATTTA
*
5218822 TATT-TTATA-TATAATTATTTAGATATCATT
1 TATTATTATATTA-AATTATTTAAATATCATT
* *
5218852 TATTATTATATTAAATTATTTAAATCTTATT
1 TATTATTATATTAAATTATTTAAATATCATT
*
5218883 TATTATTATATTGAAATT-TTAAAATAT
1 TATTATTATATT-AAATTATTTAAATAT
5218910 TTTAGATATC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
30 4 0.08
31 39 0.78
32 7 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TATTATTATATTAAATTATTTAAATATCATT
Found at i:5222383 original size:24 final size:23
Alignment explanation
Indices: 5222343--5222390 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
5222333 ATTTGAAATG
5222343 TTTTATAATATTATTTTTTAAAA
1 TTTTATAATATTATTTTTTAAAA
*
5222366 TTTTA-AATATATATTTTTTTAAA
1 TTTTATAATAT-TATTTTTTAAAA
5222389 TT
1 TT
5222391 ATTTTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATAATATTATTTTTTAAAA
Found at i:5222474 original size:28 final size:28
Alignment explanation
Indices: 5222408--5222478 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
5222398 ACTAATATAA
5222408 AATA-TTTAAATGTATTATTAGTTTTAT
1 AATATTTTAAATGTATTATTAGTTTTAT
* ** * *
5222435 GACCTTTCAAATTTATTATTAGTTTTAT
1 AATATTTTAAATGTATTATTAGTTTTAT
5222463 AATATTTTAAATGTAT
1 AATATTTTAAATGTAT
5222479 ATTTTAGATA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (28 bp):
AATATTTTAAATGTATTATTAGTTTTAT
Found at i:5222513 original size:14 final size:14
Alignment explanation
Indices: 5222503--5222533 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5222493 TAATTTTATA
5222503 TATAATTTTTTAAT
1 TATAATTTTTTAAT
*
5222517 TATGATTTTTTAAT
1 TATAATTTTTTAAT
5222531 TAT
1 TAT
5222534 TTTTAAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TATAATTTTTTAAT
Found at i:5222537 original size:11 final size:14
Alignment explanation
Indices: 5222507--5222533 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5222497 TTTATATATA
5222507 ATTTTTTAATTATG
1 ATTTTTTAATTATG
5222521 ATTTTTTAATTAT
1 ATTTTTTAATTAT
5222534 TTTTAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
ATTTTTTAATTATG
Found at i:5225322 original size:30 final size:30
Alignment explanation
Indices: 5225286--5225416 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 30
5225276 GTCGTAGAGC
5225286 AGTTCATATCACCCGGACATGGGCGGTTCA
1 AGTTCATATCACCCGGACATGGGCGGTTCA
* * * *
5225316 AGTTC--ATCACCCGAAAATGAGCGGCTT-G
1 AGTTCATATCACCCGGACATGGGCGG-TTCA
** *
5225344 AGTTCATATCACTTGGACATGGGCGGTTCG
1 AGTTCATATCACCCGGACATGGGCGGTTCA
* * *
5225374 AGTTCATATCACCCAGACATAGGCGATTCA
1 AGTTCATATCACCCGGACATGGGCGGTTCA
* *
5225404 AGTTTATTTCACC
1 AGTTCATATCACC
5225417 GATATCAACC
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
28 21 0.26
29 4 0.05
30 55 0.69
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATGGGCGGTTCA
Found at i:5229525 original size:46 final size:46
Alignment explanation
Indices: 5229470--5229643 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 46
5229460 TATTTGGGCA
* *
5229470 TCCGTACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG
*** * * * *
5229516 TCCGAACTCGTTGAGTTGAGTCCGAA-TTCGAAAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCC-AAGTTC-ACTTATGGATACGA-ACG
* * *
5229563 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG
* * * *
5229609 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTAT
5229644 AGGCGGGTTA
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
46 68 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG
Found at i:5229625 original size:93 final size:93
Alignment explanation
Indices: 5229466--5229638 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
5229456 AGGATATTTG
* *
5229466 GGCATCCGTACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
1 GGCATCCGTACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
5229531 TTGAGTCCGAATTCGAAAGATGTAACTA
66 TTGAGTCCGAATTCGAAAGATGTAACTA
* * *
5229559 GGCATCCG-AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGTA-CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGA
*
5229623 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAATTCG
5229639 CTTATAGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGTACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAATTCGAAAGATGTAACTA
Found at i:5241601 original size:15 final size:15
Alignment explanation
Indices: 5241581--5241649 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
5241571 GTATCTTGGG
5241581 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
5241596 TCTCTTTATTCTGAA
1 TTTCTTTATCCTGGA
* *
5241611 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
5241626 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
5241641 TTTCTTTAT
1 TTTCTTTAT
5241650 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:5241644 original size:30 final size:30
Alignment explanation
Indices: 5241572--5241659 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
5241562 CATAGTATCG
* * * *
5241572 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
5241602 TAT-TCTGAATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
5241632 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
5241660 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:5241660 original size:14 final size:14
Alignment explanation
Indices: 5241581--5241660 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
5241571 GTATCTTGGG
*
5241581 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
5241596 TCTCTTTATTCTGAA
1 TTTCTTTATTC-GGA
*
5241611 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
5241626 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
5241641 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
5241655 TTTCTT
1 TTTCTT
5241661 GTTATCTTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:5244028 original size:26 final size:26
Alignment explanation
Indices: 5243976--5244028 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5243966 TTTACAGTTT
*
5243976 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
5244002 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
5244028 T
1 T
5244029 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:5247206 original size:46 final size:45
Alignment explanation
Indices: 5247153--5247328 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
5247143 TATTTGGGCA
5247153 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
5247199 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
5247246 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
5247292 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5247329 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:5247308 original size:93 final size:93
Alignment explanation
Indices: 5247149--5247320 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
5247139 AGGATATTTG
* *
5247149 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
5247214 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
5247242 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
5247307 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
5247321 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:5249422 original size:21 final size:22
Alignment explanation
Indices: 5249389--5249431 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
5249379 CTCCACCAAA
*
5249389 TAAAATATTAATTTTTAAAATT
1 TAAAATATTAATTTTAAAAATT
5249411 TAAAAT-TTAATTTTAAAAATT
1 TAAAATATTAATTTTAAAAATT
5249432 GTTTGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATATTAATTTTAAAAATT
Found at i:5249722 original size:21 final size:21
Alignment explanation
Indices: 5249690--5249742 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
5249680 TTTTATATTA
5249690 TTAAAAAT-ATATTTAAAATT
1 TTAAAAATAATATTTAAAATT
5249710 TTAAAAATAATATTTAAAATT
1 TTAAAAATAATATTTAAAATT
5249731 TTAAAAA-AATAT
1 TTAAAAATAATAT
5249743 ATTTGAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATAATATTTAAAATT
Found at i:5249779 original size:23 final size:26
Alignment explanation
Indices: 5249748--5249797 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
5249738 AATATATTTG
5249748 AAAGATAAAT-AA-AAAAACTTAAAA
1 AAAGATAAATAAATAAAAACTTAAAA
5249772 AAAG-TAAATAAATAAAAACTTAAAA
1 AAAGATAAATAAATAAAAACTTAAAA
5249797 A
1 A
5249798 GAAACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 5 0.21
24 6 0.25
25 13 0.54
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAGATAAATAAATAAAAACTTAAAA
Found at i:5250632 original size:152 final size:150
Alignment explanation
Indices: 5250461--5250785 Score: 526
Period size: 152 Copynumber: 2.2 Consensus size: 150
5250451 TATAAAATCT
*
5250461 AGATTCGAAAATTTTAAAAATACAAACAAATGGACAAAATTA-AGGTTATTTAATAAATTAATAT
1 AGATTCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGA-GTTATTTAATAAATTAATAT
* * *
5250525 AAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATATTGTAAAAGAATAAAATAGG
65 -AAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATAAG
5250590 AAAATAGTATATTTTAAAAAATA
128 AAAATAGTATATTTTAAAAAATA
* *
5250613 AGATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGAGTTATTTACTAAATTAATATA
1 AGATTCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGAGTTATTTAATAAATTAATATA
*
5250678 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATAATAAA
66 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATAAGAAA
*
5250743 ATAGTGTATTTTAAAAAATA
131 ATAGTATATTTTAAAAAATA
* *
5250763 AAATTCAAAAATTTTAAAAATAC
1 AGATTCGAAAATTTTAAAAATAC
5250786 GAAATTTTTT
Statistics
Matches: 161, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
150 51 0.32
151 50 0.31
152 59 0.37
153 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (150 bp):
AGATTCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGAGTTATTTAATAAATTAATATA
AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATAAGAAA
ATAGTATATTTTAAAAAATA
Found at i:5251222 original size:25 final size:25
Alignment explanation
Indices: 5251191--5251251 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
5251181 ATTTTAGTGT
5251191 TTCTTGCTTCCCGAGTTGCTGCTTC
1 TTCTTGCTTCCCGAGTTGCTGCTTC
*
5251216 TTCTTGCTTCCCGAGTTGTTGCTTC
1 TTCTTGCTTCCCGAGTTGCTGCTTC
*
5251241 TTTTTGCTTCC
1 TTCTTGCTTCC
5251252 AAAACTAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.03, C:0.30, G:0.18, T:0.49
Consensus pattern (25 bp):
TTCTTGCTTCCCGAGTTGCTGCTTC
Found at i:5251364 original size:17 final size:18
Alignment explanation
Indices: 5251331--5251375 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
5251321 ACACAATCCC
*
5251331 ATTTTTTTTCAACTTTTT
1 ATTTTTTTTCAACTTTTA
*
5251349 ATTTTTTTTC-ATTTTTA
1 ATTTTTTTTCAACTTTTA
*
5251366 ATTATTTTTC
1 ATTTTTTTTC
5251376 TTTAACAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTTTTCAACTTTTA
Found at i:5256402 original size:44 final size:44
Alignment explanation
Indices: 5256339--5256428 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
5256329 GTTCTCCAGC
5256339 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
1 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
5256383 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
1 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
5256427 CA
1 CA
5256429 GCTGATGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (44 bp):
CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
Found at i:5257452 original size:20 final size:20
Alignment explanation
Indices: 5257427--5257464 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5257417 TATATATATT
* *
5257427 TATATATGCATGTATGCACC
1 TATATATACATATATGCACC
5257447 TATATATACATATATGCA
1 TATATATACATATATGCA
5257465 AAACAAACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
TATATATACATATATGCACC
Found at i:5275882 original size:34 final size:33
Alignment explanation
Indices: 5275843--5275911 Score: 111
Period size: 34 Copynumber: 2.1 Consensus size: 33
5275833 TCAACATTTA
5275843 AAAAACAAAACATTATCACAAAAGGTGAAAAACT
1 AAAAACAAAACATTATCACAAAAGGTG-AAAACT
* *
5275877 AAAAACAGAACATTATCACAGAAGGTGAAAACT
1 AAAAACAAAACATTATCACAAAAGGTGAAAACT
5275910 AA
1 AA
5275912 TACTTACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 8 0.24
34 25 0.76
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.14
Consensus pattern (33 bp):
AAAAACAAAACATTATCACAAAAGGTGAAAACT
Found at i:5277256 original size:14 final size:15
Alignment explanation
Indices: 5277237--5277268 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
5277227 ATACCATAAA
5277237 TTAATTAAT-AATGT
1 TTAATTAATAAATGT
5277251 TTAATTAATAAATGT
1 TTAATTAATAAATGT
5277266 TTA
1 TTA
5277269 CATAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTAATTAATAAATGT
Found at i:5288703 original size:24 final size:24
Alignment explanation
Indices: 5288676--5288724 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
5288666 TGAAATTTAT
*
5288676 GATAATGAGATCGTATGAATAAAG
1 GATAATGAGATCATATGAATAAAG
5288700 GATAATGAGATCATATGAATAAAG
1 GATAATGAGATCATATGAATAAAG
5288724 G
1 G
5288725 GTTGATGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (24 bp):
GATAATGAGATCATATGAATAAAG
Found at i:5291814 original size:19 final size:19
Alignment explanation
Indices: 5291790--5291829 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
5291780 ACCATCTCAC
*
5291790 TTAACTCCCGTGATTTTTA
1 TTAACTCCCGTGATTTCTA
5291809 TTAACTCCCGTGATTTCTA
1 TTAACTCCCGTGATTTCTA
5291828 TT
1 TT
5291830 TGGTAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (19 bp):
TTAACTCCCGTGATTTCTA
Found at i:5302105 original size:28 final size:29
Alignment explanation
Indices: 5302035--5302106 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
5302025 CAATTTCTTT
*
5302035 AAAAA-AATTATTTTATATTATTATTTAC
1 AAAAATAATCATTTTATATTATTATTTAC
** *
5302063 TGAAATAGTCGATTTT-T-TTATTATTTACC
1 AAAAATAATC-ATTTTATATTATTATTTA-C
5302092 AAAAATAATCATTTT
1 AAAAATAATCATTTT
5302107 CCCTGAGAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
28 18 0.53
29 11 0.32
30 5 0.15
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (29 bp):
AAAAATAATCATTTTATATTATTATTTAC
Found at i:5302259 original size:20 final size:22
Alignment explanation
Indices: 5302224--5302265 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
5302214 CACAATAGTC
5302224 CTCTCACAATTCTCTCTAAATT
1 CTCTCACAATTCTCTCTAAATT
*
5302246 CTCTCA-AATT-TCTCTCAATT
1 CTCTCACAATTCTCTCTAAATT
5302266 TTTGTCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (22 bp):
CTCTCACAATTCTCTCTAAATT
Found at i:5303450 original size:7 final size:7
Alignment explanation
Indices: 5303438--5303470 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
5303428 TAGTTGTTTC
5303438 GTATTTA
1 GTATTTA
5303445 GTATTTA
1 GTATTTA
*
5303452 ATATTTA
1 GTATTTA
5303459 GTATTTA
1 GTATTTA
5303466 GTATT
1 GTATT
5303471 ACCTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:5304714 original size:54 final size:55
Alignment explanation
Indices: 5304561--5304741 Score: 185
Period size: 54 Copynumber: 3.3 Consensus size: 55
5304551 TTTCATATAA
* * *
5304561 TAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTTTTTAATTTTAT
1 TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTAT-ATTTTAT
* * ** * * *
5304617 TAAAATAAATGTT-GTTTTAA-ATTAGGCAA-TAT-TTTTATTTTTTTTATATTTGA-
1 TAAAATAAAAGTTCTTTTTAATATT--TTAATTGTATTTTA-CTTTTTTATATTTTAT
5304670 TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTA-ATTTTAT
1 TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTATATTTTAT
*
5304724 TAAAATAAATGTTCTTTT
1 TAAAATAAAAGTTCTTTT
5304742 AAATTAGCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
53 19 0.19
54 44 0.44
55 23 0.23
56 14 0.14
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (55 bp):
TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTATATTTTAT
Found at i:5304761 original size:107 final size:108
Alignment explanation
Indices: 5304560--5304774 Score: 369
Period size: 107 Copynumber: 2.0 Consensus size: 108
5304550 GTTTCATATA
*
5304560 ATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTTTTTAATTTTATTAAAATAA
1 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTAC-TTTTTTTAATTTTATTAAAATAA
* * *
5304625 ATGTTGTTTTAAATTAGGCAATATTTTTATTTTTTTTATATTTG
65 ATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTG
*
5304669 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTAC-TTTTTTAATTTTATTAAAATAAA
1 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTTTAATTTTATTAAAATAAA
5304733 TGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
66 TGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
5304775 ATTTTTATAT
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
107 62 0.61
109 39 0.39
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.57
Consensus pattern (108 bp):
ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTTTAATTTTATTAAAATAAA
TGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTG
Found at i:5304768 original size:54 final size:54
Alignment explanation
Indices: 5304603--5304768 Score: 182
Period size: 54 Copynumber: 3.1 Consensus size: 54
5304593 TACTTTACTT
* *
5304603 TTTTTTAATTTTATTAAAATAAATGTTGTTTTAAATTAGGCAATATTTTTATT-
1 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
* * ** *
5304656 TTTTTTATATTTGA-TAAAATAAAAGTTCTTTTTAATATT--TTAAT-TGTATT-TTA
1 TTTTTTA-ATTTTATTAAAATAAATGTTC-TTTTAA-ATTAGCCAATAT-TTTTATTA
5304709 CTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
1 -TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
5304764 TTTTT
1 TTTTT
5304769 ATATTTATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
52 6 0.07
53 36 0.40
54 42 0.46
55 7 0.08
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (54 bp):
TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
Found at i:5304777 original size:53 final size:52
Alignment explanation
Indices: 5304602--5304774 Score: 181
Period size: 53 Copynumber: 3.2 Consensus size: 52
5304592 GTACTTTACT
* *
5304602 TTTTTTTAATTTTATTAAAATAAATGTTGTTTTAAATTAGGCAATATTTTTA
1 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
* * ** *
5304654 TTTTTTTTATATTTGA-TAAAATAAAAGTTCTTTTTAATATT--TTAATTGTATTTTA
1 -TTTTTTTA-ATTTTATTAAAATAAATGTTC-TTTTAA-ATTAGCCAA-TAT-TTTTA
*
5304709 CTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
1 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
5304761 TTATTTTTATATTT
1 TT-TTTTTA-ATTT
5304775 ATTTTTATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
52 9 0.09
53 41 0.42
54 39 0.40
55 8 0.08
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (52 bp):
TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
Found at i:5304921 original size:39 final size:38
Alignment explanation
Indices: 5304846--5304930 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
5304836 TTTTTTAAAA
* * *
5304846 TTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAAT
1 TTTTAATAAAATAAATGTTATTTTAAATTAGACAAT-AT
* *
5304885 TTTTATTAAAATAAATGTTATTTTGAA-TACGACAATAT
1 TTTTAATAAAATAAATGTTATTTTAAATTA-GACAATAT
*
5304923 TTTAAATA
1 TTTTAATA
5304931 TTTTAAATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 10 0.26
39 28 0.74
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATTAGACAATAT
Found at i:5304930 original size:127 final size:126
Alignment explanation
Indices: 5304669--5304910 Score: 317
Period size: 128 Copynumber: 1.9 Consensus size: 126
5304659 TTTATATTTG
* *
5304669 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTAATTTTATTAAAATAAAT
1 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTTAATTTTAATAAAATAAAT
*** * * **
5304734 GTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTATTTTTATATAGTTTTAATTA
66 GTTCTTTTAAATTAGCCAATATTTTTATTATAAATAAATTTATTTTGATATAG-TACAATTA
* *
5304796 ATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTA-TTTTTTAAAATTTTAATACAATAA
1 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTT--AATTTTAATAAAATAA
*
5304860 ATGTTCTTTTAAATTAGTCAATAATTTTTATTA-AAATAAATGTTATTTTGA
64 ATGTTCTTTTAAATTAGCCAAT-ATTTTTATTATAAATAAAT-TTATTTTGA
5304911 ATACGACAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
126 6 0.06
127 38 0.38
128 39 0.39
129 18 0.18
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (126 bp):
ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTTAATTTTAATAAAATAAAT
GTTCTTTTAAATTAGCCAATATTTTTATTATAAATAAATTTATTTTGATATAGTACAATTA
Found at i:5305027 original size:140 final size:143
Alignment explanation
Indices: 5304872--5305162 Score: 498
Period size: 149 Copynumber: 2.0 Consensus size: 143
5304862 GTTCTTTTAA
5304872 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATA-TTT-T
1 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTAT
5304935 A-AATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGAC
66 ATAATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGAC
5304999 ATGATTGAGTTAT
131 ATGATTGAGTTAT
5305012 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTTT
1 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATA--TTTT
5305077 ATATTTTTAATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGAT
64 ATA----TAATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGAT
*
5305142 TTGGTCATGATTGAGTTAT
125 TTGGACATGATTGAGTTAT
5305161 AT
1 AT
5305163 GGCCTAGGTT
Statistics
Matches: 141, Mismatches: 1, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
140 59 0.42
143 3 0.02
144 2 0.01
149 77 0.55
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (143 bp):
ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTAT
ATAATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGAC
ATGATTGAGTTAT
Found at i:5306705 original size:15 final size:15
Alignment explanation
Indices: 5306685--5306716 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5306675 AATTTTCCCC
*
5306685 TTTTTTTTTCTTTCT
1 TTTTTTTTTCCTTCT
5306700 TTTTTTTTTCCTTCT
1 TTTTTTTTTCCTTCT
5306715 TT
1 TT
5306717 CCTTCCCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTCCTTCT
Found at i:5311166 original size:38 final size:38
Alignment explanation
Indices: 5311115--5311191 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
5311105 CTAAGGCTAA
5311115 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
1 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
5311153 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
1 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
5311191 T
1 T
5311192 TACCACCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (38 bp):
TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
Found at i:5311458 original size:12 final size:12
Alignment explanation
Indices: 5311441--5311466 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5311431 TACTAGAAGT
5311441 ATTGTTGACTTC
1 ATTGTTGACTTC
5311453 ATTGTTGACTTC
1 ATTGTTGACTTC
5311465 AT
1 AT
5311467 GAAATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (12 bp):
ATTGTTGACTTC
Found at i:5315227 original size:29 final size:30
Alignment explanation
Indices: 5315188--5315254 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
5315178 GAATTCAACC
* *
5315188 AAAATGTACAAGGACTAAAATTGAT-AATTT
1 AAAA-GTACAAGGACTAAAATTAATCAAATT
*
5315218 AAAAGTACAATGACTAAAATTAATCAAATT
1 AAAAGTACAAGGACTAAAATTAATCAAATT
5315248 AAAAGTA
1 AAAAGTA
5315255 TAGAAACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.27
Consensus pattern (30 bp):
AAAAGTACAAGGACTAAAATTAATCAAATT
Found at i:5316153 original size:17 final size:17
Alignment explanation
Indices: 5316131--5316167 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
5316121 CTGTTCATGA
*
5316131 TCAAAAGATACAATTGT
1 TCAAAAGATACAACTGT
5316148 TCAAAAGATACAACTGT
1 TCAAAAGATACAACTGT
5316165 TCA
1 TCA
5316168 TCAAGAGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (17 bp):
TCAAAAGATACAACTGT
Found at i:5317302 original size:104 final size:106
Alignment explanation
Indices: 5317106--5317302 Score: 245
Period size: 104 Copynumber: 1.9 Consensus size: 106
5317096 TAGTATAAGG
* * * * * * *
5317106 ATGAAAATCTGAAATTTAACATTTATTTTTGGTAAAAATATCTCTCTAGTCTCTCTTAATTTTGA
1 ATGAAAATCAGAAAGTTAACATTTATTTTTGGTAAAAAAATCTCTCCAATCCCTCTCAATTTTGA
* * * *** *
5317171 TATTTAGTAAATTGGTTTTTCTTAAAAACATTAGAACAACA
66 TATTGAGGAAAATGGTCCCTCTAAAAAACATTAGAACAACA
*
5317212 ATGAAAATCAG-AAGTTGACATTTATTTTTGG-AAAAAAATCTCTCCAATCCCTCTCAATTTTGA
1 ATGAAAATCAGAAAGTTAACATTTATTTTTGGTAAAAAAATCTCTCCAATCCCTCTCAATTTTGA
5317275 TATTGAGGAAAATGGTCCCTCTAAAAAA
66 TATTGAGGAAAATGGTCCCTCTAAAAAA
5317303 AATAGAGTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 48 0.63
105 18 0.24
106 10 0.13
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (106 bp):
ATGAAAATCAGAAAGTTAACATTTATTTTTGGTAAAAAAATCTCTCCAATCCCTCTCAATTTTGA
TATTGAGGAAAATGGTCCCTCTAAAAAACATTAGAACAACA
Found at i:5319445 original size:29 final size:30
Alignment explanation
Indices: 5319391--5319451 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
5319381 GTAGTTTATG
* **
5319391 AAAATTATATTAAATCAAAATTTTATGCTT
1 AAAATTATATAAAATCAAAAAATTATGCTT
5319421 AAAATTATATAAAAT-AAAAAATTATGCTT
1 AAAATTATATAAAATCAAAAAATTATGCTT
5319450 AA
1 AA
5319452 TTTTGAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATTATATAAAATCAAAAAATTATGCTT
Found at i:5323623 original size:20 final size:21
Alignment explanation
Indices: 5323584--5323623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
5323574 TTTTTAAATA
* *
5323584 AAAATATTTAATATTTTAATT
1 AAAATATTTAACATTATAATT
5323605 AAAA-ATTTAACATTATAAT
1 AAAATATTTAACATTATAAT
5323624 GAAGGCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATATTTAACATTATAATT
Found at i:5326141 original size:20 final size:20
Alignment explanation
Indices: 5326116--5326157 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
5326106 AAAATGTGAG
*
5326116 TTTGAGTGTGTTAAAGTACA
1 TTTGAGTGTGTTAAAGCACA
5326136 TTTGAGTGTGTTAAAGCACA
1 TTTGAGTGTGTTAAAGCACA
5326156 TT
1 TT
5326158 ATCTTCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (20 bp):
TTTGAGTGTGTTAAAGCACA
Found at i:5326304 original size:20 final size:20
Alignment explanation
Indices: 5326280--5326317 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5326270 TTATAAAATT
5326280 TTTTAACATATTGTTAAAAA
1 TTTTAACATATTGTTAAAAA
* *
5326300 TTTTAATATATTTTTAAA
1 TTTTAACATATTGTTAAA
5326318 GCATTTGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTAACATATTGTTAAAAA
Found at i:5329268 original size:34 final size:36
Alignment explanation
Indices: 5329220--5329305 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 36
5329210 GTCACGAAAA
*
5329220 TTAAAAAATTAAAAATATAACAAACT-AAAAAA-TAT
1 TTAAAAAATAAAAAATATAA-AAACTCAAAAAATTAT
* * *
5329255 TT-TAAAATAAAAAATCTTAAAACTCAAAAAATTAT
1 TTAAAAAATAAAAAATATAAAAACTCAAAAAATTAT
5329290 TTAAAAAACTAAAAAA
1 TTAAAAAA-TAAAAAA
5329306 AATCATAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 5 0.12
34 19 0.45
35 7 0.17
36 4 0.10
37 7 0.17
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (36 bp):
TTAAAAAATAAAAAATATAAAAACTCAAAAAATTAT
Done.