Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 28
Found at i:1575028 original size:21 final size:21
Alignment explanation
Indices: 1575004--1575046 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1574994 TTGTCATCGT
1575004 GTAAA-ACCTCTACCTCACCAC
1 GTAAAGACC-CTACCTCACCAC
* *
1575025 GTAAAGACCGTACCTCATCAC
1 GTAAAGACCCTACCTCACCAC
1575046 G
1 G
1575047 CCATGCACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.37, G:0.12, T:0.19
Consensus pattern (21 bp):
GTAAAGACCCTACCTCACCAC
Found at i:1575251 original size:21 final size:21
Alignment explanation
Indices: 1575227--1575281 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1575217 GTGATGGAAT
1575227 AGGTGATGGCTCTCGTTGTGG
1 AGGTGATGGCTCTCGTTGTGG
* *
1575248 AGGTAATGGCTCTTGTTGTGG
1 AGGTGATGGCTCTCGTTGTGG
1575269 AGGTGATGGCTCT
1 AGGTGATGGCTCT
1575282 GGGTGTCGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.35
Consensus pattern (21 bp):
AGGTGATGGCTCTCGTTGTGG
Found at i:1576883 original size:20 final size:20
Alignment explanation
Indices: 1576843--1576902 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 20
1576833 GCAACGCAAA
1576843 TTTCATTTTCGCAATGTTGCGAT
1 TTTCATTTTCGC---GTTGCGAT
1576866 TTTCATTTTCGCGTTGCGAT
1 TTTCATTTTCGCGTTGCGAT
*
1576886 TTTCATTTTCGTGTTGC
1 TTTCATTTTCGCGTTGC
1576903 AAATTTAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 24 0.67
23 12 0.33
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCATTTTCGCGTTGCGAT
Found at i:1577446 original size:20 final size:20
Alignment explanation
Indices: 1577421--1577576 Score: 124
Period size: 20 Copynumber: 7.8 Consensus size: 20
1577411 TTCGAAAATA
1577421 ATATTCTCGTTGCGATTTAC
1 ATATTCTCGTTGCGATTTAC
* **
1577441 ATATTCGCGTTGCGATTTTGG
1 ATATTCTCGTTGCGA-TTTAC
* *
1577462 AAAATCGT-GTTGCGATTTAC
1 ATATTC-TCGTTGCGATTTAC
*
1577482 ATATTATCGTTGCGATTTAC
1 ATATTCTCGTTGCGATTTAC
* *
1577502 CTATTCGCGTTGCGAATTTGAC
1 ATATTCTCGTTGCG-ATTT-AC
*
1577524 -T-TT-TGCATTGCGATTTAC
1 ATATTCT-CGTTGCGATTTAC
*
1577542 ATATTATCGTTGCGATTTATC
1 ATATTCTCGTTGCGATTTA-C
*
1577563 -TATTCGCGTTGCGA
1 ATATTCTCGTTGCGA
1577577 ATTTGAGATC
Statistics
Matches: 107, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
18 2 0.02
19 6 0.06
20 76 0.71
21 21 0.20
22 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (20 bp):
ATATTCTCGTTGCGATTTAC
Found at i:1577558 original size:60 final size:60
Alignment explanation
Indices: 1577421--1577582 Score: 225
Period size: 60 Copynumber: 2.7 Consensus size: 60
1577411 TTCGAAAATA
* * * **
1577421 ATATTCTCGTTGCGATTTACATATTCGCGTTGCGATTTTGGAAAATCGTGTTGCGATTTAC
1 ATATTATCGTTGCGATTTACCTATTCGCGTTGCGAATTT-GAAAATCGCATTGCGATTTAC
*** *
1577482 ATATTATCGTTGCGATTTACCTATTCGCGTTGCGAATTTGACTTTTGCATTGCGATTTAC
1 ATATTATCGTTGCGATTTACCTATTCGCGTTGCGAATTTGAAAATCGCATTGCGATTTAC
*
1577542 ATATTATCGTTGCGATTTATCTATTCGCGTTGCGAATTTGA
1 ATATTATCGTTGCGATTTACCTATTCGCGTTGCGAATTTGA
1577583 GATCGCGTTA
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
60 55 0.60
61 36 0.40
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (60 bp):
ATATTATCGTTGCGATTTACCTATTCGCGTTGCGAATTTGAAAATCGCATTGCGATTTAC
Found at i:1578562 original size:6 final size:6
Alignment explanation
Indices: 1578552--1578639 Score: 126
Period size: 6 Copynumber: 15.0 Consensus size: 6
1578542 TACGAAGAAA
* * *
1578552 TATATA TATATA TATATA TATATG --TATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
1578598 TATATG TATATG TATATG TATATG TATATG TATATA TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1578640 GTTAAAGAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
4 4 0.05
6 73 0.95
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:1580030 original size:31 final size:31
Alignment explanation
Indices: 1579988--1580046 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1579978 AACTTAAAAG
* *
1579988 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1580019 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1580047 ACATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1580125 original size:54 final size:54
Alignment explanation
Indices: 1580061--1580917 Score: 979
Period size: 54 Copynumber: 15.4 Consensus size: 54
1580051 ACAACTACAA
*
1580061 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
1580115 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATC-A---AT-C-AAT--A-T-TTTAAAATAAATCAATCCATAC
** * ** * ** *
1580178 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCAATAT-TTTAAAATAAATCAATCCATAC
*
1580233 TAATAAATTTTTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAA-TCAATATTTTAAAATAAATCAATCCATAC
1580287 TAATAAATTATTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAA-TCAATATTTTAAAATAAATCAATCCATAC
1580341 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATC-A---AT-C-AAT--A-T-TTTAAAATAAATCAATCCATAC
*
1580405 TAATAAATTTTTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAA-TCAATATTTTAAAATAAATCAATCCATAC
1580459 TAATAAATTATTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAA-TCAATATTTTAAAATAAATCAATCCATAC
*
1580513 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
*
1580567 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
*
1580621 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-
1 TAATAAATTATTTAAAATAAATC-A---AT-C-AAT--A-T-TTTAAAATAAATCAATCCATAC
** * ** * ** *
1580684 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCAATAT-TTTAAAATAAATCAATCCATAC
*
1580739 -----AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
* *
1580788 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
* **
1580842 TAATAAATTATTTAAAATAAATCAATCCACGTTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
1580896 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
1580918 TATTTTAAAA
Statistics
Matches: 707, Mismatches: 49, Indels: 94
0.83 0.06 0.11
Matches are distributed among these distances:
49 27 0.04
50 7 0.01
51 5 0.01
53 2 0.00
54 494 0.70
55 14 0.02
56 6 0.01
57 1 0.00
58 14 0.02
59 2 0.00
60 13 0.02
61 1 0.00
62 13 0.02
63 24 0.03
64 84 0.12
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATAC
Found at i:1580131 original size:32 final size:32
Alignment explanation
Indices: 1580093--1580917 Score: 800
Period size: 32 Copynumber: 29.4 Consensus size: 32
1580083 CAATCAATAT
*
1580093 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580125 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580157 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580179 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1580211 TTTAAAATAAATCAATCCATACTAATAAATTT
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580243 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580265 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580297 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580319 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580351 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1580383 TTTAAAATAAATCAATCCATACTAATAAATTT
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580415 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580437 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580469 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580491 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580523 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580545 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580577 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580599 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580631 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580663 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580685 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580717 TTTAAAATAAATCAATCCATAC-----AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580744 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580766 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580798 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1580820 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1580852 TTTAAAATAAATCAATCC--AC-------GT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580874 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1580906 TTTAAAATAAAT
1 TTTAAAATAAAT
1580918 TATTTTAAAA
Statistics
Matches: 675, Mismatches: 6, Indels: 224
0.75 0.01 0.25
Matches are distributed among these distances:
22 172 0.25
23 17 0.03
24 12 0.02
25 5 0.01
26 31 0.05
27 29 0.04
28 31 0.05
29 5 0.01
30 12 0.02
31 15 0.02
32 346 0.51
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1580159 original size:86 final size:85
Alignment explanation
Indices: 1580061--1580818 Score: 1033
Period size: 86 Copynumber: 9.0 Consensus size: 85
1580051 ACAACTACAA
*
1580061 TAATAAATTATTTAAAATAAATCAATCAATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATC-ATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1580126 TTAAAATAAATCAATCCATAC
65 TTAAAATAAATCAATCCATAC
1580147 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1580212 TTAAAATAAATCAATCCATAC
65 TTAAAATAAATCAATCCATAC
*
1580233 TAATAAATTTTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAA-TCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
1580298 TTAAAATAAATCAATTCATA-
65 TTAAAATAAATCAATCCATAC
** * ** * ** *
1580318 TTTTAAAATAAAT-CAATCCATACTAAT-AAATTATTTAAAATAAATCAATCCATACTAATAAAT
1 TAATAAATTATTTAAAATAAAT-C-AATCATA-T-TTTAAAATAAATCAATCCATACTAATAAAT
1580381 TATTTAAAATAAATCAATCCATAC
62 TATTTAAAATAAATCAATCCATAC
*
1580405 TAATAAATTTTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAA-TCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1580470 TTAAAATAAATCAAT---T-C
65 TTAAAATAAATCAATCCATAC
** * *
1580487 --AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CT-AT-
1 TAATAAATTATTTAAAATAAATCAAT-CATA-TTTTAAA--A--T-AAATCAATCCATACTAATA
1580543 -A-T-TTTAAAATAAATCAATCCATAC
59 AATTATTTAAAATAAATCAATCCATAC
1580567 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATC-ATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1580632 TTAAAATAAATCAATCCATAC
65 TTAAAATAAATCAATCCATAC
1580653 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAA-TCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1580718 TTAAAATAAATCAATCCATAC
65 TTAAAATAAATCAATCCATAC
1580739 -----AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1580799 TTAAAATAAATCAATCCATA
65 TTAAAATAAATCAATCCATA
1580819 TTTTAAAATA
Statistics
Matches: 604, Mismatches: 32, Indels: 77
0.85 0.04 0.11
Matches are distributed among these distances:
75 1 0.00
76 35 0.06
77 7 0.01
78 2 0.00
79 2 0.00
80 16 0.03
81 84 0.14
82 15 0.02
83 2 0.00
84 9 0.01
85 18 0.03
86 392 0.65
87 14 0.02
88 7 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (85 bp):
TAATAAATTATTTAAAATAAATCAATCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATCCATAC
Found at i:1580183 original size:22 final size:22
Alignment explanation
Indices: 1580157--1580199 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580147 TAATAAATTA
1580157 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1580179 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1580200 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1580208 original size:22 final size:22
Alignment explanation
Indices: 1580159--1580207 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580149 ATAAATTATT
**
1580159 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1580181 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580204 TAAA
1 TAAA
1580208 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580269 original size:22 final size:22
Alignment explanation
Indices: 1580242--1580285 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580232 CTAATAAATT
*
1580242 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
1580264 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1580286 CTAATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1580294 original size:22 final size:22
Alignment explanation
Indices: 1580245--1580293 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580235 ATAAATTTTT
* **
1580245 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
1580267 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580290 TAAA
1 TAAA
1580294 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580323 original size:22 final size:22
Alignment explanation
Indices: 1580297--1580339 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580287 TAATAAATTA
*
1580297 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
1580319 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1580340 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1580348 original size:22 final size:22
Alignment explanation
Indices: 1580299--1580347 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580289 ATAAATTATT
* **
1580299 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
1580321 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580344 TAAA
1 TAAA
1580348 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580442 original size:22 final size:22
Alignment explanation
Indices: 1580414--1580457 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580404 CTAATAAATT
*
1580414 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
1580436 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1580458 CTAATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1580466 original size:22 final size:22
Alignment explanation
Indices: 1580417--1580465 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580407 ATAAATTTTT
* **
1580417 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
1580439 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580462 TAAA
1 TAAA
1580466 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580495 original size:22 final size:22
Alignment explanation
Indices: 1580469--1580511 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580459 TAATAAATTA
*
1580469 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
1580491 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1580512 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1580520 original size:22 final size:22
Alignment explanation
Indices: 1580471--1580519 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580461 ATAAATTATT
* **
1580471 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
1580493 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580516 TAAA
1 TAAA
1580520 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580574 original size:22 final size:22
Alignment explanation
Indices: 1580525--1580573 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580515 ATAAATTATT
* **
1580525 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1580547 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580570 TAAA
1 TAAA
1580574 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580628 original size:22 final size:22
Alignment explanation
Indices: 1580579--1580627 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580569 ATAAATTATT
* **
1580579 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1580601 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580624 TAAA
1 TAAA
1580628 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580689 original size:22 final size:22
Alignment explanation
Indices: 1580663--1580705 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580653 TAATAAATTA
*
1580663 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
1580685 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1580706 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1580714 original size:22 final size:22
Alignment explanation
Indices: 1580665--1580713 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1580655 ATAAATTATT
* **
1580665 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
1580687 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1580710 TAAA
1 TAAA
1580714 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1580769 original size:22 final size:24
Alignment explanation
Indices: 1580713--1580894 Score: 133
Period size: 22 Copynumber: 7.0 Consensus size: 24
1580703 ATACTAATAA
1580713 ATTATTTAAAATAAATCAATCCAT
1 ATTATTTAAAATAAATCAATCCAT
1580737 ACAATTATTTAAAATAAATCAATCCAT
1 ---ATTATTTAAAATAAATCAATCCAT
1580764 A-T-TTTAAAATAAATCAATCCATACTAAT
1 ATTATTTAAAATAAATCAAT-C---C--AT
1580792 AAATTATTTAAAATAAATCAATCCAT
1 --ATTATTTAAAATAAATCAATCCAT
1580818 A-T-TTTAAAATAAATCAATACATACTAAT
1 ATTATTTAAAATAAATCAAT-C---C--AT
1580846 AAATTATTTAAAATAAATCAATCCA-
1 --ATTATTTAAAATAAATCAATCCAT
**
1580871 CGT-TTTAAAATAAATCAATCCAT
1 ATTATTTAAAATAAATCAATCCAT
1580894 A
1 A
1580895 CTAATAAATT
Statistics
Matches: 131, Mismatches: 3, Indels: 46
0.73 0.02 0.26
Matches are distributed among these distances:
22 51 0.39
23 5 0.04
24 2 0.02
26 5 0.04
27 24 0.18
28 6 0.05
30 2 0.02
31 4 0.03
32 32 0.24
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.35
Consensus pattern (24 bp):
ATTATTTAAAATAAATCAATCCAT
Found at i:1580926 original size:15 final size:15
Alignment explanation
Indices: 1580897--1580992 Score: 86
Period size: 15 Copynumber: 6.0 Consensus size: 15
1580887 AATCCATACT
1580897 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1580911 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1580926 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
* *
1580948 AATAATTTATTTTAT
1 AATAAATTATTTTAA
*
1580963 AATAATTTATTTTAA
1 AATAAATTATTTTAA
1580978 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1580993 TAAATAACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
14 9 0.13
15 44 0.63
17 1 0.01
18 2 0.03
19 3 0.04
20 1 0.01
22 10 0.14
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1580939 original size:69 final size:67
Alignment explanation
Indices: 1580843--1580992 Score: 187
Period size: 69 Copynumber: 2.2 Consensus size: 67
1580833 AATACATACT
*
1580843 AATAAATTA-TTTAAAATAAATCAATCCACGTTTTAAAATAAATCAATCCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCCACATTTTAAAAT-AATCAAT-CATA-TAATAAATTAT
1580906 TTTAA
63 TTTAA
* * ** ** *
1580911 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTATAATAATTTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCACATTTTAAAATAATCAATCATATAATAAATTATTTT
1580976 AA
66 AA
1580978 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1580993 TAAATAACTA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
66 9 0.12
67 22 0.31
68 14 0.19
69 27 0.38
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCACATTTTAAAATAATCAATCATATAATAAATTATTTT
AA
Found at i:1580956 original size:47 final size:49
Alignment explanation
Indices: 1580653--1580984 Score: 210
Period size: 54 Copynumber: 6.5 Consensus size: 49
1580643 CAATCCATAC
* * **
1580653 TAATAAATTA-TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
1 TAATAAATTATTTTAAAATAAATCAATCCATA--CT--AATAAAT-AATTTATA
** ** *
1580706 CTAATAAATTA-TTTAAAATAAATCAATCCATAC-AATTATTTAAAATAAA
1 -TAATAAATTATTTTAAAATAAATCAATCCATACTAA-TAAATAATTTATA
** * *
1580755 TCAATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAA
1 T-AATAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATTT-ATA
* * * *
1580805 TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAA
1 T-AATAAAT---TATTTTAAAATAAATCAATCCATACTAATAAATAATTT-ATA
* * *
1580859 TAAATCAATCCACGTTTTAAAATAAATCAATCCATACTAATAAATTATTTA-A
1 T-AATAAAT-TA--TTTTAAAATAAATCAATCCATACTAATAAATAATTTATA
**
1580911 -AATAAATTATTTTAAAATAAATCAATCCATA-TTTTATAATAATTTATTTTA
1 TAATAAATTATTTTAAAATAAATCAATCCATACTAATA-AATAATTTA---TA
*
1580962 TAATAATTTATTTTAAAATAAAT
1 TAATAAATTATTTTAAAATAAAT
1580985 TATTTTAATA
Statistics
Matches: 234, Mismatches: 27, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
46 3 0.01
47 30 0.13
48 3 0.01
49 38 0.16
50 20 0.09
51 1 0.00
52 23 0.10
53 1 0.00
54 115 0.49
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (49 bp):
TAATAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATTTATA
Found at i:1580976 original size:30 final size:33
Alignment explanation
Indices: 1580906--1581013 Score: 114
Period size: 30 Copynumber: 3.2 Consensus size: 33
1580896 TAATAAATTA
* *
1580906 TTTAAAATAAATTATTTTAAAATAAATCAATCCATAT
1 TTTATAATAAATTATTTT--AATAAAT-AA-CTATAT
* *
1580943 TTTATAATAATTTATTTT-AT-AATAA-TTTAT
1 TTTATAATAAATTATTTTAATAAATAACTATAT
*
1580973 TTTAAAATAAATTATTTTAATAAATAACTATAT
1 TTTATAATAAATTATTTTAATAAATAACTATAT
1581006 TTTATAAT
1 TTTATAAT
1581014 TGTTCTTGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
30 19 0.32
31 2 0.03
32 7 0.12
33 14 0.23
34 2 0.03
37 16 0.27
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (33 bp):
TTTATAATAAATTATTTTAATAAATAACTATAT
Found at i:1580996 original size:18 final size:18
Alignment explanation
Indices: 1580910--1581009 Score: 58
Period size: 15 Copynumber: 5.9 Consensus size: 18
1580900 AAATTATTTA
1580910 AAATAAAT-TATTTTAAAAT
1 AAATAAATATATTTT--AAT
*
1580929 AAATCAATCCATATTTT-AT
1 AAATAAAT--ATATTTTAAT
*
1580948 -AAT-AATTTATTTT-AT
1 AAATAAATATATTTTAAT
*
1580963 -AAT-AATTTATTTT-A-
1 AAATAAATATATTTTAAT
1580977 AAATAAAT-TATTTTAAT
1 AAATAAATATATTTTAAT
*
1580994 AAATAACTATATTTTA
1 AAATAAATATATTTTA
1581010 TAATTGTTCT
Statistics
Matches: 70, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
15 31 0.44
16 4 0.06
17 10 0.14
18 10 0.14
19 9 0.13
22 6 0.09
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATAAATATATTTTAAT
Found at i:1589576 original size:3 final size:3
Alignment explanation
Indices: 1589568--1589652 Score: 80
Period size: 3 Copynumber: 28.0 Consensus size: 3
1589558 TTCATTTTAA
** ** *
1589568 ATT ATT ATT ATT AAA ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
1589616 ATT ATT ATT ATT AAT AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
1589653 TAAATATTAC
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1589790 original size:20 final size:20
Alignment explanation
Indices: 1589765--1589805 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1589755 TAGCCCCCAG
1589765 CCGCCGTCAACATCATCAGC
1 CCGCCGTCAACATCATCAGC
*
1589785 CCGCCGTCAATATCATCAGC
1 CCGCCGTCAACATCATCAGC
1589805 C
1 C
1589806 GTTGGATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.44, G:0.15, T:0.17
Consensus pattern (20 bp):
CCGCCGTCAACATCATCAGC
Found at i:1591209 original size:17 final size:18
Alignment explanation
Indices: 1591173--1591213 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
1591163 TGTTTTACTA
1591173 TATTATAATATATATTATT
1 TATT-TAATATATATTATT
*
1591192 TATTTAATA-ATGTTATT
1 TATTTAATATATATTATT
1591209 TATTT
1 TATTT
1591214 TCCATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 5 0.24
19 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTTAATATATATTATT
Found at i:1593332 original size:19 final size:21
Alignment explanation
Indices: 1593297--1593335 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
1593287 TTTTCATACA
1593297 TGCATTTACATTTTGTATTTG
1 TGCATTTACATTTTGTATTTG
1593318 TGCATTT-CA-TTTGTATTT
1 TGCATTTACATTTTGTATTT
1593336 TTATATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.18, C:0.10, G:0.13, T:0.59
Consensus pattern (21 bp):
TGCATTTACATTTTGTATTTG
Found at i:1595895 original size:13 final size:14
Alignment explanation
Indices: 1595873--1595906 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1595863 CTCATCCAAC
1595873 AAAG-AAAGAAGAA
1 AAAGAAAAGAAGAA
1595886 AAA-AAAAGAAGAA
1 AAAGAAAAGAAGAA
1595899 AAAGAAAA
1 AAAGAAAA
1595907 ATTGAATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:1598070 original size:93 final size:93
Alignment explanation
Indices: 1597872--1598202 Score: 601
Period size: 93 Copynumber: 3.6 Consensus size: 93
1597862 TAAGGAGACC
* * *
1597872 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
**
1597936 ATCATTGAATTTGGAAGATAAATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
1597964 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
1598029 ATCATTAAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
1598057 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1598122 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
1598150 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
1598203 CTCTAAAGTC
Statistics
Matches: 231, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
92 49 0.21
93 182 0.79
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGGATGTGCT
Found at i:1598243 original size:93 final size:93
Alignment explanation
Indices: 1597872--1598247 Score: 598
Period size: 93 Copynumber: 4.1 Consensus size: 93
1597862 TAAGGAGACC
* * *
1597872 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
1597936 ATCATTGAATTTGGAAGATAAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
1597964 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
* *
1598029 ATCATTAAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
1598057 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
1598122 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
*
1598150 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATG-AACTCTA-A-AGT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAAC-C-ACAGAAT
* * *
1598212 CAATCATTGGATTTGAAAGATGAATTTTGCT
64 CAATCATTGAATTTGGAAGATGAA-TGTGCT
1598243 CATAG
1 CATAG
1598248 TAGAAATAAG
Statistics
Matches: 268, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
92 75 0.28
93 192 0.72
94 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGAATGTGCT
Found at i:1600413 original size:24 final size:25
Alignment explanation
Indices: 1600381--1600434 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 25
1600371 GGATGAAGCA
1600381 CTGTCAAATG-ACGAACCTGCTATT
1 CTGTCAAATGTACGAACCTGCTATT
1600405 CTGTCAAATGTTTTACGAACCTGCTATT
1 CTGTCAAATG---TACGAACCTGCTATT
1600433 CT
1 CT
1600435 TATGCTGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.38
28 16 0.62
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (25 bp):
CTGTCAAATGTACGAACCTGCTATT
Found at i:1601403 original size:113 final size:113
Alignment explanation
Indices: 1601205--1601769 Score: 702
Period size: 113 Copynumber: 4.8 Consensus size: 113
1601195 TAACAAAGAT
* * *
1601205 TCAAATCCATCATCTAATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1601270 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
1601318 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1601383 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GC
** * * * * * * *
1601432 TTGAATTCATCATTTGATGGATCAACATTGCCAGGAATAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATC
* *
1601497 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
1601548 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAGTTCATAATGAGAA-AACT
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC-------AGAAAAAGTTCATAATGAGAAGAACT
* *
1601612 CATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
59 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
1601666 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAAAAGTTCATAATGAGAAGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC----------AGAAAAAGTTCATAATGAGAAGA
*
1601731 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAG
56 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
1601770 TTCATAATAA
Statistics
Matches: 400, Mismatches: 37, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
113 105 0.26
114 48 0.12
116 26 0.06
117 51 0.13
118 37 0.09
119 46 0.12
120 1 0.00
121 28 0.07
122 40 0.10
123 18 0.05
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:1601769 original size:14 final size:14
Alignment explanation
Indices: 1601750--1601783 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
1601740 AAGAAGGAAG
1601750 AAGAAGTTCATAAT
1 AAGAAGTTCATAAT
1601764 AAGAAGTTCATAAT
1 AAGAAGTTCATAAT
1601778 AAGAAG
1 AAGAAG
1601784 AATTTGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (14 bp):
AAGAAGTTCATAAT
Found at i:1601769 original size:17 final size:17
Alignment explanation
Indices: 1601747--1601785 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 17
1601737 CTGAAGAAGG
1601747 AAGAAGAAGTTCATAAT
1 AAGAAGAAGTTCATAAT
1601764 ---AAGAAGTTCATAAT
1 AAGAAGAAGTTCATAAT
1601778 AAGAAGAA
1 AAGAAGAA
1601786 TTTGTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 14 0.74
17 5 0.26
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (17 bp):
AAGAAGAAGTTCATAAT
Found at i:1602605 original size:76 final size:76
Alignment explanation
Indices: 1602201--1603436 Score: 2090
Period size: 76 Copynumber: 16.5 Consensus size: 76
1602191 GTAAATTTCC
* *
1602201 CATCTGTAAGTCCTTCAGTGCATGATG-TTCCAAAAAGCCTTCGGGATC-TTTTGATGTTTT-AA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1602263 AGCCTTAGGGT
66 AGCCTTCGGGT
* * *
1602274 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGATC-TTTTGATGTTTT-AA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1602336 AGCCTTCGGGT
66 AGCCTTCGGGT
* * *
1602347 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATC-TTTTGATGTTTT-AA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1602410 AGCCTTCGGGT
66 AGCCTTCGGGT
*
1602421 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1602485 ATCCTTC-GGT
66 AGCCTTCGGGT
*
1602495 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1602560 AGCCTTCGGGT
66 AGCCTTCGGGT
1602571 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1602635 AGCCTTCGGGT
66 AGCCTTCGGGT
* * *
1602646 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1602710 AGCCTTCGGGT
66 AGCCTTCGGGT
*
1602721 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1602786 ATCCTTCGGGT
66 AGCCTTCGGGT
*
1602797 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1602862 AGCCTTTGGGT
66 AGCCTTCGGGT
1602873 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1602938 ATCCTTCGGGT
66 AGCCTTCGGGT
*
1602949 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1603014 AGCCTTCGGGT
66 AGCCTTCGGGT
1603025 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1603090 ATCCTTC-GGT
66 AGCCTTCGGGT
1603100 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1603164 A-CCTTCGGGT
66 AGCCTTCGGGT
* * *
1603174 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1603239 AGCC-TCAGGGT
66 AGCCTTC-GGGT
*
1603250 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1603315 AGCCTTCGGGT
66 AGCCTTCGGGT
1603326 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1603391 GGCCTTCGGGT
66 AGCCTTCGGGT
* *
1603402 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAA
1603437 CATTTCCATC
Statistics
Matches: 1112, Mismatches: 39, Indels: 21
0.95 0.03 0.02
Matches are distributed among these distances:
73 103 0.09
74 218 0.20
75 240 0.22
76 549 0.49
77 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:1603569 original size:3 final size:3
Alignment explanation
Indices: 1603561--1603633 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
1603551 TTCATTTTAA
** *
1603561 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
1603609 AAT AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT
1603634 TAAATATTAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:1609143 original size:51 final size:51
Alignment explanation
Indices: 1609067--1609169 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
1609057 AGGAAGGTGT
** *
1609067 GACCCATGCACCACACCTTACGCTGATGTGGC-TCTACGTGGGGTAAGGCGC
1 GACCCATGCACCACACCTTACGCTGACATGGCGAC-ACGTGGGGTAAGGCGC
* * * *
1609118 GACCCATGCACCGCGCCTTATGCTGACATGGCGACACGTTGGGTAAGGCGC
1 GACCCATGCACCACACCTTACGCTGACATGGCGACACGTGGGGTAAGGCGC
1609169 G
1 G
1609170 GTGCATGGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.18
Consensus pattern (51 bp):
GACCCATGCACCACACCTTACGCTGACATGGCGACACGTGGGGTAAGGCGC
Found at i:1609441 original size:17 final size:18
Alignment explanation
Indices: 1609419--1609452 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1609409 TCTTTAAGGT
1609419 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
1609436 ATATTTTCTTAGTATTT
1 ATATTTTATTAGTATTT
1609453 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:1609484 original size:29 final size:31
Alignment explanation
Indices: 1609419--1609491 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
1609409 TCTTTAAGGT
1609419 ATATTTTA-TT-A-TATTTAATATTTTCTTA
1 ATATTTTATTTAATTATTTAATATTTTCTTA
*
1609447 GTATTTTATTTAATTATTTAA-ATTTT-TTA
1 ATATTTTATTTAATTATTTAATATTTTCTTA
1609476 ATATTTTATTTAATTA
1 ATATTTTATTTAATTA
1609492 ATTTTTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 7 0.17
29 20 0.50
30 6 0.15
31 7 0.17
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (31 bp):
ATATTTTATTTAATTATTTAATATTTTCTTA
Found at i:1616504 original size:182 final size:179
Alignment explanation
Indices: 1616257--1616930 Score: 716
Period size: 182 Copynumber: 3.7 Consensus size: 179
1616247 TTGTTGGTTT
** * * *
1616257 GTATCGATAC-AAATAAAAATGTATCGATCCATAACCGTATAGCAGGTAGAATTATGATTAAACC
1 GTATCGATACTAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA-TAAACC
** * *
1616321 GGTTTCATTATGATAAAATCGGTAAAGCGCTACATAATATGTTGAAAGTATCGATTCCATTGAA-
65 GGTTTCATTATGATAAAA-CGGTAAAGCGCTAC-GGATATGTTGAAAGTGTCGA-T-CATTTAAT
* * * *
1616385 ATAAGTACCGACGCTTTTGGAATTTAAAAGAGAAGCAGTAATAACACTTATAAA
126 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCACCTATAAA
* *
1616439 GTATCAATAC-AAATAAAAAAGTATCGATCCATAACAATATAACAGGTAAAAATATGACTAAACC
1 GTATCGATACTAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA-TAAACC
* *
1616503 GGTTTCATTATAATAAAACTGGTAAAGGGCTACCGGATATGTTGAAAGTGTCGAT-ATTTTAATA
65 GGTTTCATTATGATAAAAC-GGTAAAGCGCTA-CGGATATGTTGAAAGTGTCGATCA-TTTAATA
*
1616567 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAA
127 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCACCTATAAA
* ** *
1616620 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAACC
1 GTATCGATACTAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT-AAACC
* * * * *
1616685 AGTCTCGA-AATGACAAAACCGGTAAAGCACTATCGGATATGTTGAAAGTGTCGAT-ACTTTAAT
65 GGTTTC-ATTATGATAAAA-CGGTAAAGCGCTA-CGGATATGTTGAAAGTGTCGATCA-TTTAAT
* * * * *
1616748 ATAAGTATAGAAACTTTTGGAATTTATAAGAGAAACAGTAATAGCTCCTATAAA
126 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCACCTATAAA
* ** * * *
1616802 GTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGAGAAAACT
1 GTATCGATACTAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA-TAAACC
* ** * * * *
1616867 GGTCT-AGAAATGACAAAACCGGTAAAGCGCTACCAGATAGGTTGGAAGTGTCGAT-ACTTTAAT
65 GGTTTCA-TTATGATAAAA-CGGTAAAGCGCTA-CGGATATGTTGAAAGTGTCGATCA-TTTAAT
1616930 A
126 A
1616931 AGTACACGTA
Statistics
Matches: 432, Mismatches: 49, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
179 1 0.00
180 5 0.01
181 60 0.14
182 363 0.84
183 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (179 bp):
GTATCGATACTAAATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAACCG
GTTTCATTATGATAAAACGGTAAAGCGCTACGGATATGTTGAAAGTGTCGATCATTTAATATAAG
TATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCACCTATAAA
Found at i:1616930 original size:364 final size:364
Alignment explanation
Indices: 1616269--1616930 Score: 821
Period size: 364 Copynumber: 1.8 Consensus size: 364
1616259 ATCGATACAA
** * * * * * * *
1616269 ATAAAAATGTATCGATCCATAACCGTATAGCAGGTAGAATTATGATTAAACCGGTTTCATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCAGTCTCATAATGA
* * * * * * **
1616334 TAAAATCGGTAAAGCGCTACATAATATGTTGAAAGTATCGATTCCATTGAAATAAGTACCGACGC
66 CAAAACCGGTAAAGCACTACAGAATATGTTGAAAGTATCGATTACATTGAAATAAGTACAGAAAC
* *
1616399 TTTTGGAATTTAAAAGAGAAGCAGTAATAACACTTATAAAGTATCAATACAAATAAAAAAGTATC
131 TTTTGGAATTTAAAAGAGAAACAGTAATAACACCTATAAAGTATCAATACAAATAAAAAAGTATC
* * ** * *
1616464 GATCCATAACAATATAACAGGTAAAAATATGACTAAACCGGTTTCATTATAATAAAACTGGTAAA
196 GATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATAACAAAACCGGTAAA
* * * *
1616529 GGGCTACCGGATATGTTGAAAGTGTCGATATTTTAATATAAGTATCGACACTTTTGGAATTTAAA
261 GCGCTACCAGATAGGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAA
1616594 AGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
326 AGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
*
1616633 ATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAACCAGTCTCGA-AATG
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCAGTCTC-ATAATG
* * * *
1616697 ACAAAACCGGTAAAGCACTATC-GGATATGTTGAAAGTGTCGA-TAC-TTTAATATAAGTATAGA
65 ACAAAACCGGTAAAGCACTA-CAGAATATGTTGAAAGTATCGATTACATTGAA-ATAAGTACAGA
* * * * * ** *
1616759 AACTTTTGGAATTTATAAGAGAAACAGTAATAGCTCCTATAAAGTGTCGATACTTTATAAAAATG
128 AACTTTTGGAATTTAAAAGAGAAACAGTAATAACACCTATAAAGTATCAATAC-AAATAAAAAAG
* * * *
1616824 TATCGATCCATAATAATATAACAGGTAAAAATATGAGAAAACTGGTCT-AGAAATGACAAAACCG
192 TATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCA-AAATAACAAAACCG
*
1616888 GTAAAGCGCTACCAGATAGGTTGGAAGTGTCGATACTTTAATA
256 GTAAAGCGCTACCAGATAGGTTGAAAGTGTCGATACTTTAATA
1616931 AGTACACGTA
Statistics
Matches: 246, Mismatches: 47, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
362 4 0.02
363 56 0.23
364 184 0.75
365 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (364 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCAGTCTCATAATGA
CAAAACCGGTAAAGCACTACAGAATATGTTGAAAGTATCGATTACATTGAAATAAGTACAGAAAC
TTTTGGAATTTAAAAGAGAAACAGTAATAACACCTATAAAGTATCAATACAAATAAAAAAGTATC
GATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATAACAAAACCGGTAAA
GCGCTACCAGATAGGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAA
AGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:1618939 original size:19 final size:19
Alignment explanation
Indices: 1618895--1618945 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1618885 GAACAATATT
*
1618895 TTTTAAATAAAATGTATAA
1 TTTTATATAAAATGTATAA
1618914 TTATTATATAAAATG-ATAAA
1 TT-TTATATAAAATGTAT-AA
1618934 TTTTATTATAAA
1 TTTTA-TATAAA
1618946 TGCATGTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
TTTTATATAAAATGTATAA
Found at i:1619504 original size:65 final size:66
Alignment explanation
Indices: 1619374--1619504 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 66
1619364 AAGGGGGAAG
* * *
1619374 TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGCTGTGGAGGTGAGGGGTGAAGTTAAGATGGTG
1 TGGGTGGAAAAATAGATAGAGTGGTGAAAGAAGCTGTGGAGGTGAGGGGTGAACTTAAGAGGGTG
1619439 A
66 A
* * * ** * *
1619440 TGGGTGG-AAAATTGATAGAGTGGTGAAGGAAGTTGTGGATTTGAGGGGTGAACTTACGGGGGTG
1 TGGGTGGAAAAATAGATAGAGTGGTGAAAGAAGCTGTGGAGGTGAGGGGTGAACTTAAGAGGGTG
1619504 A
66 A
1619505 AGGGAGTGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
65 48 0.87
66 7 0.13
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (66 bp):
TGGGTGGAAAAATAGATAGAGTGGTGAAAGAAGCTGTGGAGGTGAGGGGTGAACTTAAGAGGGTG
A
Found at i:1619619 original size:16 final size:17
Alignment explanation
Indices: 1619584--1619621 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1619574 TGTAGAGGAG
*
1619584 AAATATGATGAATTGAAA
1 AAATATGAAGAA-TGAAA
1619602 AAATATGAAGAA-GAAA
1 AAATATGAAGAATGAAA
1619618 AAAT
1 AAAT
1619622 GAAGGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (17 bp):
AAATATGAAGAATGAAA
Found at i:1621190 original size:19 final size:19
Alignment explanation
Indices: 1621166--1621213 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1621156 ATGTAGGGGA
*
1621166 AATTTTGTATACGGTTTAT
1 AATTTTGTATACGATTTAT
*
1621185 AATTTTGTATATGATTTAT
1 AATTTTGTATACGATTTAT
1621204 AATTTTGTAT
1 AATTTTGTAT
1621214 GTGAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (19 bp):
AATTTTGTATACGATTTAT
Found at i:1621224 original size:18 final size:19
Alignment explanation
Indices: 1621166--1621225 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
1621156 ATGTAGGGGA
* * *
1621166 AATTTTGTATACGGTTTAT
1 AATTTTGTATATGATATAT
*
1621185 AATTTTGTATATGATTTAT
1 AATTTTGTATATGATATAT
*
1621204 AATTTTGTATGTGA-ATAT
1 AATTTTGTATATGATATAT
1621222 AATT
1 AATT
1621226 ACGTATGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 7 0.19
19 30 0.81
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (19 bp):
AATTTTGTATATGATATAT
Found at i:1623554 original size:24 final size:23
Alignment explanation
Indices: 1623523--1623567 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
1623513 TTTCTTTCAT
1623523 ATTTAATTGGAGTTTGAATTTAA
1 ATTTAATTGGAGTTTGAATTTAA
*
1623546 ATTTCAATTTGAGTTTGAATTT
1 ATTT-AATTGGAGTTTGAATTT
1623568 CAATATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (23 bp):
ATTTAATTGGAGTTTGAATTTAA
Found at i:1623556 original size:18 final size:18
Alignment explanation
Indices: 1623535--1623571 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1623525 TTAATTGGAG
1623535 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1623553 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1623571 T
1 T
1623572 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1623578 original size:24 final size:24
Alignment explanation
Indices: 1623527--1623579 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1623517 TTTCATATTT
* * *
1623527 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1623551 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1623575 AATTT
1 AATTT
1623580 CGGCTCCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1625477 original size:199 final size:199
Alignment explanation
Indices: 1625113--1625870 Score: 1019
Period size: 199 Copynumber: 3.8 Consensus size: 199
1625103 GTAAACAAAT
* * *
1625113 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAATCGATAATTATGATGTAATA
1 GTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
1625178 GGTAAATTTACAATGTAACCGGTAGATATATA-CCGTTTTATGAGAAAATAGGTCTACATAATGT
65 GGTAAATTTACAATGTAACCGGTAGAAATATATCGGTTTAATGAGAAAATAGGTCAACATAATGT
* * * * * *
1625242 ATCGACACTTTTAAAATTTGTGTTGATATTTTTTGTCCAAAATGAATGCTTAACGAGGTGCACA-
130 ATCGACACTTTTTAAATTTGTGTCGATAATTTTTGTCCAGAATGAATGCTAAATGAGGTGCA-AG
1625306 CATAAA
194 CATAAA
*
1625312 GTGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
1625376 GGTAACTTTACAATGTAACCAGTAGAAATATATCGGTTTTAA-GAGAAAATAGGTCTACATAATG
65 GGTAAATTTACAATGTAACCGGTAGAAATATATCGG-TTTAATGAGAAAATAGGTCAACATAATG
* * **
1625440 TATTGACACTTTTTAAATTTTTGTCGATAATTTTTGTCCAGAATGAATGCCCAATGAGGTGCAAG
129 TATCGACACTTTTTAAATTTGTGTCGATAATTTTTGTCCAGAATGAATGCTAAATGAGGTGCAAG
1625505 CATAAA
194 CATAAA
*
1625511 GTGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
1625575 GGTAACTTCACAATGTAACCGGTAGAAATATACCGG-TTAATTAGAAAATAGGTCAACATAATGT
65 GGTAAATTTACAATGTAACCGGTAGAAATATATCGGTTTAATGAGAAAATAGGTCAACATAATGT
* * * * *
1625639 ATCGATACTTTTTAAA-TTGTGTTGATACTTTTTGCCCAGAATGAAAG-TCAAATGAGGTGCAAG
130 ATCGACACTTTTTAAATTTGTGTCGATAATTTTTGTCCAGAATGAATGCT-AAATGAGGTGCAAG
1625702 CATAAA
194 CATAAA
* * *
1625708 GTGTCGATATATTTATTAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
1625773 GGTAAATTTAAAATGTAAGCGGTAGAAATATATCGGTATAATTAGAAAATATGTCAAAATAATGT
65 GGTAAATTTACAATGTAACCGGTAGAAATATATCGGTTTAATGAGAAAATAGGTCAACATAATGT
* *
1625838 ATCGACACTTTTTAAATTTGTTTCGATAGTTTT
130 ATCGACACTTTTTAAATTTGTGTCGATAATTTT
1625871 GTTAAATTAC
Statistics
Matches: 501, Mismatches: 48, Indels: 19
0.88 0.08 0.03
Matches are distributed among these distances:
197 66 0.13
198 179 0.36
199 239 0.48
200 17 0.03
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTAGAAATATATCGGTTTAATGAGAAAATAGGTCAACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATAATTTTTGTCCAGAATGAATGCTAAATGAGGTGCAAGCA
TAAA
Found at i:1628335 original size:23 final size:23
Alignment explanation
Indices: 1628309--1628359 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1628299 TAAGTAATTA
**
1628309 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
1628332 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
1628355 ACCTA
1 ACCTA
1628360 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:1628367 original size:23 final size:23
Alignment explanation
Indices: 1628319--1628368 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1628309 ACCTATTTTA
*
1628319 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
1628342 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
1628365 TTAT
1 TTAT
1628369 TGTGTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:1628413 original size:86 final size:86
Alignment explanation
Indices: 1628305--1628467 Score: 254
Period size: 86 Copynumber: 1.9 Consensus size: 86
1628295 AAATTAAGTA
* *
1628305 ATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATT
1 ATTAACCTATTTTATTATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATT
**
1628370 GTGTTTGATAATGTTTCCAGT
66 GTACTTGATAATGTTTCCAGT
* * * *
1628391 ATTAACCTATTTTATTATATAAGAGCTACCTCTTACATTATATAAGTGGTACCTAATATGTTTTT
1 ATTAACCTATTTTATTATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATT
1628456 GTACTTGATAAT
66 GTACTTGATAAT
1628468 ATTTTCGATC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (86 bp):
ATTAACCTATTTTATTATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATT
GTACTTGATAATGTTTCCAGT
Found at i:1635434 original size:24 final size:24
Alignment explanation
Indices: 1635416--1635461 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1635406 ACGTTCGTGA
*
1635416 ACGTTCGGTTATGTTCGTTTATAT
1 ACGTTCGGTTATGTTCGTTCATAT
*
1635440 TCGTTCGGTTATGTTCGTTCAT
1 ACGTTCGGTTATGTTCGTTCAT
1635462 TTATGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.15, G:0.22, T:0.50
Consensus pattern (24 bp):
ACGTTCGGTTATGTTCGTTCATAT
Found at i:1635466 original size:14 final size:14
Alignment explanation
Indices: 1635428--1635468 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1635418 GTTCGGTTAT
*
1635428 GTTCGTTTATATTC
1 GTTCGTTTATGTTC
*
1635442 GTTCGGTTATGTTC
1 GTTCGTTTATGTTC
*
1635456 GTTCATTTATGTT
1 GTTCGTTTATGTT
1635469 TAACTCAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:1636563 original size:10 final size:10
Alignment explanation
Indices: 1636562--1636625 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
1636552 GTTCGTTTAT
*
1636562 GTTTGTGTTC
1 GTTTATGTTC
*
1636572 ATTTATGTTC
1 GTTTATGTTC
*
1636582 GTGTTCGTGTTC
1 GT-TT-ATGTTC
1636594 GTTTATGTTC
1 GTTTATGTTC
1636604 G----TGTTC
1 GTTTATGTTC
1636610 GTTTATGTTC
1 GTTTATGTTC
1636620 GTTTAT
1 GTTTAT
1636626 TTATTAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
6 6 0.14
10 26 0.60
11 4 0.09
12 7 0.16
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:1636576 original size:16 final size:16
Alignment explanation
Indices: 1636551--1636587 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1636541 TCCAACGTTA
* *
1636551 TGTTCGTTTATGTTTG
1 TGTTCATTTATGTTCG
1636567 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
1636583 TGTTC
1 TGTTC
1636588 GTGTTCGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.11, G:0.22, T:0.59
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:1636591 original size:22 final size:22
Alignment explanation
Indices: 1636561--1636611 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1636551 TGTTCGTTTA
*
1636561 TGTTTGTGTTCATTTATGTTCG
1 TGTTCGTGTTCATTTATGTTCG
*
1636583 TGTTCGTGTTCGTTTATGTTCG
1 TGTTCGTGTTCATTTATGTTCG
1636605 TGTTCGT
1 TGTTCGT
1636612 TTATGTTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.57
Consensus pattern (22 bp):
TGTTCGTGTTCATTTATGTTCG
Found at i:1636602 original size:16 final size:16
Alignment explanation
Indices: 1636583--1636621 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
1636573 TTTATGTTCG
1636583 TGTTCGTGTTCGTTTA
1 TGTTCGTGTTCGTTTA
1636599 TGTTCGTGTTCGTTTA
1 TGTTCGTGTTCGTTTA
1636615 TGTTCGT
1 TGTTCGT
1636622 TTATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.13, G:0.26, T:0.56
Consensus pattern (16 bp):
TGTTCGTGTTCGTTTA
Found at i:1636712 original size:16 final size:16
Alignment explanation
Indices: 1636691--1636723 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1636681 AAAAAAATTT
1636691 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1636707 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1636723 T
1 T
1636724 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1638008 original size:30 final size:32
Alignment explanation
Indices: 1637940--1638011 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
1637930 CATTGGTTTT
* * * *
1637940 TTTATCGAATTATTACAAAAGGATCATTTAAT
1 TTTATCAAATTATTAAAAAAGGATCAGTTAAA
*
1637972 TTTATCAAATTA-TAAAAAATGATC-GTTAAA
1 TTTATCAAATTATTAAAAAAGGATCAGTTAAA
1638002 TTTATCAAAT
1 TTTATCAAAT
1638012 ATTTAAACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 14 0.40
31 10 0.29
32 11 0.31
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (32 bp):
TTTATCAAATTATTAAAAAAGGATCAGTTAAA
Found at i:1638417 original size:22 final size:21
Alignment explanation
Indices: 1638378--1638423 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1638368 ATTAATAATA
** *
1638378 AAAAATATAACGATAAACATCT
1 AAAAATATAAAAAAAAACAT-T
1638400 AAAAATATAAAAAAAAACATT
1 AAAAATATAAAAAAAAACATT
1638421 AAA
1 AAA
1638424 TACTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAATATAAAAAAAAACATT
Found at i:1645306 original size:13 final size:14
Alignment explanation
Indices: 1645268--1645310 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
1645258 GTTGGAATAA
1645268 AAAGTAAAAT-AGT
1 AAAGTAAAATAAGT
*
1645281 AAAGAAAAATAAG-
1 AAAGTAAAATAAGT
*
1645294 AAAGTAAACTAAGT
1 AAAGTAAAATAAGT
1645308 AAA
1 AAA
1645311 TTTAAGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.16
Consensus pattern (14 bp):
AAAGTAAAATAAGT
Found at i:1647084 original size:6 final size:6
Alignment explanation
Indices: 1647073--1647126 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
1647063 ATTTTCATCA
1647073 TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT
1 TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT
1647121 TGCATT
1 TGCATT
1647127 CTTATTGCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
TGCATT
Found at i:1651363 original size:16 final size:18
Alignment explanation
Indices: 1651336--1651383 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
1651326 CATTGGCCAA
*
1651336 ATAATCTATTTTCAATT-
1 ATAATATATTTTCAATTG
* *
1651353 TTAA-ATATTTTCTATTG
1 ATAATATATTTTCAATTG
1651370 ATAATATATTTTCA
1 ATAATATATTTTCA
1651384 TCACTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 10 0.42
17 6 0.25
18 8 0.33
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (18 bp):
ATAATATATTTTCAATTG
Found at i:1661308 original size:19 final size:20
Alignment explanation
Indices: 1661272--1661310 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1661262 AATAAAACAT
*
1661272 GTGACCGTCTAGATTTAGTC
1 GTGACCGTCTAGACTTAGTC
*
1661292 GTGACC-TCTAGGCTTAGTC
1 GTGACCGTCTAGACTTAGTC
1661311 TAGGGGTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (20 bp):
GTGACCGTCTAGACTTAGTC
Found at i:1661462 original size:23 final size:22
Alignment explanation
Indices: 1661421--1661488 Score: 59
Period size: 26 Copynumber: 2.9 Consensus size: 22
1661411 AAATGATATT
*
1661421 AAATAA-ATTATTT-TTATTTA
1 AAATAATAATATTTATTATTTA
1661441 GAAATAATAATATTTATTATTTTTA
1 -AAATAATAATATTTATTA--TTTA
1661466 ATTAATAATAATATTTATATATT
1 A--AATAATAATATTTAT-TATT
1661489 CAACATTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 6 0.15
22 6 0.15
23 3 0.08
24 1 0.03
25 6 0.15
26 15 0.38
27 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
AAATAATAATATTTATTATTTA
Found at i:1661807 original size:32 final size:30
Alignment explanation
Indices: 1661771--1661854 Score: 105
Period size: 32 Copynumber: 2.7 Consensus size: 30
1661761 AAACTACTAT
1661771 AAAATATTAATTATAATTTATTAAATTATTA
1 AAAATATTAATTA-AATTTATTAAATTATTA
* *
1661802 CAAAATAATCATTAAATTTTATTAAATTATTA
1 -AAAATATTAATTAAA-TTTATTAAATTATTA
*
1661834 AAAGAAATTAATTAAATTTAT
1 AAA-ATATTAATTAAATTTAT
1661855 CATATTTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.22
32 35 0.78
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (30 bp):
AAAATATTAATTAAATTTATTAAATTATTA
Found at i:1663265 original size:200 final size:200
Alignment explanation
Indices: 1662910--1663833 Score: 932
Period size: 200 Copynumber: 4.5 Consensus size: 200
1662900 ATAAACATAT
* *
1662910 GTGTCGATACATTT-TCTAAAAGTATCGACCCCAAAAACATCAAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
1662974 AGGTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATGATAGAATAGGTCAACATAATG
65 AGGTAAATTTACAATGTATCCGATATAAATATACCGGTTTTATGATAAAATAGGTCAACATAATG
* *
1663039 TATCGACACAAATTTAAAAAGTGTCGATACATTTTGTCCAGAATGAATATCAAACGAGGTGCACG
130 TATCGACACAAATTTAAAAAGTGTCGATACATTTTTTCCAGAATGAATGTCAAACGAGGTGCACG
1663104 CATAAA
195 CATAAA
* * * *
1663110 GTGTCGATACATTTATTAAAAGTATCAATCCCAAAAACATTGAAATCGATAATTACAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
1663175 AGTAAATTTACAATATATCCGATAGAAATATACCGGTTTTATGAGAAAATAGGTCTATATAATGT
66 GGTAAATTTACAATGTATCCGATATAAATATACCGGTTTTATGATAAAATAGGTCAACATAATGT
** * *** * * *
1663240 ATTAACAC-ATTTTAAGTTTGTGTCGATACTTTTTTTTTTCTAGAATGAATGTCCAACGAGGTGC
131 ATCGACACAAATTTAA-AAAGTGTCGATAC---ATTTTTTCCAGAATGAATGTCAAACGAGGTGC
1663304 ACGCATAAA
192 ACGCATAAA
** *
1663313 GTGTCGATACATTTA--AAATTTTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
1663376 AGGTAAAATTACAATGTAACAGGTAAATTTACAATGTAACCAGTATAAATATACTGGTTTTATGA
65 AGGTAAATTTACAA--T-----GT--A--T-C-------CGA-TATAAATATACCGGTTTTATGA
* *
1663441 TAGAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTATCCAGAATG
110 TAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTTTCCAGAATG
* * *
1663506 AATGTCAAATGAGATGCACACATAAA
175 AATGTCAAACGAGGTGCACGCATAAA
* * * *
1663532 GTGTCGATACATTTATTAAAAGTGTTGATCCCAAAAACATTGAAACCGATAATTACAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * * * *
1663597 GGTAAATTTACAATGTACCCGGTAGAAATATACAGATTCTATGAAAAAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTATCCGATATAAATATACCGGTTTTATGATAAAATAGGTCAACATAATGT
* **** * * * *
1663662 ATCGACAC-ATTTTACGTTTGTGTCGATAC-TTTTTTCCTGAATGAATGCCCAACGAAGTGCACG
131 ATCGACACAAATTTA-AAAAGTGTCGATACATTTTTTCCAGAATGAATGTCAAACGAGGTGCACG
1663725 CATAAA
195 CATAAA
** * *
1663731 GTGTTAATACATTTA--AAATTGTATCAATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
1663794 AGGTAAATTTACAATGT-TACC-AGTATAAATATACCGGTTT
65 AGGTAAATTTACAATGTAT-CCGA-TATAAATATACCGGTTT
1663834 AGTTAAAAAA
Statistics
Matches: 588, Mismatches: 103, Indels: 68
0.77 0.14 0.09
Matches are distributed among these distances:
197 3 0.01
198 70 0.12
199 56 0.10
200 181 0.31
201 5 0.01
202 49 0.08
203 51 0.09
204 1 0.00
208 1 0.00
209 1 0.00
211 2 0.00
213 3 0.01
214 1 0.00
218 1 0.00
219 49 0.08
220 50 0.09
221 5 0.01
222 53 0.09
223 6 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTATCCGATATAAATATACCGGTTTTATGATAAAATAGGTCAACATAATGT
ATCGACACAAATTTAAAAAGTGTCGATACATTTTTTCCAGAATGAATGTCAAACGAGGTGCACGC
ATAAA
Found at i:1663391 original size:20 final size:20
Alignment explanation
Indices: 1663362--1663415 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1663352 CGAAACCAAT
* *
1663362 AATTATAATGTAATAGGTAA
1 AATTACAATGTAACAGGTAA
1663382 AATTACAATGTAACAGGTAA
1 AATTACAATGTAACAGGTAA
*
1663402 ATTTACAATGTAAC
1 AATTACAATGTAAC
1663416 CAGTATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (20 bp):
AATTACAATGTAACAGGTAA
Found at i:1663844 original size:198 final size:198
Alignment explanation
Indices: 1663382--1663856 Score: 557
Period size: 198 Copynumber: 2.4 Consensus size: 198
1663372 TAATAGGTAA
* * * * *
1663382 AATTACAATGTAACAGGTAAATTTACAATGTAACCAGTATAAATATACTGGTTTTATGATAGAAT
1 AATTACAATGTAATAGGTAAATTTACAATGTTACCAGTATAAATATACAGG-TTTATGAAAAAAT
*
1663447 AGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTATCCAGAATGAATGTC
65 AGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTATCCAGAATGAATGCC
* * * *
1663512 AAATGAGATGCACACATAAAGTGTCGATACATTTATTAAAAGTGTTGATCCCAAAAACATTGAAA
130 AAACGAGATGCACACATAAAGTGTCAATACA-TTATTAAAAGTGTTAATCCCAAAAACATCGAAA
1663577 CCGAT
194 CCGAT
* * *
1663582 AATTACAATGTAATAGGTAAATTTACAATG-TACCCGGTAGAAATATACAGATTCTATGAAAAAA
1 AATTACAATGTAATAGGTAAATTTACAATGTTA-CCAGTATAAATATACAGGTT-TATGAAAAAA
* * **** * *
1663646 TAGGTCTACATAATGTATCGACAC-ATTTTACGTTTGTGTCGATAC-TTTTTTCCTGAATGAATG
64 TAGGTCAACATAATGTATCGACACAAATTTA-AAAAGTGTCGATACATTTTATCCAGAATGAATG
* * * *
1663709 CCCAACGA-AGTGCACGCATAAAGTGTTAATACA-T-TTAAAATTGTATCAATCCCAAAAACATC
128 CCAAACGAGA-TGCACACATAAAGTGTCAATACATTATTAAAAGTGT-T-AATCCCAAAAACATC
1663771 GAAACCGAT
190 GAAACCGAT
* * *
1663780 AATTATAATGTAATAGGTAAATTTACAATGTTACCAGTATAAATATACCGGTTTAGTTAAAAAAT
1 AATTACAATGTAATAGGTAAATTTACAATGTTACCAGTATAAATATACAGGTTTA-TGAAAAAAT
* *
1663845 AAGTCAATATAA
65 AGGTCAACATAA
1663857 GCGCGACCTA
Statistics
Matches: 233, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
196 9 0.04
197 4 0.02
198 85 0.36
199 51 0.22
200 84 0.36
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (198 bp):
AATTACAATGTAATAGGTAAATTTACAATGTTACCAGTATAAATATACAGGTTTATGAAAAAATA
GGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTATCCAGAATGAATGCCA
AACGAGATGCACACATAAAGTGTCAATACATTATTAAAAGTGTTAATCCCAAAAACATCGAAACC
GAT
Found at i:1663961 original size:23 final size:23
Alignment explanation
Indices: 1663926--1663985 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1663916 CCATTAATTA
** *
1663926 ACCTATTTTATTATATAAGCACT
1 ACCTATTACATTATATAAACACT
*
1663949 ACCTATTACATTATATAAACGCT
1 ACCTATTACATTATATAAACACT
* *
1663972 ACCTAATACGTTAT
1 ACCTATTACATTAT
1663986 TGTGTTTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAACACT
Found at i:1663997 original size:87 final size:87
Alignment explanation
Indices: 1663851--1664097 Score: 395
Period size: 87 Copynumber: 2.8 Consensus size: 87
1663841 AAATAAGTCA
* *
1663851 ATATAAGCGCGACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGTTTGATAATGTTT
*
1663916 CCATTAATTAACCTATTTTATT
66 CCATTAATTAACATATTTTATT
* *
1663938 ATATAAGCACTACCTATTACATTATATAAACGCTACCTAATACGTTATTGTGTTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGTTTGATAATGTTT
* *
1664003 CTAGTAATTAACATATTTTATT
66 CCATTAATTAACATATTTTATT
* * *
1664025 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTTTATTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGTTTGATAATGTTT
1664090 CCGATTAA
66 CC-ATTAA
1664098 ATGATATAAC
Statistics
Matches: 145, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
87 141 0.97
88 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGTTTGATAATGTTT
CCATTAATTAACATATTTTATT
Found at i:1664072 original size:23 final size:23
Alignment explanation
Indices: 1664022--1664066 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1664012 AACATATTTT
* *
1664022 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
1664045 ATTATATAAACGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
1664067 TGTTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:1664741 original size:23 final size:23
Alignment explanation
Indices: 1664715--1664767 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1664705 GTTAAGAGGC
**
1664715 TAAAAAAATTAAAAATAGAAATT
1 TAAAAAAAGCAAAAATAGAAATT
* *
1664738 T-AAAATAGCACAAATAGAAATT
1 TAAAAAAAGCAAAAATAGAAATT
1664760 TAAAAAAA
1 TAAAAAAA
1664768 AATAAAATGG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (23 bp):
TAAAAAAAGCAAAAATAGAAATT
Found at i:1666566 original size:15 final size:16
Alignment explanation
Indices: 1666548--1666587 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
1666538 CTAAAACATC
1666548 TTTTTAAAAAAATTA-
1 TTTTTAAAAAAATTAT
1666563 -TTTTAAGAAAAATTAT
1 TTTTTAA-AAAAATTAT
1666579 TTTTTAAAA
1 TTTTTAAAA
1666588 GACAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 8 0.36
16 2 0.09
17 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTTTAAAAAAATTAT
Found at i:1666587 original size:14 final size:15
Alignment explanation
Indices: 1666549--1666581 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1666539 TAAAACATCT
1666549 TTTTAA-AAAAATTA
1 TTTTAAGAAAAATTA
1666563 TTTTAAGAAAAATTA
1 TTTTAAGAAAAATTA
1666578 TTTT
1 TTTT
1666582 TTAAAAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTTAAGAAAAATTA
Found at i:1668855 original size:3 final size:3
Alignment explanation
Indices: 1668847--1668885 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
1668837 ATTAATTAAT
*
1668847 TAA TAA TAA TAA TAA TAA TAAA TAA TTA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
1668886 TATATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1668865 original size:19 final size:19
Alignment explanation
Indices: 1668843--1668885 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1668833 ATAAATTAAT
*
1668843 TAATTAATAATAATAATAA
1 TAATAAATAATAATAATAA
*
1668862 TAATAAATAATTATAATAA
1 TAATAAATAATAATAATAA
1668881 TAATA
1 TAATA
1668886 TATATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATAAATAATAATAATAA
Found at i:1670192 original size:27 final size:30
Alignment explanation
Indices: 1670142--1670197 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
1670132 TCAACTTCTC
1670142 AAAATATTTATATATAAAATTAAA-AATTA
1 AAAATATTTATATATAAAATTAAAGAATTA
*
1670171 AAAATATTTATATA-ATAA-TAAAGAATT
1 AAAATATTTATATATAAAATTAAAGAATT
1670198 GAGTTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 14 0.56
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATATTTATATATAAAATTAAAGAATTA
Found at i:1672142 original size:76 final size:76
Alignment explanation
Indices: 1672016--1672239 Score: 430
Period size: 76 Copynumber: 2.9 Consensus size: 76
1672006 AGCCATCACA
*
1672016 AGAATTGATGACATGATGGGTCATTTAATGCGATATTAAATCCTATATAATATCTCGTACTATCA
1 AGAATTGATGACATGATGGGTCATTTAATGCGATATTAAATCCTACATAATATCTCGTACTATCA
1672081 TAAATGAAATC
66 TAAATGAAATC
1672092 AGAATTGATGACATGATGGGTCATTTAATGCGATATTAAATCCTACATAATATCTCGTACTATCA
1 AGAATTGATGACATGATGGGTCATTTAATGCGATATTAAATCCTACATAATATCTCGTACTATCA
1672157 TAAATGAAATC
66 TAAATGAAATC
*
1672168 AGAATTGATCACATGATGGGTCATTTAATGCGATATTAAATCCTACATAATATCTCGTACTATCA
1 AGAATTGATGACATGATGGGTCATTTAATGCGATATTAAATCCTACATAATATCTCGTACTATCA
1672233 TAAATGA
66 TAAATGA
1672240 TATCTCTTGA
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 146 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (76 bp):
AGAATTGATGACATGATGGGTCATTTAATGCGATATTAAATCCTACATAATATCTCGTACTATCA
TAAATGAAATC
Found at i:1673804 original size:32 final size:31
Alignment explanation
Indices: 1673767--1673868 Score: 116
Period size: 32 Copynumber: 3.3 Consensus size: 31
1673757 TAGCCAATAG
* *
1673767 ATTTATCAAACTATTATAAAATATTAATTACA
1 ATTTATCAAATTATTATAAAATATTCATTA-A
** *
1673799 ATTTATTGAATTATTATAAAATAATCATTAA
1 ATTTATCAAATTATTATAAAATATTCATTAA
* *
1673830 ATTTTATCAAATTATTACAAAAT-TTCACTAA
1 A-TTTATCAAATTATTATAAAATATTCATTAA
1673861 ATTTATCA
1 ATTTATCA
1673869 TATTTTAAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
30 7 0.12
31 9 0.15
32 43 0.73
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (31 bp):
ATTTATCAAATTATTATAAAATATTCATTAA
Found at i:1675293 original size:22 final size:22
Alignment explanation
Indices: 1675266--1675331 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
1675256 ACACATAGTG
1675266 CCATAGTACACAAAGTACTACT
1 CCATAGTACACAAAGTACTACT
1675288 CCATAGTACACAAAGTACTACT
1 CCATAGTACACAAAGTACTACT
*
1675310 CCATAGTACACAAAATACTACT
1 CCATAGTACACAAAGTACTACT
1675332 ACAAGAATAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (22 bp):
CCATAGTACACAAAGTACTACT
Found at i:1678564 original size:18 final size:18
Alignment explanation
Indices: 1678541--1678577 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1678531 CCGGGCGACC
1678541 TTGGAGGTCGCCATGGCA
1 TTGGAGGTCGCCATGGCA
1678559 TTGGAGGTCGCCATGGCA
1 TTGGAGGTCGCCATGGCA
1678577 T
1 T
1678578 CCAAGCGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.38, T:0.24
Consensus pattern (18 bp):
TTGGAGGTCGCCATGGCA
Found at i:1678677 original size:20 final size:20
Alignment explanation
Indices: 1678652--1678689 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1678642 TGGGAGAGTT
*
1678652 GTGGGAGCTGTGCATGGGAC
1 GTGGGAACTGTGCATGGGAC
1678672 GTGGGAACTGTGCATGGG
1 GTGGGAACTGTGCATGGG
1678690 GCATGGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (20 bp):
GTGGGAACTGTGCATGGGAC
Found at i:1678696 original size:20 final size:20
Alignment explanation
Indices: 1678653--1678696 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1678643 GGGAGAGTTG
* *
1678653 TGGGAGCTGTGCATGGGACG
1 TGGGAACTGTGCATGGGACA
*
1678673 TGGGAACTGTGCATGGGGCA
1 TGGGAACTGTGCATGGGACA
1678693 TGGG
1 TGGG
1678697 GGAGTTGTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.14, G:0.50, T:0.20
Consensus pattern (20 bp):
TGGGAACTGTGCATGGGACA
Found at i:1678708 original size:51 final size:51
Alignment explanation
Indices: 1678639--1678745 Score: 205
Period size: 51 Copynumber: 2.1 Consensus size: 51
1678629 ATTGGAGCAT
1678639 GCATGGGAGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
1 GCATGGGAGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
*
1678690 GCATGGGGGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
1 GCATGGGAGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
1678741 GCATG
1 GCATG
1678746 CACGTCGAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.17, C:0.12, G:0.50, T:0.21
Consensus pattern (51 bp):
GCATGGGAGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
Found at i:1678728 original size:20 final size:20
Alignment explanation
Indices: 1678703--1678740 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1678693 TGGGGGAGTT
*
1678703 GTGGGAGCTGTGCATGGGAC
1 GTGGGAACTGTGCATGGGAC
1678723 GTGGGAACTGTGCATGGG
1 GTGGGAACTGTGCATGGG
1678741 GCATGCACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (20 bp):
GTGGGAACTGTGCATGGGAC
Found at i:1679271 original size:21 final size:21
Alignment explanation
Indices: 1679246--1679289 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1679236 AATCTAGTTA
1679246 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1679267 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1679288 AT
1 AT
1679290 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1679299 original size:28 final size:30
Alignment explanation
Indices: 1679266--1679328 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
1679256 TAGTATAAAT
*
1679266 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
1679294 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
1679324 TATTA
1 TATTA
1679329 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:1680044 original size:26 final size:25
Alignment explanation
Indices: 1680015--1680073 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1680005 AAATCATATT
*
1680015 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
1680041 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
1680067 ATTATTA
1 ATTATTA
1680074 GGTTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:1682113 original size:105 final size:103
Alignment explanation
Indices: 1681922--1682129 Score: 398
Period size: 105 Copynumber: 2.0 Consensus size: 103
1681912 AATGGTCGCA
1681922 AGCATACGATAAGGTCGGAGATATGGACTATGACGACAAACCTTGTTGAGGCCATTAATTCGGTA
1 AGCATACGATAAGGTCGGAGATATGGACTATGACGACAAACCTTGTTGAGGCCATTAATTCGGTA
1681987 CTAAAAGGTACACGCCATCTCCCAATAGCGAGTGTGGG
66 CTAAAAGGTACACGCCATCTCCCAATAGCGAGTGTGGG
1682025 AGCATACGATGAAGGTCGGAGATATGGACATATGACGACAAACCTTGTTGAGGCCATTAATTCGG
1 AGCATACGAT-AAGGTCGGAGATATGGAC-TATGACGACAAACCTTGTTGAGGCCATTAATTCGG
1682090 TACTAAAAGGTACACGCCATCTCCCAATAGCGAGTGTGGG
64 TACTAAAAGGTACACGCCATCTCCCAATAGCGAGTGTGGG
1682130 TGAAAGAGAC
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
103 10 0.10
104 18 0.17
105 75 0.73
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (103 bp):
AGCATACGATAAGGTCGGAGATATGGACTATGACGACAAACCTTGTTGAGGCCATTAATTCGGTA
CTAAAAGGTACACGCCATCTCCCAATAGCGAGTGTGGG
Found at i:1682741 original size:26 final size:26
Alignment explanation
Indices: 1682712--1682889 Score: 153
Period size: 26 Copynumber: 7.2 Consensus size: 26
1682702 TTTGATGATT
1682712 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1682738 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1682764 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
1682790 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1682812 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1682836 TAGTAATGA-TTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
1682861 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
1682886 TAGT
1 TAGT
1682890 TATTATTTAG
Statistics
Matches: 128, Mismatches: 13, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.01
20 5 0.04
22 3 0.02
23 11 0.09
24 15 0.12
25 15 0.12
26 77 0.60
27 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:1682914 original size:71 final size:72
Alignment explanation
Indices: 1682760--1682935 Score: 173
Period size: 71 Copynumber: 2.5 Consensus size: 72
1682750 GATAATAATC
* * * *
1682760 ATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATG
1 ATTATAATAATGA-TTAATAATAATCATTATAATAATGATTTAATAATGAATTAAATAGTTAATG
*
1682825 ATTTGATG
65 ATTTGATA
* * * ** *
1682833 ATT-TAGTAATGATTGATAATAATCATTATAATAATGATTTTATAAT-AATTATTTAGTT-ATTA
1 ATTATAATAATGATTAATAATAATCATTATAATAATGATTTAATAATGAATTAAATAGTTAATGA
1682895 TTT-AGTA
66 TTTGA-TA
* *
1682902 ATTTATAATAATGATTAATACTAATGATT-TAATA
1 A-TTATAATAATGATTAATAATAATCATTATAATA
1682936 TTACTAATAA
Statistics
Matches: 85, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
68 1 0.01
69 8 0.09
70 15 0.18
71 50 0.59
72 8 0.09
73 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (72 bp):
ATTATAATAATGATTAATAATAATCATTATAATAATGATTTAATAATGAATTAAATAGTTAATGA
TTTGATA
Found at i:1683117 original size:23 final size:21
Alignment explanation
Indices: 1683078--1683145 Score: 57
Period size: 23 Copynumber: 3.1 Consensus size: 21
1683068 AAGGATTTAT
* *
1683078 TAATA-TTAATTATTTGATAC
1 TAATATTTAAATAGTTGATAC
1683098 TAATGATTTAAAATAGTTGATTAC
1 TAAT-ATTT-AAATAGTTGA-TAC
* *
1683122 TAAATATTTAATTATTTGATAC
1 T-AATATTTAAATAGTTGATAC
1683144 TA
1 TA
1683146 GTAATGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 4 0.10
21 2 0.05
22 6 0.15
23 16 0.41
24 8 0.21
25 3 0.08
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (21 bp):
TAATATTTAAATAGTTGATAC
Found at i:1683155 original size:17 final size:17
Alignment explanation
Indices: 1683130--1683162 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1683120 ACTAAATATT
*
1683130 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
1683147 TAATGATTTGATACTA
1 TAATGATTTGATACTA
1683163 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:1685309 original size:15 final size:14
Alignment explanation
Indices: 1685286--1685316 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1685276 TACAACACTA
1685286 AACTTTAATATAAT
1 AACTTTAATATAAT
1685300 AACTTATAATATAAT
1 AACTT-TAATATAAT
1685315 AA
1 AA
1685317 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:1685324 original size:16 final size:16
Alignment explanation
Indices: 1685291--1685337 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1685281 CACTAAACTT
*
1685291 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
1685306 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
1685322 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
1685338 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:1685452 original size:29 final size:30
Alignment explanation
Indices: 1685379--1685453 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
1685369 CTAAACCCTT
*
1685379 AAAC-AACTAATAAAATATTTATATAACTA
1 AAACTAACTAATAAACTATTTATATAACTA
1685408 AAACTAACTAATAAACTATTTCATTATAA-T-
1 AAACTAACTAATAAACTATTT-A-TATAACTA
*
1685438 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
1685454 TACTAACTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 15 0.37
30 19 0.46
31 2 0.05
32 5 0.12
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (30 bp):
AAACTAACTAATAAACTATTTATATAACTA
Found at i:1685549 original size:43 final size:42
Alignment explanation
Indices: 1685501--1685595 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 42
1685491 AAATATAACT
*
1685501 TAACTATTTAACTAACACAAACTAATTAAATAATTTTTT-TATA
1 TAACTATTTAAC-AAAACAAACTAATT-AATAATTTTTTATATA
* *
1685544 TAACTAACTTAACAAAACAAACTAATTAATTATTTTTTAACTATA
1 TAACT-ATTTAACAAAACAAACTAATTAATAATTTTTT-A-TATA
1685589 TAACTAT
1 TAACTAT
1685596 CAACATACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
42 10 0.23
43 18 0.41
44 7 0.16
45 9 0.20
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (42 bp):
TAACTATTTAACAAAACAAACTAATTAATAATTTTTTATATA
Found at i:1686044 original size:29 final size:29
Alignment explanation
Indices: 1686009--1686064 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
1685999 AGGACGACCT
**
1686009 AAGGTCGCCGGGACTACATGGCGACCTAC
1 AAGGTCGCCCAGACTACATGGCGACCTAC
*
1686038 AAGGTCGCCCAGACTGCATGGCGACCT
1 AAGGTCGCCCAGACTACATGGCGACCT
1686065 CTCGATCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.30, T:0.14
Consensus pattern (29 bp):
AAGGTCGCCCAGACTACATGGCGACCTAC
Found at i:1686133 original size:21 final size:21
Alignment explanation
Indices: 1686107--1686147 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1686097 TATGCCTTGT
1686107 ATGGCTCGTATGTCACCCCGC
1 ATGGCTCGTATGTCACCCCGC
1686128 ATGGCTCGTATGTCACCCCG
1 ATGGCTCGTATGTCACCCCG
1686148 TATGTCGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.37, G:0.24, T:0.24
Consensus pattern (21 bp):
ATGGCTCGTATGTCACCCCGC
Found at i:1686194 original size:29 final size:29
Alignment explanation
Indices: 1686152--1686211 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
1686142 ACCCCGTATG
1686152 TCGCCTGGATTGCATGGCGTCCTACAAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
*
1686181 TCGCCTGGATTGCATGGCGTCCTACGAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
1686210 TC
1 TC
1686212 ACTGTAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (29 bp):
TCGCCTGGATTGCATGGCGTCCTACAAGA
Found at i:1691011 original size:20 final size:21
Alignment explanation
Indices: 1690988--1691033 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
1690978 TTGCATCTCA
*
1690988 CATTTTGCACACCCAT-TTTG
1 CATTTTGCACACACATCTTTG
*
1691008 CA-TTTGCATACACATCTTTG
1 CATTTTGCACACACATCTTTG
1691028 CATTTT
1 CATTTT
1691034 TGCATTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 8 0.36
21 3 0.14
ACGTcount: A:0.22, C:0.26, G:0.09, T:0.43
Consensus pattern (21 bp):
CATTTTGCACACACATCTTTG
Found at i:1692200 original size:21 final size:21
Alignment explanation
Indices: 1692165--1692273 Score: 77
Period size: 21 Copynumber: 5.3 Consensus size: 21
1692155 ACACCAAGAG
*
1692165 AAAGAAAAGAAGATATAGCAAA
1 AAAGAAAAGAAGATATA-AAAA
1692187 AAAGAAAA-AAGATATAAAAA
1 AAAGAAAAGAAGATATAAAAA
* *
1692207 AAAGAAATAAAAAATA-AAAAA
1 AAAGAAA-AGAAGATATAAAAA
* *
1692228 AAAGAGAA-AA-ATA-AAAAT
1 AAAGAAAAGAAGATATAAAAA
* *
1692246 AAA-AAAAGAGAGAAAAAAAGAA
1 AAAGAAAAGA-AGATATAAA-AA
1692268 AAAGAA
1 AAAGAA
1692274 TAAAGGAGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.04
18 11 0.15
19 3 0.04
20 13 0.18
21 23 0.32
22 17 0.24
23 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAGAAAAGAAGATATAAAAA
Found at i:1692209 original size:13 final size:13
Alignment explanation
Indices: 1692191--1692220 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1692181 AGCAAAAAAG
*
1692191 AAAAAAGATATAA
1 AAAAAAGAAATAA
1692204 AAAAAAGAAATAA
1 AAAAAAGAAATAA
1692217 AAAA
1 AAAA
1692221 TAAAAAAAAA
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:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (13 bp):
AAAAAAGAAATAA
Found at i:1692218 original size:24 final size:22
Alignment explanation
Indices: 1692184--1692264 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 22
1692174 AAGATATAGC
*
1692184 AAAAAAG--AAAAAAGATATAA
1 AAAAAAGAAAAAAAAAATATAA
*
1692204 AAAAAAGAAATAAAAAATA-AA
1 AAAAAAGAAAAAAAAAATATAA
1692225 AAAAAAGAGAAAAATAAAA-ATAA
1 AAAAAAGA-AAAAA-AAAATATAA
*
1692248 AAAAAGAGAGAAAAAAA
1 AAAAA-AGAAAAAAAAA
1692265 GAAAAAGAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
20 7 0.14
21 10 0.20
22 16 0.31
23 15 0.29
24 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (22 bp):
AAAAAAGAAAAAAAAAATATAA
Found at i:1692225 original size:18 final size:18
Alignment explanation
Indices: 1692184--1692249 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 18
1692174 AAGATATAGC
*
1692184 AAAAAAGAAAAAAGATATAA
1 AAAAAAGAGAAAA-ATA-AA
*
1692204 AAAAAAGAAATAAAAAATAAA
1 AAAAAAG--A-GAAAAATAAA
1692225 AAAAAAGAGAAAAATAAA
1 AAAAAAGAGAAAAATAAA
1692243 AATAAAA
1 AA-AAAA
1692250 AAAGAGAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 11 0.27
19 5 0.12
20 7 0.17
21 9 0.22
22 4 0.10
23 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.09
Consensus pattern (18 bp):
AAAAAAGAGAAAAATAAA
Found at i:1692228 original size:23 final size:24
Alignment explanation
Indices: 1692202--1692262 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
1692192 AAAAAGATAT
*
1692202 AAAAAAAAGAAATA-AAAAATAAA
1 AAAAAAAAGAAAAATAAAAATAAA
*
1692225 AAAAAAGAGAAAAATAAAAATAAA
1 AAAAAAAAGAAAAATAAAAATAAA
* *
1692249 AAAAGAGAGAAAAA
1 AAAAAAAAGAAAAA
1692263 AAGAAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 12 0.35
24 22 0.65
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.07
Consensus pattern (24 bp):
AAAAAAAAGAAAAATAAAAATAAA
Found at i:1692252 original size:32 final size:33
Alignment explanation
Indices: 1692191--1692277 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 33
1692181 AGCAAAAAAG
* *
1692191 AAAAAAGATATAAAAAAAAGAAATAAAAAATA-A-A
1 AAAAAAGA-A-AAAAATAA-AAATAAAAAAGAGAGA
*
1692225 AAAAAAGAGAAAAATAAAAATAAAAAAAGAGAGA
1 AAAAAAGAAAAAAATAAAAAT-AAAAAAGAGAGA
1692259 AAAAAAGAAAAAGAATAAA
1 AAAAAAGAAAAA-AATAAA
1692278 GGAGAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
31 4 0.09
32 14 0.31
33 1 0.02
34 20 0.44
35 6 0.13
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (33 bp):
AAAAAAGAAAAAAATAAAAATAAAAAAGAGAGA
Found at i:1692263 original size:25 final size:25
Alignment explanation
Indices: 1692211--1692262 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
1692201 TAAAAAAAAG
1692211 AAATAAAAAATAAAAAAAAAGAGAA
1 AAATAAAAAATAAAAAAAAAGAGAA
*
1692236 AAAT-AAAAATAAAAAAAGAGAGAA
1 AAATAAAAAATAAAAAAAAAGAGAA
1692260 AAA
1 AAA
1692263 AAGAAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.08
Consensus pattern (25 bp):
AAATAAAAAATAAAAAAAAAGAGAA
Found at i:1692977 original size:29 final size:29
Alignment explanation
Indices: 1692915--1692979 Score: 114
Period size: 28 Copynumber: 2.3 Consensus size: 29
1692905 CGCAAGAAGC
1692915 CAACCTGAAACACATTACCTCCCCAAATT
1 CAACCTGAAACACATTACCTCCCCAAATT
*
1692944 -AACCTGAAACACATTACCTTCCCAAATT
1 CAACCTGAAACACATTACCTCCCCAAATT
1692972 CAACCTGA
1 CAACCTGA
1692980 GCCTTTTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 27 0.79
29 7 0.21
ACGTcount: A:0.38, C:0.35, G:0.05, T:0.22
Consensus pattern (29 bp):
CAACCTGAAACACATTACCTCCCCAAATT
Found at i:1694046 original size:28 final size:28
Alignment explanation
Indices: 1694006--1694062 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
1693996 TTGTTGTACA
1694006 TAAGAAAGTCATGCATTACATATTGCAT
1 TAAGAAAGTCATGCATTACATATTGCAT
*
1694034 TAAGAAAGTCATGCATTACATGTTGCAT
1 TAAGAAAGTCATGCATTACATATTGCAT
1694062 T
1 T
1694063 CATATTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (28 bp):
TAAGAAAGTCATGCATTACATATTGCAT
Done.