Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 162 of 216
Found at i:50927393 original size:18 final size:18
Alignment explanation
Indices: 50927342--50927442 Score: 62
Period size: 20 Copynumber: 5.4 Consensus size: 18
50927332 TATTAATTTT
* *
50927342 TAATATTTTTGAAATTTATT
1 TAAT-TTTTTAAAATTTA-A
*
50927362 TAATATTTTATAAATTTCAA
1 TAATTTTTTA-AAATTT-AA
*
50927382 TAATTTTTTAAAATTTTA
1 TAATTTTTTAAAATTTAA
* ** *
50927400 TAATTTTTAAAAAAAATAT
1 TAATTTTT-TAAAATTTAA
50927419 TAAATTTTTTAAAA--TAA
1 T-AATTTTTTAAAATTTAA
50927436 TAATTTT
1 TAATTTT
50927443 AATTTTTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.09
17 3 0.05
18 9 0.14
19 20 0.31
20 26 0.40
21 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (18 bp):
TAATTTTTTAAAATTTAA
Found at i:50927424 original size:20 final size:21
Alignment explanation
Indices: 50927391--50927449 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
50927381 ATAATTTTTT
*
50927391 AAAATTTTATAATTTTTAAAA
1 AAAATATTATAATTTTTAAAA
*
50927412 AAAATATTA-AATTTTTTAAA
1 AAAATATTATAATTTTTAAAA
* *
50927432 ATAATAATTTTAATTTTT
1 AAAAT-ATTATAATTTTT
50927450 TTTAAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 14 0.44
21 11 0.34
22 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAATATTATAATTTTTAAAA
Found at i:50927449 original size:23 final size:22
Alignment explanation
Indices: 50927403--50927461 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
50927393 AATTTTATAA
50927403 TTTTTAAAAAAAATATTAA-AT
1 TTTTTAAAAAAAATATTAATAT
* *
50927424 TTTTTAAAATAATAATTTTAATTT
1 TTTTTAAAA-AA-AATATTAATAT
*
50927448 TTTTTAAAAGAAAT
1 TTTTTAAAAAAAAT
50927462 TAAGCTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 9 0.28
22 5 0.16
23 8 0.25
24 10 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTTAAAAAAAATATTAATAT
Found at i:50927462 original size:22 final size:21
Alignment explanation
Indices: 50927391--50927462 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
50927381 ATAATTTTTT
50927391 AAAATTTTATAA-TTTTTAAAA
1 AAAATTTTA-AATTTTTTAAAA
*
50927412 AAAATATTAAATTTTTTAAAA
1 AAAATTTTAAATTTTTTAAAA
*
50927433 TAATAATTTTAATTTTTTTTAAAA
1 -AA-AATTTTAA-ATTTTTTAAAA
*
50927457 GAAATT
1 AAAATT
50927463 AAGCTTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.05
21 17 0.40
22 6 0.14
23 8 0.19
24 10 0.23
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
AAAATTTTAAATTTTTTAAAA
Found at i:50938691 original size:19 final size:21
Alignment explanation
Indices: 50938667--50938712 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
50938657 AACTGCTATT
50938667 TTTTTTACTATTTT-TT-TTG
1 TTTTTTACTATTTTCTTGTTG
*
50938686 TTTTTTATTATTTTCTTGTTG
1 TTTTTTACTATTTTCTTGTTG
50938707 TTTTTT
1 TTTTTT
50938713 TTTTCACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 2 0.08
21 9 0.38
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTTACTATTTTCTTGTTG
Found at i:50941052 original size:89 final size:90
Alignment explanation
Indices: 50940937--50941110 Score: 228
Period size: 89 Copynumber: 1.9 Consensus size: 90
50940927 TTTTTTTCAT
* * * * *
50940937 TCAATTGAGTACTTAAAATTTTAAAATGTACCAAAAAGA-TCCTTAAACTTTTTTAAAA-AATAC
1 TCAATTGAGTACTTAAAATTTAAAAATGCACCAAAAAGACT-CTCAAAATTTTTCAAAACAA-AC
*
50941000 AATTAAG-CCCTTGTTTTTTTTAACAC
64 AATTAAGTCCCTGGTTTTTTTTAACAC
* * *
50941026 TCAATTGAGTACTTGAACTTTAAAAATGCATCAAAAAGACTCTCAAAATTTTTCAAAACAAACAA
1 TCAATTGAGTACTTAAAATTTAAAAATGCACCAAAAAGACTCTCAAAATTTTTCAAAACAAACAA
50941091 TTAAGTCCCTGGTTTTTTTT
66 TTAAGTCCCTGGTTTTTTTT
50941111 TTTCTTTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
89 57 0.78
90 16 0.22
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (90 bp):
TCAATTGAGTACTTAAAATTTAAAAATGCACCAAAAAGACTCTCAAAATTTTTCAAAACAAACAA
TTAAGTCCCTGGTTTTTTTTAACAC
Found at i:50941325 original size:29 final size:28
Alignment explanation
Indices: 50941291--50941364 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
50941281 AATAAAAATC
50941291 AATAAAAGTTATAAAAATGA-TTAAATTAT
1 AATAAAA-TTATAAAAAT-ATTTAAATTAT
* *
50941320 AATAAAAATATAAAAATATTTAAATTTT
1 AATAAAATTATAAAAATATTTAAATTAT
* *
50941348 ATTAAAAATTAGAAAAA
1 AAT-AAAATTATAAAAA
50941365 AAAATTGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 1 0.03
28 19 0.50
29 18 0.47
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
AATAAAATTATAAAAATATTTAAATTAT
Found at i:50941342 original size:28 final size:28
Alignment explanation
Indices: 50941291--50941356 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
50941281 AATAAAAATC
*
50941291 AATAAAAGTTATAAAAATGATTAAATTAT
1 AATAAAA-ATATAAAAATGATTAAATTAT
*
50941320 AATAAAAATATAAAAAT-ATTTAAATTTT
1 AATAAAAATATAAAAATGA-TTAAATTAT
*
50941348 ATTAAAAAT
1 AATAAAAAT
50941357 TAGAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 25 0.76
29 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (28 bp):
AATAAAAATATAAAAATGATTAAATTAT
Found at i:50941406 original size:11 final size:11
Alignment explanation
Indices: 50941392--50941425 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
50941382 AAAAAATTGT
*
50941392 AAAATTTTATA
1 AAAATTTTAAA
*
50941403 AAAATCTTAAA
1 AAAATTTTAAA
50941414 AAAATTTTAAA
1 AAAATTTTAAA
50941425 A
1 A
50941426 TGCATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:50941436 original size:30 final size:30
Alignment explanation
Indices: 50941373--50941436 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
50941363 AAAAAATTGT
**
50941373 AAAATCATAAAAAAATTGTAAAATTTTATA
1 AAAATCATAAAAAAATTGTAAAATCATATA
* *
50941403 AAAATCTTAAAAAAATTTTAAAATGCATA-A
1 AAAATCATAAAAAAATTGTAAAAT-CATATA
50941433 AAAA
1 AAAA
50941437 GACCCTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAATCATAAAAAAATTGTAAAATCATATA
Found at i:50941745 original size:20 final size:21
Alignment explanation
Indices: 50941720--50941766 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
50941710 AAATATTTAG
*
50941720 ATATTTTTAT-ATTTTTATTA
1 ATATTTTTATAACTTTTATTA
50941740 ATATTTTTATAACTTTTATTA
1 ATATTTTTATAACTTTTATTA
50941761 AT-TTTT
1 ATATTTT
50941767 ATTTTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATTTTTATAACTTTTATTA
Found at i:50943926 original size:10 final size:10
Alignment explanation
Indices: 50943911--50943946 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
50943901 GGTAAGTCTG
50943911 AAAAAAATTC
1 AAAAAAATTC
50943921 -AAAAAATTC
1 AAAAAAATTC
*
50943930 AAAAAAAATC
1 AAAAAAATTC
50943940 AAAAAAA
1 AAAAAAA
50943947 ATTCGTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:50943933 original size:8 final size:9
Alignment explanation
Indices: 50943912--50943945 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
50943902 GTAAGTCTGA
50943912 AAAAAATTC
1 AAAAAATTC
50943921 AAAAAATTC
1 AAAAAATTC
*
50943930 AAAAAAAATC
1 -AAAAAATTC
50943940 AAAAAA
1 AAAAAA
50943946 AATTCGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAATTC
Found at i:50948293 original size:19 final size:20
Alignment explanation
Indices: 50948265--50948302 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50948255 TTTATCAAAA
*
50948265 AAAATGAATTT-ATTTGATT
1 AAAATAAATTTAATTTGATT
50948284 AAAATAAATTTAATTTGAT
1 AAAATAAATTTAATTTGAT
50948303 CCTATAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
AAAATAAATTTAATTTGATT
Found at i:50951677 original size:45 final size:45
Alignment explanation
Indices: 50951619--50951708 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
50951609 AAAGAACTTA
50951619 ACCGTTTCCGGGTTCTTTGTATATTTGAAAGTGACTTCATTAACT
1 ACCGTTTCCGGGTTCTTTGTATATTTGAAAGTGACTTCATTAACT
*
50951664 ACCGTTTCCGGGTTCTTTGTATATTTGAAAGTGACTTTATTAACT
1 ACCGTTTCCGGGTTCTTTGTATATTTGAAAGTGACTTCATTAACT
50951709 GTCTCTTTCG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (45 bp):
ACCGTTTCCGGGTTCTTTGTATATTTGAAAGTGACTTCATTAACT
Found at i:50955543 original size:7 final size:7
Alignment explanation
Indices: 50955532--50955563 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
50955522 TGATTGATTT
*
50955532 TGATGAT
1 TGATGAA
50955539 TGATGAA
1 TGATGAA
50955546 TGATGAA
1 TGATGAA
50955553 TGATGAA
1 TGATGAA
50955560 TGAT
1 TGAT
50955564 TATTACTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (7 bp):
TGATGAA
Found at i:50975262 original size:16 final size:17
Alignment explanation
Indices: 50975228--50975265 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
50975218 CTTTTCATTT
* *
50975228 TTATTTTTTTTATATCA
1 TTATTTTTTCTATACCA
50975245 TTATTTTTTCT-TACCA
1 TTATTTTTTCTATACCA
50975261 TTATT
1 TTATT
50975266 ACTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTTCTATACCA
Found at i:50975611 original size:16 final size:17
Alignment explanation
Indices: 50975580--50975612 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50975570 TCTATTATTT
*
50975580 TATATACTATATATATG
1 TATATACTAAATATATG
50975597 TATAT-CTAAATATATG
1 TATATACTAAATATATG
50975613 CGAATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
TATATACTAAATATATG
Found at i:50987231 original size:89 final size:89
Alignment explanation
Indices: 50986604--50987219 Score: 1009
Period size: 89 Copynumber: 6.9 Consensus size: 89
50986594 GAGTAGCAGT
* * * * *
50986604 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA-AAAAGCGGATCTTGTCTTCATGTAT
1 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAA-CAGATCTTGTCTTCATGTAT
* *
50986668 TGGCGGGAAGTAGATCAAGGACAAC
65 TGGCGTGAAGTAGATCAAAGACAAC
* *
50986693 AGATTTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAGAACAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTGTCTTCATGTATT
50986758 GGCGTGAAGTAGATCAAAGACAAC
66 GGCGTGAAGTAGATCAAAGACAAC
*
50986782 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAGAACAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTGTCTTCATGTATT
*
50986847 GGCGTGAAGTAGATCAAAGAGAAC
66 GGCGTGAAGTAGATCAAAGACAAC
* *
50986871 AAATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTATCTTCATGTATT
1 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTGTCTTCATGTATT
50986936 GGCGTGAAGTAGATCAAAGACAAC
66 GGCGTGAAGTAGATCAAAGACAAC
* ** * * *
50986960 AGATCTTGTCTCCCAATACAAGTGGTGGAGTAGATCAAAGAGAATAGATCTTGTCTTCATGTGTT
1 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTGTCTTCATGTATT
*
50987025 GGCGTAAAGTAGATCAAAGACAAC
66 GGCGTGAAGTAGATCAAAGACAAC
*
50987049 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTATCTTCATGTATT
1 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTGTCTTCATGTATT
*
50987114 GGCGTGAAGTAGATCGAAGACAAC
66 GGCGTGAAGTAGATCAAAGACAAC
*
50987138 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGACCTTGTCTTCATGTATT
1 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTGTCTTCATGTATT
50987203 GGCGTGAAGTAGATCAA
66 GGCGTGAAGTAGATCAA
50987220 GCACAGCAGA
Statistics
Matches: 490, Mismatches: 36, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
89 487 0.99
90 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (89 bp):
AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAGAACAGATCTTGTCTTCATGTATT
GGCGTGAAGTAGATCAAAGACAAC
Found at i:50989118 original size:16 final size:17
Alignment explanation
Indices: 50989087--50989119 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50989077 TCTATTATTT
*
50989087 TATATACTATATATATG
1 TATATACTAAATATATG
50989104 TATAT-CTAAATATATG
1 TATATACTAAATATATG
50989120 CGAATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
TATATACTAAATATATG
Found at i:50995393 original size:21 final size:21
Alignment explanation
Indices: 50995364--50995403 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50995354 TGAAATGATT
* *
50995364 CTTTTCAATCCATTGTTTTCA
1 CTTTACAATCAATTGTTTTCA
50995385 CTTTACAATCAATTGTTTT
1 CTTTACAATCAATTGTTTT
50995404 GCTGTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.53
Consensus pattern (21 bp):
CTTTACAATCAATTGTTTTCA
Found at i:51002446 original size:36 final size:37
Alignment explanation
Indices: 51002377--51002446 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
51002367 TAGATTTCTT
* *
51002377 ATATCATTATATTAAATTATTTAAATATTATTTAAAA
1 ATATCATTATAGTAAATTATTTAAATATAATTTAAAA
51002414 ATATCATTATAGTAAA-TATTTAAATATAATTTA
1 ATATCATTATAGTAAATTATTTAAATATAATTTA
51002447 TTATTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 16 0.52
37 15 0.48
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATATCATTATAGTAAATTATTTAAATATAATTTAAAA
Found at i:51005037 original size:6 final size:6
Alignment explanation
Indices: 51005019--51005071 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
51005009 ATAATTTTTG
**
51005019 TATACA TAT--A TATACA TATACA TATACA TATACA T-TTTA TAATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA T-ATACA
51005065 TATACA T
1 TATACA T
51005072 CTTCCTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.10
5 3 0.08
6 29 0.74
7 3 0.08
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (6 bp):
TATACA
Found at i:51005068 original size:24 final size:24
Alignment explanation
Indices: 51005036--51005103 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 24
51005026 ATATATACAT
51005036 ATACATATACATATACATTTTATA
1 ATACATATACATATACATTTTATA
* *
51005060 ATACATATACATCTTCCTATTTTATA
1 ATACATATACAT-ATAC-ATTTTATA
* * *
51005086 ATCCATACATATATACAT
1 ATACATATACATATACAT
51005104 GCATTTTCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
24 14 0.40
25 4 0.11
26 17 0.49
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (24 bp):
ATACATATACATATACATTTTATA
Found at i:51005242 original size:15 final size:16
Alignment explanation
Indices: 51005222--51005254 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
51005212 TTTCAAAATT
51005222 TACTTATATATAT-CA
1 TACTTATATATATACA
51005237 TACTTATATATATACA
1 TACTTATATATATACA
51005253 TA
1 TA
51005255 TTTTGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
TACTTATATATATACA
Found at i:51007240 original size:109 final size:109
Alignment explanation
Indices: 51006836--51007228 Score: 621
Period size: 109 Copynumber: 3.6 Consensus size: 109
51006826 TGGCTATTTG
* * * *
51006836 GCTATTTGGTTAAACGAG--AAATCGACACCCAGCACATTAGGGCATG-TTCCTCAAATTTCCAA
1 GCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAA
* * *
51006898 ACGCAAAACATTGCCTTATTTTGAAATTTTTGAAAGGATATTTG
66 ACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATACTTA
* *
51006942 GCTATTTGGTTGCATGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAA
1 GCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAA
51007007 ACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATACTTA
66 ACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATACTTA
* * * *
51007051 GCTATTTGGTTGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTGTCTCGAATTTTCAA
1 GCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAA
*
51007116 ATGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATACTTA
66 ACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATACTTA
* *
51007160 GCTATTTGGTTGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAA
1 GCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAA
51007225 ACGC
66 ACGC
51007229 TATATATTGC
Statistics
Matches: 265, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
106 15 0.06
108 26 0.10
109 224 0.85
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (109 bp):
GCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAA
ACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATACTTA
Found at i:51008324 original size:45 final size:45
Alignment explanation
Indices: 51008260--51008596 Score: 399
Period size: 45 Copynumber: 7.5 Consensus size: 45
51008250 TTCGTTGTTT
* *
51008260 TTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
51008305 TTCGATTTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
51008350 TTCGATCTACTTCGCTGCCAATACATGAAGACAAGACCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
51008395 TTCGATCTACTTTGCTGCCAGTACAGGAAGACAAGATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
51008440 TTC-AGTCCACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * * * *
51008485 TTTGATCTACTTCAC-GCTAATACATGAAGATAAGATCTGTTTTC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
** * ** * *
51008529 TTCGATCTACTTCGCCACCAGTATGGGAAGACAATATCTACTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
51008574 TTCGATCCACTTCACTACCAATA
1 TTCGATCTACTTCGCTGCCAATA
51008597 TAGGTGTAAG
Statistics
Matches: 247, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
44 39 0.16
45 207 0.84
46 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:51008426 original size:135 final size:134
Alignment explanation
Indices: 51008260--51008596 Score: 460
Period size: 135 Copynumber: 2.5 Consensus size: 134
51008250 TTCGTTGTTT
* **
51008260 TTCGATCTGCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATTTACTTCACTGCCA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACTGCCA
*
51008325 ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACATGAAGACAAGACCTG
66 ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGACCTG
51008390 CTATC
130 CTATC
* * *
51008395 TTCGATCTACTTTGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTC-AGTCCACTTCGCTGCC
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGA-TCCACTTCACTGCC
* * * * *
51008459 AATACAGGAAGATAAGATCTGCTATCTTTGATCTACTTCACGCTAATACATGAAGATAAGATCTG
65 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGACCTG
* *
51008524 TTTTC
130 CTATC
** ** * * *
51008529 TTCGATCTACTTCGCCACCAGTATGGGAAGACAATATCTACTATCTTCGATCCACTTCACTACCA
1 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACTGCCA
51008594 ATA
66 ATA
51008597 TAGGTGTAAG
Statistics
Matches: 176, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
134 81 0.46
135 95 0.54
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (134 bp):
TTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACTGCCA
ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGACCTGC
TATC
Found at i:51014702 original size:6 final size:6
Alignment explanation
Indices: 51014693--51014738 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
51014683 GATTCAAAAA
* *
51014693 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAAC AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
51014739 AAGAAAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (6 bp):
AAAATC
Found at i:51014716 original size:18 final size:18
Alignment explanation
Indices: 51014686--51014738 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
51014676 GGGTTCAGAT
51014686 TCAAAAA-AAAATCAAAA
1 TCAAAAACAAAATCAAAA
*
51014703 TCAAAATCAAAATCAAAA
1 TCAAAAACAAAATCAAAA
*
51014721 TCAAAAACAAAAACAAAA
1 TCAAAAACAAAATCAAAA
51014739 AAGAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 6 0.19
18 26 0.81
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (18 bp):
TCAAAAACAAAATCAAAA
Found at i:51014739 original size:6 final size:6
Alignment explanation
Indices: 51014687--51014757 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
51014677 GGTTCAGATT
* * * * *
51014687 CAAAAA -AAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
*
51014734 CAAAAA -AGAAAA GAAAAA TCAAAA
1 CAAAAA CA-AAAA CAAAAA -CAAAA
51014758 GTAAAAAAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
5 5 0.09
6 48 0.83
7 5 0.09
ACGTcount: A:0.76, C:0.13, G:0.03, T:0.08
Consensus pattern (6 bp):
CAAAAA
Found at i:51014739 original size:12 final size:12
Alignment explanation
Indices: 51014686--51014739 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
51014676 GGGTTCAGAT
51014686 TCAAAAA-AAAA
1 TCAAAAACAAAA
*
51014697 TCAAAATCAAAA
1 TCAAAAACAAAA
*
51014709 TCAAAATCAAAA
1 TCAAAAACAAAA
51014721 TCAAAAACAAAA
1 TCAAAAACAAAA
*
51014733 ACAAAAA
1 TCAAAAA
51014740 AGAAAAGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
11 6 0.15
12 33 0.85
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (12 bp):
TCAAAAACAAAA
Found at i:51016597 original size:87 final size:87
Alignment explanation
Indices: 51016451--51016966 Score: 782
Period size: 87 Copynumber: 5.9 Consensus size: 87
51016441 CAGATAAGTG
* *
51016451 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGATCGAAAACGAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCA
51016516 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * *
51016538 AAGATAGCAGATCTTACCTTCTTGCATTAACAGCGAAGCAGATCAAAAACGAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCA
*
51016603 TCGGTTGCAGTGGAGCTAGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * * * *
51016625 AAGATAGCAGATCTTTCCTTCCTGCATTAACAACGAAGTAGATCGAAAATGAAGCCTTACCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCA
*
51016690 TCAGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
** *
51016712 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGTAAAGCAGATCGAAAACGAAGCCTTGCCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCA
* * * *
51016777 TCGGTTGCATTAGAGCCGGTTG
66 TCGGTTGCAGTGGAGCTGGTTA
51016799 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCA
* *
51016864 TCGGATGTAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* ** *
51016886 AAGATAGCAGATCTTACCTTCCTATATTAACAGCAAAGCAGATCGAAAAC-AATGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAA-GCCTTGCCTCC
*
51016950 ATCAGTTGCAGTGGAGC
65 ATCGGTTGCAGTGGAGC
51016967 AGATTGAAGT
Statistics
Matches: 384, Mismatches: 44, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
86 2 0.01
87 382 0.99
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCTGGTTA
Found at i:51018494 original size:16 final size:15
Alignment explanation
Indices: 51018469--51018503 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
51018459 TTAATAATAA
*
51018469 TATTATTATTATTAC
1 TATTATTATTAGTAC
51018484 TATTAATTATTAGTAC
1 TATT-ATTATTAGTAC
51018500 TATT
1 TATT
51018504 TTTTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (15 bp):
TATTATTATTAGTAC
Found at i:51020977 original size:17 final size:17
Alignment explanation
Indices: 51020955--51020989 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51020945 CATTGGCCTC
51020955 TCTTTTTCTCTT-TTTTT
1 TCTTTTTC-CTTATTTTT
51020972 TCTTTTTCCTTATTTTT
1 TCTTTTTCCTTATTTTT
51020989 T
1 T
51020990 TAAACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTTTCCTTATTTTT
Found at i:51024887 original size:106 final size:107
Alignment explanation
Indices: 51024695--51024897 Score: 293
Period size: 106 Copynumber: 1.9 Consensus size: 107
51024685 TGAATTAAGA
* * * *
51024695 TTTAAGAGGATATTTGACTATTTGGTCAAACGAAAAAATCGAAGCCCAGCACATTAGCGCACGTT
1 TTTAAGAGGATATTCGACTATTTGGTCAAACGAAAAAATCGAAACCAAACACATTAGCGCACGTT
*
51024760 TCCTCGAATTTCCAAACGCAAAATATTACCTTACTCTGAAAT
66 TCCTCGAATTCCCAAACGCAAAATATTACCTTACTCTGAAAT
* * *
51024802 TTTAA-AGGATATTCGGCTATTTGGTCGAACGAAAAAATCGAAACCAAACACATTAGGGCACGCT
1 TTTAAGAGGATATTCGACTATTTGGTCAAACGAAAAAATCGAAACCAAACACATTAGCGCACG-T
* *
51024866 TT-CTCGAATTCCCAAATGCAAAATATTGCCTT
65 TTCCTCGAATTCCCAAACGCAAAATATTACCTT
51024898 TATTATTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
106 77 0.91
107 8 0.09
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (107 bp):
TTTAAGAGGATATTCGACTATTTGGTCAAACGAAAAAATCGAAACCAAACACATTAGCGCACGTT
TCCTCGAATTCCCAAACGCAAAATATTACCTTACTCTGAAAT
Found at i:51025412 original size:18 final size:19
Alignment explanation
Indices: 51025361--51025421 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
51025351 CTGATATTTC
*
51025361 TATTAATTTAAAATA-TAGT
1 TATTAAATTAAAATAGTA-T
* *
51025380 TATTAAATGAGAATAGT-T
1 TATTAAATTAAAATAGTAT
*
51025398 TATTAAATTAAAATAGAAT
1 TATTAAATTAAAATAGTAT
51025417 TATTA
1 TATTA
51025422 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 15 0.44
19 18 0.53
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
TATTAAATTAAAATAGTAT
Found at i:51025957 original size:27 final size:26
Alignment explanation
Indices: 51025919--51025975 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
51025909 TTTTAGTCCT
51025919 TTGGCACATTGGTGCCGCCAATGGCA
1 TTGGCACATTGGTGCCGCCAATGGCA
*
51025945 TTGGCACCTTTGGTGCCGCCAATGGCA
1 TTGGCA-CATTGGTGCCGCCAATGGCA
51025972 TTGG
1 TTGG
51025976 GGTGATCAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (26 bp):
TTGGCACATTGGTGCCGCCAATGGCA
Found at i:51026071 original size:29 final size:29
Alignment explanation
Indices: 51026010--51026109 Score: 168
Period size: 29 Copynumber: 3.5 Consensus size: 29
51026000 TTTTTTTGAT
51026010 ATATTTTGGTAAAT-AAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
*
51026037 TTTATTTTGGTAAATAAAAAAAAAGTTGTA
1 -ATATTTTGGTAAATAAAAAAAAAGTTGTA
51026067 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
51026096 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
51026110 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
28 13 0.19
29 53 0.78
30 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAAAAAAGTTGTA
Found at i:51026592 original size:55 final size:56
Alignment explanation
Indices: 51026533--51026673 Score: 180
Period size: 57 Copynumber: 2.5 Consensus size: 56
51026523 TTGTTATTAA
* *
51026533 ATTTTAATA-AGATTATTATTAAATATAATTTAAT-AATAATAAATAATTTAATCAC
1 ATTTTAATATA-ATTATTATTAAAAATAATTTAATAAATAATAAATAATTTAATAAC
* * *
51026588 ATTTTAATATAATTTTTGTTAAAAATAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAAAATAATTTAAT-AAATAATAAATAATTTAATAAC
*
51026645 ATTCTTAATATAAATATTA-TAAAAATAAT
1 ATT-TTAATATAATTATTATTAAAAATAAT
51026674 ATATAACCTG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
55 29 0.39
56 1 0.01
57 32 0.43
58 12 0.16
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (56 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAAATAATAAATAATTTAATAAC
Found at i:51026987 original size:21 final size:21
Alignment explanation
Indices: 51026960--51027013 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
51026950 TGATTTGTTA
*
51026960 TTTTTGCTACTGTTTTTTCA-
1 TTTTTGCTACTGTTTTCTCAC
*
51026980 TGTTTTGCTATTGTTTTCTCAC
1 T-TTTTGCTACTGTTTTCTCAC
*
51027002 TTTTTGCCACTG
1 TTTTTGCTACTG
51027014 CCTTCCATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.09, C:0.19, G:0.13, T:0.59
Consensus pattern (21 bp):
TTTTTGCTACTGTTTTCTCAC
Found at i:51037415 original size:31 final size:31
Alignment explanation
Indices: 51037373--51037480 Score: 137
Period size: 31 Copynumber: 3.5 Consensus size: 31
51037363 AAGTTATTAT
*
51037373 TTGGGGCCTGAACTTGGAAACTTTTCCCACA
1 TTGGGGCCTGAACTTGGCAACTTTTCCCACA
*
51037404 TTGGGGTCTGAACTTGGCAA-TTGTTCCCACA
1 TTGGGGCCTGAACTTGGCAACTT-TTCCCACA
* * * *
51037435 TTAGGACCTGCACTTGGCAGCTTTTCCCACA
1 TTGGGGCCTGAACTTGGCAACTTTTCCCACA
*
51037466 TTGGTGCCTGAACTT
1 TTGGGGCCTGAACTT
51037481 CTTTTTGGTC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
30 2 0.03
31 60 0.94
32 2 0.03
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.31
Consensus pattern (31 bp):
TTGGGGCCTGAACTTGGCAACTTTTCCCACA
Found at i:51037632 original size:60 final size:58
Alignment explanation
Indices: 51037556--51037669 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 58
51037546 TTTTCAAGGA
* * *
51037556 CTAACTTGGATAAAAAAAAAGTTGAAGT-CCCAATGTGGGAACATTTTCCAAGTTCAGGGC
1 CTAACTTGGA-CAAAAAAAAGTT-AAGTCCCCAATGTGGGAA-AGTTGCCAAGTTCAGGGC
* * *
51037616 CTAACTTGGACCAAAAAAAGTTCAGTCCCCTATGTGGGAAAGTTGCCAAGTTCA
1 CTAACTTGGACAAAAAAAAGTTAAGTCCCCAATGTGGGAAAGTTGCCAAGTTCA
51037670 AATCCCAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 15 0.32
59 22 0.47
60 10 0.21
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (58 bp):
CTAACTTGGACAAAAAAAAGTTAAGTCCCCAATGTGGGAAAGTTGCCAAGTTCAGGGC
Found at i:51044348 original size:102 final size:100
Alignment explanation
Indices: 51044241--51044478 Score: 257
Period size: 102 Copynumber: 2.3 Consensus size: 100
51044231 ATGTCACTTT
*
51044241 TTCATGTGGAGTCACCAAAATCAGTAAAAAAAAACTC-CCTAATGA-CAACTCTAGATGTGGCGG
1 TTCATGTGGAGTCACCAAAATCAGTAAAAAAAAACTCACCCAAT-ACCAACTCTAGATGTGGCGG
* * **
51044304 CACC-AGTAATTCTTTTTTTTACTTTTTCGGTGTTGCCTC
65 CACCGA-TAA---TTTATTTTACTTTTTCGATAATGCCTC
* ** * * *
51044343 TTCATGTGGAGTCACCCAAATCAGTAAAAAGAAATTTTCACCCAATACCAACTTTAGTTGTGGTG
1 TTCATGTGGAGTCACCAAAATCAGTAAAAA-AAA-ACTCACCCAATACCAACTCTAGATGTGGCG
*
51044408 GCACCGATAATTTATTTTACTTTTTTGATAATGCCTC
64 GCACCGATAATTTATTTTACTTTTTCGATAATGCCTC
* * *
51044445 TTCATGTGGAGGCACTAAAATCTGTAAAAAAAAA
1 TTCATGTGGAGTCACCAAAATCAGTAAAAAAAAA
51044479 TTTTCCTAGT
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
101 3 0.03
102 77 0.68
103 3 0.03
104 3 0.03
105 27 0.24
106 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (100 bp):
TTCATGTGGAGTCACCAAAATCAGTAAAAAAAAACTCACCCAATACCAACTCTAGATGTGGCGGC
ACCGATAATTTATTTTACTTTTTCGATAATGCCTC
Found at i:51044710 original size:101 final size:102
Alignment explanation
Indices: 51044440--51044712 Score: 279
Period size: 102 Copynumber: 2.6 Consensus size: 102
51044430 TTTTGATAAT
* * *
51044440 GCCTCTTCATGTGGAGGCACTAAAATCTGTAAAAAAAAATTTTCC-TAGTGTCAACTCCAAATGT
1 GCCTCTTTATGTGG-GGCACCAAAATCTGTAAAAAAAAA-TTTCCTTGGTGTCAACTCCAAATGT
* * **
51044504 GGCAACACTGGTACTTGTTATTTTTTGAATTATTCGGTGCC
64 GACAACACTAGTA--TGTTATTTTTTGAATTATTCAATGCC
* * * *
51044545 GCCTCTATATGTAGAGGCACCAAAATCTGTAAAAAGAAAATTTCCTCTGGTGCCAACTCAAAATG
1 GCCTCTTTATGT-GGGGCACCAAAATCTGTAAAAA-AAAATTTCCT-TGGTGTCAACTCCAAATG
* *
51044610 TGATAGCACTAGTA-G-T-TTTTTTGAAATT-TTCAATGCC
63 TGACAACACTAGTATGTTATTTTTTG-AATTATTCAATGCC
*
51044647 -CCTTCTTTATGTGGGGACACCAAAATCAGTAAAAAAAAATTTCCCTTGGTGTCAACTCCAAATG
1 GCC-TCTTTATGTGGGG-CACCAAAATCTGTAAAAAAAAATTT-CCTTGGTGTCAACTCCAAATG
51044711 TG
63 TG
51044713 GTGGCAACTG
Statistics
Matches: 142, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
101 30 0.21
102 42 0.30
103 5 0.04
104 1 0.01
105 34 0.24
106 5 0.04
107 25 0.18
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (102 bp):
GCCTCTTTATGTGGGGCACCAAAATCTGTAAAAAAAAATTTCCTTGGTGTCAACTCCAAATGTGA
CAACACTAGTATGTTATTTTTTGAATTATTCAATGCC
Found at i:51045933 original size:101 final size:100
Alignment explanation
Indices: 51045637--51045936 Score: 408
Period size: 101 Copynumber: 3.0 Consensus size: 100
51045627 ATAGCTAGTA
* * *
51045637 GTGCCGCCACATTTAGAGTTGACACCAAGAGAAATTTTTTTTTACTGATTTTGGTGCCTCCACAT
1 GTGCCGCCACATTTAGAGTTGGCA-CTAGGGAAATTTTTTTTTACTGATTTTGGTGCCTCCACAT
*
51045702 GAAGAGGCGACACCGAAAAATTCAAAAAAAAATTATAG
65 GAAGAGGCGACACCGAAAAATT--AAAAAAATTTATAG
* * *
51045740 GTGTCGTCACATTTGGAGTTGGCACTA-GGAAATTTTTTTTTA-TAGATTTTGGTGCCTCCACAT
1 GTGCCGCCACATTTAGAGTTGGCACTAGGGAAATTTTTTTTTACT-GATTTTGGTGCCTCCACAT
* *
51045803 GATGAGGCGACACCGAAAAAGTAAAAAAATTTACT-G
65 GAAGAGGCGACACCGAAAAATTAAAAAAATTTA-TAG
* * *
51045839 GTGCCGCCACATCTAAAGTTGGCACTAGGGGAATTTCTTTTTTACTGATTTTGGTGCCTCCACAT
1 GTGCCGCCACATTTAGAGTTGGCACTAGGGAAATTT-TTTTTTACTGATTTTGGTGCCTCCACAT
*
51045904 GAAGAGGCGGCACCGAAAAATTAAAAAAATTTA
65 GAAGAGGCGACACCGAAAAATTAAAAAAATTTA
51045937 ACAAAAATTA
Statistics
Matches: 174, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
99 33 0.19
100 9 0.05
101 109 0.63
102 3 0.02
103 20 0.11
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (100 bp):
GTGCCGCCACATTTAGAGTTGGCACTAGGGAAATTTTTTTTTACTGATTTTGGTGCCTCCACATG
AAGAGGCGACACCGAAAAATTAAAAAAATTTATAG
Found at i:51050893 original size:40 final size:40
Alignment explanation
Indices: 51050838--51050952 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 40
51050828 CAACTTTCGT
51050838 CAGTTTATCTGACTAGTGCTAGGCACATAATTATATTTGC
1 CAGTTTATCTGACTAGTGCTAGGCACATAATTATATTTGC
* * * * *
51050878 CAGTTTATCTGACTAGCGTTAGGCAC--AA--ATCTTCGT
1 CAGTTTATCTGACTAGTGCTAGGCACATAATTATATTTGC
* *
51050914 CAGTTTATCTGACTAATGCT-GGCACACTTATTATATTTG
1 CAGTTTATCTGACTAGTGCTAGGCACA-TAATTATATTTG
51050953 TCGGTTTACC
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
35 5 0.08
36 22 0.37
38 3 0.05
40 29 0.49
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (40 bp):
CAGTTTATCTGACTAGTGCTAGGCACATAATTATATTTGC
Found at i:51050938 original size:75 final size:76
Alignment explanation
Indices: 51050805--51050976 Score: 224
Period size: 76 Copynumber: 2.3 Consensus size: 76
51050795 ATATTTGTTG
* * *
51050805 GTTTATCCGACTAGCTCTAGGCGCAACTTTCGTCAGTTTATCTGACTAGTGCTAGGCACA-TAAT
1 GTTTATCCGACTAGCTCTAGGCACAAATTTCGTCAGTTTATCTGACTAATGCTAGGCACACTAAT
51050869 TATATTTGCCA
66 TATATTTGCCA
* *
51050880 GTTTATCTGACTAGCGT-TAGGCACAAATCTTCGTCAGTTTATCTGACTAATGCT-GGCACACTT
1 GTTTATCCGACTAGC-TCTAGGCACAAAT-TTCGTCAGTTTATCTGACTAATGCTAGGCACACTA
* *
51050943 ATTATATTTGTCG
64 ATTATATTTGCCA
* *
51050956 GTTTACCCGACTAGCACTAGG
1 GTTTATCCGACTAGCTCTAGG
51050977 TGCAAAACTT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
75 29 0.35
76 54 0.65
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (76 bp):
GTTTATCCGACTAGCTCTAGGCACAAATTTCGTCAGTTTATCTGACTAATGCTAGGCACACTAAT
TATATTTGCCA
Found at i:51054217 original size:28 final size:28
Alignment explanation
Indices: 51054177--51054375 Score: 236
Period size: 28 Copynumber: 7.1 Consensus size: 28
51054167 ACATGTCATA
* *
51054177 AAAAAGGAAGCCTTTGTGGTGATTTATG
1 AAAAGGGAAGCCTTTGTGGTGATCTATG
* * *
51054205 AAAAGAGAAGCCTTTGTGGCGATCTATA
1 AAAAGGGAAGCCTTTGTGGTGATCTATG
*
51054233 AAAAGGGAAGCCTTTGTGGTGATCTATA
1 AAAAGGGAAGCCTTTGTGGTGATCTATG
* *
51054261 AAAAGGGAAGCCTTTATGGTGATCTATA
1 AAAAGGGAAGCCTTTGTGGTGATCTATG
* **
51054289 AAAAGGAAAGCCTTTGTGGCAATCTATG
1 AAAAGGGAAGCCTTTGTGGTGATCTATG
** * *
51054317 AAAATTGAAGCCTTTGTCGCGATCTATG
1 AAAAGGGAAGCCTTTGTGGTGATCTATG
* * *
51054345 AAAAGGGAAGTCTTTGTGGTAATATATG
1 AAAAGGGAAGCCTTTGTGGTGATCTATG
51054373 AAA
1 AAA
51054376 TAGAAGCTTG
Statistics
Matches: 146, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 146 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.29
Consensus pattern (28 bp):
AAAAGGGAAGCCTTTGTGGTGATCTATG
Found at i:51054265 original size:56 final size:56
Alignment explanation
Indices: 51054174--51054375 Score: 260
Period size: 56 Copynumber: 3.6 Consensus size: 56
51054164 TAAACATGTC
* *
51054174 ATAAAAAAGGAAGCCTTTGTGGTGATTTATGAAAAGAGAAGCCTTTGTGGCGATCT
1 ATAAAAAGGGAAGCCTTTGTGGTGATCTATGAAAAGAGAAGCCTTTGTGGCGATCT
* * * *
51054230 ATAAAAAGGGAAGCCTTTGTGGTGATCTATAAAAAGGGAAGCCTTTATGGTGATCT
1 ATAAAAAGGGAAGCCTTTGTGGTGATCTATGAAAAGAGAAGCCTTTGTGGCGATCT
* ** ** *
51054286 ATAAAAAGGAAAGCCTTTGTGGCAATCTATGAAAATTGAAGCCTTTGTCGCGATCT
1 ATAAAAAGGGAAGCCTTTGTGGTGATCTATGAAAAGAGAAGCCTTTGTGGCGATCT
* * * *
51054342 ATGAAAAGGGAAGTCTTTGTGGTAATATATGAAA
1 ATAAAAAGGGAAGCCTTTGTGGTGATCTATGAAA
51054376 TAGAAGCTTG
Statistics
Matches: 126, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 126 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (56 bp):
ATAAAAAGGGAAGCCTTTGTGGTGATCTATGAAAAGAGAAGCCTTTGTGGCGATCT
Found at i:51057542 original size:18 final size:18
Alignment explanation
Indices: 51057519--51057559 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
51057509 CACCCTCTCC
51057519 TGTGTTGAGTGGTTCCTA
1 TGTGTTGAGTGGTTCCTA
51057537 TGTGTTGAGTGGTTCCTA
1 TGTGTTGAGTGGTTCCTA
51057555 TGTGT
1 TGTGT
51057560 CATTAAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.10, G:0.34, T:0.46
Consensus pattern (18 bp):
TGTGTTGAGTGGTTCCTA
Found at i:51063357 original size:16 final size:18
Alignment explanation
Indices: 51063336--51063381 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
51063326 TTAGCTTGTG
51063336 TTTATATTATAA-A-ATA
1 TTTATATTATAATATATA
51063352 TTTATAAATTATAATATATA
1 TTTAT--ATTATAATATATA
51063372 TTTATTATTA
1 TTTA-TATTA
51063382 GATAGGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.20
18 7 0.28
19 5 0.20
20 7 0.28
21 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATATTATAATATATA
Found at i:51065078 original size:21 final size:21
Alignment explanation
Indices: 51065054--51065096 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51065044 ATTAGTGTTC
* *
51065054 ACTCTTTTGTATAGGTTAATA
1 ACTCTTTTGTATAAGCTAATA
51065075 ACTCTTTTGTATAAGCTAATA
1 ACTCTTTTGTATAAGCTAATA
51065096 A
1 A
51065097 TTGTCGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (21 bp):
ACTCTTTTGTATAAGCTAATA
Found at i:51066055 original size:16 final size:16
Alignment explanation
Indices: 51066034--51066064 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51066024 TTCACTATTA
*
51066034 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
51066050 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
51066065 GCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:51070561 original size:37 final size:37
Alignment explanation
Indices: 51070498--51070610 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 37
51070488 ATTTCAAAAA
*
51070498 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
51070534 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
51070572 GAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAATATT
51070609 TA
1 TA
51070611 TCTTGTAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.57
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:51072114 original size:57 final size:57
Alignment explanation
Indices: 51072044--51072205 Score: 297
Period size: 57 Copynumber: 2.8 Consensus size: 57
51072034 AGAAATGGGA
* *
51072044 AATCATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGGAGAAATTG
1 AATCATATGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAATTG
51072101 AATCATATGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAATTG
1 AATCATATGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAATTG
*
51072158 AATCATATAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATG
1 AATCATATGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATG
51072206 AAAATGAAAA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 102 1.00
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.31
Consensus pattern (57 bp):
AATCATATGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAATTG
Found at i:51072218 original size:13 final size:13
Alignment explanation
Indices: 51072188--51072225 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
51072178 GGTTTTCTCC
51072188 AAAATGAAAATG-
1 AAAATGAAAATGA
51072200 AAAATGAAAATGA
1 AAAATGAAAATGA
51072213 AAAATGAAAATGA
1 AAAATGAAAATGA
51072226 CCTGAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:51072238 original size:7 final size:6
Alignment explanation
Indices: 51072188--51072225 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
51072178 GGTTTTCTCC
51072188 AAAATG AAAATG AAAATG AAAATG AAAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG -AAAATG AAAATG A
51072226 CCTGAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:51072484 original size:30 final size:30
Alignment explanation
Indices: 51072448--51072507 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
51072438 AGACTAGGAG
51072448 TTTGTTTTTCTAGTTGAAATAAACTTCTAC
1 TTTGTTTTTCTAGTTGAAATAAACTTCTAC
*
51072478 TTTGTTTTTCTAGTTGTAATAAACTTCTAC
1 TTTGTTTTTCTAGTTGAAATAAACTTCTAC
51072508 AATTCAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (30 bp):
TTTGTTTTTCTAGTTGAAATAAACTTCTAC
Found at i:51073724 original size:24 final size:24
Alignment explanation
Indices: 51073697--51073749 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
51073687 GGCTTTGAGA
*
51073697 CTAAAATTGAAATTAACCAATGGT
1 CTAAAATTGAAATTAAACAATGGT
*
51073721 CT-AAATTGCAATTAAACAATGGT
1 CTAAAATTGAAATTAAACAATGGT
*
51073744 CCAAAA
1 CTAAAA
51073750 CAACAATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (24 bp):
CTAAAATTGAAATTAAACAATGGT
Found at i:51078143 original size:80 final size:78
Alignment explanation
Indices: 51078059--51078316 Score: 331
Period size: 80 Copynumber: 3.3 Consensus size: 78
51078049 AAAATATATA
*
51078059 AATTGAATTAAAGGTATGGATTTTATATATGTATATGTGAGGTTTTCGAATATATATGTATATAC
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGG--TTCGAATATATATGTATATAC
51078124 ATGTATAAGTTCTTG
64 ATGTATAAGTTCTTG
* * *
51078139 AATTGAATTAAAGTTATGAATTATATATATGTATAAGTGAGGTTCGAATATATATATGTATATAC
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCG-A-ATATATATGTATATAC
*
51078204 ATGTATAAGTTTTTG
64 ATGTATAAGTTCTTG
* * * * *
51078219 AATTGAATTAAAGGTATGAATTTTACATATGTATGTGTGTGATTCG-A-ATAGATGTATATACAT
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
* * *
51078282 ATACAAGTACTTG
66 GTATAAGTTCTTG
* *
51078295 AGTTGAATTAAAAGTATGAATT
1 AATTGAATTAAAGGTATGAATT
51078317 GTAAATACTT
Statistics
Matches: 157, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
76 44 0.28
77 1 0.01
78 4 0.03
79 1 0.01
80 107 0.68
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (78 bp):
AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
GTATAAGTTCTTG
Found at i:51078715 original size:31 final size:30
Alignment explanation
Indices: 51078677--51078903 Score: 167
Period size: 31 Copynumber: 7.2 Consensus size: 30
51078667 GATAAGTATA
*
51078677 TATATGCATTTGGTTATATACCTTTGATGTG
1 TATATGCATTCGGTTATATA-CTTTGATGTG
* *
51078708 TATATGCATTCGATT-TAAGTA-TTTGATAGGTA
1 TATATGCATTCGGTTAT-A-TACTTTGAT--GTG
* *
51078740 TATATGCATTCGGTTGTACACATTTGATGTG
1 TATATGCATTCGGTTATATAC-TTTGATGTG
* *
51078771 TATATGCATTCGATTATAAGTA-TTTGATAGGTA
1 TATATGCATTCGGTTAT-A-TACTTTGAT--GTG
*
51078804 TATATGCATTCGGTTGTATACATTTGATGTG
1 TATATGCATTCGGTTATATAC-TTTGATGTG
* *
51078835 TATATGCATTCGGTTATAAGTA-GTTGATAAGTA
1 TATATGCATTCGGTTAT-A-TACTTTGAT--GTG
*
51078868 TATATGCATTCGGTTATAAGTA-TTTGATGAG
1 TATATGCATTCGGTTAT-A-TACTTTGATGTG
51078899 TATAT
1 TATAT
51078904 ACATACATTT
Statistics
Matches: 160, Mismatches: 19, Indels: 34
0.75 0.09 0.16
Matches are distributed among these distances:
30 7 0.04
31 69 0.43
32 22 0.14
33 62 0.39
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (30 bp):
TATATGCATTCGGTTATATACTTTGATGTG
Found at i:51078774 original size:33 final size:33
Alignment explanation
Indices: 51078675--51078904 Score: 216
Period size: 33 Copynumber: 7.2 Consensus size: 33
51078665 TTGATAAGTA
*
51078675 TATATATGCATTTGGTTAT-A-TACCTTTGATGTG
1 TATATATGCATTCGGTTATAAGTA--TTTGATGTG
*
51078708 --TATATGCATTCGATT-TAAGTATTTGATAG-G
1 TATATATGCATTCGGTTATAAGTATTTGAT-GTG
* *
51078738 TATATATGCATTCGGTTGTACA-CATTTGATGTG
1 TATATATGCATTCGGTTATA-AGTATTTGATGTG
*
51078771 --TATATGCATTCGATTATAAGTATTTGATAG-G
1 TATATATGCATTCGGTTATAAGTATTTGAT-GTG
* *
51078802 TATATATGCATTCGGTTGTATA-CATTTGATGTG
1 TATATATGCATTCGGTTATA-AGTATTTGATGTG
* **
51078835 --TATATGCATTCGGTTATAAGTAGTTGATAAG
1 TATATATGCATTCGGTTATAAGTATTTGATGTG
*
51078866 TATATATGCATTCGGTTATAAGTATTTGATGAG
1 TATATATGCATTCGGTTATAAGTATTTGATGTG
51078899 TATATA
1 TATATA
51078905 CATACATTTG
Statistics
Matches: 163, Mismatches: 17, Indels: 34
0.76 0.08 0.16
Matches are distributed among these distances:
30 10 0.06
31 63 0.39
32 19 0.12
33 69 0.42
34 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (33 bp):
TATATATGCATTCGGTTATAAGTATTTGATGTG
Found at i:51078812 original size:64 final size:64
Alignment explanation
Indices: 51078675--51078882 Score: 346
Period size: 64 Copynumber: 3.3 Consensus size: 64
51078665 TTGATAAGTA
* * *
51078675 TATATATGCATTTGGTTATATACCTTTGATGTGTATATGCATTCGATT-TAAGTATTTGATAGG
1 TATATATGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGATTATAAGTATTTGATAGG
*
51078738 TATATATGCATTCGGTTGTACACATTTGATGTGTATATGCATTCGATTATAAGTATTTGATAGG
1 TATATATGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGATTATAAGTATTTGATAGG
* * *
51078802 TATATATGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGGTTATAAGTAGTTGATAAG
1 TATATATGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGATTATAAGTATTTGATAGG
51078866 TATATATGCATTCGGTT
1 TATATATGCATTCGGTT
51078883 ATAAGTATTT
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
63 44 0.32
64 92 0.68
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (64 bp):
TATATATGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGATTATAAGTATTTGATAGG
Found at i:51078893 original size:64 final size:64
Alignment explanation
Indices: 51078662--51078903 Score: 335
Period size: 64 Copynumber: 3.8 Consensus size: 64
51078652 ATTTATATCT
* * *
51078662 TATTTGATAAGTATATATATGCATTTGGTTATATACCTTTGATGTGTATATGCATTCGATT-TAA
1 TATTTGATAAG--TATATATGCATTCGGTTATACACATTTGATGTGTATATGCATTCGATTATAA
51078726 G
64 G
* *
51078727 TATTTGATAGGTATATATGCATTCGGTTGTACACATTTGATGTGTATATGCATTCGATTATAAG
1 TATTTGATAAGTATATATGCATTCGGTTATACACATTTGATGTGTATATGCATTCGATTATAAG
* * * *
51078791 TATTTGATAGGTATATATGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGGTTATAAG
1 TATTTGATAAGTATATATGCATTCGGTTATACACATTTGATGTGTATATGCATTCGATTATAAG
* * *
51078855 TAGTTGATAAGTATATATGCATTCGGTTATA-AGTATTTGATGAGTATAT
1 TATTTGATAAGTATATATGCATTCGGTTATACA-CATTTGATGTGTATAT
51078904 ACATACATTT
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
63 45 0.28
64 108 0.66
65 10 0.06
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (64 bp):
TATTTGATAAGTATATATGCATTCGGTTATACACATTTGATGTGTATATGCATTCGATTATAAG
Found at i:51082962 original size:32 final size:32
Alignment explanation
Indices: 51082921--51082986 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
51082911 GTAACGCCCA
51082921 AAATTGGTACTGAATTGATTGTTTAATGTCTT
1 AAATTGGTACTGAATTGATTGTTTAATGTCTT
*
51082953 AAATTGGTACTTAATTGATTGTTTAATGTCTT
1 AAATTGGTACTGAATTGATTGTTTAATGTCTT
51082985 AA
1 AA
51082987 TGTCGAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (32 bp):
AAATTGGTACTGAATTGATTGTTTAATGTCTT
Found at i:51083998 original size:16 final size:15
Alignment explanation
Indices: 51083974--51084013 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
51083964 AATGAGTGAA
51083974 ATTAAAGAAAAAACAT
1 ATTAAAGAAAAAA-AT
* *
51083990 ATTATAGAATAAAAT
1 ATTAAAGAAAAAAAT
51084005 ATTAAAGAA
1 ATTAAAGAA
51084014 TGTATATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (15 bp):
ATTAAAGAAAAAAAT
Found at i:51084008 original size:15 final size:16
Alignment explanation
Indices: 51083974--51084014 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
51083964 AATGAGTGAA
*
51083974 ATTAAAGAAAAAACAT
1 ATTAAAGAATAAACAT
*
51083990 ATTATAGAATAAA-AT
1 ATTAAAGAATAAACAT
51084005 ATTAAAGAAT
1 ATTAAAGAAT
51084015 GTATATATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (16 bp):
ATTAAAGAATAAACAT
Found at i:51089781 original size:12 final size:13
Alignment explanation
Indices: 51089764--51089793 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
51089754 TTTTTTGTAT
51089764 TTTTATTTA-TTA
1 TTTTATTTATTTA
51089776 TTTTATTTATTTA
1 TTTTATTTATTTA
51089789 TTTTA
1 TTTTA
51089794 CAACTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:51102544 original size:13 final size:13
Alignment explanation
Indices: 51102513--51102537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51102503 CTAATTCTAT
51102513 AAAAAAACTTATA
1 AAAAAAACTTATA
51102526 AAAAAAACTTAT
1 AAAAAAACTTAT
51102538 TTAAAAAGCA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAAACTTATA
Found at i:51102897 original size:19 final size:20
Alignment explanation
Indices: 51102862--51102900 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
51102852 TTCCAAAAAT
*
51102862 CTTAGAAAATGTTTTGAACA
1 CTTAGAAAATATTTTGAACA
51102882 CTTAGAAAA-ATTTTGAACA
1 CTTAGAAAATATTTTGAACA
51102901 AAATTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
CTTAGAAAATATTTTGAACA
Found at i:51102943 original size:20 final size:20
Alignment explanation
Indices: 51102918--51102960 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
51102908 AAAACAGTTT
*
51102918 AAACATTTTTAACTCAATTG
1 AAACATTTTTAAATCAATTG
*
51102938 AAACATTTTTAAATCGATTG
1 AAACATTTTTAAATCAATTG
51102958 AAA
1 AAA
51102961 AATTGTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (20 bp):
AAACATTTTTAAATCAATTG
Found at i:51103626 original size:22 final size:23
Alignment explanation
Indices: 51103601--51103644 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
51103591 ATGGTTATGC
51103601 AAATGCA-ATATTTT-AGAAAACG
1 AAATGCAGAT-TTTTCAGAAAACG
51103623 AAATGCAGATTTTTCAGAAAAC
1 AAATGCAGATTTTTCAGAAAAC
51103645 TTCCTACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (23 bp):
AAATGCAGATTTTTCAGAAAACG
Found at i:51103818 original size:46 final size:47
Alignment explanation
Indices: 51103763--51103862 Score: 139
Period size: 47 Copynumber: 2.1 Consensus size: 47
51103753 GCCAAATCGG
* *
51103763 ATATATGTGGTCAAGCCACTAT-ATTGCAGCCAAGTTGCCAGAACAA
1 ATATATGTGGTCAAGCCACTATAAATGCAGCCAAGCTGCCAGAACAA
* * *
51103809 ATATGTGTGGTCGAGCCACTATAAATGCAGTCAAGCTGCCAGAACAA
1 ATATATGTGGTCAAGCCACTATAAATGCAGCCAAGCTGCCAGAACAA
*
51103856 AAATATG
1 ATATATG
51103863 GTTAAATCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 20 0.43
47 26 0.57
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (47 bp):
ATATATGTGGTCAAGCCACTATAAATGCAGCCAAGCTGCCAGAACAA
Found at i:51105620 original size:16 final size:16
Alignment explanation
Indices: 51105596--51105648 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
51105586 TGGTTCACTA
* *
51105596 TAATGGAATAGAGCTG
1 TAATTGAATAGAGTTG
51105612 TAATTGAATAGAGTTG
1 TAATTGAATAGAGTTG
*
51105628 TAATAGAATAGAGTTG
1 TAATTGAATAGAGTTG
51105644 TAATT
1 TAATT
51105649 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.34
Consensus pattern (16 bp):
TAATTGAATAGAGTTG
Found at i:51105886 original size:58 final size:57
Alignment explanation
Indices: 51105814--51105947 Score: 178
Period size: 58 Copynumber: 2.3 Consensus size: 57
51105804 TTGTTATTAA
* * * * * *
51105814 ATTTTAATAAAATTATTTTTAAATATATTTTAATAAAAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATACAATTTAAT-AAAATAATAAATAATTTAATAAC
* *
51105872 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAC
51105929 ATTCTTAATATAATTATTA
1 ATT-TTAATATAATTATTA
51105948 CAATATGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
57 23 0.35
58 43 0.65
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAC
Found at i:51105987 original size:23 final size:21
Alignment explanation
Indices: 51105956--51105998 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51105946 TACAATATGA
51105956 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
51105979 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
51105999 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:51115034 original size:18 final size:18
Alignment explanation
Indices: 51114992--51115034 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
51114982 GCCCATTCCG
*
51114992 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
51115010 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
51115028 AAGTATG
1 AAGTATG
51115035 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:51115538 original size:28 final size:28
Alignment explanation
Indices: 51115470--51115651 Score: 269
Period size: 28 Copynumber: 6.5 Consensus size: 28
51115460 CATGAGATTG
* * *
51115470 GCACTAAGTGTGCGGGTTTAAAT-TGTACA
1 GCACTAAGTGTGCGAGTTTGATTATGT--A
51115499 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
51115527 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
51115555 GCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
51115583 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
51115611 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
51115638 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
51115652 GACATAATAT
Statistics
Matches: 145, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 24 0.17
28 98 0.68
29 20 0.14
30 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:51123122 original size:21 final size:22
Alignment explanation
Indices: 51123090--51123132 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
51123080 GAAAATAAAA
*
51123090 TTTTATATATAGTTTGTAACTT
1 TTTTATATATAGTTTCTAACTT
51123112 TTTTATA-ATAGTTTCTAACTT
1 TTTTATATATAGTTTCTAACTT
51123133 AAATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTTATATATAGTTTCTAACTT
Found at i:51127833 original size:37 final size:36
Alignment explanation
Indices: 51127782--51127889 Score: 107
Period size: 37 Copynumber: 2.9 Consensus size: 36
51127772 ATTTCAAAAA
*
51127782 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATAT
*
51127818 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
*
51127855 TAAAGTGATTATCTTAATA-TTAAAT-TTAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAATTTAAT
51127890 GTTTATCTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
36 13 0.21
37 29 0.48
38 6 0.10
39 12 0.20
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:51130098 original size:101 final size:102
Alignment explanation
Indices: 51129973--51130157 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
51129963 AAAGTGATGG
* *
51129973 TCACATGTGTAGTACTATGTGCAGGCTACTATGTATACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTATACCGG-ATGATAATGATCACATGTGTAGT
*
51130036 ACTATGTGCAGGCTACTATGCGTATCGGATAGTTTCGA
65 ACTATGTACAGGCTACTATGCGTATCGGATAGTTTCGA
* * * *
51130074 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGTAATGATCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTATACCGGATGATAATGATCACATGTGTAGTA
*
51130139 GTATGTACAGGCTACTATG
66 CTATGTACAGGCTACTATG
51130158 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.53
102 31 0.42
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTATACCGGATGATAATGATCACATGTGTAGTA
CTATGTACAGGCTACTATGCGTATCGGATAGTTTCGA
Found at i:51130104 original size:51 final size:51
Alignment explanation
Indices: 51129973--51130159 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 51
51129963 AAAGTGATGG
* * * *
51129973 TCACATGTGTAGTACTATGTGCAGGCTACTATGTATACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTAAT-GA
* * *
51130023 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTAAT-GA
* *
51130074 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGTAATGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTAATGA
* *
51130125 TCACATGTGTAGTAGTATGTACAGGCTACTATGTG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTG
51130160 AACCGAACAT
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
50 38 0.32
51 79 0.66
52 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTAATGA
Found at i:51130195 original size:38 final size:39
Alignment explanation
Indices: 51130148--51130242 Score: 93
Period size: 45 Copynumber: 2.3 Consensus size: 39
51130138 AGTATGTACA
* *
51130148 GGCTACTATGTGA-ACCGAACATCATTGATTAGTAAGGT
1 GGCTGCTATGTGACACCGAACATCATTGATTAATAAGGT
*
51130186 GGCTGCTATGTGTTGATTCCACCGGACATCATTGATTAATAAGGT
1 GGCTGCTA--TG-TGA---CACCGAACATCATTGATTAATAAGGT
*
51130231 GGTTGCTATGTG
1 GGCTGCTATGTG
51130243 CTGAATCCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
38 7 0.15
40 2 0.04
41 3 0.07
42 2 0.04
43 2 0.04
45 30 0.65
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (39 bp):
GGCTGCTATGTGACACCGAACATCATTGATTAATAAGGT
Found at i:51130217 original size:45 final size:45
Alignment explanation
Indices: 51130161--51130255 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
51130151 TACTATGTGA
* * *
51130161 ACCGAACATCATTGATTAGTAAGGTGGCTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGCTGCTATGTGCTGAATCC
* *
51130206 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGCTGCTATGTGCTGAATCC
51130251 ACCGA
1 ACCGA
51130256 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGCTGCTATGTGCTGAATCC
Found at i:51134379 original size:21 final size:21
Alignment explanation
Indices: 51134340--51134381 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51134330 TTAAAAACAA
*
51134340 GTATCGATACTTTGGCATTTG
1 GTATCGATACTTTGCCATTTG
51134361 GTATCGATAC-TTGACCATTTG
1 GTATCGATACTTTG-CCATTTG
51134382 AACAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (21 bp):
GTATCGATACTTTGCCATTTG
Found at i:51139396 original size:9 final size:9
Alignment explanation
Indices: 51139384--51139427 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
51139374 AACGAGAAAG
51139384 TTGAGAGAC
1 TTGAGAGAC
51139393 TTGAGAGAC
1 TTGAGAGAC
**
51139402 TTGAGAGGT
1 TTGAGAGAC
*
51139411 TTGAGAGAG
1 TTGAGAGAC
51139420 TTGAGAGA
1 TTGAGAGA
51139428 AGGATGTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.39, T:0.25
Consensus pattern (9 bp):
TTGAGAGAC
Found at i:51150899 original size:24 final size:24
Alignment explanation
Indices: 51150842--51150914 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
51150832 GGCTACTCAT
* *
51150842 CTGGAAGAAACAGTTATGTCAGCA
1 CTGGAAGAAGCAGTCATGTCAGCA
*
51150866 CTGGAAGAAGCAGTCATGTCAGCG
1 CTGGAAGAAGCAGTCATGTCAGCA
* * *
51150890 CTGGAAGAAGTAGCCATGGCAGCA
1 CTGGAAGAAGCAGTCATGTCAGCA
51150914 C
1 C
51150915 AATTACCCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.30, T:0.16
Consensus pattern (24 bp):
CTGGAAGAAGCAGTCATGTCAGCA
Found at i:51155918 original size:18 final size:18
Alignment explanation
Indices: 51155861--51155923 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
51155851 CGTTAGAACA
* *
51155861 AGATGAAGTTGAATATGG
1 AGATGAAGATGAAGATGG
* * * *
51155879 TGATCAAGATCAAGATAG
1 AGATGAAGATGAAGATGG
* *
51155897 AGATGGAGATGAAGATGA
1 AGATGAAGATGAAGATGG
51155915 AGATGAAGA
1 AGATGAAGA
51155924 GCTGGAACCC
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.21
Consensus pattern (18 bp):
AGATGAAGATGAAGATGG
Found at i:51156135 original size:5 final size:5
Alignment explanation
Indices: 51156125--51156162 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
51156115 AAATGAATCA
*
51156125 ATTGT ATTGT ATTGT ATTGC ATTGT ATTGT ATTGT ATT
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATT
51156163 TTACATCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (5 bp):
ATTGT
Found at i:51157132 original size:17 final size:17
Alignment explanation
Indices: 51157078--51157132 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
51157068 TCCTGATTGG
* *
51157078 TTTATTAATTTTTGTCA
1 TTTATTTATTTTTGTTA
* * *
51157095 TTTTTTTATTTTTCTTG
1 TTTATTTATTTTTGTTA
*
51157112 TTTATTTATTTTAGTTA
1 TTTATTTATTTTTGTTA
51157129 TTTA
1 TTTA
51157133 AATTCTCTCA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTTGTTA
Found at i:51162724 original size:18 final size:18
Alignment explanation
Indices: 51162701--51162735 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51162691 TAGTGTATAG
51162701 CCCATATATGTGAACCCA
1 CCCATATATGTGAACCCA
*
51162719 CCCATATGTGTGAACCC
1 CCCATATATGTGAACCC
51162736 TTATATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (18 bp):
CCCATATATGTGAACCCA
Found at i:51162927 original size:21 final size:23
Alignment explanation
Indices: 51162886--51162945 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
51162876 TATATAACCG
*
51162886 TACATGTTTAGTATGTG-AAAC-A
1 TACATGTTTA-TATATGCAAACTA
*
51162908 -ATATGTTTATATATGCAAACTA
1 TACATGTTTATATATGCAAACTA
51162930 TACATGTTTAT-TATGC
1 TACATGTTTATATATGC
51162946 GAACCCCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 6 0.19
23 9 0.28
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (23 bp):
TACATGTTTATATATGCAAACTA
Found at i:51163108 original size:111 final size:112
Alignment explanation
Indices: 51162968--51163192 Score: 373
Period size: 111 Copynumber: 2.0 Consensus size: 112
51162958 TGTGAATATG
51162968 CAAACCCTACATATTGTAGTATGCGAATCCTATCTATTTCC-ACTAAGCAAACCTTACATGTTTT
1 CAAACCCTACATATTGTAGTATGCGAATCCTATCTA-TTCCTACTAAGCAAACCTTACATGTTTT
51163032 ATATGTGAA-CCTATATGTATATTCATGTGAACCCTAAGAGGAATGTA
65 ATATGTGAACCCTATATGTATATTCATGTGAACCCTAAGAGGAATGTA
* * *
51163079 CAAACCCTACATATTGTAGTATGTGAATCCTATCTATTCCTGCTATGCAAACCTTACATGTTTTA
1 CAAACCCTACATATTGTAGTATGCGAATCCTATCTATTCCTACTAAGCAAACCTTACATGTTTTA
* * *
51163144 TATGTGAACCCTATATGTATATTCATGTGAGCCTTAGGAGGAATGTA
66 TATGTGAACCCTATATGTATATTCATGTGAACCCTAAGAGGAATGTA
51163191 CA
1 CA
51163193 TGCAATCCTT
Statistics
Matches: 106, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
110 4 0.04
111 65 0.61
112 37 0.35
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (112 bp):
CAAACCCTACATATTGTAGTATGCGAATCCTATCTATTCCTACTAAGCAAACCTTACATGTTTTA
TATGTGAACCCTATATGTATATTCATGTGAACCCTAAGAGGAATGTA
Found at i:51163244 original size:17 final size:17
Alignment explanation
Indices: 51163222--51163256 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
51163212 AACAAACAAG
51163222 CCCCACTTATACAAACT
1 CCCCACTTATACAAACT
51163239 CCCCACTTATACAAACT
1 CCCCACTTATACAAACT
51163256 C
1 C
51163257 TATAGTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (17 bp):
CCCCACTTATACAAACT
Found at i:51163365 original size:30 final size:30
Alignment explanation
Indices: 51163321--51163379 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
51163311 CTATAATATG
* * *
51163321 CGAACCTTATATGTGTGAACCCTATTTGTA
1 CGAACCCTACATGTGTGAACCCTACTTGTA
51163351 CGAACCCTACATGTGTGAACCCTACTTGT
1 CGAACCCTACATGTGTGAACCCTACTTGT
51163380 GAACCTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (30 bp):
CGAACCCTACATGTGTGAACCCTACTTGTA
Found at i:51163370 original size:15 final size:15
Alignment explanation
Indices: 51163331--51163384 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
51163321 CGAACCTTAT
*
51163331 ATGTGTGAACCCTAT
1 ATGTGTGAACCCTAC
* **
51163346 TTGTACGAACCCTAC
1 ATGTGTGAACCCTAC
51163361 ATGTGTGAACCCTAC
1 ATGTGTGAACCCTAC
51163376 -T-TGTGAACC
1 ATGTGTGAACC
51163385 TGTATGTAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 8 0.25
14 1 0.03
15 23 0.72
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (15 bp):
ATGTGTGAACCCTAC
Found at i:51169104 original size:24 final size:24
Alignment explanation
Indices: 51169074--51169170 Score: 158
Period size: 24 Copynumber: 4.0 Consensus size: 24
51169064 GGTAAGACTT
*
51169074 TTTCCACAGCTCCTCTCTTCACCT
1 TTTCCACAGCTCCTCTCTTCACCC
* * *
51169098 TTTCCACTGTTCCTCTCTGCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
51169122 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
51169146 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
51169170 T
1 T
51169171 ATCGATTGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.11, C:0.47, G:0.05, T:0.36
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:51169979 original size:8 final size:8
Alignment explanation
Indices: 51169958--51169990 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
51169948 AAAAGATTAG
51169958 TGTTGTTCC
1 TGTTGTT-C
51169967 TGTTGTTC
1 TGTTGTTC
51169975 TGTTGTTC
1 TGTTGTTC
51169983 TGTTGTTC
1 TGTTGTTC
51169991 CTGGTAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.00, C:0.15, G:0.24, T:0.61
Consensus pattern (8 bp):
TGTTGTTC
Found at i:51172986 original size:27 final size:28
Alignment explanation
Indices: 51172921--51172990 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
51172911 GAAATTTTAG
*
51172921 ATTGTTGGATTTTGATATATGTTTTGAA
1 ATTGTTGGATATTGATATATGTTTTGAA
* *
51172949 TTTGTTAGATATTGAT-TATGTTTT-AA
1 ATTGTTGGATATTGATATATGTTTTGAA
*
51172975 CATTGCTGGATATTGA
1 -ATTGTTGGATATTGA
51172991 ATTAATTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.57
28 13 0.37
ACGTcount: A:0.26, C:0.03, G:0.20, T:0.51
Consensus pattern (28 bp):
ATTGTTGGATATTGATATATGTTTTGAA
Found at i:51174216 original size:17 final size:18
Alignment explanation
Indices: 51174189--51174225 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
51174179 GCAATATATG
51174189 TAAAAACAATTTAA-AATA
1 TAAAAACAA-TTAATAATA
51174207 TAAAAA-AATTAATAATA
1 TAAAAACAATTAATAATA
51174224 TA
1 TA
51174226 TATTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAACAATTAATAATA
Found at i:51182091 original size:80 final size:81
Alignment explanation
Indices: 51181944--51182107 Score: 303
Period size: 80 Copynumber: 2.0 Consensus size: 81
51181934 AATAAATGGA
*
51181944 TATAGTCTTTGAAAACGCGTTCTAATATTCCCTTTTTTATACCATGTTGTAAAACATTACGTCGA
1 TATAGTCTTTGAAAACGCATTCTAATATTCCCTTTTTTATACCATGTTGTAAAACATTACGTCGA
51182009 AAGAAAACTTACTTAT
66 AAGAAAACTTACTTAT
*
51182025 TATAGTCTTTGAAAACGCATTCTAATATT-CCTTTTTTATACCATGTTGTAAAACATTACGTTGA
1 TATAGTCTTTGAAAACGCATTCTAATATTCCCTTTTTTATACCATGTTGTAAAACATTACGTCGA
51182089 AAGAAAACTTACTTAT
66 AAGAAAACTTACTTAT
51182105 TAT
1 TAT
51182108 TTGTAAAACA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
80 53 0.65
81 28 0.35
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (81 bp):
TATAGTCTTTGAAAACGCATTCTAATATTCCCTTTTTTATACCATGTTGTAAAACATTACGTCGA
AAGAAAACTTACTTAT
Found at i:51182753 original size:48 final size:47
Alignment explanation
Indices: 51182689--51182779 Score: 146
Period size: 48 Copynumber: 1.9 Consensus size: 47
51182679 AACACATTAT
* *
51182689 TTGTGGACAAGTCACCACATAAATGCCGATAAATGACCACATAACACA
1 TTGTGGACAAGCCACCACATAAATGCCGAT-AACGACCACATAACACA
*
51182737 TTGTGGACAAGCCACCACATAATTGCCGATAACGACCACATAA
1 TTGTGGACAAGCCACCACATAAATGCCGATAACGACCACATAA
51182780 TCGCAGATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 12 0.30
48 28 0.70
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (47 bp):
TTGTGGACAAGCCACCACATAAATGCCGATAACGACCACATAACACA
Found at i:51182775 original size:21 final size:21
Alignment explanation
Indices: 51182750--51182789 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51182740 TGGACAAGCC
* *
51182750 ACCACATAATTGCCGATAACG
1 ACCACATAATCGCAGATAACG
51182771 ACCACATAATCGCAGATAA
1 ACCACATAATCGCAGATAA
51182790 ACTGCAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.12, T:0.17
Consensus pattern (21 bp):
ACCACATAATCGCAGATAACG
Found at i:51182959 original size:7 final size:7
Alignment explanation
Indices: 51182947--51182989 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
51182937 GTAAACATGC
51182947 TCACATA
1 TCACATA
51182954 TCACATA
1 TCACATA
51182961 TCACATA
1 TCACATA
51182968 TCACATA
1 TCACATA
51182975 TCACATA
1 TCACATA
51182982 TCACATA
1 TCACATA
51182989 T
1 T
51182990 TATTCACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (7 bp):
TCACATA
Found at i:51203507 original size:16 final size:16
Alignment explanation
Indices: 51203484--51203523 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
51203474 CGTTTGGTTC
51203484 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
51203500 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
51203516 GCTGTAAT
1 GCTGTAAT
51203524 AGTAACTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:51203555 original size:45 final size:44
Alignment explanation
Indices: 51203505--51203597 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
51203495 ATAGAGGTGT
*
51203505 AATGGAATAGAGCTGTAATAGTAACTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ACTC-ATGTGTTTGGTTGAATGG
* * *
51203550 AATGGAATAGAACTGTAATGGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTACTCATGTGTTTGGTTGAATGG
51203594 AATG
1 AATG
51203598 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 20 0.47
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTACTCATGTGTTTGGTTGAATGG
Found at i:51206687 original size:13 final size:13
Alignment explanation
Indices: 51206669--51206698 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51206659 TGAAGGGGTT
*
51206669 AACAAGGAAATCA
1 AACAAGAAAATCA
51206682 AACAAGAAAATCA
1 AACAAGAAAATCA
51206695 AACA
1 AACA
51206699 TGCAATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.17, G:0.10, T:0.07
Consensus pattern (13 bp):
AACAAGAAAATCA
Found at i:51216285 original size:61 final size:60
Alignment explanation
Indices: 51216168--51216354 Score: 168
Period size: 60 Copynumber: 3.0 Consensus size: 60
51216158 ACCTAATAAT
* *
51216168 AAATTTAGCCCTCCAATATTTAC-ACATTGTATCAATTT-GATCCTCAA-TCTAAAAATTCAACA
1 AAATTTAGCCCT-CAATATTTACAAAATT-TATCAATTTAG-TTCT-AATTCTAAAAATTCAA-A
* *
51216230 AAATTTAGCCCTCAATATTTACAAAATTTTTC-ATTTAGTTCTAATTCTAATAAATTCAAT
1 AAATTTAGCCCTCAATATTTACAAAATTTATCAATTTAGTTCTAATTCTAA-AAATTCAAA
* * * * *
51216290 AAATTTAAG-CCTGAACATTTACAAAATTTGTCGATATTTAATTCTAATTCTAAAATTTTCAAA
1 AAATTT-AGCCCTCAATATTTACAAAATTTATC-A-ATTTAGTTCTAATTCTAAAA-ATTCAAA
51216353 AA
1 AA
51216355 TGAAAAACAT
Statistics
Matches: 106, Mismatches: 10, Indels: 17
0.80 0.08 0.13
Matches are distributed among these distances:
59 2 0.02
60 38 0.36
61 24 0.23
62 18 0.17
63 24 0.23
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.39
Consensus pattern (60 bp):
AAATTTAGCCCTCAATATTTACAAAATTTATCAATTTAGTTCTAATTCTAAAAATTCAAA
Found at i:51216490 original size:19 final size:18
Alignment explanation
Indices: 51216453--51216491 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
51216443 AATATGTTTT
51216453 AAAAAATAAAAAATACAA
1 AAAAAATAAAAAATACAA
* *
51216471 AAAAAATCAAATAATTCAA
1 AAAAAAT-AAAAAATACAA
51216490 AA
1 AA
51216492 CGAAATGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAAATAAAAAATACAA
Found at i:51232060 original size:44 final size:43
Alignment explanation
Indices: 51231971--51232589 Score: 494
Period size: 44 Copynumber: 14.1 Consensus size: 43
51231961 AAAATAGCAA
* * * * *
51231971 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA-GAACAG
1 ATCTTGTCTTCCTATATTGGTGCGAAGTAGATCGAAGATG--CAG
* * *
51232015 ATCCTGTCTTCCTATATTGGTAACGAAGTGGATCGAAGATGCAG
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAGATGCAG
* * * *
51232059 ATCTTGTCTTCCCATACTGGTGGCGAAGTCGATCGAAGAAAGCAG
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAG-ATGCAG
* ** * * * *
51232104 ATCTTATCCACATGTATTGGTGTGAAGTAGATCGAAGATAACAG
1 ATCTTGTCTTCCTATATTGGTGCGAAGTAGATCGAAGAT-GCAG
* * *
51232148 ATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAT
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAGATGCAG
* * * *
51232192 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAG
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAG-ATGCAG
* * * * *
51232237 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
1 ATCTTGTCTTCCTATATTGGTGCGAAGTAGATCGAAGAT-GCAG
* *
51232281 ATCATGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA--CTAG
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAGATGC-AG
* * * *
51232323 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGAAA
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAG-ATGCAG
* * *
51232368 ATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTATATTGGTGCGAAGTAGATCGAAGAT-GCAG
* * *
51232412 ATCCTGTCTTCCTATATTGGTAG-GAAATGGATCGAAGATGCAG
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAGATGCAG
* * * *
51232455 ATCATGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAG-ATGCAG
* * * * * *
51232500 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAA
1 ATCTTGTCTTCCTATATTGGTGCGAAGTAGATCGAAGAT-GCAG
* * * * *
51232544 ATCCTGTCTTCCTATATTAGTAG-GAAGTGGATCAAAGAAGCAG
1 ATCTTGTCTTCCTATATTGGT-GCGAAGTAGATCGAAGATGCAG
51232587 ATC
1 ATC
51232590 GAAGACACTA
Statistics
Matches: 451, Mismatches: 105, Indels: 39
0.76 0.18 0.07
Matches are distributed among these distances:
41 1 0.00
42 22 0.05
43 45 0.10
44 274 0.61
45 108 0.24
46 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (43 bp):
ATCTTGTCTTCCTATATTGGTGCGAAGTAGATCGAAGATGCAG
Found at i:51232209 original size:133 final size:132
Alignment explanation
Indices: 51231966--51232589 Score: 982
Period size: 133 Copynumber: 4.7 Consensus size: 132
51231956 GCTAAAAAAT
* * *
51231966 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAGAACAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* *
51232031 TTGGTAACGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTCGATCGAA
66 TTGGT-AGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
51232096 GAA
130 GAA
* ** *
51232099 AGCAGATCTTATCCACATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
*
51232164 TTGGTAGCGAAGTGGATCGAAGATGCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
51232229 GAA
130 GAA
* * * *
51232232 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCATGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
*
51232297 TTGGTAGGAAGTGGATCGAAGA--CTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAA
66 TTGGTAGGAAGTGGATCGAAGATGC-AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
51232360 GAA
130 GAA
* * * *
51232363 AGAAAATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* *
51232428 TTGGTAGGAAATGGATCGAAGATGCAGATCATGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
51232493 AA
131 AA
*
51232495 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAAATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* * *
51232560 TTAGTAGGAAGTGGATCAAAGAAGCAGATC
66 TTGGTAGGAAGTGGATCGAAGATGCAGATC
51232590 GAAGACACTA
Statistics
Matches: 450, Mismatches: 37, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
130 1 0.00
131 121 0.27
132 142 0.32
133 186 0.41
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
AA
Found at i:51232533 original size:88 final size:89
Alignment explanation
Indices: 51231966--51232589 Score: 501
Period size: 89 Copynumber: 7.1 Consensus size: 89
51231956 GCTAAAAAAT
* * * * * * *
51231966 AGCAAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGA-GAACAGATCCTGTCTTCCTA
1 AGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAGATG--CAGATCATGTCTTCCCA
* *
51232029 TATTGGTAACGAAGTGGATCGAAG-A
64 TATTGGTAGCGAAGTAGATCGAAGAA
* * * * * * *
51232054 TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTCGATCGAAGAAAGCAGATC-T-T-ATCCACA
1 AGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAG-ATGCAGATCATGTCTTCC-CA
*
51232116 TGTATTGGT-GTGAAGTAGATCGAAGATA
64 --TATTGGTAGCGAAGTAGATCGAAGA-A
* * * * *
51232144 A-CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCATATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAGATGCAGATCATGTCTTCCCATA
* *
51232208 CTGGTGGCGAAGTAGATCGAAGAA
66 TTGGTAGCGAAGTAGATCGAAGAA
* * * * * *
51232232 AGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGCAGATCATGTCTTCCTAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAGAT-GCAGATCATGTCTTCCCAT
*
51232296 ATTGGTAG-GAAGTGGATCGAAG--
65 ATTGGTAGCGAAGTAGATCGAAGAA
* * * * * * ***
51232318 A-CTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGAAAATCTTGTCTTCATG
1 AGC-AGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAG-ATGCAGATCATGTCTTCCCA
* *
51232382 TATTGG-CGCGAAGTAGATCGAAGAT
64 TATTGGTAGCGAAGTAGATCGAAGAA
* * * *
51232407 AGCAGATCCTGTCTTCCTATATTGGTAG-GAAATGGATCGAAGATGCAGATCATGTCTTCCCATA
1 AGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAGATGCAGATCATGTCTTCCCATA
* *
51232471 CTGGTGGCGAAGTAGATCGAAGAA
66 TTGGTAGCGAAGTAGATCGAAGAA
* * * * * * *
51232495 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAACAAATCCTGTCTTCCTAT
1 AGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAGAT-GCAGATCATGTCTTCCCAT
* * *
51232559 ATTAGTAG-GAAGTGGATCAAAG-A
65 ATTGGTAGCGAAGTAGATCGAAGAA
51232582 AGCAGATC
1 AGCAGATC
51232590 GAAGACACTA
Statistics
Matches: 427, Mismatches: 85, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
86 24 0.06
87 76 0.18
88 154 0.36
89 163 0.38
90 6 0.01
91 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (89 bp):
AGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATCGAAGATGCAGATCATGTCTTCCCATA
TTGGTAGCGAAGTAGATCGAAGAA
Found at i:51232554 original size:263 final size:264
Alignment explanation
Indices: 51231966--51232581 Score: 984
Period size: 263 Copynumber: 2.3 Consensus size: 264
51231956 GCTAAAAAAT
* *
51231966 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAGAACAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATA
* *
51232031 TTGGTAACGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTCGATCGAA
66 TTGGT-AGGAAGTGGATCGAAGAT-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
* * * *
51232096 GAAAGCAGATCTTATCCACATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCT
129 GAAAGAAAATCTTATCCACATGTATTGGCGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCT
* * *
51232161 ATATTGGTAGCGAAGTGGATCGAAGATGCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
194 ATATTGGTAGCGAAATGGATCGAAGATGCAGATCATGTCTTCCCATACTGGTGGCGAAGTAGATC
51232226 GAAGAA
259 GAAGAA
* * *
51232232 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCATGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATA
*
51232297 TTGGTAGGAAGTGGATCGAAGA-CTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGATC-AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
* ** *
51232361 AAAGAAAATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
130 AAAGAAAATCTTATCCACATGTATTGGCGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTA
51232426 TATTGGTAG-GAAATGGATCGAAGATGCAGATCATGTCTTCCCATACTGGTGGCGAAGTAGATCG
195 TATTGGTAGCGAAATGGATCGAAGATGCAGATCATGTCTTCCCATACTGGTGGCGAAGTAGATCG
51232490 AAGAA
260 AAGAA
* *
51232495 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAAATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATA
* *
51232560 TTAGTAGGAAGTGGATCAAAGA
66 TTGGTAGGAAGTGGATCGAAGA
51232582 AGCAGATCGA
Statistics
Matches: 323, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
263 138 0.43
264 104 0.32
265 16 0.05
266 65 0.20
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (264 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGATCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
AAGAAAATCTTATCCACATGTATTGGCGCGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
ATTGGTAGCGAAATGGATCGAAGATGCAGATCATGTCTTCCCATACTGGTGGCGAAGTAGATCGA
AGAA
Found at i:51232732 original size:88 final size:88
Alignment explanation
Indices: 51232580--51232948 Score: 549
Period size: 88 Copynumber: 4.2 Consensus size: 88
51232570 GTGGATCAAA
* * *
51232580 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATTGTAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGA
* * *
51232645 TCTTACCTTCCTACACCGACAGT
66 TCTTGCCTTCCTGCACCGACAGC
* * *
51232668 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGTAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGA
*
51232733 TTTTGCCTTCCTGCACCGACAGC
66 TCTTGCCTTCCTGCACCGACAGC
* * * * * * *
51232756 GAAGTAGATTGAAGACACCAACCTTGCCTCCCTAGATTGTAGCGGAGCAGGTTAAAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGA
51232821 TCTTGCCTTCCTGCACCGACAGC
66 TCTTGCCTTCCTGCACCGACAGC
* * *
51232844 GAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGGGTTGCAACAGAGCAGGTTAAAAATAGCAGA
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGA
*
51232909 TCTTGTCTTCCTGCACCGACAGC
66 TCTTGCCTTCCTGCACCGACAGC
51232932 GAAGCAGATCGAAGACA
1 GAAGCAGATCGAAGACA
51232949 TCAGTCTTAT
Statistics
Matches: 254, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 254 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (88 bp):
GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGA
TCTTGCCTTCCTGCACCGACAGC
Found at i:51232827 original size:44 final size:43
Alignment explanation
Indices: 51232690--51232833 Score: 101
Period size: 44 Copynumber: 3.3 Consensus size: 43
51232680 AGACACCAGC
* *
51232690 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCT-GATTGTAGCGGAGCAGGTTAAAAATAGCAGAT
* * ** * * * * * * * * *
51232734 TTTGCCTTCCTGCACCGACAGCGAAGTAGATTGAAGACACCA-AC
1 CTTGCCTCCCTG-ATTG-TAGCGGAGCAGGTTAAAAATAGCAGAT
51232778 CTTGCCTCCCTAGATTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCT-GATTGTAGCGGAGCAGGTTAAAAATAGCAGAT
*
51232822 CTTGCCTTCCTG
1 CTTGCCTCCCTG
51232834 CACCGACAGC
Statistics
Matches: 67, Mismatches: 29, Indels: 9
0.64 0.28 0.09
Matches are distributed among these distances:
43 18 0.27
44 33 0.49
45 16 0.24
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (43 bp):
CTTGCCTCCCTGATTGTAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:51233396 original size:44 final size:44
Alignment explanation
Indices: 51233304--51233413 Score: 105
Period size: 45 Copynumber: 2.5 Consensus size: 44
51233294 CTAGTCTTAT
* * * * *
51233304 CTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
1 CTCC-TGAAATTGCAGTGGAGCAGACCAAGAAAGCAAATCCTATC
* *
51233349 CTCCTGAAATTGCAGTGGGGCAGACCCAAGAAATCAAATCCTA-C
1 CTCCTGAAATTGCAGTGGAGCAGA-CCAAGAAAGCAAATCCTATC
* *
51233393 CTCCCTGACATTACAGTGGAG
1 CT-CCTGAAATTGCAGTGGAG
51233414 TAGATTGAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 21 0.40
45 32 0.60
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (44 bp):
CTCCTGAAATTGCAGTGGAGCAGACCAAGAAAGCAAATCCTATC
Found at i:51236297 original size:22 final size:23
Alignment explanation
Indices: 51236252--51236300 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
51236242 TTAATAATAA
*
51236252 TTTTCATTTTTAATGTATATTTT
1 TTTTCATTTTTAATGTATAATTT
* *
51236275 TTTTCATTTTTCAT-TCTAATTT
1 TTTTCATTTTTAATGTATAATTT
51236297 TTTT
1 TTTT
51236301 AGCATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTCATTTTTAATGTATAATTT
Found at i:51237936 original size:18 final size:18
Alignment explanation
Indices: 51237909--51237943 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51237899 TGTGTAATTT
*
51237909 ATTTTTATTTTTTTTACA
1 ATTTTAATTTTTTTTACA
51237927 ATTTTAATTTTTTTTAC
1 ATTTTAATTTTTTTTAC
51237944 GACTCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTAATTTTTTTTACA
Found at i:51240211 original size:18 final size:18
Alignment explanation
Indices: 51240178--51240217 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51240168 TTCGATTTCA
*
51240178 ATTTTGATTTATATTTAG
1 ATTTTGATTTAGATTTAG
* *
51240196 ATTTTGATTTGGATTTGG
1 ATTTTGATTTAGATTTAG
51240214 ATTT
1 ATTT
51240218 CTATTTAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (18 bp):
ATTTTGATTTAGATTTAG
Done.