Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015065.1 Kokia drynarioides strain JFW-HI SEQ_130109, 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: 941295
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 356 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:435422 original size:187 final size:186
Alignment explanation
Indices: 435181--435521 Score: 455
Period size: 187 Copynumber: 1.8 Consensus size: 186
435171 TTCTTTAAAA
435181 AAAAAAGAAAGTTTAAATTTTAAAAAATAAAAATCTATTTTTCAGTCATTTT-AAAGA-AAAAAT
1 AAAAAAGAAAGTTTAAATTTTAAAAAATAAAAATCTATTTTTCAGTCATTTTAAAAGAGAAAAAT
*
435244 TCAAATTTTTAAACAAAGTTTTGA-TTTTTTAACAATTTTGAAATAAAAAAGTTTTGATTTTTTT
66 TCAAATTTTTAAACAAA-ATTTGATTTTTTTAACAATTTTGAAAT--AAAAGTTTTGA---TTTT
435308 TAA-AAAA-TAGTGATTTTCTTTAAAAAAAAAAGTTTAAATTTTAAAATAAAAATCTGTTAT
125 TAAGAAAAGTAGTGATTTTCTTTAAAAAAAAAAGTTTAAATTTTAAAATAAAAATCTGTTAT
* * * *
435368 AAAAAA-AAAGTTTAGATTTTTAAAAATTAAAATATGT-TTTTTTAGGT-ATTTTAAAAGAGAAA
1 AAAAAAGAAAGTTTA-AATTTTAAAAAATAAAA-ATCTATTTTTCA-GTCATTTTAAAAGAGAAA
* * *
435430 AGTTTAAATTTTTAAACAAAATTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTTAA
63 AATTCAAATTTTTAAACAAAATTTGATTTTTTTAACAATTTTGAAATAAAAGTTTTGATTTTTAA
* *
435495 GAAAAGTAGTGATTTTGTTTTAAAAAA
128 GAAAAGTAGTGATTTTCTTTAAAAAAA
435522 GAGAAAAACT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
184 7 0.05
185 4 0.03
186 27 0.20
187 43 0.32
188 15 0.11
189 40 0.29
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (186 bp):
AAAAAAGAAAGTTTAAATTTTAAAAAATAAAAATCTATTTTTCAGTCATTTTAAAAGAGAAAAAT
TCAAATTTTTAAACAAAATTTGATTTTTTTAACAATTTTGAAATAAAAGTTTTGATTTTTAAGAA
AAGTAGTGATTTTCTTTAAAAAAAAAAGTTTAAATTTTAAAATAAAAATCTGTTAT
Found at i:435423 original size:52 final size:52
Alignment explanation
Indices: 435367--435494 Score: 136
Period size: 52 Copynumber: 2.5 Consensus size: 52
435357 AAATCTGTTA
* **
435367 TAAAAAAAAAGTTTAGATTTTTAAAAATTAAAATATG-TTTTTTTAGGTATTT
1 TAAAAAAAAAGTTTAGATTTTTAAAAA-CAAAATATGATTTTTTTAACTATTT
* *
435419 TAAAAGAGAAAAGTTTAAATTTTT--AAACAAAATTTGATTTTTTTAACTATTT
1 TAAAA-A-AAAAGTTTAGATTTTTAAAAACAAAATATGATTTTTTTAACTATTT
* * *
435471 TGAAATAAAAGTTTTGATTTTTAA
1 TAAAAAAAAAGTTTAGATTTTTAA
435495 GAAAAGTAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
50 14 0.23
51 7 0.11
52 25 0.40
53 1 0.02
54 15 0.24
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (52 bp):
TAAAAAAAAAGTTTAGATTTTTAAAAACAAAATATGATTTTTTTAACTATTT
Found at i:436107 original size:16 final size:17
Alignment explanation
Indices: 436078--436123 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
436068 ATAATTTTTA
*
436078 TTTATTTTTATTTCATC
1 TTTATTTATATTTCATC
*
436095 TTTATTTAT-TTTCATG
1 TTTATTTATATTTCATC
*
436111 TCTATTTATATTT
1 TTTATTTATATTT
436124 ATGCTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTTATATTTCATC
Found at i:438952 original size:6 final size:6
Alignment explanation
Indices: 438941--438993 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
438931 AAAATAAAAT
* *
438941 AAATAA AAATAA CCAACAATAA ATATAA AAATAA AAATAA AAATAA ACATAA
1 AAATAA AAATAA --AA-A-TAA AAATAA AAATAA AAATAA AAATAA AAATAA
438993 A
1 A
438994 CCCAAACCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 32 0.80
7 1 0.03
8 3 0.08
9 1 0.03
10 3 0.08
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:438984 original size:20 final size:20
Alignment explanation
Indices: 438931--438985 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
438921 AATGCATAAG
*
438931 AAAATAAAATAAATAAAAATA
1 AAAATAAAA-ATATAAAAATA
* *
438952 ACCAACAATAAATATAAAAATA
1 A-AAATAA-AAATATAAAAATA
438974 AAAATAAAAATA
1 AAAATAAAAATA
438986 AACATAAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 15 0.56
23 2 0.07
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAATAAAAATATAAAAATA
Found at i:438994 original size:6 final size:6
Alignment explanation
Indices: 438958--438993 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
438948 AATAACCAAC
* *
438958 AATAAA TATAAA AATAAA AATAAA AATAAA CATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
438994 CCCAAACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:441170 original size:20 final size:20
Alignment explanation
Indices: 441115--441172 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
441105 TAATTTAAAA
* * *
441115 AATATAATTTTTATGTTTTT
1 AATAAAATTTATATATTTTT
441135 AATAAAATTTGA-ATATTTTT
1 AATAAAATTT-ATATATTTTT
441155 AATAAAATTTATATATTT
1 AATAAAATTTATATATTT
441173 CTATATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AATAAAATTTATATATTTTT
Found at i:442429 original size:6 final size:6
Alignment explanation
Indices: 442418--442443 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
442408 AGTACGCGTG
442418 TAAATA TAAATA TAAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TA
442444 GGTTACAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:444576 original size:3 final size:3
Alignment explanation
Indices: 444568--444606 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
444558 TGTAAGTAAA
444568 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
444607 TTCTGATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:452745 original size:21 final size:20
Alignment explanation
Indices: 452688--452747 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
452678 TATAACACTT
*
452688 TTATAACATATAATTTATTT-
1 TTATAATATATAATTT-TTTA
452708 TTATAATATAT-A-TTTTTA
1 TTATAATATATAATTTTTTA
*
452726 TTATAATTTTATAATTTTTTA
1 TTATAA-TATATAATTTTTTA
452747 T
1 T
452748 GATTTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 3 0.09
18 8 0.24
19 5 0.15
20 11 0.32
21 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATAATATATAATTTTTTA
Found at i:452747 original size:18 final size:18
Alignment explanation
Indices: 452705--452752 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
452695 ATATAATTTA
* *
452705 TTTTTATAA-TATATATT
1 TTTTTATAATTTTATAAT
452722 TTTATTATAATTTTATAAT
1 TTT-TTATAATTTTATAAT
*
452741 TTTTTATGATTT
1 TTTTTATAATTT
452753 AAAAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 14 0.54
19 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATAATTTTATAAT
Found at i:452765 original size:21 final size:23
Alignment explanation
Indices: 452741--452782 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
452731 ATTTTATAAT
*
452741 TTTTTATGA-TTTA-AAAATATA
1 TTTTTATAACTTTATAAAATATA
452762 TTTTTATAACTTTATAAAATA
1 TTTTTATAACTTTATAAAATA
452783 CATATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTTATAACTTTATAAAATATA
Found at i:454784 original size:38 final size:38
Alignment explanation
Indices: 454740--454816 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
454730 CTTCTCATCA
*
454740 ATCAAGCACATATTAGCCTCAATGTATTATTGTTGTCG
1 ATCAAGCACATATTAGCCTCAATGTATTATTGTTATCG
*
454778 ATCAAGCACATATTAGCCTCAATGTATTGTTGTTATCG
1 ATCAAGCACATATTAGCCTCAATGTATTATTGTTATCG
454816 A
1 A
454817 AACAGACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (38 bp):
ATCAAGCACATATTAGCCTCAATGTATTATTGTTATCG
Found at i:455708 original size:20 final size:21
Alignment explanation
Indices: 455641--455737 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 21
455631 CTACAGAATT
* *
455641 CTACCGATACAACTAGGAGTT
1 CTACCGATACAATTAGGAGTA
* ** * * *
455662 CTATCGATACGCTTATGACTT
1 CTACCGATACAATTAGGAGTA
455683 CTACCGATACAATTAGG-GTA
1 CTACCGATACAATTAGGAGTA
** *
455703 CTACCGATACTTTTAGGATTA
1 CTACCGATACAATTAGGAGTA
*
455724 CTACCGAAACAATT
1 CTACCGATACAATT
455738 CAAGTTAGTA
Statistics
Matches: 57, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 16 0.28
21 41 0.72
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (21 bp):
CTACCGATACAATTAGGAGTA
Found at i:455727 original size:21 final size:20
Alignment explanation
Indices: 455683--455737 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
455673 CTTATGACTT
455683 CTACCGATACAATTAGGGTA
1 CTACCGATACAATTAGGGTA
** *
455703 CTACCGATACTTTTAGGATTA
1 CTACCGATACAATTAGG-GTA
*
455724 CTACCGAAACAATT
1 CTACCGATACAATT
455738 CAAGTTAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (20 bp):
CTACCGATACAATTAGGGTA
Found at i:455728 original size:41 final size:42
Alignment explanation
Indices: 455639--455737 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 42
455629 TACTACAGAA
* * * *
455639 TTCTACCGATACAACTAGGAGTTCTATCGATACGCTTATGAC
1 TTCTACCGATACAATTAGGAGTACTACCGATACGCTTAGGAC
**
455681 TTCTACCGATACAATTAGG-GTACTACCGATACTTTTAGGA-
1 TTCTACCGATACAATTAGGAGTACTACCGATACGCTTAGGAC
*
455721 TTACTACCGAAACAATT
1 TT-CTACCGATACAATT
455738 CAAGTTAGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.04
41 29 0.59
42 18 0.37
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (42 bp):
TTCTACCGATACAATTAGGAGTACTACCGATACGCTTAGGAC
Found at i:455811 original size:21 final size:21
Alignment explanation
Indices: 455772--455811 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
455762 TTCCCTGTAC
* *
455772 TTCTACCGATACTCTAAAGGG
1 TTCTACCGATACCCAAAAGGG
*
455793 TTCTATCGATACCCAAAAG
1 TTCTACCGATACCCAAAAG
455812 AAACCCTTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACCCAAAAGGG
Found at i:459054 original size:18 final size:18
Alignment explanation
Indices: 459031--459066 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
459021 TCATGAATGG
459031 GCAATACCAATTTTGGGT
1 GCAATACCAATTTTGGGT
459049 GCAATACCAATTTTGGGT
1 GCAATACCAATTTTGGGT
459067 TCTTCCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
GCAATACCAATTTTGGGT
Found at i:462266 original size:19 final size:19
Alignment explanation
Indices: 462242--462284 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
462232 AAACATAAAT
462242 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
462261 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
462280 TAAAT
1 TAAAT
462285 CTTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:462743 original size:21 final size:21
Alignment explanation
Indices: 462713--462770 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
462703 TAATGCAGAT
462713 TTCTACCGATACAAGTGACCA
1 TTCTACCGATACAAGTGACCA
*
462734 TTCTATCGATACAAGTGACTC-
1 TTCTACCGATACAAGTGAC-CA
* *
462755 TTTTACCAATACAAGT
1 TTCTACCGATACAAGT
462771 CTTACTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACCA
Found at i:463557 original size:18 final size:18
Alignment explanation
Indices: 463534--463570 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
463524 ACGATGACAA
*
463534 ATAGTCATCGGACCTCAT
1 ATAGTCATCAGACCTCAT
463552 ATAGTCATCAGACCTCAT
1 ATAGTCATCAGACCTCAT
463570 A
1 A
463571 GTCCGTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (18 bp):
ATAGTCATCAGACCTCAT
Found at i:463769 original size:52 final size:52
Alignment explanation
Indices: 463552--463772 Score: 273
Period size: 52 Copynumber: 4.2 Consensus size: 52
463542 CGGACCTCAT
* * * * * *
463552 ATAGTCATCAGACCTCATAGTCCGTAAAGGATTTACGTACTCATGATGATAC
1 ATAGTCATCGGACCTCATAATCCGTAAAGGATTCACATACTCACGATGACAC
* ** * *
463604 ATAGTCATCGAACCTCATAGCCCGTAAAGGGTTTACATACTCACGATGACAC
1 ATAGTCATCGGACCTCATAATCCGTAAAGGATTCACATACTCACGATGACAC
* *
463656 ATAGTCATCAGACCTCATAATCCGTATAGGATTCA-ATTACTCACGATGACAC
1 ATAGTCATCGGACCTCATAATCCGTAAAGGATTCACA-TACTCACGATGACAC
* * * *
463708 ATAGTCATCGGACCTCATAATCCTTAAAGGATTCATATTCTCACGATGACAT
1 ATAGTCATCGGACCTCATAATCCGTAAAGGATTCACATACTCACGATGACAC
463760 ATAGTCATCGGAC
1 ATAGTCATCGGAC
463773 ACTTTTTCGT
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
51 1 0.01
52 146 0.99
53 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (52 bp):
ATAGTCATCGGACCTCATAATCCGTAAAGGATTCACATACTCACGATGACAC
Found at i:466387 original size:36 final size:35
Alignment explanation
Indices: 466315--466458 Score: 171
Period size: 35 Copynumber: 4.0 Consensus size: 35
466305 CTCAACGTTT
* *
466315 TCTTCAAGTTTCCCAGTAATTTAGCTCATACAAGC
1 TCTTCAAGATTCCCAGTAATTTAGCTCATACGAGC
* *
466350 TCTTCAAGTTTCCTAGTAATTTCAGCTCATACGAGC
1 TCTTCAAGATTCCCAGTAATTT-AGCTCATACGAGC
* * * *
466386 TCTTCAAGATTCCCAGTAAATTAACTCATGCGAGT
1 TCTTCAAGATTCCCAGTAATTTAGCTCATACGAGC
* *
466421 TCTTCAAGATTCCCAGTAATATGTTGCTTATACGAGC
1 TCTTCAAGATTCCCAGTAAT-T-TAGCTCATACGAGC
466458 T
1 T
466459 ATATCAGTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
35 50 0.54
36 32 0.35
37 10 0.11
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (35 bp):
TCTTCAAGATTCCCAGTAATTTAGCTCATACGAGC
Found at i:468977 original size:30 final size:27
Alignment explanation
Indices: 468909--468979 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
468899 TGCACCACAA
* *
468909 GTCACCCAACTGTTACCTTTTTTATTG
1 GTCACCCAACTATTAACTTTTTTATTG
* * *
468936 GCCACCAAACTATTAATTTTATTTAATTTG
1 GTCACCCAACTATTAACTTT-TTT-A-TTG
468966 GTCACCCAACTATT
1 GTCACCCAACTATT
468980 GCCCATTTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 15 0.44
28 3 0.09
29 1 0.03
30 15 0.44
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
GTCACCCAACTATTAACTTTTTTATTG
Found at i:469951 original size:24 final size:24
Alignment explanation
Indices: 469923--469981 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
469913 TAGACTAATA
*
469923 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
469947 AGAGTTTAATTCAAACAATTAAAC
1 AGAGTTTAACTCAAACAAATAAAC
469971 AGAGTTTAACT
1 AGAGTTTAACT
469982 AAAAGATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:471951 original size:24 final size:24
Alignment explanation
Indices: 471890--471952 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
471880 TAGATTAATA
* *
471890 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
471914 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
471938 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
471953 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:472028 original size:28 final size:28
Alignment explanation
Indices: 471996--472054 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
471986 CATAATTCAA
471996 TATTTTTTAAAAATAA-AATTATTAAAAT
1 TATTTTTTAAAAATAATAATTATT-AAAT
**
472024 TATTTTTTTGAAATAATAATTATTAAAT
1 TATTTTTTAAAAATAATAATTATTAAAT
472052 TAT
1 TAT
472055 GATATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TATTTTTTAAAAATAATAATTATTAAAT
Found at i:477548 original size:23 final size:23
Alignment explanation
Indices: 477522--477607 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 23
477512 CACTGTGTGT
*
477522 GCTTATTGATTTGTACTATATGA
1 GCTTATTGATTTGCACTATATGA
* * * *
477545 GCTTACTAATTTGCACTATGTGT
1 GCTTATTGATTTGCACTATATGA
* * * *
477568 GCTTATTGTTTTGCACTGTGTGT
1 GCTTATTGATTTGCACTATATGA
* *
477591 GCCTATGGATTTGCACT
1 GCTTATTGATTTGCACT
477608 GTAAGTGCTT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (23 bp):
GCTTATTGATTTGCACTATATGA
Found at i:477608 original size:23 final size:23
Alignment explanation
Indices: 477553--477609 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
477543 GAGCTTACTA
* * *
477553 ATTTGCACTATGTGTGCTTATTG
1 ATTTGCACTGTGTGTGCCTATGG
*
477576 TTTTGCACTGTGTGTGCCTATGG
1 ATTTGCACTGTGTGTGCCTATGG
477599 ATTTGCACTGT
1 ATTTGCACTGT
477610 AAGTGCTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.46
Consensus pattern (23 bp):
ATTTGCACTGTGTGTGCCTATGG
Found at i:482213 original size:23 final size:23
Alignment explanation
Indices: 482180--482226 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
482170 ATCGGGATCC
482180 AAGATTTACATCAAAGTTCTGGGA
1 AAGATTTACAT-AAAGTTCTGGGA
* *
482204 AAGA-TTACATGAAGTTTTGGGA
1 AAGATTTACATAAAGTTCTGGGA
482226 A
1 A
482227 CTCGATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 6 0.29
24 4 0.19
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (23 bp):
AAGATTTACATAAAGTTCTGGGA
Found at i:484837 original size:23 final size:23
Alignment explanation
Indices: 484806--484889 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
484796 TGTTCAGCAT
*
484806 TGTGCGTGCTTACTGATTTGCAC
1 TGTGTGTGCTTACTGATTTGCAC
* *
484829 AGTGTGTGCTTACTGTTTTGCAC
1 TGTGTGTGCTTACTGATTTGCAC
* * * *
484852 TCTGTGTACCTACTAATTTGCAC
1 TGTGTGTGCTTACTGATTTGCAC
484875 TGTGTGTGCTTACTG
1 TGTGTGTGCTTACTG
484890 TTTCCCCAGC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.42
Consensus pattern (23 bp):
TGTGTGTGCTTACTGATTTGCAC
Found at i:495454 original size:138 final size:138
Alignment explanation
Indices: 495204--495481 Score: 493
Period size: 138 Copynumber: 2.0 Consensus size: 138
495194 TATTACGTCG
*
495204 CTTATAGGATGATTTCTCTATTAACAGAAGCTTGATTTTATTGTTTACTGTCAAAAAGCTTGTAA
1 CTTATAGAATGATTTCTCTATTAACAGAAGCTTGATTTTATTGTTTACTGTCAAAAAGCTTGTAA
* *
495269 ATGGATGCTGATCTTTATGTATGTTTAGACTTACTTCAAGTAAGATTTTTCCAGTTGCTTTTGTT
66 ATGGATGCTGATCTTTATGTATGTTTAGACTTACTTCAAGTAAGATTTTTCCAATTGCTTATGTT
495334 GATTTTGT
131 GATTTTGT
* * *
495342 CTTATAGAATGTTTTCTTTATTAACAGAAGCTTGATTTTATTGTTTACTGTTAAAAAGCTTGTAA
1 CTTATAGAATGATTTCTCTATTAACAGAAGCTTGATTTTATTGTTTACTGTCAAAAAGCTTGTAA
*
495407 ATGGATGCTGATCTTTATGTATGTTTAGACTTACTTCAAGTAGGATTTTTCCAATTGCTTATGTT
66 ATGGATGCTGATCTTTATGTATGTTTAGACTTACTTCAAGTAAGATTTTTCCAATTGCTTATGTT
495472 GATTTTGT
131 GATTTTGT
495480 CT
1 CT
495482 CAAAAAACAG
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (138 bp):
CTTATAGAATGATTTCTCTATTAACAGAAGCTTGATTTTATTGTTTACTGTCAAAAAGCTTGTAA
ATGGATGCTGATCTTTATGTATGTTTAGACTTACTTCAAGTAAGATTTTTCCAATTGCTTATGTT
GATTTTGT
Found at i:499926 original size:177 final size:177
Alignment explanation
Indices: 499649--499967 Score: 498
Period size: 177 Copynumber: 1.8 Consensus size: 177
499639 ATTAAATCCC
* * * *
499649 TGATTTTATTTTATAGTCACTTGGATATTTAAACTTTCAAAATGCATAAAAAAAATCTTCAAACT
1 TGATTTTATTTTACACTCACTTGGATATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAACT
* *
499714 TTTTCAAAAAAGCAATTAAGCTCTTGCTTTTATTTTGCACTCAATTGGGTACTTAAACTTTCAAA
66 TTTTCAAAAAAGCAATTAAGCTCTTACTGTTATTTTGCACTCAATTGGGTACTTAAACTTTCAAA
*
499779 ATGCATCAAAAAGACCTTCAAACTTTAAAAAAACGCAATTAAGCCCT
131 ATGCATAAAAAAGACCTTCAAACTTTAAAAAAACGCAATTAAGCCCT
* * *
499826 TGATTTTATTTTGCACTCACTTGGATATTTGAAA-TTTCGAAATGCATAAAAAAGACCCTCAAAC
1 TGATTTTATTTTACACTCACTTGGATATTT-AAACTTTCAAAATGCATAAAAAAAACCCTCAAAC
* *
499890 TTTTTCAAAAAAGCAATTAAGC-CTATACTGTTATTTTGCACTCAATTGGGTATTTGAACTTTCA
65 TTTTTCAAAAAAGCAATTAAGCTCT-TACTGTTATTTTGCACTCAATTGGGTACTTAAACTTTCA
499954 AAATGCATAAAAAA
129 AAATGCATAAAAAA
499968 AGGCCCTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
176 2 0.02
177 123 0.96
178 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (177 bp):
TGATTTTATTTTACACTCACTTGGATATTTAAACTTTCAAAATGCATAAAAAAAACCCTCAAACT
TTTTCAAAAAAGCAATTAAGCTCTTACTGTTATTTTGCACTCAATTGGGTACTTAAACTTTCAAA
ATGCATAAAAAAGACCTTCAAACTTTAAAAAAACGCAATTAAGCCCT
Found at i:500041 original size:93 final size:91
Alignment explanation
Indices: 499669--500033 Score: 403
Period size: 89 Copynumber: 4.1 Consensus size: 91
499659 TTATAGTCAC
* * * * *
499669 TTGGATATTTAAACTTTCAAAATGCATAAAAAAAATCTTCAAACTTTTTC--AAAAAAGCAATTA
1 TTGGGTATTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTCAAAAAAAAGCAATTA
*
499732 AGCTCTTG-CTTTTATTTTGCACTCAA
66 AGCCCTTGAC-TTTATTTTGCACTCAA
* * * * *
499758 TTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCTTCAAAC--TTT-AAAAAAACGCAATTA
1 TTGGGTATTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTCAAAAAAAAGCAATTA
* *
499820 AGCCCTTGATTTTATTTTGCACTCAC
66 AGCCCTTGACTTTATTTTGCACTCAA
* * *
499846 TTGGATATTTGAAATTTCGAAATGCATAAAAAAGACCCTCAAACTTTTTC--AAAAAAGCAATTA
1 TTGGGTATTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTCAAAAAAAAGCAATTA
499909 AG-CCTAT-ACTGTTATTTTGCACTCAA
66 AGCCCT-TGACT-TTATTTTGCACTCAA
* ** *
499935 TTGGGTATTTGAACTTTCAAAATGCATAAAAAAAGGCCCTCAATTTTTTTTCGAAAAAAAAAACA
1 TTGGGTATTTGAACTTTCAAAATGCAT-AAAAAAGACCCTCAA-ACTTTTTC--AAAAAAAAGCA
500000 ATTAAGCCCTTGA-TTT-TTTTGCACTCAA
62 ATTAAGCCCTTGACTTTATTTTGCACTCAA
500028 TTGGGT
1 TTGGGT
500034 GCTTGAACCG
Statistics
Matches: 234, Mismatches: 26, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
87 3 0.01
88 76 0.32
89 92 0.39
90 17 0.07
91 6 0.03
93 18 0.08
94 2 0.01
95 16 0.07
96 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (91 bp):
TTGGGTATTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTCAAAAAAAAGCAATTA
AGCCCTTGACTTTATTTTGCACTCAA
Found at i:505651 original size:353 final size:354
Alignment explanation
Indices: 504999--505808 Score: 1143
Period size: 353 Copynumber: 2.3 Consensus size: 354
504989 GGAAGCTAAT
* * * *
504999 GTCACTTTTGTTAAAATTAACGAAAATTTACCGATTTTACTAAAACGTATTAAGCTAATGCCGTT
1 GTCACTTTTGTTAAAATTGACGAAAATTAACCGATTTTACTAAAACGTGTTAAGCTAATGTCGTT
*
505064 TTCAGAGAAAACTCAAAAAATCACGTCCAACTAAAAGCCATTAATGAAAAATGAACAAAATAAAA
66 TTCAGAGAAAACTCAAAAAAGCACGTCCAACTAAAAGCCATTAATGAAAAATGAACAAAATAAAA
*
505129 ATCACAACTAATTAAATGACCAATTTAAAAACCTTTATAATTAGACGACAAAAAAAACCTCATGT
131 ATCACAACCAATTAAATGACCAATTTAAAAACCTTTATAATTAGACGACAAAAAAAACCTCATGT
* ** * * *
505194 TATTTGTCCCTTTATTTAAAATTAATTAATTACTGGAAAGTAGAAACCCAGAGAAGTTGTCCAGT
196 TATTTGTCCCTTTATTTAAAATTAATTAACTACTAAAAAGTAGAAACCCAGAGAAGCTATCCAAT
* *
505259 GGGGGCAGAAGTTCTCGTTATGGTTTGATTTGAATTTATAATTTAGATCAATTTATC-AAA-AAA
261 GAGGACAGAAGTTCTCGTTATGGTTTGATTTGAATTTATAATTTAGATCAATTTA-CAAAACAAA
*
505322 ACCCATTTTTTACAAAAATTATGAAAATGG
325 ACCCATCTTTTACAAAAATTATGAAAATGG
* * *
505352 GTCACTTTTGTTAAAATTGACAAAAATTGACCGATTTTACTAAAACGTGTTAAGTTAATGTCGTT
1 GTCACTTTTGTTAAAATTGACGAAAATTAACCGATTTTACTAAAACGTGTTAAGCTAATGTCGTT
**
505417 TTCAGAGAAAACTCAAAAAAGCACGTCCAACTAAAAGTTATTAATGAAAAATGAACAAAATAAAA
66 TTCAGAGAAAACTCAAAAAAGCACGTCCAACTAAAAGCCATTAATGAAAAATGAACAAAATAAAA
* *
505482 AT-ATCAACCAATTAAGTGACCAA-TTAGAAAACTTTTATAATT-GAACGACAAAAAAACAACC-
131 ATCA-CAACCAATTAAATGACCAATTTA-AAAACCTTTATAATTAG-ACGAC-AAAAAA-AACCT
505543 CATGTTATTTGTCCCTTTATTTAAAATTAATT-ACTA-TAAAAAGTAGAAACCCCAGAGAAGCTA
191 CATGTTATTTGTCCCTTTATTTAAAATTAATTAACTACTAAAAAGTAGAAA-CCCAGAGAAGCTA
* * * *
505606 TCTAATGAGGACTGAAGTTCTCGTTATGGTTTGATTTGGATTTATAATTTAGATTAATTTACAAA
255 TCCAATGAGGACAGAAGTTCTCGTTATGGTTTGATTTGAATTTATAATTTAGATCAATTTAC-AA
**
505671 AACAAAATGCATCTTTTACAAAAATTATGAAAATGG
319 AACAAAACCCATCTTTTACAAAAATTATGAAAATGG
* * ** * *
505707 GTCACTTTTGTTAAAATTGATGAAAACTAATTGATTTTAATAAAACGTGCTAAGCTAATGTCGTT
1 GTCACTTTTGTTAAAATTGACGAAAATTAACCGATTTTACTAAAACGTGTTAAGCTAATGTCGTT
* * * *
505772 TT-AAAAAAAACTCAAAAAAGCACGTTCAATTAAAAGC
66 TTCAGAGAAAACTCAAAAAAGCACGTCCAACTAAAAGC
505809 GCTTTTCCCT
Statistics
Matches: 407, Mismatches: 41, Indels: 17
0.88 0.09 0.04
Matches are distributed among these distances:
352 17 0.04
353 227 0.56
354 71 0.17
355 92 0.23
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (354 bp):
GTCACTTTTGTTAAAATTGACGAAAATTAACCGATTTTACTAAAACGTGTTAAGCTAATGTCGTT
TTCAGAGAAAACTCAAAAAAGCACGTCCAACTAAAAGCCATTAATGAAAAATGAACAAAATAAAA
ATCACAACCAATTAAATGACCAATTTAAAAACCTTTATAATTAGACGACAAAAAAAACCTCATGT
TATTTGTCCCTTTATTTAAAATTAATTAACTACTAAAAAGTAGAAACCCAGAGAAGCTATCCAAT
GAGGACAGAAGTTCTCGTTATGGTTTGATTTGAATTTATAATTTAGATCAATTTACAAAACAAAA
CCCATCTTTTACAAAAATTATGAAAATGG
Found at i:506075 original size:7 final size:7
Alignment explanation
Indices: 506063--506087 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
506053 TCATGAATAG
506063 GTTTGTA
1 GTTTGTA
506070 GTTTGTA
1 GTTTGTA
506077 GTTTGTA
1 GTTTGTA
506084 GTTT
1 GTTT
506088 ATTTCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
GTTTGTA
Found at i:507511 original size:53 final size:53
Alignment explanation
Indices: 507418--507518 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 53
507408 CACACGGGCA
* * * * *
507418 TGTGTCAAGGTGTGTGTATATTGCTCTGGGGCACACGGGCTGACACATGGACG
1 TGTGCCAAGGTGTGTGTATACTGCTCTAGGGAACACGGGCTAACACATGGACG
* * *
507471 TGTGCCAAGTTGTGTGTATACTGTTCTAGGGAACATGGGCTAACACAT
1 TGTGCCAAGGTGTGTGTATACTGCTCTAGGGAACACGGGCTAACACAT
507519 CGGTGTGGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (53 bp):
TGTGCCAAGGTGTGTGTATACTGCTCTAGGGAACACGGGCTAACACATGGACG
Found at i:508012 original size:40 final size:40
Alignment explanation
Indices: 507968--508072 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
507958 TAACTGAGTT
* * * *
507968 GACAGTGACACTGTAAACTCTACAATATTATAACTGAACC
1 GACAGTGACACTATAAACACTACAAGATTACAACTGAACC
* * *
508008 GACAGTGACACTATAAACACTACAAGGTTACCACTGAACT
1 GACAGTGACACTATAAACACTACAAGATTACAACTGAACC
*
508048 GGCAGTGACACTATAAACACTACAA
1 GACAGTGACACTATAAACACTACAA
508073 CATGTCATAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (40 bp):
GACAGTGACACTATAAACACTACAAGATTACAACTGAACC
Found at i:510358 original size:43 final size:43
Alignment explanation
Indices: 510311--510394 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
510301 GTGTGTCCAG
*
510311 GGTGTGGGTCTATATTATTTGGAGGCACACGGGCTGGCACATA
1 GGTGTGGGTCTATACTATTTGGAGGCACACGGGCTGGCACATA
* * * * *
510354 GGTGTGTGTTTATACTGTTTGGAGGTACACGGGTTGGCACA
1 GGTGTGGGTCTATACTATTTGGAGGCACACGGGCTGGCACA
510395 CAGGCATGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.31
Consensus pattern (43 bp):
GGTGTGGGTCTATACTATTTGGAGGCACACGGGCTGGCACATA
Found at i:510393 original size:55 final size:55
Alignment explanation
Indices: 510353--510587 Score: 162
Period size: 53 Copynumber: 4.4 Consensus size: 55
510343 GCTGGCACAT
* * * * *
510353 AGGTGTGTGTTTATACTGTTTGGAGGTACACGGGTTGGCACACAGGCATGTGTCA
1 AGGTGTGTGTCTATACTGTTTGGAGGCACACGGGCTGGCACACGGGCATGTGACA
* * * * * *
510408 GGGTGTGTGTCTATACTGTTTGGAGGCACATGGGCTAGCACACGGACATGGGTCA
1 AGGTGTGTGTCTATACTGTTTGGAGGCACACGGGCTGGCACACGGGCATGTGACA
* * * * * *
510463 AAGTGTATG--TATATTGTTCT-AAGGCACACGGGCTGGCACACGGGCGTGTGTC-
1 AGGTGTGTGTCTATACTGTT-TGGAGGCACACGGGCTGGCACACGGGCATGTGACA
* * * * * * * *
510515 AGG-GTGTGTGTATATTGCTCT-AAGGCACACAGGCTGACACATGGGCATGTGGC-
1 AGGTGTGTGTCTATACTG-TTTGGAGGCACACGGGCTGGCACACGGGCATGTGACA
*
510568 AGG-GTGTGTGTATACTGTTT
1 AGGTGTGTGTCTATACTGTTT
510588 TGGGGAACAT
Statistics
Matches: 147, Mismatches: 29, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
51 4 0.03
52 4 0.03
53 85 0.58
54 2 0.01
55 52 0.35
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (55 bp):
AGGTGTGTGTCTATACTGTTTGGAGGCACACGGGCTGGCACACGGGCATGTGACA
Found at i:510550 original size:53 final size:52
Alignment explanation
Indices: 510380--510581 Score: 206
Period size: 53 Copynumber: 3.8 Consensus size: 52
510370 GTTTGGAGGT
* * * * *
510380 ACACGGGTTGGCACACAGGCATGTGTCAGGGTGTGTGTCTATACTGTTTGGAGGC
1 ACACGGGCTGGCACACGGGCATGTGTCAGGGTGTGTG--TATATTGTCT-AAGGC
* * * * ** *
510435 ACATGGGCTAGCACACGGACATGGGTCAAAGTGTATGTATATTGTTCTAAGGC
1 ACACGGGCTGGCACACGGGCATGTGTCAGGGTGTGTGTATATTG-TCTAAGGC
*
510488 ACACGGGCTGGCACACGGGCGTGTGTCAGGGTGTGTGTATATTGCTCTAAGGC
1 ACACGGGCTGGCACACGGGCATGTGTCAGGGTGTGTGTATATTG-TCTAAGGC
* * * *
510541 ACACAGGCTGACACATGGGCATGTGGCAGGGTGTGTGTATA
1 ACACGGGCTGGCACACGGGCATGTGTCAGGGTGTGTGTATA
510582 CTGTTTTGGG
Statistics
Matches: 120, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
53 90 0.75
54 2 0.02
55 28 0.23
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (52 bp):
ACACGGGCTGGCACACGGGCATGTGTCAGGGTGTGTGTATATTGTCTAAGGC
Found at i:512123 original size:52 final size:52
Alignment explanation
Indices: 511834--512122 Score: 456
Period size: 52 Copynumber: 5.6 Consensus size: 52
511824 TTCTCATTTA
* * *
511834 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCG-AAAGAATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
511885 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCG-AAAGGATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
511936 ATACTCACGATGATACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
511988 ATACTCACGATAACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
512040 ATACTCACGATGACACATAGTCATTGGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
512092 ATACTCACAATGACACATAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
512123 TTTGTATTTA
Statistics
Matches: 221, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
51 87 0.39
52 134 0.61
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:512693 original size:18 final size:16
Alignment explanation
Indices: 512662--512697 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
512652 CCTCAATACC
512662 ATTTCATTTCAATTTA
1 ATTTCATTTCAATTTA
512678 ATTTCATTCCTCAATTTA
1 ATTTCATT--TCAATTTA
512696 AT
1 AT
512698 ATTTACTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTCATTTCAATTTA
Found at i:517213 original size:52 final size:52
Alignment explanation
Indices: 517106--517338 Score: 292
Period size: 52 Copynumber: 4.5 Consensus size: 52
517096 AAAAGGTTCA
* * * ** *
517106 ATGACTTTGTGTCATCGTGAGTTATCTGAATCTTTTACGGGTT-TCAAGGTCCG
1 ATGACTATGTGTCATCGTGAG-TATATGAATCCTTTACGAATTAT-GAGGTCCG
* * *
517159 ATGACTATGTGTCATCATGAGTATATGAATCCTTTACGAATTATGAGATTCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAGGTCCG
* *
517211 ATGACTATGTGTCA-CGGTGAGTATATGAATCCTTTACGGATTATGAGGTCCA
1 ATGACTATGTGTCATC-GTGAGTATATGAATCCTTTACGAATTATGAGGTCCG
* *
517263 ATGACTATGTGTCATGGTGAGTATATGAATCTTTTAC-AGATTATGAGGTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGA-ATTATGAGGTCCG
517315 ATGACTATGTGTCATCGTGAGTAT
1 ATGACTATGTGTCATCGTGAGTAT
517339 TAAATGAGAA
Statistics
Matches: 157, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
51 1 0.01
52 136 0.87
53 20 0.13
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (52 bp):
ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGAGGTCCG
Found at i:518899 original size:29 final size:29
Alignment explanation
Indices: 518857--518944 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 29
518847 AGTGATGAGG
*
518857 GTATCACGTCTGCATCTGTAACTGTATTT
1 GTATCATGTCTGCATCTGTAACTGTATTT
* * *
518886 GTATCATGTCTGCATCCGTAACTGAACTT
1 GTATCATGTCTGCATCTGTAACTGTATTT
* * * *
518915 GTA-CATGACTGTATCTGTGACTATATTT
1 GTATCATGTCTGCATCTGTAACTGTATTT
518943 GT
1 GT
518945 GGCATGATTG
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 20 0.42
29 28 0.58
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (29 bp):
GTATCATGTCTGCATCTGTAACTGTATTT
Found at i:519958 original size:43 final size:41
Alignment explanation
Indices: 519876--519956 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
519866 AAAACTAATA
* * * *
519876 TATATATTGAAAGTAATAGTTGGATTCCATTAAAAAAAAAT
1 TATATATTAAAAATAATAGCTGAATTCCATTAAAAAAAAAT
519917 TATATATTAAAAATAATAGCTGAATTCCATTAAAAAAAAA
1 TATATATTAAAAATAATAGCTGAATTCCATTAAAAAAAAA
519957 AAGGCATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (41 bp):
TATATATTAAAAATAATAGCTGAATTCCATTAAAAAAAAAT
Found at i:520044 original size:64 final size:63
Alignment explanation
Indices: 519948--520069 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 63
519938 GAATTCCATT
* * * *
519948 AAAAAAAAAAAGGCATGAAGGCCAAGTGTCAAAACAAAATAAGACTT-AGAATGCTTAATATTA
1 AAAAAAAAAAAGACATGAACGCCAAATGTCAAAACAAAACAAGACTTAAGAA-GCTTAATATTA
*
520011 AAAAGAAAAAAAGACATGAACGCCAAATGTCAAAATAAAACAAGACTTAAGAAGCTTAA
1 AAAA-AAAAAAAGACATGAACGCCAAATGTCAAAACAAAACAAGACTTAAGAAGCTTAA
520070 CCACCCATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 4 0.08
64 44 0.85
65 4 0.08
ACGTcount: A:0.57, C:0.12, G:0.15, T:0.16
Consensus pattern (63 bp):
AAAAAAAAAAAGACATGAACGCCAAATGTCAAAACAAAACAAGACTTAAGAAGCTTAATATTA
Found at i:521356 original size:24 final size:24
Alignment explanation
Indices: 521329--521377 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
521319 AAGTTTAAGT
521329 ATACTAAAAAAAGGAACAGAAAAC
1 ATACTAAAAAAAGGAACAGAAAAC
521353 ATACTAAAAAAAGGAACAGAAAAC
1 ATACTAAAAAAAGGAACAGAAAAC
521377 A
1 A
521378 GCAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.67, C:0.12, G:0.12, T:0.08
Consensus pattern (24 bp):
ATACTAAAAAAAGGAACAGAAAAC
Found at i:522737 original size:3 final size:3
Alignment explanation
Indices: 522729--522756 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
522719 ACAATGGCAC
522729 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
522757 GTACTAACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:524625 original size:28 final size:28
Alignment explanation
Indices: 524591--524656 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
524581 GGTCAAATTC
*
524591 AAATTTTTGGTAGTTCAAGGCTAAATCT
1 AAATTTTTGGCAGTTCAAGGCTAAATCT
**
524619 AAATTTTTGGCAGTTCGGGGCTAAATCT
1 AAATTTTTGGCAGTTCAAGGCTAAATCT
524647 AAATTTTTGG
1 AAATTTTTGG
524657 AAAGTTTGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (28 bp):
AAATTTTTGGCAGTTCAAGGCTAAATCT
Found at i:524721 original size:30 final size:30
Alignment explanation
Indices: 524648--524850 Score: 220
Period size: 30 Copynumber: 6.9 Consensus size: 30
524638 GCTAAATCTA
524648 AATTTTTGGAAAGTTTGAGGGTCAAATATG
1 AATTTTTGGAAAGTTTGAGGGTCAAATATG
* *
524678 AA-TTTTGGGAAGTTTGGGGGTCAAATATG
1 AATTTTTGGAAAGTTTGAGGGTCAAATATG
** *
524707 AATTTTTGGAAAGTTCAAGGGTCAAA-ACTT
1 AATTTTTGGAAAGTTTGAGGGTCAAATA-TG
*
524737 AATTTTTGGAAAGTTTGAGGGTCAAA-ATT
1 AATTTTTGGAAAGTTTGAGGGTCAAATATG
* * *
524766 AA-TTTTGGAAAGTTCGGGGGTCAAATTTG
1 AATTTTTGGAAAGTTTGAGGGTCAAATATG
* * *
524795 AATTTTTAGAAAGTGTGAGGGTCAACACAT-
1 AATTTTTGGAAAGTTTGAGGGTCAA-ATATG
*
524825 AATTTTT-GACCAGTTTGAGGGTCAAA
1 AATTTTTGGA-AAGTTTGAGGGTCAAA
524851 ACATAATTTC
Statistics
Matches: 146, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
28 21 0.14
29 38 0.26
30 85 0.58
31 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (30 bp):
AATTTTTGGAAAGTTTGAGGGTCAAATATG
Found at i:524788 original size:88 final size:88
Alignment explanation
Indices: 524648--524851 Score: 286
Period size: 88 Copynumber: 2.3 Consensus size: 88
524638 GCTAAATCTA
* *
524648 AATTTTTGGAAAGTTTGAGGGTCAAATATGAATTTTGGGAAGTTTGGGGGTCAAATATGAATTTT
1 AATTTTTGGAAAGTTTGAGGGTCAAA-ATGAATTTTGGAAAGTTCGGGGGTCAAATATGAATTTT
* *
524713 TGGAAAGT-TCAAGGGTCAAAACTT
65 TAGAAAGTGT-AAGGGTCAAAACAT
* *
524737 AATTTTTGGAAAGTTTGAGGGTCAAAATTAATTTTGGAAAGTTCGGGGGTCAAATTTGAATTTTT
1 AATTTTTGGAAAGTTTGAGGGTCAAAATGAATTTTGGAAAGTTCGGGGGTCAAATATGAATTTTT
* *
524802 AGAAAGTGTGAGGGTCAACACAT
66 AGAAAGTGTAAGGGTCAAAACAT
*
524825 AATTTTT-GACCAGTTTGAGGGTCAAAA
1 AATTTTTGGA-AAGTTTGAGGGTCAAAA
524852 CATAATTTCT
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
87 2 0.02
88 75 0.72
89 27 0.26
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (88 bp):
AATTTTTGGAAAGTTTGAGGGTCAAAATGAATTTTGGAAAGTTCGGGGGTCAAATATGAATTTTT
AGAAAGTGTAAGGGTCAAAACAT
Found at i:526745 original size:46 final size:46
Alignment explanation
Indices: 526674--526958 Score: 170
Period size: 46 Copynumber: 6.2 Consensus size: 46
526664 CCCATGATCG
* *
526674 GGGTAAAAGATTGGATGGTGTCTTCAATCTGCCCTTCTTAACTTAA
1 GGGTAAAATATTGGATGATGTCTTCAATCTGCCCTTCTTAACTTAA
* * * *
526720 GGGTAAAATATTGGATGATGGCTTCAATCTGCCTTTCTTGACTTAG
1 GGGTAAAATATTGGATGATGTCTTCAATCTGCCCTTCTTAACTTAA
* ** *
526766 GGGT-AAATGATTGGATGATGTCTTCAATTCAATCTGCCC--CAT-GGTT-G
1 GGGTAAAAT-ATTGGATGATG---TC--TTCAATCTGCCCTTCTTAACTTAA
* * * * * *
526813 GGGTAAGAGATTGAATGATGTCTTTAATCTGCCTTTCTTGACTTAA
1 GGGTAAAATATTGGATGATGTCTTCAATCTGCCCTTCTTAACTTAA
* * * * * * * * * *
526859 GGGTAAGAGATTGAATAATGTCTTTAATTTGCCCCTGTTGACTCAA
1 GGGTAAAATATTGGATGATGTCTTCAATCTGCCCTTCTTAACTTAA
* ** * *
526905 GGGTAAAAGATTAAACGATTGT-TTCAATCTG-CCTCTCTTGACTTAA
1 GGGTAAAATATTGGATGA-TGTCTTCAATCTGCCCT-TCTTAACTTAA
526951 GGGTAAAA
1 GGGTAAAA
526959 GACTGAATGA
Statistics
Matches: 191, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
42 10 0.05
44 4 0.02
45 8 0.04
46 133 0.70
47 18 0.09
48 4 0.02
49 3 0.02
51 11 0.06
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (46 bp):
GGGTAAAATATTGGATGATGTCTTCAATCTGCCCTTCTTAACTTAA
Found at i:526931 original size:139 final size:139
Alignment explanation
Indices: 526663--526932 Score: 308
Period size: 139 Copynumber: 1.9 Consensus size: 139
526653 CTTTACTCTA
* *
526663 CCCCATGATCGGGGTAAAAGATTGGATGGTGTCTTCAATCTGCCCTTCTTAACTTAAGGGTAAAA
1 CCCCATGATCGGGGTAAAAGATTGAATGATGTCTTCAATCTGCCCTTCTTAACTTAAGGGTAAAA
* * * ** * * * ** *
526728 TATTGGATGATGGCTTCAATCTGCCTTTCTTGACTTAGGGGTAAATGATTGGATGATGTCTTCAA
66 GATTGAATAATGGCTTCAATCTGCCCCTCTTGACTCAAGGGTAAAAGATTAAACGATGTCTTCAA
526793 TTCAATCTG
131 TTCAATCTG
* * * * * * *
526802 CCCCATGGTTGGGGTAAGAGATTGAATGATGTCTTTAATCTGCCTTTCTTGACTTAAGGGTAAGA
1 CCCCATGATCGGGGTAAAAGATTGAATGATGTCTTCAATCTGCCCTTCTTAACTTAAGGGTAAAA
* * * *
526867 GATTGAATAATGTCTTTAATTTGCCCCTGTTGACTCAAGGGTAAAAGATTAAACGATTGT-TTCA
66 GATTGAATAATGGCTTCAATCTGCCCCTCTTGACTCAAGGGTAAAAGATTAAACGA-TGTCTTCA
526931 AT
130 AT
526933 CTGCCTCTCT
Statistics
Matches: 106, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
139 103 0.97
140 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (139 bp):
CCCCATGATCGGGGTAAAAGATTGAATGATGTCTTCAATCTGCCCTTCTTAACTTAAGGGTAAAA
GATTGAATAATGGCTTCAATCTGCCCCTCTTGACTCAAGGGTAAAAGATTAAACGATGTCTTCAA
TTCAATCTG
Found at i:527284 original size:48 final size:48
Alignment explanation
Indices: 527213--527304 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
527203 ATTGAGCTTC
** * *
527213 ACTTCATTGTTTTGGTCTACTTCTCTGTATCTCACCAAGAAGATGACA
1 ACTTCATTGTTTTGACCCACTTCTCTATATCTCACCAAGAAGATGACA
*
527261 ACTTCATTGTTTTGACCCACTTCTCTATATCTCATCAAGAAGAT
1 ACTTCATTGTTTTGACCCACTTCTCTATATCTCACCAAGAAGAT
527305 AGGGTTTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (48 bp):
ACTTCATTGTTTTGACCCACTTCTCTATATCTCACCAAGAAGATGACA
Found at i:527378 original size:123 final size:123
Alignment explanation
Indices: 527033--527749 Score: 959
Period size: 123 Copynumber: 5.8 Consensus size: 123
527023 TTATTTGGCT
* ** *
527033 CACTTCTCTGTATCTCATCAGGAAGATAAGGTTTGAAGTTTCACTCGCATTGAGCTTCGCTTCAT
1 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
* * *
527098 TGTTTTTGTCTACTTCTCTGTATCTCATCAAGAAGATGACCACTTAATTGTTTTGACC
66 TGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGTTTTGACC
* ** *
527156 CACTTCTTTGTATCTCATCAAGAAGAT-GGGTTTGAAGTTTCACTCGTATTGAGCTTCACTTCAT
1 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
* * *
527220 TGTTTTGGTCTACTTCTCTGTATCTCACCAAGAAGATGACAACTTCATTGTTTTGACC
66 TGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGTTTTGACC
* * *
527278 CACTTCTCTATATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGT
1 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
* * * * * *
527343 TGATTTGGTCCACTTCTCTGTATCTTATCAGGAAGATGATCGCTTCATTGTTTTGATC
66 TGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGTTTTGACC
* * *
527401 CACTTCTTTGTATCTTATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
1 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
* * * *
527466 TGTTTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACTACTTCATTTTTTTGACT
66 TGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGTTTTGACC
* * * * **
527524 TACTTCTCTGTATCTCATCAAGAATATGGGGTTTAAAGTTTCACTCACATTGAGCTTCACTTTGT
1 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
* * * * * *
527589 TGATTTAGTCTCCTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATC
66 TGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGTTTTGACC
* **
527647 CACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCATTTCAT
1 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
** * * * **
527712 TAATTTCGTCTACTGCTTTGTATCTCATTTGGAAGATG
66 TGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATG
527750 GGATTTAAAG
Statistics
Matches: 519, Mismatches: 74, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
122 113 0.22
123 406 0.78
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (123 bp):
CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCAT
TGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGTTTTGACC
Found at i:527405 original size:48 final size:48
Alignment explanation
Indices: 527334--527428 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
527324 ACATTGAGCT
* *
527334 TCGCTTCGTTGATTTGGTCCACTTCTCTGTATCTTATCAGGAAGATGA
1 TCGCTTCATTGATTTGATCCACTTCTCTGTATCTTATCAGGAAGATGA
* *
527382 TCGCTTCATTGTTTTGATCCACTTCTTTGTATCTTATCAGGAAGATG
1 TCGCTTCATTGATTTGATCCACTTCTCTGTATCTTATCAGGAAGATG
527429 GGGTTTGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (48 bp):
TCGCTTCATTGATTTGATCCACTTCTCTGTATCTTATCAGGAAGATGA
Found at i:527792 original size:198 final size:198
Alignment explanation
Indices: 527524--528113 Score: 788
Period size: 198 Copynumber: 3.0 Consensus size: 198
527514 TTTTTTGACT
* * * * *
527524 TACTTCTCTGTATCTCATCAAGAATATGGGGTTTAAAGTTTCACTCACATTGAGCTTCACTTTGT
1 TACTGCTCTGTATATCATTAAGAAGATGGGGTTTAAAGTTTCACTCACATTGAGCTTCGCTTTGT
*
527589 TGATTTAGTCTCCTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
66 TGATTTGGTCTCCTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
* *
527654 CTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCATTTCATTAATTTC
131 TTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTAATTTC
527719 GTC
196 GTC
* * ** * * *
527722 TACTGCTTTGTATCTCATTTGGAAGATGGGATTTAAAGTTTCACTCACATTGAGCTCCGCTTTAT
1 TACTGCTCTGTATATCATTAAGAAGATGGGGTTTAAAGTTTCACTCACATTGAGCTTCGCTTTGT
* * * * *
527787 TGATTTGGTCTACTTCTTTATATCTTATCAAGAAGATGACCGCTTCATTGTTTTGACCCACTTCT
66 TGATTTGGTCTCCTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
* * * ** ** *
527852 TTGTATCTCATTAGGAAGATAGGGTTTGAAGTTTCACTCATATTGAGCTTTGCTTCATTGTTTTG
131 TTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTAATTTC
*
527917 GTT
196 GTC
* * ** * * *
527920 TACTTCTCTGTATATCATTAAGAAGACGGGGTTCGAAGTTTCTCTCACATTGAGCTTTGCTTCGT
1 TACTGCTCTGTATATCATTAAGAAGATGGGGTTTAAAGTTTCACTCACATTGAGCTTCGCTTTGT
* * *
527985 TGATTTGGT-TCACTTCTCTACATCTCATCAGGAAGATGTCCGCTTCATTGTTTTGATCTACTTC
66 TGATTTGGTCTC-CTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTC
*
528049 TTTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAG-TTCTACTTCGTTAATT
130 TTTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC-ACTTCATTAATT
528113 T
194 T
528114 GGTCCACTTT
Statistics
Matches: 333, Mismatches: 57, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
197 3 0.01
198 330 0.99
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (198 bp):
TACTGCTCTGTATATCATTAAGAAGATGGGGTTTAAAGTTTCACTCACATTGAGCTTCGCTTTGT
TGATTTGGTCTCCTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
TTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTAATTTC
GTC
Found at i:527798 original size:75 final size:75
Alignment explanation
Indices: 527628--527824 Score: 225
Period size: 75 Copynumber: 2.6 Consensus size: 75
527618 AGGAAGATGA
* * * * * * *
527628 CCGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTC
1 CCGCTTTATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGGGATTTAAAGTTTCACTC
527693 ACATTGAGCT
66 ACATTGAGCT
* * * * * **
527703 TC-ATTTCATTAATTTCGTCTACTGCTTTGTATCTCATTTGGAAGATGGGATTTAAAGTTTCACT
1 CCGCTTT-ATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGGGATTTAAAGTTTCACT
527767 CACATTGAGCT
65 CACATTGAGCT
* * *
527778 CCGCTTTATTGATTTGGTCTACTTCTTTATATCTTATCAAGAAGATG
1 CCGCTTTATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATG
527825 ACCGCTTCAT
Statistics
Matches: 96, Mismatches: 24, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
74 2 0.02
75 91 0.95
76 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (75 bp):
CCGCTTTATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGGGATTTAAAGTTTCACTC
ACATTGAGCT
Found at i:527952 original size:75 final size:75
Alignment explanation
Indices: 527828--528003 Score: 226
Period size: 75 Copynumber: 2.3 Consensus size: 75
527818 GAAGATGACC
*** * * * * * *
527828 GCTTCATTGTTTTGACCCACTTCTTTGTATCTCATTAGGAAGATAGGGTTTGAAGTTTCACTCAT
1 GCTTCATTGTTTTGGTTCACTTCTCTGTATATCATTAAGAAGACAGGGTTCGAAGTTTCACTCAC
527893 ATTGAGCTTT
66 ATTGAGCTTT
* * *
527903 GCTTCATTGTTTTGGTTTACTTCTCTGTATATCATTAAGAAGACGGGGTTCGAAGTTTCTCTCAC
1 GCTTCATTGTTTTGGTTCACTTCTCTGTATATCATTAAGAAGACAGGGTTCGAAGTTTCACTCAC
527968 ATTGAGCTTT
66 ATTGAGCTTT
* *
527978 GCTTCGTTGATTTGGTTCACTTCTCT
1 GCTTCATTGTTTTGGTTCACTTCTCT
528004 ACATCTCATC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 86 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (75 bp):
GCTTCATTGTTTTGGTTCACTTCTCTGTATATCATTAAGAAGACAGGGTTCGAAGTTTCACTCAC
ATTGAGCTTT
Found at i:528020 original size:75 final size:75
Alignment explanation
Indices: 527856--528020 Score: 213
Period size: 75 Copynumber: 2.2 Consensus size: 75
527846 ACTTCTTTGT
* * * * *
527856 ATCTCATTAGGAAGATAGGGTTTGAAGTTTCACTCATATTGAGCTTTGCTTCATTGTTTTGGTTT
1 ATCTCATTAGGAAGACAGGGTTCGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTTC
**
527921 ACTTCTCTGT
66 ACTTCTCTAC
* * * * *
527931 ATATCATTAAGAAGACGGGGTTCGAAGTTTCTCTCACATTGAGCTTTGCTTCGTTGATTTGGTTC
1 ATCTCATTAGGAAGACAGGGTTCGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTTC
527996 ACTTCTCTAC
66 ACTTCTCTAC
*
528006 ATCTCATCAGGAAGA
1 ATCTCATTAGGAAGA
528021 TGTCCGCTTC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (75 bp):
ATCTCATTAGGAAGACAGGGTTCGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTTC
ACTTCTCTAC
Found at i:528034 original size:123 final size:122
Alignment explanation
Indices: 527903--528165 Score: 357
Period size: 123 Copynumber: 2.1 Consensus size: 122
527893 ATTGAGCTTT
* * * *
527903 GCTTCATTGTTTTGGTTTACTTCTCTGTATATCATTAAGAAGACGGGGTTCGAAGTTTCTCTCAC
1 GCTTCATTGTTTTGATCTACTTCTCTGTATATCATCAAGAAGACGGGGTTCGAAGTTTCACTCAC
* * * *
527968 ATTGAGCTT-TGCTTCGTTGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGTCC
66 ATTGAG-TTCTACTTCGTTAATTTGGTCCACTT-TCTACATCTCATCAGGAAGATGACC
* * * * *
528026 GCTTCATTGTTTTGATCTACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCAC
1 GCTTCATTGTTTTGATCTACTTCTCTGTATATCATCAAGAAGACGGGGTTCGAAGTTTCACTCAC
* *
528091 ATTGAGTTCTACTTCGTTAATTTGGTCCACTTTCTATATCTCATCAGGAAGATGACT
66 ATTGAGTTCTACTTCGTTAATTTGGTCCACTTTCTACATCTCATCAGGAAGATGACC
528148 GCTTCATTTGTTTTGATC
1 GCTTCA-TTGTTTTGATC
528166 CGACCCACTG
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
122 30 0.24
123 93 0.76
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (122 bp):
GCTTCATTGTTTTGATCTACTTCTCTGTATATCATCAAGAAGACGGGGTTCGAAGTTTCACTCAC
ATTGAGTTCTACTTCGTTAATTTGGTCCACTTTCTACATCTCATCAGGAAGATGACC
Found at i:528054 original size:321 final size:319
Alignment explanation
Indices: 527279--528163 Score: 860
Period size: 321 Copynumber: 2.8 Consensus size: 319
527269 GTTTTGACCC
* * * *
527279 ACTTCTCTATATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCGTT
1 ACTTCTCTATATCTCATCAAGAAGATGGGGTTCGAAGTTTCTCTCACATTGAGCTTTGCTTCGTT
* * * *
527344 GATTTGGTCCACTTCTCTGTATCTTATCAGGAAGATGATCGCTTCATTGTTTTGATCCACTTCTT
66 GATTTGGTTCACTTCTCT-CATCTCATCAGGAAGATG-TCGCTTCATTGTTTTGATCTACTTCTT
* * *
527409 TGTATCTTATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGTTTTGG
129 TGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCATTGATTTGG
* * * * **
527474 TCTACTTCTCTGTATCTCATTAGGAAGATGACTACTTCATTTTTTTGACTTACTTCTCTGTATCT
194 TCTACTTCTCTATATCTCATCAGGAAGATGACTGCTTCATTGTTTTGACCCACTTCTCTGTATCT
* * **
527539 CATCAAGAATATGGGGTTTAAAGTTTCACTCACATTGAGCTTCACTTTGTTGATTTAGTCT
259 CATCAAGAAGATAGGGTTTAAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTAGTCT
* * * * * * **
527600 CCTTCTCTATATCTCATCAGGAAGATGACCGCTTC-ATTGTTT-TGATC-CACTT-CTCTGTAT-
1 ACTTCTCTATATCTCATCAAGAAGATG--GGGTTCGA-AGTTTCT-CTCACA-TTGAGCT-T-TG
** ** * ** * * ** * *
527660 CTCATCAGGAAGATGGGGTTTGAAGT-T-TCA-CTCA-CATTG-AGCT-TCATTTCATTAATTTC
59 CT--TC--GTTGATTTGG-TTCACTTCTCTCATCTCATCA-GGAAGATGTCGCTTCATT-GTTTT
* ** * *
527719 G-TCTACTGCTTTGTATCTCATTTGGAAGATGGGATTTAAAGTTTCACTCACATTGAGCTCCGCT
117 GATCTACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCT
* * * * *
527783 TTATTGATTTGGTCTACTTCTTTATATCTTATCAAGAAGATGACCGCTTCATTGTTTTGACCCAC
182 TCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACTGCTTCATTGTTTTGACCCAC
* * * * * ** *
527848 TTCTTTGTATCTCATTAGGAAGATAGGGTTTGAAGTTTCACTCATATTGAGCTTTGCTTCATTGT
247 TTCTCTGTATCTCATCAAGAAGATAGGGTTTAAAGTTTCACTCACATTGAGCTTCACTTCATTGA
* *
527913 TTTGGTTT
312 TTTAGTCT
* * * *
527921 ACTTCTCTGTATATCATTAAGAAGACGGGGTTCGAAGTTTCTCTCACATTGAGCTTTGCTTCGTT
1 ACTTCTCTATATCTCATCAAGAAGATGGGGTTCGAAGTTTCTCTCACATTGAGCTTTGCTTCGTT
527986 GATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGTCCGCTTCATTGTTTTGATCTACTTCTT
66 GATTTGGTTCACTTCTCT-CATCTCATCAGGAAGATGT-CGCTTCATTGTTTTGATCTACTTCTT
* ** * *
528051 TGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGTTCTACTTCGTTAATTTGG
129 TGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCATTGATTTGG
*
528116 TCCACTT-TCTATATCTCATCAGGAAGATGACTGCTTCATTTGTTTTGA
194 TCTACTTCTCTATATCTCATCAGGAAGATGACTGCTTCA-TTGTTTTGA
528164 TCCGACCCAC
Statistics
Matches: 432, Mismatches: 103, Indels: 58
0.73 0.17 0.10
Matches are distributed among these distances:
314 4 0.01
315 7 0.02
316 1 0.00
317 4 0.01
318 6 0.01
319 20 0.05
320 38 0.09
321 306 0.71
322 9 0.02
323 19 0.04
324 4 0.01
325 3 0.01
326 1 0.00
327 7 0.02
328 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (319 bp):
ACTTCTCTATATCTCATCAAGAAGATGGGGTTCGAAGTTTCTCTCACATTGAGCTTTGCTTCGTT
GATTTGGTTCACTTCTCTCATCTCATCAGGAAGATGTCGCTTCATTGTTTTGATCTACTTCTTTG
TATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTCCGCTTCATTGATTTGGTC
TACTTCTCTATATCTCATCAGGAAGATGACTGCTTCATTGTTTTGACCCACTTCTCTGTATCTCA
TCAAGAAGATAGGGTTTAAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTAGTCT
Found at i:528350 original size:42 final size:42
Alignment explanation
Indices: 528275--528388 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
528265 TAGGGACATA
* * * ***
528275 AGATTCGCCTTTGCAACTTTAATTTAGCCCTTTACA-TCTTCG
1 AGATTCACCTTTGCAACTTCAATCTATTTCTTTACAGT-TTCG
* ** *
528317 AGATTTACCTTTGCGGCTTCAATCTATTTCTTTACAGTTTTG
1 AGATTCACCTTTGCAACTTCAATCTATTTCTTTACAGTTTCG
* *
528359 AGATTCGCCTTTGCAACTTCAGTCTATTTC
1 AGATTCACCTTTGCAACTTCAATCTATTTC
528389 ATCTTCAGGG
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (42 bp):
AGATTCACCTTTGCAACTTCAATCTATTTCTTTACAGTTTCG
Found at i:528448 original size:49 final size:49
Alignment explanation
Indices: 528395--528700 Score: 231
Period size: 49 Copynumber: 6.3 Consensus size: 49
528385 TTTCATCTTC
*
528395 AGGGTATAAGATTCGCCGTTGCGGCCTCAATCTTTCCCTTCACATCTCT
1 AGGGTATAAGATTCGCCGTTACGGCCTCAATCTTTCCCTTCACATCTCT
* * * ** * * * * *
528444 AGGGTATAAGGTTCACCGTTACGGTCTTGACCTTTCTCTTCATATTTTT
1 AGGGTATAAGATTCGCCGTTACGGCCTCAATCTTTCCCTTCACATCTCT
* * ** * ** * *
528493 AGGGTTTAAGATTCGCCGTTACGGCTTCAATC-TGGCTTTCTTATTTTT
1 AGGGTATAAGATTCGCCGTTACGGCCTCAATCTTTCCCTTCACATCTCT
* * * * *
528541 AAGGTATAAGGTTCGCCGTTGCAGCATCAA-CATTTCCCTTCACATCTCT
1 AGGGTATAAGATTCGCCGTTACGGCCTCAATC-TTTCCCTTCACATCTCT
* * * * *
528590 AGGGTACAAGATTCGCCGTTGCGGCCTCAATCTTTCTCTTCATAT-TCCA
1 AGGGTATAAGATTCGCCGTTACGGCCTCAATCTTTCCCTTCACATCT-CT
* ** * * *
528639 AGGGAACGAGATTCACCGTTACGGCCTTAATCTTTCCCTTCACATCTTT
1 AGGGTATAAGATTCGCCGTTACGGCCTCAATCTTTCCCTTCACATCTCT
* *
528688 AGAGTATAGGATT
1 AGGGTATAAGATT
528701 TGACATTTCC
Statistics
Matches: 193, Mismatches: 59, Indels: 10
0.74 0.23 0.04
Matches are distributed among these distances:
47 1 0.01
48 36 0.19
49 154 0.80
50 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (49 bp):
AGGGTATAAGATTCGCCGTTACGGCCTCAATCTTTCCCTTCACATCTCT
Found at i:528556 original size:48 final size:49
Alignment explanation
Indices: 528446--528560 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 49
528436 ACATCTCTAG
* * ** *
528446 GGTATAAGGTTCACCGTTACGGTCTTGACCTTTCTCTTCATATTTTTAG
1 GGTATAAGGTTCGCCGTTACGGTCTTAACCTGGCTCTTCATATTTTTAA
* * * *
528495 GGTTTAAGATTCGCCGTTACGG-CTTCAATCTGGCT-TTCTTATTTTTAA
1 GGTATAAGGTTCGCCGTTACGGTCTT-AACCTGGCTCTTCATATTTTTAA
528543 GGTATAAGGTTCGCCGTT
1 GGTATAAGGTTCGCCGTT
528561 GCAGCATCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
48 30 0.56
49 24 0.44
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (49 bp):
GGTATAAGGTTCGCCGTTACGGTCTTAACCTGGCTCTTCATATTTTTAA
Found at i:528661 original size:146 final size:146
Alignment explanation
Indices: 528397--528671 Score: 347
Period size: 146 Copynumber: 1.9 Consensus size: 146
528387 TCATCTTCAG
* * * *
528397 GGTATAAGATTCGCCGTTGCGGCCTCAATCTTTCCCTTCACATCTCTAGGGTATAAGGTTCACCG
1 GGTATAAGATTCGCCGTTGCAGCATCAATCTTTCCCTTCACATCTCTAGGGTACAAGATTCACCG
* ** *** *** *
528462 TTACGGTCTTGACCTTTCTCTTCATATTTTTAGGGTTTAAGATTCGCCGTTACGG-CTTCAATCT
66 TTACGGCCTCAACCTTTCTCTTCATATTCCAAGGGAACAAGATTCACCGTTACGGCCTT-AATCT
528526 GGCTTTCTTATTTTTAA
130 GGCTTTCTTATTTTTAA
* *
528543 GGTATAAGGTTCGCCGTTGCAGCATCAA-CATTTCCCTTCACATCTCTAGGGTACAAGATTCGCC
1 GGTATAAGATTCGCCGTTGCAGCATCAATC-TTTCCCTTCACATCTCTAGGGTACAAGATTCACC
* * *
528607 GTTGCGGCCTCAATCTTTCTCTTCATATTCCAAGGGAACGAGATTCACCGTTACGGCCTTAATCT
65 GTTACGGCCTCAACCTTTCTCTTCATATTCCAAGGGAACAAGATTCACCGTTACGGCCTTAATCT
528672 TTCCCTTCAC
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
145 1 0.01
146 104 0.96
147 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (146 bp):
GGTATAAGATTCGCCGTTGCAGCATCAATCTTTCCCTTCACATCTCTAGGGTACAAGATTCACCG
TTACGGCCTCAACCTTTCTCTTCATATTCCAAGGGAACAAGATTCACCGTTACGGCCTTAATCTG
GCTTTCTTATTTTTAA
Found at i:534878 original size:59 final size:59
Alignment explanation
Indices: 534811--535012 Score: 198
Period size: 59 Copynumber: 3.4 Consensus size: 59
534801 GAAATTTTGG
*
534811 GGGTCAAAT-TCAAATTTTTGGAAAGTTCGAGG-CCAAATCAAAATTTTTGGAAAATTCGA
1 GGGTCAAATCT-AAATTTTTGGAAAGTTCGAGGACAAAATCAAAA-TTTTGGAAAATTCGA
* * ** * *
534870 GGGTCAAATCTAAATTTTTAGG-AAGTTTG-GGACTAAATCTGAATTTTGGAAACTTCCA
1 GGGTCAAATCTAAATTTTT-GGAAAGTTCGAGGACAAAATCAAAATTTTGGAAAATTCGA
* * ** * * *
534928 GGGTCAAAACTTAATTTTTGGAAAGTTCGAGGGTTAAAAT-ATAATTTTGGAAAGTTTGA
1 GGGTCAAATCTAAATTTTTGGAAAGTTCGA-GGACAAAATCAAAATTTTGGAAAATTCGA
*
534987 GGATCAAATCTAAATTTTTGGAAAGT
1 GGGTCAAATCTAAATTTTTGGAAAGT
535013 ATGGGGGTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
57 2 0.02
58 38 0.32
59 68 0.58
60 9 0.08
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (59 bp):
GGGTCAAATCTAAATTTTTGGAAAGTTCGAGGACAAAATCAAAATTTTGGAAAATTCGA
Found at i:534885 original size:30 final size:30
Alignment explanation
Indices: 534811--535012 Score: 186
Period size: 29 Copynumber: 6.9 Consensus size: 30
534801 GAAATTTTGG
534811 GGGTCAAAT-TCAAATTTTTGGAAAGTTCGA
1 GGGTCAAATCT-AAATTTTTGGAAAGTTCGA
* * *
534841 -GGCCAAATCAAAATTTTTGGAAAATTCGA
1 GGGTCAAATCTAAATTTTTGGAAAGTTCGA
*
534870 GGGTCAAATCTAAATTTTTAGG-AAGTT--T
1 GGGTCAAATCTAAATTTTT-GGAAAGTTCGA
* * * *
534898 GGGACTAAATCTGAA-TTTTGGAAACTTCCA
1 GGGTC-AAATCTAAATTTTTGGAAAGTTCGA
* *
534928 GGGTCAAAACTTAATTTTTGGAAAGTTCGA
1 GGGTCAAATCTAAATTTTTGGAAAGTTCGA
* * *
534958 GGGTTAAA-ATATAA-TTTTGGAAAGTTTGA
1 GGGTCAAATCTA-AATTTTTGGAAAGTTCGA
*
534987 GGATCAAATCTAAATTTTTGGAAAGT
1 GGGTCAAATCTAAATTTTTGGAAAGT
535013 ATGGGGGTCA
Statistics
Matches: 138, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
27 2 0.01
28 12 0.09
29 63 0.46
30 59 0.43
31 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (30 bp):
GGGTCAAATCTAAATTTTTGGAAAGTTCGA
Found at i:535024 original size:30 final size:29
Alignment explanation
Indices: 534811--535024 Score: 163
Period size: 30 Copynumber: 7.3 Consensus size: 29
534801 GAAATTTTGG
534811 GGGTCAAAT-TCAAATTTTTGGAAAGTTCGA
1 GGGTCAAATCT-AAATTTTTGGAAAGTT-GA
* * *
534841 -GGCCAAATCAAAATTTTTGGAAAATTCGA
1 GGGTCAAATCTAAATTTTTGGAAAGTT-GA
*
534870 GGGTCAAATCTAAATTTTTAGG-AAGTT-T
1 GGGTCAAATCTAAATTTTT-GGAAAGTTGA
* * * *
534898 GGGACTAAATCTGAA-TTTTGGAAACTTCCA
1 GGGTC-AAATCTAAATTTTTGGAAAGTT-GA
* *
534928 GGGTCAAAACTTAATTTTTGGAAAGTTCGA
1 GGGTCAAATCTAAATTTTTGGAAAGTT-GA
* *
534958 GGGTTAAA-ATATAA-TTTTGGAAAGTTTGA
1 GGGTCAAATCTA-AATTTTTGGAAAG-TTGA
* *
534987 GGATCAAATCTAAATTTTTGGAAAGTATGG
1 GGGTCAAATCTAAATTTTTGGAAAGT-TGA
535017 GGGTCAAA
1 GGGTCAAA
535025 ACATAATTTC
Statistics
Matches: 147, Mismatches: 24, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
27 2 0.01
28 12 0.08
29 62 0.42
30 69 0.47
31 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (29 bp):
GGGTCAAATCTAAATTTTTGGAAAGTTGA
Found at i:535543 original size:13 final size:14
Alignment explanation
Indices: 535525--535555 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
535515 CACGACGACG
535525 TTTTTC-TAAATTT
1 TTTTTCTTAAATTT
535538 TTTTTCTTAAATTT
1 TTTTTCTTAAATTT
535552 TTTT
1 TTTT
535556 CGAAAGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTCTTAAATTT
Found at i:537083 original size:29 final size:30
Alignment explanation
Indices: 537024--537083 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
537014 TGGAAAACCA
*
537024 TCCTACAACCACTTGAAAATGTGTGGGGTG
1 TCCTACAACAACTTGAAAATGTGTGGGGTG
537054 TCCTACAACAACTTG-AAAT-TGTGGAGGTG
1 TCCTACAACAACTTGAAAATGTGTGG-GGTG
537083 T
1 T
537084 AATGGTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 5 0.18
29 9 0.32
30 14 0.50
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (30 bp):
TCCTACAACAACTTGAAAATGTGTGGGGTG
Found at i:538978 original size:83 final size:85
Alignment explanation
Indices: 538773--539002 Score: 322
Period size: 85 Copynumber: 2.7 Consensus size: 85
538763 AATTAAAATC
* * * *
538773 GAATAAATCTGTTTTGGGTTTTATTCCCGCTGTTTAACAGATTTGATTCTATTTTGATTTTTGTT
1 GAATAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTGATTCTATTTTGAATTTTGTT
538838 TCCAAAATAAGAATTAAGTT
66 TCCAAAATAAGAATTAAGTT
** * *
538858 GAATAAATCTGTTTCGGGATTTATTCCCATCGCTTAACAGATTTTATTCTATTTT-AATTTTGTT
1 GAATAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTGATTCTATTTTGAATTTTGTT
538922 TCCAAAATAAGAA-TAAGTT
66 TCCAAAATAAGAATTAAGTT
* * * *
538941 GAATAAATCTGTTTCGAGATTTATTCCTGCCGTTTAACAGATTT-ATTTTATACTTGAATTTT
1 GAATAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTGATTCTAT-TTTGAATTTT
539003 ATAATAATTT
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
82 6 0.05
83 47 0.37
84 27 0.21
85 48 0.38
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (85 bp):
GAATAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAGATTTGATTCTATTTTGAATTTTGTT
TCCAAAATAAGAATTAAGTT
Found at i:539342 original size:15 final size:15
Alignment explanation
Indices: 539322--539362 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
539312 AATTGTGGCT
539322 TTAAATTGTGAAAGC
1 TTAAATTGTGAAAGC
539337 TTAAATTGT---AGC
1 TTAAATTGTGAAAGC
539349 TTCAAATTGTGAAA
1 TT-AAATTGTGAAA
539363 TCAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
15 9 0.41
16 1 0.05
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (15 bp):
TTAAATTGTGAAAGC
Found at i:540591 original size:19 final size:20
Alignment explanation
Indices: 540564--540605 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
540554 TTTCAAGGAA
*
540564 GTGTTTGATATAGAC-TTAT
1 GTGTCTGATATAGACTTTAT
*
540583 GTGTCTGATATAGGCTTTAT
1 GTGTCTGATATAGACTTTAT
540603 GTG
1 GTG
540606 GGAAGGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.45
Consensus pattern (20 bp):
GTGTCTGATATAGACTTTAT
Found at i:573985 original size:21 final size:21
Alignment explanation
Indices: 573961--574006 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
573951 TTCTCTTTCA
*
573961 CCTCTTCAACAT-AGACTTCCT
1 CCTCTCCAACATCA-ACTTCCT
*
573982 CCTCTCCAGCATCAACTTCCT
1 CCTCTCCAACATCAACTTCCT
574003 CCTC
1 CCTC
574007 AGTAGCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.20, C:0.46, G:0.04, T:0.30
Consensus pattern (21 bp):
CCTCTCCAACATCAACTTCCT
Found at i:576535 original size:39 final size:39
Alignment explanation
Indices: 576468--576600 Score: 124
Period size: 39 Copynumber: 3.4 Consensus size: 39
576458 AACAACCTGG
* * **
576468 AGTGTTTACAGCGTCACTACCAACTCAGTATAGCATTAC
1 AGTGTTTACAGTGTCACCACCAGTTCAGTATAGCATTAC
* ** * *
576507 GGTGTTTACAGTGTCACCGTCAGTTCAGTATTA-TATTGC
1 AGTGTTTACAGTGTCACCACCAGTTCAGTA-TAGCATTAC
* * *
576546 AGTGTTTACAGTGTCACTACCAGTTCAGTATAGCACTGC
1 AGTGTTTACAGTGTCACCACCAGTTCAGTATAGCATTAC
* *
576585 AATGTTTTCAGTGTCA
1 AGTGTTTACAGTGTCA
576601 GTATAGCATT
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
38 2 0.03
39 71 0.95
40 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (39 bp):
AGTGTTTACAGTGTCACCACCAGTTCAGTATAGCATTAC
Found at i:576643 original size:67 final size:67
Alignment explanation
Indices: 576541--576667 Score: 173
Period size: 67 Copynumber: 1.9 Consensus size: 67
576531 TCAGTATTAT
* * *
576541 ATTGCAGTGTTTACAGTGTCACTACCAGTTCAGTATAGCACTGCAATGTTTTCAGTGTCAGTATA
1 ATTGCAGTATTTAAAGTGTCACTACCAGTTCAGTATAGCACTGCAATGTTTGCAGTGTCAGTATA
576606 GC
66 GC
* ** * * *
576608 ATTGTAGTATTTAAAGTGTCACTGTCAGTTTAGTATAGCATTGCAGTGTTTGCAGTGTCA
1 ATTGCAGTATTTAAAGTGTCACTACCAGTTCAGTATAGCACTGCAATGTTTGCAGTGTCA
576668 CTACCTGTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 51 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (67 bp):
ATTGCAGTATTTAAAGTGTCACTACCAGTTCAGTATAGCACTGCAATGTTTGCAGTGTCAGTATA
GC
Found at i:583479 original size:29 final size:29
Alignment explanation
Indices: 583202--583609 Score: 257
Period size: 29 Copynumber: 14.1 Consensus size: 29
583192 CCTAGAAGGT
* * * *
583202 CCTTGAACTATCCAAAAATCATATTTTAAC
1 CCTTAAACT-TCCAAAAATTACATTTTTAC
* *
583232 CCCTAAACATTTCC-AAAATTACATTTTTGC
1 CCTTAAAC--TTCCAAAAATTACATTTTTAC
* * **
583262 CCTTGAACATAAAAAAATTACATTTTTAC
1 CCTTAAACTTCCAAAAATTACATTTTTAC
* * *
583291 CCTTGAACATCAAAAAATTACATTTTTAC
1 CCTTAAACTTCCAAAAATTACATTTTTAC
* * *
583320 CCTCAAACTTCCAAAAATCACATTTTGAC
1 CCTTAAACTTCCAAAAATTACATTTTTAC
* *
583349 CCTTAAACTTCTCAAAAATCACATTTTAAC
1 CCTTAAACTTC-CAAAAATTACATTTTTAC
*
583379 CCTGT--ACTTCCAAAAATTACATTTTTTC
1 CCT-TAAACTTCCAAAAATTACATTTTTAC
** * * *
583407 CCTCGAACTTTCAAAAATCACATTTTAAC
1 CCTTAAACTTCCAAAAATTACATTTTTAC
* *
583436 CC-TAAACTTCTAAAAATTACATTTTTGC
1 CCTTAAACTTCCAAAAATTACATTTTTAC
*
583464 CC-CAAACTTCCAAAAA-T-CATATTTTA-
1 CCTTAAACTTCCAAAAATTACAT-TTTTAC
* ** * *
583490 CCTCGAATTTTCCCAAAATGACATTTTTACC
1 CCT-TAAACTTCCAAAAATTACATTTTTA-C
*
583521 CCTAAAACTTTCC-AAAATT--ATGTTTTAC
1 CCTTAAAC-TTCCAAAAATTACAT-TTTTAC
** * *
583549 CC-CGAACTTTCCCAAAATGACATTTTTACC
1 CCTTAAAC-TTCCAAAAATTACATTTTTA-C
* *
583579 CCTAAAACTTTCC-AAAATTACATTTTAAC
1 CCTTAAAC-TTCCAAAAATTACATTTTTAC
583608 CC
1 CC
583610 CAAACTCACC
Statistics
Matches: 302, Mismatches: 55, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
26 5 0.02
27 13 0.04
28 72 0.24
29 120 0.40
30 72 0.24
31 19 0.06
32 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
CCTTAAACTTCCAAAAATTACATTTTTAC
Found at i:595636 original size:78 final size:78
Alignment explanation
Indices: 595492--595851 Score: 416
Period size: 78 Copynumber: 4.6 Consensus size: 78
595482 GAAGATTCTG
* * * ** * *
595492 ATCTCTTACCCCGATCCTGGGGCAGATTGTAGCCATTCGATCGTTTACCTTGAGCTTGGGGAAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATTTGATCTTTTACCCCGAGCCTGGGGCAAA
*
595557 TCACCATTAGCCA
66 TCACCATCAGCCA
* * * * *
595570 ATCTCTTACCCCTAGCATGGGGAAAATTGTAGCCATTTGATCTTTTACCCCGAGCCTAGGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATTTGATCTTTTACCCCGAGCCTGGGGCAAA
595635 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * * * *
595648 ATCTCTTA-CCCGAGCCTAGGACAGATTGCAGCCATTTGATCTCTTACCCCGAGCCTGGGACATA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATTTGATCTTTTACCCCGAGCCTGGGGCAAA
* *
595712 TCACCATCAGTCG
66 TCACCATCAGCCA
* * ** * * * *
595725 ATCTCTTACCCCGAGCCTAGGGCAAATTGTATTCATTCGATCTTTTACCCCAAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATTTGATCTTTTACCCCGAGCCTGGGGCAAA
595790 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * *
595803 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCATTTGATCTCTTACC
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATTTGATCTTTTACC
595852 TTGAGTTTGG
Statistics
Matches: 234, Mismatches: 47, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
77 64 0.27
78 170 0.73
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATTTGATCTTTTACCCCGAGCCTGGGGCAAA
TCACCATCAGCCA
Found at i:595657 original size:39 final size:39
Alignment explanation
Indices: 595609--595820 Score: 166
Period size: 39 Copynumber: 5.5 Consensus size: 39
595599 TAGCCATTTG
*
595609 ATCTTTTACCCCGAGCCTAGGGCAAATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTAGGGCAAATCACCATCAGCCA
* * **
595648 ATCTCTTA-CCCGAGCCTAGGACAGATTGCAGCCATTTG---
1 ATCTCTTACCCCGAGCCTAGGGCA-AAT-CA-CCATCAGCCA
* * *
595686 ATCTCTTACCCCGAGCCT-GGGACATATCACCATCAGTCG
1 ATCTCTTACCCCGAGCCTAGGG-CAAATCACCATCAGCCA
*** ** *
595725 ATCTCTTACCCCGAGCCTAGGGCAAAT-TGTATTCATTCG
1 ATCTCTTACCCCGAGCCTAGGGCAAATCACCA-TCAGCCA
* * * * *
595764 ATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTAGGGCAAATCACCATCAGCCA
595803 ATCTCTTACCCCGAGCCT
1 ATCTCTTACCCCGAGCCT
595821 GAGGCAGATT
Statistics
Matches: 133, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
36 5 0.04
37 2 0.02
38 26 0.20
39 89 0.67
40 6 0.05
41 5 0.04
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTAGGGCAAATCACCATCAGCCA
Found at i:595735 original size:155 final size:155
Alignment explanation
Indices: 595492--595851 Score: 447
Period size: 155 Copynumber: 2.3 Consensus size: 155
595482 GAAGATTCTG
* * * * ** *
595492 ATCTCTTACCCCGATCCTGGGGCAGATTGTAGCCATTCGATCGT-TTACCTTGAGCTTGGGGAAA
1 ATCTCTTACCCCGAGCCT-AGGCAGATTGCAGCCATTTGATC-TCTTACCCCGAGCCTGGGGAAA
* * * *
595556 ATCACCATTAGCCAATCTCTTACCCCTAGCATGGGGAAAATTGTAGCCATTTGATCTTTTACCCC
64 ATCACCATCAGCCAATCTCTTACCCCGAGCATAGGGAAAATTGTAGCCATTCGATCTTTTACCCC
*
595621 GAGCCTAGGGCAAATCACCATCAGCCA
129 AAGCCTAGGGCAAATCACCATCAGCCA
*
595648 ATCTCTTA-CCCGAGCCTAGGACAGATTGCAGCCATTTGATCTCTTACCCCGAGCCT-GGGACAT
1 ATCTCTTACCCCGAGCCTAGG-CAGATTGCAGCCATTTGATCTCTTACCCCGAGCCTGGGGA-AA
* * * * **
595711 ATCACCATCAGTCGATCTCTTACCCCGAGCCTAGGGCAAATTGTATTCATTCGATCTTTTACCCC
64 ATCACCATCAGCCAATCTCTTACCCCGAGCATAGGGAAAATTGTAGCCATTCGATCTTTTACCCC
* * *
595776 AAGCTTGGGGCAGATCACCATCAGCCA
129 AAGCCTAGGGCAAATCACCATCAGCCA
*
595803 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCATTTGATCTCTTACC
1 ATCTCTTACCCCGAGCCT-AGGCAGATTGCAGCCATTTGATCTCTTACC
595852 TTGAGTTTGG
Statistics
Matches: 176, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
154 7 0.04
155 123 0.70
156 43 0.24
157 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (155 bp):
ATCTCTTACCCCGAGCCTAGGCAGATTGCAGCCATTTGATCTCTTACCCCGAGCCTGGGGAAAAT
CACCATCAGCCAATCTCTTACCCCGAGCATAGGGAAAATTGTAGCCATTCGATCTTTTACCCCAA
GCCTAGGGCAAATCACCATCAGCCA
Found at i:595846 original size:39 final size:39
Alignment explanation
Indices: 595648--595851 Score: 137
Period size: 39 Copynumber: 5.3 Consensus size: 39
595638 CCATCAGCCA
* *
595648 ATCTCTTA-CCCGAGCCT-AGGACAGATTGCAGCCATTTG
1 ATCTCTTACCCCGAGCCTGAGG-CAGATTGCAACCATTCG
* ** * * *
595686 ATCTCTTACCCCGAGCCTG-GGACATATCACCATCAGTCG
1 ATCTCTTACCCCGAGCCTGAGG-CAGATTGCAACCATTCG
* * **
595725 ATCTCTTACCCCGAGCCT-AGGGCAAATTGTATTCATTCG
1 ATCTCTTACCCCGAGCCTGA-GGCAGATTGCAACCATTCG
* * * * ** * * ** *
595764 ATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCATTCG
*
595803 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCATTTG
1 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCATTCG
595842 ATCTCTTACC
1 ATCTCTTACC
595852 TTGAGTTTGG
Statistics
Matches: 121, Mismatches: 40, Indels: 9
0.71 0.24 0.05
Matches are distributed among these distances:
38 8 0.07
39 111 0.92
40 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCATTCG
Found at i:596386 original size:12 final size:12
Alignment explanation
Indices: 596373--596453 Score: 80
Period size: 11 Copynumber: 7.0 Consensus size: 12
596363 CTAAACCCAT
596373 TTTTAAATTT-A
1 TTTTAAATTTAA
596384 TTTTAAATTTAA
1 TTTTAAATTTAA
*
596396 ATTT-AATTTAA
1 TTTTAAATTTAA
* *
596407 GTTTAAATTTAT
1 TTTTAAATTTAA
596419 TTTTAAATTTAA
1 TTTTAAATTTAA
*
596431 ATTT--ATTCTAA
1 TTTTAAATT-TAA
*
596442 ATTTAAATTTAA
1 TTTTAAATTTAA
596454 ATGTCCAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
10 3 0.05
11 27 0.46
12 26 0.44
13 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (12 bp):
TTTTAAATTTAA
Found at i:596394 original size:6 final size:6
Alignment explanation
Indices: 596374--596455 Score: 91
Period size: 6 Copynumber: 14.2 Consensus size: 6
596364 TAAACCCATT
* * **
596374 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA TTTATT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
596420 TTTAAA TTTAAA TTT--A TTCTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA T
596456 GTCCAAAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
4 3 0.05
5 10 0.16
6 47 0.75
7 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:596396 original size:17 final size:17
Alignment explanation
Indices: 596374--596452 Score: 122
Period size: 17 Copynumber: 4.6 Consensus size: 17
596364 TAAACCCATT
596374 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
596391 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
596408 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
*
596426 TTTAAATTTATTCTAAA
1 TTTAAATTTATTTTAAA
596443 TTTAAATTTA
1 TTTAAATTTA
596453 AATGTCCAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
17 41 0.73
18 15 0.27
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:596400 original size:23 final size:23
Alignment explanation
Indices: 596374--596455 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
596364 TAAACCCATT
596374 TTTAAATTTATTTTAAATTTAAA
1 TTTAAATTTATTTTAAATTTAAA
*
596397 TTT-AATTTAAGTTTAAATTTATTTTTAAA
1 TTTAAATTT-A-TTTTAA---A--TTTAAA
*
596426 TTTAAATTTATTCTAAATTTAAA
1 TTTAAATTTATTTTAAATTTAAA
596449 TTTAAAT
1 TTTAAAT
596456 GTCCAAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
22 5 0.10
23 17 0.35
24 5 0.10
25 1 0.02
27 1 0.02
28 4 0.08
29 10 0.21
30 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTAAATTTATTTTAAATTTAAA
Found at i:596430 original size:35 final size:34
Alignment explanation
Indices: 596374--596452 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 34
596364 TAAACCCATT
*
596374 TTTAAATTTATTTTAAATTTAAATTTAATT-TAAG
1 TTTAAATTTATTTTAAATTTAAATTT-ATTCTAAA
596408 TTTAAATTTATTTTTAAATTTAAATTTATTCTAAA
1 TTTAAATTTA-TTTTAAATTTAAATTTATTCTAAA
596443 TTTAAATTTA
1 TTTAAATTTA
596453 AATGTCCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
34 13 0.31
35 29 0.69
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTATTCTAAA
Found at i:596442 original size:29 final size:29
Alignment explanation
Indices: 596385--596455 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
596375 TTAAATTTAT
596385 TTTAAATTTAAATTTAATTTAAGTTTAAA
1 TTTAAATTTAAATTTAATTTAAGTTTAAA
**
596414 TTTATTTTTAAATTTAAATTT-A-TTCTAAA
1 TTTAAATTTAAATTT-AATTTAAGTT-TAAA
596443 TTTAAATTTAAAT
1 TTTAAATTTAAAT
596456 GTCCAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.06
29 29 0.81
30 5 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTAAATTTAAATTTAATTTAAGTTTAAA
Found at i:598499 original size:30 final size:29
Alignment explanation
Indices: 598435--598653 Score: 168
Period size: 29 Copynumber: 7.6 Consensus size: 29
598425 TTTTAACTCT
* *
598435 AAACTTTTTCAAAATTACATTTTGACTC-C
1 AAACTTTTCCAAAATTACATTTT-ACCCTC
598464 AAACTTTTCCAAAATTACATTTTGACCCTC
1 AAACTTTTCCAAAATTACATTTT-ACCCTC
*
598494 AAAC--TTCCAAAAATTATATTTTAACCCTC
1 AAACTTTTCC-AAAATTACATTTT-ACCCTC
* * *
598523 AAACTTCT-AAAAATTATATTTTTA-CCTC
1 AAACTTTTCCAAAATTACA-TTTTACCCTC
* * * *
598551 GAACTTTTCTAAAATGACATTTTTACCCTTA
1 AAACTTTTCCAAAATTACA-TTTTACCC-TC
*
598582 AAAC-TTTCCAAAATGACA-TTTACCC-C
1 AAACTTTTCCAAAATTACATTTTACCCTC
* * * *
598608 GAACTTTCCCAAAATGACATTTTACCCTTA
1 AAACTTTTCCAAAATTACATTTTACCC-TC
598638 AAAC-TTTCCAAAATTA
1 AAACTTTTCCAAAATTA
598654 TGTTTTAACC
Statistics
Matches: 157, Mismatches: 21, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.02
27 13 0.08
28 28 0.18
29 81 0.52
30 27 0.17
31 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (29 bp):
AAACTTTTCCAAAATTACATTTTACCCTC
Found at i:598556 original size:28 final size:29
Alignment explanation
Indices: 598407--598544 Score: 122
Period size: 29 Copynumber: 4.7 Consensus size: 29
598397 AAGGTCCTTG
* *
598407 AACTGTCCAAAAATAATATTTTAACTCT-A
1 AACT-TCCAAAAATTATATTTTAACCCTCA
* * * *
598436 AACTTTTTC-AAAATTACATTTTGACTC-CA
1 AAC--TTCCAAAAATTATATTTTAACCCTCA
* *
598465 AACTTTTCC-AAAATTACATTTTGACCCTCA
1 AAC--TTCCAAAAATTATATTTTAACCCTCA
598495 AACTTCCAAAAATTATATTTTAACCCTCA
1 AACTTCCAAAAATTATATTTTAACCCTCA
*
598524 AACTTCTAAAAATTATATTTT
1 AACTTCCAAAAATTATATTTT
598545 TACCTCGAAC
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
28 4 0.04
29 83 0.87
30 7 0.07
31 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.38
Consensus pattern (29 bp):
AACTTCCAAAAATTATATTTTAACCCTCA
Found at i:598558 original size:87 final size:88
Alignment explanation
Indices: 598407--598594 Score: 220
Period size: 87 Copynumber: 2.1 Consensus size: 88
598397 AAGGTCCTTG
* * *
598407 AACTGTCCAAAAATAATATTTTAACTCTAAACTTTTTCAAAATTACATTTTGACTCCAAACTTTT
1 AACT-TCCAAAAATAATATTTTAACCCTAAACTTTCTAAAAATTACATTTTGACTCCAAACTTTT
* *
598472 CCAAAATTACATTTTGACCC-TCA
65 CCAAAATGACATTTTGACCCTTAA
* * * *
598495 AACTTCCAAAAATTATATTTTAACCCTCAAAC-TTCTAAAAATTATATTTTTAC-CTCGAACTTT
1 AACTTCCAAAAATAATATTTTAACCCT-AAACTTTCTAAAAATTACATTTTGACTC-CAAACTTT
* *
598558 TCTAAAATGACATTTTTACCCTTAA
64 TCCAAAATGACATTTTGACCCTTAA
598583 AACTTTCCAAAA
1 AAC-TTCCAAAA
598595 TGACATTTAC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
86 1 0.01
87 63 0.74
88 13 0.15
89 8 0.09
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (88 bp):
AACTTCCAAAAATAATATTTTAACCCTAAACTTTCTAAAAATTACATTTTGACTCCAAACTTTTC
CAAAATGACATTTTGACCCTTAA
Found at i:598611 original size:57 final size:56
Alignment explanation
Indices: 598543--598651 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
598533 AAATTATATT
* * *
598543 TTTACCTCGAACTTTTCTAAAATGACATTTTTACCCTTAAAACTTTCCAAAATGACA
1 TTTACCCCGAACTTTCCCAAAATGACA-TTTTACCCTTAAAACTTTCCAAAATGACA
598600 TTTACCCCGAACTTTCCCAAAATGACATTTTACCCTTAAAACTTTCCAAAAT
1 TTTACCCCGAACTTTCCCAAAATGACATTTTACCCTTAAAACTTTCCAAAAT
598652 TATGTTTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 25 0.51
57 24 0.49
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.35
Consensus pattern (56 bp):
TTTACCCCGAACTTTCCCAAAATGACATTTTACCCTTAAAACTTTCCAAAATGACA
Found at i:600636 original size:24 final size:24
Alignment explanation
Indices: 600608--600656 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
600598 TTAGTTATAA
600608 AATTGGTTTTCTC-ATAAAAAATTT
1 AATTGGTTTTC-CAATAAAAAATTT
*
600632 AATTGGTTTTCCAATAGAAAATTT
1 AATTGGTTTTCCAATAAAAAATTT
600656 A
1 A
600657 GTAATAGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (24 bp):
AATTGGTTTTCCAATAAAAAATTT
Found at i:605463 original size:2 final size:2
Alignment explanation
Indices: 605456--605480 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
605446 AACTTATTTA
605456 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
605481 CACTTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:605658 original size:27 final size:27
Alignment explanation
Indices: 605620--605724 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 27
605610 GAATTTGACA
*
605620 TTTTTCAT-TAATTTGGTACTTAAACT
1 TTTTTTATCTAATTTGGTACTTAAACT
*
605646 TTTTTTATCTAATTTGGTACTTGAACT
1 TTTTTTATCTAATTTGGTACTTAAACT
* *
605673 TGACACTTTT-TCTTAATTTGGTACCTAAACT
1 T----TTTTTATC-TAATTTGGTACTTAAACT
*
605704 TTTTTTGATCCAATTTGGTAC
1 TTTTTT-ATCTAATTTGGTAC
605725 CTAAGGTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
26 7 0.11
27 22 0.34
28 10 0.16
29 2 0.03
30 2 0.03
31 21 0.33
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.51
Consensus pattern (27 bp):
TTTTTTATCTAATTTGGTACTTAAACT
Found at i:605693 original size:31 final size:30
Alignment explanation
Indices: 605599--605696 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 30
605589 TTAATATAAT
* *
605599 ATTTAGTACTTGAATTTGACATTTTTCATTA
1 ATTTGGTACTTGAACTTGACATTTTTC-TTA
* *
605630 ATTTGGTACTTAAACTT----TTTTTATCTA
1 ATTTGGTACTTGAACTTGACATTTTTCT-TA
605657 ATTTGGTACTTGAACTTGACACTTTTTCTTA
1 ATTTGGTACTTGAACTTGACA-TTTTTCTTA
605688 ATTTGGTAC
1 ATTTGGTAC
605697 CTAAACTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
26 1 0.02
27 23 0.42
31 25 0.45
32 6 0.11
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.51
Consensus pattern (30 bp):
ATTTGGTACTTGAACTTGACATTTTTCTTA
Found at i:605694 original size:58 final size:59
Alignment explanation
Indices: 605599--605724 Score: 193
Period size: 58 Copynumber: 2.2 Consensus size: 59
605589 TTAATATAAT
* * * *
605599 ATTTAGTACTTGAATTTGACATTTTTCATTAATTTGGTACTTAAACTTTTTTT-ATCTA
1 ATTTGGTACTTGAACTTGACATTTTTCATTAATTTGGTACCTAAACTTTTTTTGATCCA
605657 ATTTGGTACTTGAACTTGACACTTTTTC-TTAATTTGGTACCTAAACTTTTTTTGATCCA
1 ATTTGGTACTTGAACTTGACA-TTTTTCATTAATTTGGTACCTAAACTTTTTTTGATCCA
605716 ATTTGGTAC
1 ATTTGGTAC
605725 CTAAGGTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
58 43 0.69
59 19 0.31
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.50
Consensus pattern (59 bp):
ATTTGGTACTTGAACTTGACATTTTTCATTAATTTGGTACCTAAACTTTTTTTGATCCA
Found at i:605748 original size:29 final size:28
Alignment explanation
Indices: 605685--605758 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
605675 ACACTTTTTC
*
605685 TTAATTTGGTACCTAAACTTTTTTTGAT
1 TTAATTTGGTACCTAAACTTTTTTAGAT
** **
605713 CCAATTTGGTACCTAAGGTTTTTCTAGAT
1 TTAATTTGGTACCTAAACTTTTT-TAGAT
605742 TTAATTTGGTACCTAAA
1 TTAATTTGGTACCTAAA
605759 TTTATTAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (28 bp):
TTAATTTGGTACCTAAACTTTTTTAGAT
Found at i:606074 original size:89 final size:90
Alignment explanation
Indices: 605906--606097 Score: 219
Period size: 89 Copynumber: 2.1 Consensus size: 90
605896 TTAAAAAAGA
* *
605906 TTAGGTACCAAATTAGAAAAAAGAGTAAAGTTCATGTACCAAATTGGGCCCCAAAAAATTTATGT
1 TTAGGTACCAAATTAGAAAAAAGAGTAAAGTTCAAGTACCAAATTGGGCCCAAAAAAATTTATGT
* *
605971 ACTAACTTAAAAAAAAGTGTCATGT
66 ACCAAATTAAAAAAAAGTGTCATGT
* * * * *
605996 TTAGGTACTAAATTAG-GAAAAGTGTAAATTTCAAGTACCAAATTGGG-TCAAAAAATATTTA-G
1 TTAGGTACCAAATTAGAAAAAAGAGTAAAGTTCAAGTACCAAATTGGGCCCAAAAAA-ATTTATG
* * *
606058 ATACCAAATTAGAAAAAAGTATCAAGT
65 -TACCAAATTAAAAAAAAGTGTCATGT
* *
606085 TCAAGTACCAAAT
1 TTAGGTACCAAAT
606098 ATTATATTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
88 7 0.08
89 63 0.74
90 15 0.18
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (90 bp):
TTAGGTACCAAATTAGAAAAAAGAGTAAAGTTCAAGTACCAAATTGGGCCCAAAAAAATTTATGT
ACCAAATTAAAAAAAAGTGTCATGT
Found at i:611170 original size:16 final size:16
Alignment explanation
Indices: 611149--611192 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
611139 TATGTTAAAC
611149 ATGTGATTTGTGCTTA
1 ATGTGATTTGTGCTTA
*
611165 ATGTGATTTATGCTTA
1 ATGTGATTTGTGCTTA
*
611181 ATATGATTTGTG
1 ATGTGATTTGTG
611193 TCAAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (16 bp):
ATGTGATTTGTGCTTA
Found at i:611276 original size:23 final size:23
Alignment explanation
Indices: 611178--611448 Score: 336
Period size: 23 Copynumber: 11.9 Consensus size: 23
611168 TGATTTATGC
*
611178 TTAATATGATTTGTG-TCAAATA
1 TTAATATGATTTGTGCTTAAATA
*
611200 TTAATATGATTTGTG-TCAAATA
1 TTAATATGATTTGTGCTTAAATA
*
611222 TTAATATGATTTGTG-TCAAATA
1 TTAATATGATTTGTGCTTAAATA
* *
611244 TTTATGTGATTTGTGCTTAAATA
1 TTAATATGATTTGTGCTTAAATA
*
611267 TTAATATGATTTGTGCTCAAATA
1 TTAATATGATTTGTGCTTAAATA
*
611290 TTAATGTGATTTGTGCTTAAATA
1 TTAATATGATTTGTGCTTAAATA
* *
611313 TTAATGTGATTTATGCTTAAATA
1 TTAATATGATTTGTGCTTAAATA
* *
611336 TT-ATATGGTTTGTGCTCAAATA
1 TTAATATGATTTGTGCTTAAATA
* *
611358 TTAATGTGATTTATGCTTAAATA
1 TTAATATGATTTGTGCTTAAATA
* *
611381 TTAATTTCATTTGTGCTTAAATA
1 TTAATATGATTTGTGCTTAAATA
* *
611404 TTAATATGAATTTATGATTAAATA
1 TTAATATG-ATTTGTGCTTAAATA
611428 TTAA-AGTGATTTGTGCTTAAA
1 TTAATA-TGATTTGTGCTTAAA
611449 GAATTAAGAT
Statistics
Matches: 219, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
22 75 0.34
23 125 0.57
24 19 0.09
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TTAATATGATTTGTGCTTAAATA
Found at i:611303 original size:68 final size:69
Alignment explanation
Indices: 611178--611448 Score: 379
Period size: 68 Copynumber: 4.0 Consensus size: 69
611168 TGATTTATGC
* * * *
611178 TTAATATGATTTGTG-TCAAATATTAATATGATTTGTG-TCAAATATTAATATGATTTGTG-TCA
1 TTAATGTGATTTGTGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGTGATTTGTGCTTA
611240 AATA
66 AATA
*
611244 TTTATGTGATTTGTGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGTGATTTGTGCTTA
1 TTAATGTGATTTGTGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGTGATTTGTGCTTA
611309 AATA
66 AATA
* * *
611313 TTAATGTGATTTATGCTTAAATATT-ATATGGTTTGTGCTCAAATATTAATGTGATTTATGCTTA
1 TTAATGTGATTTGTGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGTGATTTGTGCTTA
611377 AATA
66 AATA
* * * * * *
611381 TTAATTTCATTTGTGCTTAAATATTAATATGAATTTATGATTAAATATTAAAGTGATTTGTGCTT
1 TTAATGTGATTTGTGCTTAAATATTAATATG-ATTTGTGCTCAAATATTAATGTGATTTGTGCTT
611446 AAA
65 AAA
611449 GAATTAAGAT
Statistics
Matches: 182, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
66 13 0.07
67 21 0.12
68 84 0.46
69 34 0.19
70 30 0.16
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (69 bp):
TTAATGTGATTTGTGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGTGATTTGTGCTTA
AATA
Found at i:611348 original size:91 final size:90
Alignment explanation
Indices: 611178--611448 Score: 350
Period size: 91 Copynumber: 3.0 Consensus size: 90
611168 TGATTTATGC
* * *
611178 TTAATATGATTTGTG-TCAAATATTAATATGATTTGTG-TCAAATATTAATATGATTTGTGTCAA
1 TTAATATGATTTGTGCTCAAATATTAATATGATTTGTGCTTAAATATTAATATGATTTATGTTAA
611241 ATATT-TATGTGATTTGTGCTTAAATA
66 ATATTATATG-G-TTTGTGCTTAAATA
* *
611267 TTAATATGATTTGTGCTCAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTA
1 TTAATATGATTTGTGCTCAAATATTAATATGATTTGTGCTTAAATATTAATATGATTTATG-TTA
*
611332 AATATTATATGGTTTGTGCTCAAATA
65 AATATTATATGGTTTGTGCTTAAATA
* * * * *
611358 TTAATGTGATTTATGCTTAAATATTAATTTCATTTGTGCTTAAATATTAATATGAATTTATGATT
1 TTAATATGATTTGTGCTCAAATATTAATATGATTTGTGCTTAAATATTAATATG-ATTTATG-TT
* *
611423 AAATATTAAAGTGATTTGTGCTTAAA
64 AAATATTATA-TGGTTTGTGCTTAAA
611449 GAATTAAGAT
Statistics
Matches: 160, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
89 15 0.09
90 21 0.13
91 80 0.50
92 27 0.17
93 17 0.11
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (90 bp):
TTAATATGATTTGTGCTCAAATATTAATATGATTTGTGCTTAAATATTAATATGATTTATGTTAA
ATATTATATGGTTTGTGCTTAAATA
Found at i:612671 original size:42 final size:42
Alignment explanation
Indices: 612618--612701 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
612608 AAGTTTATTT
*
612618 TATTCCGAGTTTTTTACAAACCAAATGGCCCAATACAACCTA
1 TATTCCAAGTTTTTTACAAACCAAATGGCCCAATACAACCTA
612660 TATTCCAAGTTTTTTACAAACCAAATGGCCCAATACAACCTA
1 TATTCCAAGTTTTTTACAAACCAAATGGCCCAATACAACCTA
612702 AAACCATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (42 bp):
TATTCCAAGTTTTTTACAAACCAAATGGCCCAATACAACCTA
Found at i:613916 original size:30 final size:30
Alignment explanation
Indices: 613883--614141 Score: 262
Period size: 30 Copynumber: 8.8 Consensus size: 30
613873 ATTTTATTTT
* *
613883 AAAACTACATTTTAACCCTCAAACTTTCCT
1 AAAATTACATTTTAACCCTCAAACTTTCCC
* *
613913 AAAATTACATTTCT-A-CCTCTAACTTTTCC
1 AAAATTACATTT-TAACCCTCAAACTTTCCC
* * *
613942 AAAATTACATTATTAACCCT-AAAATTTTCA
1 AAAATTACATT-TTAACCCTCAAACTTTCCC
*
613972 AAAATTACATTTTAACCCTTAAAC-TTCCC
1 AAAATTACATTTTAACCCTCAAACTTTCCC
** * * *
614001 AATTTTACATTTTAAACATCAAACTTTTCC
1 AAAATTACATTTTAACCCTCAAACTTTCCC
*
614031 AAAATTACATTTTAACCCTCAAATTTTCCC
1 AAAATTACATTTTAACCCTCAAACTTTCCC
* * * *
614061 AAATTTACA-TTTAACCCTCGAGC-TTCTCT
1 AAAATTACATTTTAACCCTCAAACTTTC-CC
*
614090 AAAATTACATTTTAACCCCCAAACTTTCCC
1 AAAATTACATTTTAACCCTCAAACTTTCCC
*
614120 AAAATCACATTTTAACCC-CAAA
1 AAAATTACATTTTAACCCTCAAA
614142 ATACTCAAAA
Statistics
Matches: 187, Mismatches: 33, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.02
29 77 0.41
30 100 0.53
31 7 0.04
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTCAAACTTTCCC
Found at i:614009 original size:59 final size:59
Alignment explanation
Indices: 613888--614143 Score: 243
Period size: 59 Copynumber: 4.3 Consensus size: 59
613878 ATTTTAAAAC
* * * * * *
613888 TACATTTTAACCCTCAAACTTTCCTAAAATTACATTTCT-A-CCTCTAACTTTTCCAAAAT
1 TACATTTTAACCCTCAAAATTTTCAAAAATTACATTT-TAACCCTCAAAC-TTCCCAAATT
* *
613947 TACATTATTAACCCT-AAAATTTTCAAAAATTACATTTTAACCCTTAAACTTCCCAATTT
1 TACATT-TTAACCCTCAAAATTTTCAAAAATTACATTTTAACCCTCAAACTTCCCAAATT
* * * * *
614006 TACATTTTAAACATCAAACTTTTCCAAAATTACATTTTAACCCTCAAATTTTCCCAAATT
1 TACATTTTAACCCTCAAAATTTTCAAAAATTACATTTTAACCCTCAAA-CTTCCCAAATT
* ** * * * *
614066 TACA-TTTAACCCTCGAGCTTCTCTAAAATTACATTTTAACCCCCAAACTTTCCCAAAAT
1 TACATTTTAACCCTCAAAATTTTCAAAAATTACATTTTAACCCTCAAAC-TTCCCAAATT
*
614125 CACATTTTAACCC-CAAAAT
1 TACATTTTAACCCTCAAAAT
614144 ACTCAAAATC
Statistics
Matches: 162, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
58 7 0.04
59 120 0.74
60 35 0.22
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (59 bp):
TACATTTTAACCCTCAAAATTTTCAAAAATTACATTTTAACCCTCAAACTTCCCAAATT
Found at i:614026 original size:89 final size:89
Alignment explanation
Indices: 613883--614143 Score: 305
Period size: 89 Copynumber: 2.9 Consensus size: 89
613873 ATTTTATTTT
* *
613883 AAAACTACATTTTAACCCTCAAACTTTCCTAAAATTACATTTCT--ACCTCTAACTTTTCCAAAA
1 AAAATTACATTTTAACCCTCAAAC-TTCCTAAAATTACATTT-TAAACCTCAAACTTTTCCAAAA
613946 TTACATTATTAACCCTAAAATTTT-CA
64 TTACATT-TTAACCCTAAAATTTTCCA
* * ** *
613972 AAAATTACATTTTAACCCTTAAACTTCCCAATTTTACATTTTAAACATCAAACTTTTCCAAAATT
1 AAAATTACATTTTAACCCTCAAACTTCCTAAAATTACATTTTAAACCTCAAACTTTTCCAAAATT
* *
614037 ACATTTTAACCCTCAAATTTTCCC
66 ACATTTTAACCCTAAAATTTTCCA
* * * * * *
614061 AAATTTACA-TTTAACCCTCGAGCTTCTCTAAAATTACATTTTAACCCCCAAACTTTCCCAAAAT
1 AAAATTACATTTTAACCCTCAAACTTC-CTAAAATTACATTTTAAACCTCAAACTTTTCCAAAAT
* *
614125 CACATTTTAACCCCAAAAT
65 TACATTTTAACCCTAAAAT
614144 ACTCAAAATC
Statistics
Matches: 145, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
87 1 0.01
88 43 0.30
89 101 0.70
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.36
Consensus pattern (89 bp):
AAAATTACATTTTAACCCTCAAACTTCCTAAAATTACATTTTAAACCTCAAACTTTTCCAAAATT
ACATTTTAACCCTAAAATTTTCCA
Found at i:622555 original size:85 final size:85
Alignment explanation
Indices: 622407--622566 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 85
622397 CATCTTTCTA
*
622407 ATGAAATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTTGTGAGATACAAAGAAGT
1 ATGAAATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTTGTGAGATACAAAGAAGT
* *
622472 GGGCCAAATCTGTCTTCCTG
66 AGACCAAATCTGTCTTCCTG
* * *
622492 ATGAGATACAGAGAAGTGGAT-TAAGTCAATGAAGCGGTCATCTTCC-TGATGAGATACAAAGAA
1 ATGAAATACAGAGAAGTGGATCAAAG-CAATAAAGCGGTCATCTTCCTTG-TGAGATACAAAGAA
622555 GTAGACCAAATC
64 GTAGACCAAATC
622567 AATGAAGCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
84 5 0.07
85 62 0.93
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (85 bp):
ATGAAATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTTGTGAGATACAAAGAAGT
AGACCAAATCTGTCTTCCTG
Found at i:622752 original size:208 final size:208
Alignment explanation
Indices: 622383--623365 Score: 1368
Period size: 208 Copynumber: 4.7 Consensus size: 208
622373 GGAGGAGTAA
* * * *
622383 AAACTTCAAACCCCCATCTTTCTAATGAAATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCAT
1 AAACTTCAAA-CCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCAT
* ***
622448 CTTCCTTG-TGAGATACAAAGAAGTGGGCCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGA
65 CTTCC-TGATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTGGA
* *
622512 TTAAGTCAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAA
129 TTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAA
*
622577 AGCTCAATGTAAGTG
194 AGCTCAATGTGAGTG
* * * *
622592 AAACTTCAAACCCCATCTTCATGATAAGATATAGAGAAGTGGGTTAAAGCAATAAAGCGGTCAAC
1 AAACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
* * * * *
622657 TTCTTGATAAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATAAGATATAGAAAAGTGGATT
66 TTCCTGATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTGGATT
* * *
622722 AAATCAAGGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATTAAGCAAAG
131 AAATCAATGAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAG
622787 CTCAATGTGAGTG
196 CTCAATGTGAGTG
*
622800 AAACTTCAAACCCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGTCAT
1 AAACTTCAAA-CCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCAT
* * * * *
622865 CTTCCTGATGAGATACACAGAAGTGGACTAAATCCAACTTCCTAATGAGATACAAAGAAGTGGAT
65 CTTCCTGATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTGGAT
* * * * *
622930 TAAATCAATAAAACGATCATCTTCTTTATGAGATACAGAGAAGTAGACCAAATTAGACCAAATCA
130 TAAATCAATGAAGCGATCATCTTCCTGATGAGATAC----AA--AG----AAGTAGACCAAATCA
*
622995 ATGAAGCAAAGCTCAATATG-GTG
185 ATGAAGCAAAGCTCAATGTGAGTG
623018 AAACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
1 AAACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
*
623083 TTCCTGATAAGATACAGAA-AAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTGGAT
66 TTCCTGATGAGATACA-AAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTGGAT
* * *
623147 TAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAGATCAATTAAGCAAA
130 TAAATCAATGAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAA
623212 GCTCAATGTGAGTG
195 GCTCAATGTGAGTG
* *
623226 AAACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGTAATAAAGCGGTCACC
1 AAACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
* * * *
623291 TTCCTAATGAGATAC--A-AAGTGAACCAAATCTACCTTCCTGATTG-GATACAGAGAAGTAGAT
66 TTCCTGATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGA-TGAGATACAGAGAAGTGGAT
*
623352 CAAATCAATGAAGC
130 TAAATCAATGAAGC
623366 AAAGTTCAAT
Statistics
Matches: 688, Mismatches: 71, Indels: 34
0.87 0.09 0.04
Matches are distributed among these distances:
205 53 0.08
206 2 0.00
207 33 0.05
208 261 0.38
209 145 0.21
211 2 0.00
213 3 0.00
215 2 0.00
217 141 0.20
218 14 0.02
219 32 0.05
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (208 bp):
AAACTTCAAACCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
TTCCTGATGAGATACAAAGAAGTGGACCAAATCCACCTTCCTGATGAGATACAGAGAAGTGGATT
AAATCAATGAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAG
CTCAATGTGAGTG
Found at i:622756 original size:85 final size:85
Alignment explanation
Indices: 622608--622774 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
622598 CAAACCCCAT
* * * * *
622608 CTTCATGATAAGATATAGAGAAGTGGGTTAAAGCAATAAAGCGGTCAACTTCTTGATAAGATACA
1 CTTCATGATAAGATATAGAAAAGTGGATTAAAGCAAGAAAGCGATCAACTTCCTGATAAGATACA
*
622673 AAGAAGTGGACCAAATCCAC
66 AAGAAGTAGACCAAATCCAC
* * * * *
622693 CTTCCTGATAAGATATAGAAAAGTGGATTAAATCAAGGAAGCGATCATCTTCCTGATGAGATACA
1 CTTCATGATAAGATATAGAAAAGTGGATTAAAGCAAGAAAGCGATCAACTTCCTGATAAGATACA
*
622758 GAGAAGTAGACCAAATC
66 AAGAAGTAGACCAAATC
622775 AATTAAGCAA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.23
Consensus pattern (85 bp):
CTTCATGATAAGATATAGAAAAGTGGATTAAAGCAAGAAAGCGATCAACTTCCTGATAAGATACA
AAGAAGTAGACCAAATCCAC
Found at i:622915 original size:37 final size:37
Alignment explanation
Indices: 622865--622935 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
622855 AAGCAGTCAT
* *
622865 CTTCCTGATGAGATACACAGAAGTGGACTAAATCCAA
1 CTTCCTAATGAGATACAAAGAAGTGGACTAAATCCAA
*
622902 CTTCCTAATGAGATACAAAGAAGTGGATTAAATC
1 CTTCCTAATGAGATACAAAGAAGTGGACTAAATC
622936 AATAAAACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (37 bp):
CTTCCTAATGAGATACAAAGAAGTGGACTAAATCCAA
Found at i:622961 original size:85 final size:85
Alignment explanation
Indices: 622817--622982 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
622807 AAACCCCCAT
* * * * *
622817 CTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACA
1 CTTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAACAGTCATCTTCCTGATGAGATACA
* *
622882 CAGAAGTGGACTAAATCCAA
66 CAGAAGTAGACCAAATCCAA
* * * *
622902 CTTCCTAATGAGATACAAAGAAGTGGATTAAATCAATAAAAC-GATCATCTTCTTTATGAGATAC
1 CTTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAACAG-TCATCTTCCTGATGAGATAC
*
622966 AGAGAAGTAGACCAAAT
65 ACAGAAGTAGACCAAAT
622983 TAGACCAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 1 0.01
85 67 0.99
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.24
Consensus pattern (85 bp):
CTTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAACAGTCATCTTCCTGATGAGATACA
CAGAAGTAGACCAAATCCAA
Found at i:623181 original size:85 final size:85
Alignment explanation
Indices: 623034--623196 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 85
623024 CAAACCCCAT
* *
623034 CTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATACA
*
623099 GAA-AAGTGGACCAAATCCAC
66 -AAGAAGTAGACCAAATCCAC
* * * *
623119 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATACA
623184 AAGAAGTAGACCA
66 AAGAAGTAGACCA
623197 GATCAATTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
84 2 0.03
85 68 0.97
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATACA
AAGAAGTAGACCAAATCCAC
Found at i:623703 original size:85 final size:85
Alignment explanation
Indices: 623541--623707 Score: 210
Period size: 85 Copynumber: 2.0 Consensus size: 85
623531 AAAACTCCAT
* * *
623541 CTTCCTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCACTTTCCTGATGTGATACA
1 CTTCCTAATAAGATACAGAGAAGTGGATCAAAGCAATAAAGCGATCACTTTCCTGATGAGATACA
*
623606 GAGAAGTGGACCAAATCCGC
66 GAGAAGTAGACCAAATCCGC
* * * * * * *
623626 CTTCCTGATAAGATATAGAGAAGTGGATTAAATCAATGAAGCTATCA-TCTTCCTGATGAGATAT
1 CTTCCTAATAAGATACAGAGAAGTGGATCAAAGCAATAAAGCGATCACT-TTCCTGATGAGATAC
*
623690 AGAGCAGTAGACCAAATC
65 AGAGAAGTAGACCAAATC
623708 AATGAAGCAA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
84 1 0.01
85 68 0.99
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (85 bp):
CTTCCTAATAAGATACAGAGAAGTGGATCAAAGCAATAAAGCGATCACTTTCCTGATGAGATACA
GAGAAGTAGACCAAATCCGC
Found at i:623830 original size:209 final size:209
Alignment explanation
Indices: 623454--623974 Score: 807
Period size: 209 Copynumber: 2.5 Consensus size: 209
623444 AAGATATAGA
* * *
623454 GAAGCGGTTATCTTCCTGATGAGATATAGA-ATAGTAGACCAAATCAATGAAGCAAAGCTCAACG
1 GAAGCGATCATCTTCCTGATGAGATATAGAGA-AGTAGACCAAATCAATGAAGCAAAGCTCAATG
* **
623518 TGAGTGAAACTTCAAA-ACTCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAG
65 TGAGTGAAACTTCAAACCCT-CATCTTCCTAATGAGATACAGAGAAGCAGGTCAAAGCAATAAAG
* * *
623582 CGATCACTTTCCTGATGTGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATAAGATATAGAGA
129 CGATCACTTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGCCTTCCTAATAAGATATAGAGA
*
623647 AGTGGATTAAATCAAT
194 AGTGAATTAAATCAAT
* *
623663 GAAGCTATCATCTTCCTGATGAGATATAGAGCAGTAGACCAAATCAATGAAGCAAAGCTCAATGT
1 GAAGCGATCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGT
*
623728 GAGTGAAACTTCAAACCCTCATCATCCTAATGAGATACAGAGAAGCAGGTCAAAGCAATAAAGCG
66 GAGTGAAACTTCAAACCCTCATCTTCCTAATGAGATACAGAGAAGCAGGTCAAAGCAATAAAGCG
* * *
623793 ATCA-TCTTCCTGATGAGATATAGAGAAGTGAACCAAATCTGCCTTCCTAATGAGATATAGAGAA
131 ATCACT-TTCCTGATGAGATACAGAGAAGTGAACCAAATCCGCCTTCCTAATAAGATATAGAGAA
623857 GTGAATTAAATCAAT
195 GTGAATTAAATCAAT
* * *
623872 GAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATGT
1 GAAGCGATCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGT
*
623937 GAGTGAAACTTCAAACCC-CATCTTCCTGATGAGATACA
66 GAGTGAAACTTCAAACCCTCATCTTCCTAATGAGATACA
623975 AAAAAGTGGA
Statistics
Matches: 286, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
208 19 0.07
209 265 0.93
210 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (209 bp):
GAAGCGATCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGT
GAGTGAAACTTCAAACCCTCATCTTCCTAATGAGATACAGAGAAGCAGGTCAAAGCAATAAAGCG
ATCACTTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGCCTTCCTAATAAGATATAGAGAAG
TGAATTAAATCAAT
Found at i:623895 original size:85 final size:85
Alignment explanation
Indices: 623752--623916 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 85
623742 ACCCTCATCA
* *
623752 TCCTAATGAGATACAGAGAAGCAGGTCAAAGCAATAAAGCGATCATCTTCCTGATGAGATATAGA
1 TCCTAATGAGATACAGAGAAGCAGATCAAAGCAATAAAGCGATCATCTTCCTGATGAGATACAGA
*
623817 GAAGTGAACCAAATCTGCCT
66 GAAGTAAACCAAATCTGCCT
* * * * * *
623837 TCCTAATGAGATATAGAGAAG-TGAATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAG
1 TCCTAATGAGATACAGAGAAGCAG-ATCAAAGCAATAAAGCGATCATCTTCCTGATGAGATACAG
623901 AGAAGTAAACCAAATC
65 AGAAGTAAACCAAATC
623917 AATGAAGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (85 bp):
TCCTAATGAGATACAGAGAAGCAGATCAAAGCAATAAAGCGATCATCTTCCTGATGAGATACAGA
GAAGTAAACCAAATCTGCCT
Found at i:625837 original size:59 final size:59
Alignment explanation
Indices: 625712--625997 Score: 248
Period size: 59 Copynumber: 4.8 Consensus size: 59
625702 CTCAAAGTTC
* * * * **
625712 CTAAAATTATATTTTAACCCCCT-AACTTTTTCAAAAATATTTTTTAAACCCTAAACTTTT
1 CTAAAATTATATTTTAA-CCTCTAAACTCTTCCAAAATTACATTTT-AACCCTAAACTTTT
625772 -TCAAAATTATATTTTAACCTCTAAACTCTTCCAAAATTACATTTTAACCCTCAAACTTTT
1 CT-AAAATTATATTTTAACCTCTAAACTCTTCCAAAATTACATTTTAACCCT-AAACTTTT
* * * * *
625832 C-AAAATT-TACATTTATACCTC-AAACTTTTCCAAAATTATA-TTTGACCCTAAAACTCTT
1 CTAAAATTATA-TTTTA-ACCTCTAAACTCTTCCAAAATTACATTTTAACCCT-AAACTTTT
* * * * *
625890 CTAAAATTACATTTTGACCCCTAAACTTCTT--AAATTTACATTTTAACCCTAAACTTCT
1 CTAAAATTATATTTTAACCTCTAAAC-TCTTCCAAAATTACATTTTAACCCTAAACTTTT
* * * *
625948 CTAAAATTACATTTTAACCTCTACACT-TTCCCAAAATCACATTTTGACCC
1 CTAAAATTATATTTTAACCTCTAAACTCTT-CCAAAATTACATTTTAACCC
625998 CAAAATCCTC
Statistics
Matches: 184, Mismatches: 28, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
56 2 0.01
57 1 0.01
58 58 0.32
59 74 0.40
60 49 0.27
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (59 bp):
CTAAAATTATATTTTAACCTCTAAACTCTTCCAAAATTACATTTTAACCCTAAACTTTT
Found at i:625984 original size:30 final size:28
Alignment explanation
Indices: 625709--625997 Score: 201
Period size: 30 Copynumber: 9.8 Consensus size: 28
625699 ACCCTCAAAG
*
625709 TTCCTAAAATTATATTTTAACCCCCT-AACTT
1 TTCC-AAAATTACATTTTAA--CCCTAAAC-T
* * **
625740 TTTCAAAAATATTTTTTAAACCCTAAACTT
1 TTCCAAAATTACATTTT-AACCCTAAAC-T
* *
625770 TTTCAAAATTATATTTTAACCTCTAAACT
1 TTCCAAAATTACATTTTAACC-CTAAACT
625799 CTTCCAAAATTACATTTTAACCCTCAAACT
1 -TTCCAAAATTACATTTTAACCCT-AAACT
*
625829 TTTCAAAATTTACA-TTTATA-CCTCAAACTT
1 TTCCAAAA-TTACATTTTA-ACCCT-AAAC-T
* *
625859 TTCCAAAATTATA-TTTGACCCTAAAACT
1 TTCCAAAATTACATTTTAACCCT-AAACT
* *
625887 CTTCTAAAATTACATTTTGACCCCTAAAC-
1 -TTCCAAAATTACATTTT-AACCCTAAACT
* *
625916 TTCTTAAATTTACATTTTAACCCTAAACT
1 TTC-CAAAATTACATTTTAACCCTAAACT
* *
625945 TCTCTAAAATTACATTTTAACCTCTACACT
1 T-TCCAAAATTACATTTTAACC-CTAAACT
* *
625975 TTCCCAAAATCACATTTTGACCC
1 TT-CCAAAATTACATTTTAACCC
625998 CAAAATCCTC
Statistics
Matches: 218, Mismatches: 23, Indels: 36
0.79 0.08 0.13
Matches are distributed among these distances:
28 14 0.06
29 88 0.40
30 107 0.49
31 9 0.04
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (28 bp):
TTCCAAAATTACATTTTAACCCTAAACT
Found at i:628498 original size:14 final size:14
Alignment explanation
Indices: 628479--628516 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
628469 TGTTTAATTG
628479 AAAATGATTTTCGA
1 AAAATGATTTTCGA
*
628493 AAAATGATTTTTGA
1 AAAATGATTTTCGA
628507 AAAATGATTT
1 AAAATGATTT
628517 GTTTTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (14 bp):
AAAATGATTTTCGA
Done.