Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 116 of 325
Found at i:36433696 original size:57 final size:59
Alignment explanation
Indices: 36433582--36433702 Score: 183
Period size: 60 Copynumber: 2.1 Consensus size: 59
36433572 TTGTTATTAA
* *
36433582 ATTTTAATAAAATTATTATTAAGTATAATTTAATAAAAATAAAATAAATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAAAT-AAATAAATAATTTAATCAT
* *
36433642 ATTTTAACATAATTATTATTAAATATAATTTAAT-AAAAT-AATATATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATCAT
36433699 ATTT
1 ATTT
36433703 CAATTTATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
57 21 0.37
59 5 0.09
60 31 0.54
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (59 bp):
ATTTTAACAAAATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATCAT
Found at i:36433715 original size:57 final size:59
Alignment explanation
Indices: 36433592--36433705 Score: 178
Period size: 57 Copynumber: 1.9 Consensus size: 59
36433582 ATTTTAATAA
* *
36433592 AATTATTATTAAGTATAATTTAATAAAAATAAAATAAATAATTTAATCATATTTTAACAT
1 AATTATTATTAAATATAATTTAATAAAAAT-AAATAAATAATTTAATCATATTTCAACAT
*
36433652 AATTATTATTAAATATAATTTAAT-AAAAT-AATATATAATTTAATCATATTTCAA
1 AATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATCATATTTCAA
36433706 TTTATTTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 23 0.45
59 5 0.10
60 23 0.45
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (59 bp):
AATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATCATATTTCAACAT
Found at i:36442594 original size:29 final size:29
Alignment explanation
Indices: 36442532--36442596 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
36442522 TTTAAATCTG
* *
36442532 AAAAATAAAGGATTAGATTCTTGAAAAAT
1 AAAAGTAAAGGATTAGATTCTTCAAAAAT
*
36442561 AAAAGTAAAGGAATTAGA-T-TTCAAATAT
1 AAAAGTAAAGG-ATTAGATTCTTCAAAAAT
36442589 ACAAAGTA
1 A-AAAGTA
36442597 TATAGAGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 8 0.26
29 17 0.55
30 6 0.19
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (29 bp):
AAAAGTAAAGGATTAGATTCTTCAAAAAT
Found at i:36457820 original size:20 final size:20
Alignment explanation
Indices: 36457786--36457836 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
36457776 AACAAGTCAT
36457786 TATAGAAAA-TTTTTAAAAAA
1 TATA-AAAATTTTTTAAAAAA
* * *
36457806 TGTATAAATTTTTTAAAGAA
1 TATAAAAATTTTTTAAAAAA
36457826 TATAAAAATTT
1 TATAAAAATTT
36457837 CAAAAGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (20 bp):
TATAAAAATTTTTTAAAAAA
Found at i:36460764 original size:13 final size:13
Alignment explanation
Indices: 36460746--36460771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36460736 GGTTTCGACA
36460746 ACCACACATGCAC
1 ACCACACATGCAC
36460759 ACCACACATGCAC
1 ACCACACATGCAC
36460772 GGAGAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.08, T:0.08
Consensus pattern (13 bp):
ACCACACATGCAC
Found at i:36463173 original size:17 final size:17
Alignment explanation
Indices: 36463145--36463187 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
36463135 TAAAAAATTC
36463145 AAATATTAAAAATTAGAAA
1 AAATA-TAAAAA-TAGAAA
* *
36463164 AAATATAAAAATCGTAA
1 AAATATAAAAATAGAAA
36463181 AAATATA
1 AAATATA
36463188 TATAATTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
18 6 0.27
19 5 0.23
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
AAATATAAAAATAGAAA
Found at i:36463183 original size:19 final size:19
Alignment explanation
Indices: 36463161--36463248 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
36463151 TAAAAATTAG
36463161 AAAAAATATAAAAATCGTA
1 AAAAAATATAAAAATCGTA
* * * *
36463180 AAAATATATATAATTTGTA
1 AAAAAATATAAAAATCGTA
***
36463199 AAATTTTATAAAAATCGTA
1 AAAAAATATAAAAATCGTA
* *
36463218 AAACAAT-TATAAAAT-AT-
1 AAAAAATATA-AAAATCGTA
36463235 AAAAAATATAAAAA
1 AAAAAATATAAAAA
36463249 AATTATAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
17 10 0.19
18 5 0.09
19 38 0.72
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAAATATAAAAATCGTA
Found at i:36463258 original size:9 final size:9
Alignment explanation
Indices: 36463151--36463258 Score: 51
Period size: 9 Copynumber: 11.6 Consensus size: 9
36463141 ATTCAAATAT
36463151 TAAAAATTA
1 TAAAAATTA
* *
36463160 GAAAAAATA
1 TAAAAATTA
**
36463169 TAAAAATCG
1 TAAAAATTA
36463178 TAAAAATATA
1 TAAAAAT-TA
* * *
36463188 TATAATTTG
1 TAAAAATTA
*
36463197 TAAAATTTTA
1 TAAAA-ATTA
36463207 TAAAAATCGTA
1 TAAAAAT--TA
36463218 -AAACAATTA
1 TAAA-AATTA
36463227 T-AAAA-TA
1 TAAAAATTA
36463234 TAAAAAATATA
1 T-AAAAAT-TA
*
36463245 AAAAAATTA
1 TAAAAATTA
36463254 TAAAA
1 TAAAA
36463259 TTTTATAAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
7 3 0.04
8 2 0.03
9 39 0.53
10 22 0.30
11 7 0.10
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:36463683 original size:86 final size:87
Alignment explanation
Indices: 36463583--36463749 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 87
36463573 AAGAGTAGGA
* * *
36463583 GTTTAATTGCTTTTTTGAAA-AATTTTAAGGGTCTTTTTT-ATGCATTTTGAAAGTTCAAGAGCC
1 GTTTAATTGCTTTTTTGAAAGAAATTTAAGAG-CTTTTTTGATGCATTCTGAAAGTTCAAGAGCC
*
36463646 CAATTGAGTGAAAAAAATCAAGG
65 CAATTAAGTGAAAAAAATCAAGG
* * * * ** *
36463669 GTTTAATTGTTTTTTTTAAAGAAATTTGAGAGCTTTTTTGATGCATTCTGAAAGTTTAATTGCTC
1 GTTTAATTGCTTTTTTGAAAGAAATTTAAGAGCTTTTTTGATGCATTCTGAAAGTTCAAGAGCCC
36463734 AATTAAGTGAAAAAAA
66 AATTAAGTGAAAAAAA
36463750 AAAAGAGAGG
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
86 25 0.37
87 43 0.63
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (87 bp):
GTTTAATTGCTTTTTTGAAAGAAATTTAAGAGCTTTTTTGATGCATTCTGAAAGTTCAAGAGCCC
AATTAAGTGAAAAAAATCAAGG
Found at i:36466058 original size:18 final size:17
Alignment explanation
Indices: 36466011--36466061 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
36466001 ATATTTACCC
*
36466011 ATTTTATTAATTTTTAA
1 ATTTTATTTATTTTTAA
**
36466028 ATGTTTACGTATTTTTAA
1 AT-TTTATTTATTTTTAA
36466046 ATTTTAATTTATTTTT
1 ATTTT-ATTTATTTTT
36466062 TCTTAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (17 bp):
ATTTTATTTATTTTTAA
Found at i:36466281 original size:31 final size:31
Alignment explanation
Indices: 36466234--36466308 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
36466224 TTTTAATGAT
* *
36466234 AGAGTTACT-AAATTGACAACTTATCTAATA
1 AGAGTGACTAAAATTGACAACTTATCTAACA
36466264 AGAGTGACTAAAATTGACAACTTATCTAACA
1 AGAGTGACTAAAATTGACAACTTATCTAACA
*
36466295 TGAGTGACTAAAAT
1 AGAGTGACTAAAAT
36466309 AGTAAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 8 0.20
31 33 0.80
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (31 bp):
AGAGTGACTAAAATTGACAACTTATCTAACA
Found at i:36468412 original size:86 final size:84
Alignment explanation
Indices: 36468244--36468415 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 84
36468234 CAATTGTTTC
36468244 CGCTATACAAATTGGTGCCTTAGAGGAATTCTAAAAGATCCTCACTTTGAGAGTAAAGGCTGATT
1 CGCTATACAAATTGGTGCCTTAGAGGAATTCTAAAAGATCCTCACTTTGAGAGTAAAGGCTGATT
36468309 TAAGCGAGTTTGGAGAGAA
66 TAAGCGAGTTTGGAGAGAA
36468328 CGCTATACAAATTGGTGCCTTAGAGGAATTCTAAAAGAATCCTCACTTTTGAGAGTAAAGGCTGA
1 CGCTATACAAATTGGTGCCTTAGAGGAATTCTAAAAG-ATCCTCAC-TTTGAGAGTAAAGGCTGA
36468393 TTTAAGCGAGTTTGGAGAGAA
64 TTTAAGCGAGTTTGGAGAGAA
36468414 CG
1 CG
36468416 GATTGCCTAA
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 37 0.43
85 8 0.09
86 41 0.48
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (84 bp):
CGCTATACAAATTGGTGCCTTAGAGGAATTCTAAAAGATCCTCACTTTGAGAGTAAAGGCTGATT
TAAGCGAGTTTGGAGAGAA
Found at i:36475937 original size:3 final size:3
Alignment explanation
Indices: 36475911--36475964 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
36475901 CTGAAGGAAG
* *
36475911 GAA GAAA GAA GGA GAA GGA GAA GAA GAA -AA GAA G-A GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
36475955 AAA GAA GAA G
1 GAA GAA GAA G
36475965 GAGGAGGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:36476138 original size:15 final size:18
Alignment explanation
Indices: 36476114--36476149 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
36476104 AATTTATTTA
36476114 TTTTAGTTGTT-ATT-AT
1 TTTTAGTTGTTGATTGAT
36476130 TTTTA-TTGTTGATTGAT
1 TTTTAGTTGTTGATTGAT
36476147 TTT
1 TTT
36476150 GAATTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.28
16 8 0.44
17 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (18 bp):
TTTTAGTTGTTGATTGAT
Found at i:36476467 original size:17 final size:16
Alignment explanation
Indices: 36476445--36476527 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 16
36476435 TTTTTTTACA
*
36476445 AAAATAGTATAAAAAAT
1 AAAATACTA-AAAAAAT
36476462 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
*** * *
36476478 ATCTTAATGAAAAAAT
1 AAAATACTAAAAAAAT
36476494 AAAATA-TGAAAAGAAAT
1 AAAATACT-AAAA-AAAT
*
36476511 AAAATA-TGAAAAAAT
1 AAAATACTAAAAAAAT
36476526 AA
1 AA
36476528 CTTTTTGGGG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
15 7 0.13
16 27 0.51
17 19 0.36
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:36479073 original size:32 final size:32
Alignment explanation
Indices: 36478992--36479106 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 32
36478982 ATCTTTGGAT
*
36478992 CGTATCCACTGCAGTACAGCACTA-CCCTCGACC
1 CGTATCCACCGCAGTACAGCACTACCCCT-G-CC
* *
36479025 CGTATCCATCGTAGTACAGCACTACCCCTGCC
1 CGTATCCACCGCAGTACAGCACTACCCCTGCC
* * *
36479057 CGAATCCACCACAGTACAGCACTACTCCCGGCC
1 CGTATCCACCGCAGTACAGCACTAC-CCCTGCC
*
36479090 CGTATCTACCGCAGTAC
1 CGTATCCACCGCAGTAC
36479107 TCCACTCCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
32 23 0.33
33 42 0.61
34 4 0.06
ACGTcount: A:0.24, C:0.42, G:0.16, T:0.18
Consensus pattern (32 bp):
CGTATCCACCGCAGTACAGCACTACCCCTGCC
Found at i:36485057 original size:45 final size:42
Alignment explanation
Indices: 36484972--36485057 Score: 109
Period size: 45 Copynumber: 2.0 Consensus size: 42
36484962 TACAACATAA
* *
36484972 ACCCAATAACCCAAAGCCCAAATACTTAAAATTAAACCCAAG
1 ACCCAATAACCCAAAACCCAAATACTTAAAACTAAACCCAAG
* *
36485014 ACCCACTAACACCTAAAACCCAAATACATTATAACTAAACCCAA
1 ACCCAATAAC-CC-AAAACCCAAATAC-TTAAAACTAAACCCAA
36485058 CACTTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 9 0.24
43 2 0.05
44 12 0.32
45 14 0.38
ACGTcount: A:0.50, C:0.33, G:0.02, T:0.15
Consensus pattern (42 bp):
ACCCAATAACCCAAAACCCAAATACTTAAAACTAAACCCAAG
Found at i:36486324 original size:3 final size:3
Alignment explanation
Indices: 36486318--36486451 Score: 50
Period size: 3 Copynumber: 46.7 Consensus size: 3
36486308 TTTATAATAC
* * * * * *
36486318 TAT TAT TA- TAA TCT TAT T-T TAT TAT TAT CAT TCT TAT TAA TA- CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
36486363 TAT TAT TAT T-T TAC CA- TAT TAT TAT T-T TAT ATAT TAT TGC TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
36486406 TAT TAA CA- TAC TAT TAT TAT TAT TA- TACT TAT TAA TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
36486450 TA
1 TA
36486452 GTACTAGTAT
Statistics
Matches: 98, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
2 13 0.13
3 80 0.82
4 5 0.05
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:36486342 original size:19 final size:20
Alignment explanation
Indices: 36486318--36486355 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
36486308 TTTATAATAC
36486318 TATTATTAT-AATCTTATTT
1 TATTATTATCAATCTTATTT
*
36486337 TATTATTATCATTCTTATT
1 TATTATTATCAATCTTATT
36486356 AATACATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATTATCAATCTTATTT
Found at i:36486384 original size:16 final size:15
Alignment explanation
Indices: 36486358--36486400 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
36486348 TTCTTATTAA
36486358 TACATTATTATTATTT
1 TACA-TATTATTATTT
36486374 TACCATATTATTATTT
1 TA-CATATTATTATTT
*
36486390 TATATATTATT
1 TACATATTATT
36486401 GCTGTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 15 0.60
17 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TACATATTATTATTT
Found at i:36486531 original size:3 final size:3
Alignment explanation
Indices: 36486523--36486547 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36486513 TGTATTAAAT
36486523 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
36486548 CATTTCCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36487568 original size:21 final size:22
Alignment explanation
Indices: 36487539--36487586 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
36487529 TTCATGTATT
* *
36487539 TTTATTATACATGTA-TATATC
1 TTTAATATACATATAGTATATC
*
36487560 TTTAATATATATATAGGTATATC
1 TTTAATATACATATA-GTATATC
36487583 TTTA
1 TTTA
36487587 TATTAGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTAATATACATATAGTATATC
Found at i:36490592 original size:22 final size:22
Alignment explanation
Indices: 36490564--36490605 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36490554 TTGAAAATGA
36490564 ATTGATTCT-TTATTATTTTTGG
1 ATTGATT-TGTTATTATTTTTGG
*
36490586 ATTGATTTGTTTTTATTTTT
1 ATTGATTTGTTATTATTTTT
36490606 TAATTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (22 bp):
ATTGATTTGTTATTATTTTTGG
Found at i:36492241 original size:4 final size:4
Alignment explanation
Indices: 36492234--36492263 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
36492224 ACACGCAAGC
*
36492234 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
36492264 TGGTAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:36492336 original size:26 final size:28
Alignment explanation
Indices: 36492285--36492336 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
36492275 AATGATAACG
*
36492285 AAAACAATAATAACGATATGAGTAAAGA
1 AAAACAATAATAACGATATGAATAAAGA
36492313 AAAACGAATAA-AACGA-AT-AATAAA
1 AAAAC-AATAATAACGATATGAATAAA
36492337 ATAATGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 5 0.23
27 2 0.09
28 10 0.45
29 5 0.23
ACGTcount: A:0.65, C:0.08, G:0.12, T:0.15
Consensus pattern (28 bp):
AAAACAATAATAACGATATGAATAAAGA
Found at i:36492970 original size:21 final size:23
Alignment explanation
Indices: 36492944--36492992 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
36492934 AGGTATTACA
*
36492944 TAAAAATATATACAT-AT-ATAT
1 TAAAAATAAATACATGATAATAT
*
36492965 TAAAAATAAATATATGATAATAT
1 TAAAAATAAATACATGATAATAT
36492988 TAAAA
1 TAAAA
36492993 GTATGTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAAATACATGATAATAT
Found at i:36495164 original size:43 final size:43
Alignment explanation
Indices: 36495110--36495263 Score: 200
Period size: 43 Copynumber: 3.6 Consensus size: 43
36495100 CTTCAATCTA
* * * *
36495110 TTTCCCTACTGCTTAGGGGGTTAAGATATGTGAATTTAACCTG
1 TTTCCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTAACCTG
*
36495153 TTTCCCTACTGCTTAGGGATTTAAGGTCTGTAAATTTAACCTG
1 TTTCCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTAACCTG
* * ** *
36495196 TTTCCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTG
1 TTTCCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTAACCTG
* *
36495239 TTACCCTACTGCTTAGGGGGTTAAG
1 TTTCCCTACTGCTTAGGGAGTTAAG
36495264 CCCATCATCT
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 98 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (43 bp):
TTTCCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTAACCTG
Found at i:36495316 original size:86 final size:87
Alignment explanation
Indices: 36495016--36495317 Score: 254
Period size: 86 Copynumber: 3.5 Consensus size: 87
36495006 CTGTTTTTTG
* * * ** * *
36495016 ATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTACTTA
1 ATCTGTTTCCCTACTGCTTAGGGAGTTAAGATCTTAT-AAATTTAGCTTGTTACCCTACTGCTTA
* * *
36495081 GGGAGTTAAAGCTCGTTACCTTCA
65 GGGAGTT-AAGCCCGTAATCTTCA
* * * * * * * *
36495105 ATCTATTTCCCTACTGCTTAGGGGGTTAAGAT-ATGTGAATTTAACCTGTTTCCCTACTGCTTAG
1 ATCTGTTTCCCTACTGCTTAGGGAGTTAAGATCTTATAAATTTAGCTTGTTACCCTACTGCTTAG
* * *
36495169 GGATTTAAGGTCTGTAAAT-TT-A
66 GGAGTTAA-GCCCGT-AATCTTCA
* * * * * *
36495191 ACCTGTTTCCTTACTGCTTAGGGATTTAAGGTC-TGTAAATTTGGCTTGTTACCCTACTGCTTAG
1 ATCTGTTTCCCTACTGCTTAGGGAGTTAAGATCTTATAAATTTAGCTTGTTACCCTACTGCTTAG
* * * *
36495255 GGGGTTAAGCCCATCATCTTCG
66 GGAGTTAAGCCCGTAATCTTCA
36495277 ATCTGTTTCCCTACTGCTTAGGG-GTTAAGATCTTATAAATT
1 ATCTGTTTCCCTACTGCTTAGGGAGTTAAGATCTTATAAATT
36495318 CAGTCTGCTC
Statistics
Matches: 164, Mismatches: 43, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
84 2 0.01
85 12 0.07
86 89 0.54
87 30 0.18
88 3 0.02
89 28 0.17
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (87 bp):
ATCTGTTTCCCTACTGCTTAGGGAGTTAAGATCTTATAAATTTAGCTTGTTACCCTACTGCTTAG
GGAGTTAAGCCCGTAATCTTCA
Found at i:36501930 original size:11 final size:11
Alignment explanation
Indices: 36501914--36501941 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36501904 TTCCACCATT
36501914 TTCTTCCAAAC
1 TTCTTCCAAAC
36501925 TTCTTCCAAAC
1 TTCTTCCAAAC
36501936 TTCTTC
1 TTCTTC
36501942 TAACGGGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (11 bp):
TTCTTCCAAAC
Found at i:36507396 original size:4 final size:4
Alignment explanation
Indices: 36507389--36507418 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
36507379 ACACGCAAGC
*
36507389 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
36507419 TGGTAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:36508140 original size:21 final size:23
Alignment explanation
Indices: 36508114--36508162 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
36508104 AGGTATTACA
*
36508114 TAAAAATATATACAT-AT-ATAT
1 TAAAAATAAATACATGATAATAT
*
36508135 TAAAAATAAATATATGATAATAT
1 TAAAAATAAATACATGATAATAT
36508158 TAAAA
1 TAAAA
36508163 GTATGTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAAATACATGATAATAT
Found at i:36511595 original size:26 final size:26
Alignment explanation
Indices: 36511566--36511675 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
36511556 TGGTACAAAT
36511566 TGATAATAGGTTAGGTAAATG-TTCGA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
36511592 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36511618 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36511644 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
36511670 TGATAA
1 TGATAA
36511676 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:36513325 original size:27 final size:27
Alignment explanation
Indices: 36513284--36513396 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
36513274 GAGGAAGCGT
*
36513284 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
36513311 TCTGGTGGCTCTGCCATATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
36513338 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
36513366 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
36513392 TCTGG
1 TCTGG
36513397 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:36513389 original size:54 final size:54
Alignment explanation
Indices: 36513282--36513396 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
36513272 TGGAGGAAGC
* *
36513282 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
36513336 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
36513390 GTTCTGG
1 GTTCTGG
36513397 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:36517377 original size:26 final size:26
Alignment explanation
Indices: 36517348--36517457 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
36517338 TGGTACAAAT
36517348 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
* *
36517374 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36517400 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36517426 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
36517452 TGATAA
1 TGATAA
36517458 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:36519027 original size:27 final size:27
Alignment explanation
Indices: 36518990--36519097 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
36518980 GAAGCGTTCT
*
36518990 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
36519017 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
36519044 GTGGCTCTG-CACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTG
* * * *
36519071 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
36519097 G
1 G
36519098 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.20
27 53 0.76
28 3 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTG
Found at i:36519118 original size:53 final size:55
Alignment explanation
Indices: 36519000--36519118 Score: 140
Period size: 53 Copynumber: 2.2 Consensus size: 55
36518990 GTGGCTATGC
* **
36519000 CACAAATATCTG-ATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTC-TG
1 CACAAATATCTGTATCTGGTGACTCTGCCACATATATCTGTTCTGGCAGCTCATG
* * *
36519053 CACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTGGCAGC-CATG
1 CACAAATATCTGTATCTGGTGACTCTGCCACATATATCTGTTCTGGCAGCTCATG
36519106 CTACAAAT-TCTGT
1 C-ACAAATATCTGT
36519119 GGTGTGTAGC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
52 1 0.02
53 32 0.58
54 22 0.40
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (55 bp):
CACAAATATCTGTATCTGGTGACTCTGCCACATATATCTGTTCTGGCAGCTCATG
Found at i:36528602 original size:43 final size:43
Alignment explanation
Indices: 36528554--36528642 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
36528544 CAATGAAAAG
*
36528554 TATGATTTGGAACTAATTAATAGTAATACATGAGTATATACCA
1 TATGATTTGGAACTAATTAATAGTAATACATGAATATATACCA
* *
36528597 TATGATTTGGAACTAATTAATAGTAATCCATGAATATATACTA
1 TATGATTTGGAACTAATTAATAGTAATACATGAATATATACCA
36528640 TAT
1 TAT
36528643 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (43 bp):
TATGATTTGGAACTAATTAATAGTAATACATGAATATATACCA
Found at i:36530427 original size:40 final size:38
Alignment explanation
Indices: 36530360--36530493 Score: 105
Period size: 37 Copynumber: 3.4 Consensus size: 38
36530350 ACCAGAATGG
36530360 CACCCAGTGCCTCATCGGA-TAGTTCGAAGCAATATAGTGA
1 CACCCAGTGCCTCATC-GACTAG-TCGAAG-AATATAGTGA
* * *
36530400 CACCCAGTGTCTCATCGACCTAGTCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGA-CTAGTCGAAGAATATAGTGA
* * *
36530437 TACCCAGTACCTCATCGAATCTA-TCTGAAAAAATATAGTGA
1 CACCCAGTGCCTCATCG-A-CTAGTC-G-AAGAATATAGTGA
*
36530478 CACCCAGTGTCTCATC
1 CACCCAGTGCCTCATC
36530494 AACTTGAGGT
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
37 22 0.30
38 5 0.07
39 4 0.05
40 21 0.28
41 22 0.30
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGACTAGTCGAAGAATATAGTGA
Found at i:36531102 original size:42 final size:41
Alignment explanation
Indices: 36531056--36531185 Score: 123
Period size: 42 Copynumber: 3.3 Consensus size: 41
36531046 TTGAATTTCT
36531056 ATTCAATTTACACCTTATTTTCAATTAGGTCCTAGCTGATTC
1 ATTCAATTTACACCTTATTTTCAATTAGGTCCTA-CTGATTC
* * * *
36531098 ATTCACTTTACTAACTTA-ATTC-A-TA-CT-CTA-T--TTC
1 ATTCAATTTAC-ACCTTATTTTCAATTAGGTCCTACTGATTC
36531132 TATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTC
1 -ATTCAATTTACACCTTATTTTCAATTAGGTCCT-ACTGATTC
*
36531175 ATTCACTTTAC
1 ATTCAATTTAC
36531186 TAACTTAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
34 8 0.12
35 13 0.19
36 2 0.03
37 2 0.03
38 4 0.06
39 3 0.04
40 3 0.04
41 2 0.03
42 23 0.34
43 8 0.12
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (41 bp):
ATTCAATTTACACCTTATTTTCAATTAGGTCCTACTGATTC
Found at i:36531137 original size:77 final size:77
Alignment explanation
Indices: 36531050--36531215 Score: 323
Period size: 77 Copynumber: 2.2 Consensus size: 77
36531040 AAATAATTGA
*
36531050 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAGCTGATTCATTCACTTTACTAACTT
1 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCATTCACTTTACTAACTT
36531115 AATTCATACTCT
66 AATTCATACTCT
36531127 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCATTCACTTTACTAACTT
1 ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCATTCACTTTACTAACTT
36531192 AATTCATACTCT
66 AATTCATACTCT
36531204 ATTTCTATTCAA
1 ATTTCTATTCAA
36531216 GTTCCATCCA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 88 1.00
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (77 bp):
ATTTCTATTCAATTTACACCTTATTTTCAATTAGGTCCTAACTGATTCATTCACTTTACTAACTT
AATTCATACTCT
Found at i:36532429 original size:28 final size:28
Alignment explanation
Indices: 36532397--36532452 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
36532387 CCCTATGATA
**
36532397 GTATGTGTGAGGCCGTGTGCGAACCCTT
1 GTATGTGTGAACCCGTGTGCGAACCCTT
* *
36532425 GTATGTGTTAACCCGTGTGTGAACCCTT
1 GTATGTGTGAACCCGTGTGCGAACCCTT
36532453 AGGTTAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.32
Consensus pattern (28 bp):
GTATGTGTGAACCCGTGTGCGAACCCTT
Found at i:36532530 original size:26 final size:26
Alignment explanation
Indices: 36532501--36532550 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
36532491 TGTGAGACCT
*
36532501 TAGTGT-TAGAACCCTTAAGTGCGAGC
1 TAGTGTGT-GAACCCCTAAGTGCGAGC
*
36532527 TAGTGTGTGAACCCCTATGTGCGA
1 TAGTGTGTGAACCCCTAAGTGCGA
36532551 ACCCTTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (26 bp):
TAGTGTGTGAACCCCTAAGTGCGAGC
Found at i:36532552 original size:14 final size:14
Alignment explanation
Indices: 36532530--36532629 Score: 51
Period size: 14 Copynumber: 7.3 Consensus size: 14
36532520 TGCGAGCTAG
*
36532530 TGTGTGAACCCCTA
1 TGTGCGAACCCCTA
36532544 TGTGCGAA-CCCT-
1 TGTGCGAACCCCTA
* * **
36532556 TATGCAAACCTGTA
1 TGTGCGAACCCCTA
*
36532570 TGTGCGAACTCCTA
1 TGTGCGAACCCCTA
* ** *
36532584 CGTGTAAACCCTTA
1 TGTGCGAACCCCTA
* ***
36532598 TGTGTGAACTTGTA
1 TGTGCGAACCCCTA
*
36532612 TGTGCAAACCCCTA
1 TGTGCGAACCCCTA
36532626 TGTG
1 TGTG
36532630 TGAGCTCTAG
Statistics
Matches: 59, Mismatches: 25, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
12 6 0.10
13 6 0.10
14 47 0.80
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (14 bp):
TGTGCGAACCCCTA
Found at i:36532620 original size:28 final size:28
Alignment explanation
Indices: 36532558--36532687 Score: 95
Period size: 28 Copynumber: 4.6 Consensus size: 28
36532548 CGAACCCTTA
* ** *
36532558 TGCAAA-CCTGTATGTGCGAACTCCTACG
1 TGCAAACCCT-TATGTGTGAACTTGTATG
*
36532586 TGTAAACCCTTATGTGTGAACTTGTATG
1 TGCAAACCCTTATGTGTGAACTTGTATG
* * *
36532614 TGCAAACCCCTATGTGTGAGCTCTAGGTGTG
1 TGCAAACCCTTATGTGTGAACT-T--GTATG
** * *
36532645 TG--AACCCTTATACGTAAACCTGTATG
1 TGCAAACCCTTATGTGTGAACTTGTATG
36532671 TGCAAACCCTTATGTGT
1 TGCAAACCCTTATGTGT
36532688 CAACCCTATA
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
26 6 0.08
28 50 0.64
29 16 0.21
31 6 0.08
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (28 bp):
TGCAAACCCTTATGTGTGAACTTGTATG
Found at i:36532808 original size:36 final size:36
Alignment explanation
Indices: 36532723--36532800 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
36532713 ACCCTAGGTT
* *
36532723 ATGTTATGTGAACCTTGTATGTGTCATATGCAAGCC
1 ATGTTATGTGAACCTAGTATGTGTCATATACAAGCC
* *
36532759 ATGATATCTGAACCTAGTATGTGTCATATACGAA-CC
1 ATGTTATGTGAACCTAGTATGTGTCATATAC-AAGCC
36532795 ATGTTA
1 ATGTTA
36532801 GGAGAACCCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (36 bp):
ATGTTATGTGAACCTAGTATGTGTCATATACAAGCC
Found at i:36534683 original size:17 final size:19
Alignment explanation
Indices: 36534648--36534691 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
36534638 TATTATTTTT
36534648 ATATTTTATATTATTAATA
1 ATATTTTATATTATTAATA
36534667 ATATTTTATA-T-TTAATA
1 ATATTTTATATTATTAATA
*
36534684 ATTTTTTA
1 ATATTTTA
36534692 ATAACTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 1 0.04
19 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTATATTATTAATA
Found at i:36535850 original size:2 final size:2
Alignment explanation
Indices: 36535843--36535875 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
36535833 AATTATGTAA
36535843 AT AT AT AT 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 AT AT AT AT A
36535876 GATAGATAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36537201 original size:226 final size:217
Alignment explanation
Indices: 36536806--36537209 Score: 504
Period size: 226 Copynumber: 1.8 Consensus size: 217
36536796 GAAGTTGTCG
* * * * * *
36536806 AAATTATGATATAATGTTGAAAATTTTAAATTTTTTTGGTTAAAGAACTGGTTTTAGGTGAGGAA
1 AAATTATGATATAAGGTTCAAAAATTTAAATTTTTTTGGTTAAAGAACTGATATTAGGTGAAGAA
* * * *
36536871 TTTATTTGAATTTATATTTTAAAAGCTCCAATTTTAAAGAAAATGTAAGATGCTTGATCTCAATA
66 TTTATATGAATTTAGATTATAAAAGCTCCAATTTTAAAGAAAATGCAAGATGCTTGATCTCAATA
* * *
36536936 TTTTAATTTTATTTTGTTTGATTTGGATTCTTGTGAGCTTGTTTATTTAAATTTTTTTTCTTTTG
131 TTTTAATTTTATTTTGTTTAATTTGGATTATTGTGAGCTTATTTATTTAAATTTTTTTTCTTTTG
36537001 GGTTAAATTGGCTTCTTTTGTT
196 GGTTAAATTGGCTTCTTTTGTT
** *
36537023 AAATTATGATATGCGGTTCAAAAATTTAAGTTTTTTTGGGTTAAAGAACTGATATTAGGT-AAGA
1 AAATTATGATATAAGGTTCAAAAATTTAAATTTTTTT-GGTTAAAGAACTGATATTAGGTGAAGA
* *
36537087 ATATATATATGAGTTTAGATTATAAAAGCTCCTATTGTTTAAAAAAGAAAAGTTGCAAGATGCTT
65 AT-T-TATATGAATTTAGATTATAAAAGCTCC-AAT-TTT---AAAGAAAA--TGCAAGATGCTT
* * * * *
36537152 GATCTTAATATTTTTATTTTGTTTTGTTTAATTTGGCTTATTTTGAGCTTATTTATTT
121 GATCTCAATATTTTAATTTTATTTTGTTTAATTTGGATTATTGTGAGCTTATTTATTT
36537210 GGATTTATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
217 36 0.23
218 21 0.14
219 23 0.15
220 2 0.01
221 3 0.02
224 8 0.05
226 61 0.40
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.48
Consensus pattern (217 bp):
AAATTATGATATAAGGTTCAAAAATTTAAATTTTTTTGGTTAAAGAACTGATATTAGGTGAAGAA
TTTATATGAATTTAGATTATAAAAGCTCCAATTTTAAAGAAAATGCAAGATGCTTGATCTCAATA
TTTTAATTTTATTTTGTTTAATTTGGATTATTGTGAGCTTATTTATTTAAATTTTTTTTCTTTTG
GGTTAAATTGGCTTCTTTTGTT
Found at i:36547763 original size:40 final size:40
Alignment explanation
Indices: 36547718--36547819 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 40
36547708 CACCCATTTC
* *
36547718 CTCATTGGGTAATTCGAAGTAATAAATTGACACCCAGTGT
1 CTCATTGGGTAATTCGAAGTAATAAATTAACACACAGTGT
**
36547758 CTCATTGAATAATTCTGAAGTAATAAATTAACACACAGTGT
1 CTCATTGGGTAATTC-GAAGTAATAAATTAACACACAGTGT
*
36547799 CTCATT-GGTAAATCGAAGTAA
1 CTCATTGGGTAATTCGAAGTAA
36547820 ATTGGAACCC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 7 0.13
40 18 0.33
41 29 0.54
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (40 bp):
CTCATTGGGTAATTCGAAGTAATAAATTAACACACAGTGT
Found at i:36548178 original size:5 final size:5
Alignment explanation
Indices: 36548168--36548220 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
36548158 TAAAATTCAT
36548168 CAACA CAACA CAACA CAACA CAACA CAACA CAACA CAACA CAACA CAACA
1 CAACA CAACA CAACA CAACA CAACA CAACA CAACA CAACA CAACA CAACA
36548218 CAA
1 CAA
36548221 TTCAATTGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
CAACA
Found at i:36548300 original size:19 final size:19
Alignment explanation
Indices: 36548278--36548316 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
36548268 TTTTCAATTT
*
36548278 AGTCCCTAAATCGAGACTA
1 AGTCCCTAAACCGAGACTA
36548297 AGTCCCTAAACCGAGACTA
1 AGTCCCTAAACCGAGACTA
36548316 A
1 A
36548317 CTTTTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.18
Consensus pattern (19 bp):
AGTCCCTAAACCGAGACTA
Found at i:36548720 original size:10 final size:10
Alignment explanation
Indices: 36548688--36548732 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
36548678 GTCTTTGTCC
36548688 TTTCTTTCTT
1 TTTCTTTCTT
* *
36548698 TCCTCTTTTTT
1 T-TTCTTTCTT
36548709 TTTCTTTCTT
1 TTTCTTTCTT
*
36548719 TTTCTTTCTG
1 TTTCTTTCTT
36548729 TTTC
1 TTTC
36548733 GTTTAGCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:36548870 original size:19 final size:20
Alignment explanation
Indices: 36548838--36548876 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
36548828 AAACATATTT
*
36548838 TATTAATATATACATATGTA
1 TATTAATATATACACATGTA
*
36548858 TATTAA-ATTTACACATGTA
1 TATTAATATATACACATGTA
36548877 ATCAGTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (20 bp):
TATTAATATATACACATGTA
Found at i:36552492 original size:24 final size:24
Alignment explanation
Indices: 36552463--36552576 Score: 99
Period size: 24 Copynumber: 4.7 Consensus size: 24
36552453 TAAGAAATTT
* *
36552463 CAGCACTATGTGTGCGAGGTTATG
1 CAGCACTATGTGTGCGAGATTATA
* **
36552487 CGGCACTATGTGTGC-A-AAAACTA
1 CAGCACTATGTGTGCGAGATTA-TA
36552510 CATGGCACTATGTGTGCGAGATTATA
1 CA--GCACTATGTGTGCGAGATTATA
* * *
36552536 TAGCACTATGTGTGCGAGGA-AATG
1 CAGCACTATGTGTGCGA-GATTATA
36552560 CAGCACTATGTGTGCGA
1 CAGCACTATGTGTGCGA
36552577 ATGAGTAAGA
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.01
23 3 0.04
24 47 0.65
25 15 0.21
26 4 0.06
27 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (24 bp):
CAGCACTATGTGTGCGAGATTATA
Found at i:36557934 original size:14 final size:14
Alignment explanation
Indices: 36557915--36557952 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
36557905 CATATCTTCC
*
36557915 AATTTTGAACTCAA
1 AATTTTAAACTCAA
36557929 AATTTTAAACTCAA
1 AATTTTAAACTCAA
36557943 AATTTTAAAC
1 AATTTTAAAC
36557953 AGACTTCAAT
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:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (14 bp):
AATTTTAAACTCAA
Found at i:36559854 original size:20 final size:20
Alignment explanation
Indices: 36559829--36559873 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
36559819 CCATATATAA
*
36559829 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTCA-AAATTAT
36559849 TTTG-AATTTTCAAAATTAT
1 TTTGAAATTTTCAAAATTAT
36559868 TTTGAA
1 TTTGAA
36559874 TTATTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (20 bp):
TTTGAAATTTTCAAAATTAT
Found at i:36561068 original size:15 final size:15
Alignment explanation
Indices: 36561014--36561060 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
36561004 CAAAATTTAA
*
36561014 ATAAATATATAATAT
1 ATAAAAATATAATAT
*
36561029 A-AGACAAT-TAATAT
1 ATA-AAAATATAATAT
36561043 ATAAAAATATAATAT
1 ATAAAAATATAATAT
36561058 ATA
1 ATA
36561061 TATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAATATAATAT
Found at i:36565279 original size:19 final size:20
Alignment explanation
Indices: 36565238--36565279 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
36565228 TATTGTAATT
* * *
36565238 AATTTTTAATTTATTATTTA
1 AATTTTTAATATATAATTAA
36565258 AATTTTTAA-ATATAATTAA
1 AATTTTTAATATATAATTAA
36565277 AAT
1 AAT
36565280 ATATTAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTAATATATAATTAA
Found at i:36565895 original size:12 final size:12
Alignment explanation
Indices: 36565880--36565906 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36565870 TATAAACTAA
36565880 ATTATAATTATC
1 ATTATAATTATC
36565892 ATTATAATTATC
1 ATTATAATTATC
36565904 ATT
1 ATT
36565907 TTTTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATAATTATC
Found at i:36567656 original size:62 final size:61
Alignment explanation
Indices: 36567549--36567724 Score: 192
Period size: 62 Copynumber: 2.8 Consensus size: 61
36567539 TGTGGCCCAT
* * * **
36567549 ACAGCTTGGACACACGTCCGTGTCTCTGACCTGTGTGACTCAAATTCTAAACTAATATGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACC-GTGTGACTTAAATTCAAAAC-AATAAATTAC
* * *
36567612 AC-GGTTGGACACACGTCCGTTTCTCTAACTCGTGTGACTTAAATTCCAAAACAGTAAATTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAAC-CGTGTGACTTAAATT-CAAAACAATAAATTAC
* * * *
36567674 ACAGCCTGGACACACGCCCGTGTCTCTAACCCATGTGAATTAAATTCAAAA
1 ACAGCTTGGACACACGTCCGTGTCTCTAA-CCGTGTGACTTAAATTCAAAA
36567725 ATAGTGAGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
62 51 0.54
63 43 0.45
64 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (61 bp):
ACAGCTTGGACACACGTCCGTGTCTCTAACCGTGTGACTTAAATTCAAAACAATAAATTAC
Found at i:36567711 original size:63 final size:64
Alignment explanation
Indices: 36567549--36567725 Score: 198
Period size: 63 Copynumber: 2.8 Consensus size: 64
36567539 TGTGGCCCAT
* * * * **
36567549 ACAGCTTGGACACACGTCCGTGTCTCTGACCTGTGTGACTCAAATT-CTAAACTAATATGTTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAACTAATAAATTAC
* * * *
36567612 AC-GGTTGGACACACGTCCGTTTCTCTAACTCGTGTGACTTAAATTCCAAAAC-AGTAAATTAC
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAACTAATAAATTAC
* * * * *
36567674 ACAGCCTGGACACACGCCCGTGTCTCTAACCCATGTGAATTAAATTCAAAAA
1 ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAA
36567726 TAGTGAGTTG
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
62 46 0.49
63 48 0.51
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
ACAGCTTGGACACACGTCCGTGTCTCTAACCCGTGTGACTTAAATTCCAAAACTAATAAATTAC
Found at i:36568405 original size:47 final size:47
Alignment explanation
Indices: 36568324--36568422 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
36568314 TTGTGTGTCA
** * *
36568324 TACTGTTACTGTTTCTTCGGTTTAATCCGATGAGGTACTAAGTACCG
1 TACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
* **
36568371 TACTGTTACTGTTTACTTCGG-CAAAGCCGTTGAGGCACTAAGTGTCG
1 TACTGTTACTGTTT-CTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
36568418 TACTG
1 TACTG
36568423 GTGTGTTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 38 0.86
48 6 0.14
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (47 bp):
TACTGTTACTGTTTCTTCGGTCAAAGCCGATGAGGCACTAAGTACCG
Found at i:36568513 original size:18 final size:18
Alignment explanation
Indices: 36568486--36568552 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
36568476 TAAACTACTG
*
36568486 TACTGTATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
36568504 TACTGAATAACTAAATTACT
1 TACTGAATAA-TTGA-TAGT
*
36568524 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
36568543 TATTGAATAA
1 TACTGAATAA
36568553 CTAAACTACT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 19 0.50
19 5 0.13
20 5 0.13
21 9 0.24
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:36568524 original size:39 final size:39
Alignment explanation
Indices: 36568476--36568626 Score: 205
Period size: 39 Copynumber: 3.9 Consensus size: 39
36568466 TTAATAGGGG
*
36568476 TAAACTACTGTACTGTATAATTGATAGTTACTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
36568515 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
* *
36568554 TAAACTACTGCACTGAATATTTGATAGTTACTGAA-AGAC
1 TAAACTACTGTACTGAATAATTGATAGTTACTGAATA-AC
* * *
36568593 TAAATTACTGTACTGAATAACTGATTGTTACTGA
1 TAAACTACTGTACTGAATAATTGATAGTTACTGA
36568627 TTAAATATGA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 96 0.99
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (39 bp):
TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:36568531 original size:21 final size:20
Alignment explanation
Indices: 36568507--36568563 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
36568497 TGATAGTTAC
36568507 TGAATAACTAAATTACTGTAT
1 TGAATAACTAAA-TACTGTAT
** *
36568528 TGAATAA-TTGATAGT-TAT
1 TGAATAACTAAATACTGTAT
36568546 TGAATAACTAAACTACTG
1 TGAATAACTAAA-TACTG
36568564 CACTGAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 5 0.19
21 7 0.26
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAATAACTAAATACTGTAT
Found at i:36569837 original size:29 final size:30
Alignment explanation
Indices: 36569804--36569862 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
36569794 TACGGTTTAA
*
36569804 TGTGCAATTGTATACAT-AAACTTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
* *
36569833 TGTGCAATTTTATATATGAAAATTTGATTT
1 TGTGCAATTGTATACATGAAAATTTGATTT
36569863 GATCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAAATTTGATTT
Found at i:36571513 original size:10 final size:11
Alignment explanation
Indices: 36571498--36571527 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
36571488 GTATTTTTTT
36571498 ATAAATTTTAA
1 ATAAATTTTAA
36571509 A-AAATTTTAA
1 ATAAATTTTAA
36571519 ATAAATTTT
1 ATAAATTTT
36571528 TTAAACATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAAATTTTAA
Found at i:36572227 original size:28 final size:26
Alignment explanation
Indices: 36572195--36572250 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
36572185 TTAGTTTTTC
*
36572195 TAAAATTTTAAAAAAAATTCAAAGAAAT
1 TAAAAATTTAAAAAAAATT-AAA-AAAT
*
36572223 TAAAAATTTAAAAAATATTAAAAAAT
1 TAAAAATTTAAAAAAAATTAAAAAAT
36572249 TA
1 TA
36572251 TTCTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 6 0.23
27 3 0.12
28 17 0.65
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (26 bp):
TAAAAATTTAAAAAAAATTAAAAAAT
Found at i:36572229 original size:17 final size:18
Alignment explanation
Indices: 36572207--36572246 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
36572197 AAATTTTAAA
*
36572207 AAAAATTCAAAGAA-ATT
1 AAAAATTCAAAAAATATT
*
36572224 AAAAATTTAAAAAATATT
1 AAAAATTCAAAAAATATT
36572242 AAAAA
1 AAAAA
36572247 ATTATTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATTCAAAAAATATT
Found at i:36576148 original size:3 final size:3
Alignment explanation
Indices: 36576124--36576164 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
36576114 ATATTAATTA
36576124 AAT AAT AA- AAT AA- AGAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AA
36576165 GGGGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 3 0.09
3 28 0.82
4 2 0.06
5 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:36617534 original size:48 final size:48
Alignment explanation
Indices: 36617411--36617597 Score: 293
Period size: 48 Copynumber: 3.9 Consensus size: 48
36617401 GGTTAAGTGA
*
36617411 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
36617459 GAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGATATGT
1 --GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
36617509 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
36617557 GATCCCATGTAAGACTATATCTGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
36617598 TTATTATGTG
Statistics
Matches: 130, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 83 0.64
50 47 0.36
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:36617607 original size:98 final size:97
Alignment explanation
Indices: 36617411--36617595 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
36617401 GGTTAAGTGA
*
36617411 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGAGATCCCATGTAAGAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT-AGATCCCATGTAAGAC
* *
36617476 CATGTTTGGGACATGGCATTGGCACCGATATGT
65 CATATCTGGGACATGGCATTGGCACCGATATGT
* *
36617509 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGT-GATCCCATGTAAGACT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAGATCCCATGTAAGACC
*
36617573 ATATCTGGGATATGGCATTGGCA
66 ATATCTGGGACATGGCATTGGCA
36617596 TCTTATTATG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 35 0.43
98 46 0.57
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (97 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAGATCCCATGTAAGACC
ATATCTGGGACATGGCATTGGCACCGATATGT
Found at i:36621972 original size:30 final size:30
Alignment explanation
Indices: 36621923--36621983 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36621913 CACAAGTTGG
* *
36621923 CACATGGGCGTGTGACCTGCCCGTGTGGAT
1 CACATGGGCATGTGACCTGCCCGTGTAGAT
* *
36621953 CACATTGGCATGTGGCCTGCCCGTGTAGAT
1 CACATGGGCATGTGACCTGCCCGTGTAGAT
36621983 C
1 C
36621984 CTGAAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.28, G:0.33, T:0.25
Consensus pattern (30 bp):
CACATGGGCATGTGACCTGCCCGTGTAGAT
Found at i:36623921 original size:6 final size:6
Alignment explanation
Indices: 36623912--36623953 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
36623902 TAGGAATAGC
36623912 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
36623954 TTAAAAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:36623921 original size:23 final size:21
Alignment explanation
Indices: 36623869--36623921 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
36623859 ATGGTAATGT
36623869 AATAAAAAAAATACGAAAGAA
1 AATAAAAAAAATACGAAAGAA
* *
36623890 AAAAGAAAAAAATAGGAATAGCAA
1 AATA-AAAAAAATACGAA-AG-AA
36623914 AATAAAAA
1 AATAAAAA
36623922 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 12 0.46
23 6 0.23
24 5 0.19
ACGTcount: A:0.75, C:0.04, G:0.11, T:0.09
Consensus pattern (21 bp):
AATAAAAAAAATACGAAAGAA
Found at i:36623959 original size:33 final size:33
Alignment explanation
Indices: 36623917--36623998 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
36623907 ATAGCAAAAT
36623917 AAAAA-TAAAAATA-AAAATAAAAATAAAA-ATA
1 AAAAATTAAAAATATAAAA-AAAAATAAAATATA
* * *
36623948 AAAATATTAAAAGTATATAAAAAATTAAAATATA
1 AAAA-ATTAAAAATATAAAAAAAAATAAAATATA
36623982 AAAAATTAAAAATATAA
1 AAAAATTAAAAATATAA
36623999 GTATAAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
31 4 0.10
32 1 0.02
33 27 0.64
34 10 0.24
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (33 bp):
AAAAATTAAAAATATAAAAAAAAATAAAATATA
Found at i:36623992 original size:6 final size:7
Alignment explanation
Indices: 36623912--36623998 Score: 51
Period size: 6 Copynumber: 12.3 Consensus size: 7
36623902 TAGGAATAGC
36623912 AAAATA-
1 AAAATAT
36623918 AAAATA-
1 AAAATAT
36623924 AAAATA-
1 AAAATAT
36623930 AAAATA-
1 AAAATAT
36623936 AAAATA-
1 AAAATAT
36623942 AAAATA-
1 AAAATAT
36623948 AAAATATT
1 AAAATA-T
36623956 AAAAGTATAT
1 -AAA--ATAT
*
36623966 AAAAAATT
1 AAAATA-T
36623974 AAAATAT
1 AAAATAT
*
36623981 AAAAAATT
1 AAAATA-T
36623989 AAAAATAT
1 -AAAATAT
36623997 AA
1 AA
36623999 GTATAAGAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
6 36 0.52
7 10 0.14
8 8 0.12
9 11 0.16
10 1 0.01
11 3 0.04
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (7 bp):
AAAATAT
Found at i:36624001 original size:39 final size:37
Alignment explanation
Indices: 36623929--36624003 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 37
36623919 AAATAAAAAT
36623929 AAAAATAAAAATAAAAATAAAAATATTAAAAGTATATA
1 AAAAATAAAAATAAAAATAAAAATATT-AAAGTATATA
36623967 AAAAATTAAAATATAAAAAATTAAAAATA-T-AAGTATA
1 AAAAA-TAAAA-AT-AAAAA-TAAAAATATTAAAGTATA
36624004 AGAATACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
38 5 0.15
39 12 0.36
40 2 0.06
41 6 0.18
42 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (37 bp):
AAAAATAAAAATAAAAATAAAAATATTAAAGTATATA
Found at i:36624056 original size:22 final size:22
Alignment explanation
Indices: 36624029--36624085 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
36624019 TTAACTAATT
36624029 ATATAACAATTAAAAATAAATA
1 ATATAACAATTAAAAATAAATA
36624051 ATATAACAATTAAAAATAAATA
1 ATATAACAATTAAAAATAAATA
*
36624073 AAATAA-AA-TAAAA
1 ATATAACAATTAAAA
36624086 TTGGGGTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 27 0.79
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (22 bp):
ATATAACAATTAAAAATAAATA
Found at i:36627182 original size:12 final size:13
Alignment explanation
Indices: 36627154--36627186 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
36627144 TTATTTCTTT
36627154 TTCTCCATCTACC
1 TTCTCCATCTACC
*
36627167 TTCTCC-TCTTCC
1 TTCTCCATCTACC
36627179 TTCTCCAT
1 TTCTCCAT
36627187 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:36627987 original size:8 final size:8
Alignment explanation
Indices: 36627974--36628006 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
36627964 CTAGGTCGGC
36627974 AAAAGCCG
1 AAAAGCCG
36627982 AAAAGCCG
1 AAAAGCCG
36627990 AAATA-CCG
1 AAA-AGCCG
36627998 AAAAGCCG
1 AAAAGCCG
36628006 A
1 A
36628007 TATTTTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.52, C:0.24, G:0.21, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:36628292 original size:28 final size:28
Alignment explanation
Indices: 36628252--36628316 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
36628242 ATGTACTAGA
* *
36628252 ATACCCCTATGTATGCAAAATTATCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
36628280 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
36628308 ATACCCCTA
1 ATACCCCTA
36628317 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:36628463 original size:28 final size:28
Alignment explanation
Indices: 36628432--36628512 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
36628422 CTGGTAGCTA
*
36628432 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
*
36628460 TGCCACAAATTATCTGTTTTGGTGGCAC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
** *
36628488 TGTTACAAAATATCTGTATCTGGTG
1 TGCCACAAATTATCTGT-TCTGGTG
36628513 ACTCTGTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 40 0.87
29 6 0.13
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (28 bp):
TGCCACAAATTATCTGTTCTGGTGGCAC
Found at i:36628519 original size:29 final size:28
Alignment explanation
Indices: 36628435--36628523 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
36628425 GTAGCTATGC
* *
36628435 CACAAATTATCTGTTCTGGTGGCCCTGC
1 CACAAATTATCTGTTCTGGTGGCACTGT
*
36628463 CACAAATTATCTGTTTTGGTGGCACTGT
1 CACAAATTATCTGTTCTGGTGGCACTGT
* * * *
36628491 TACAAAATATCTGTATCTGGTGACTCTGT
1 CACAAATTATCTGT-TCTGGTGGCACTGT
36628520 CACA
1 CACA
36628524 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
28 37 0.73
29 14 0.27
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (28 bp):
CACAAATTATCTGTTCTGGTGGCACTGT
Found at i:36629005 original size:18 final size:18
Alignment explanation
Indices: 36628966--36629020 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
36628956 TAATAAGGCC
* *
36628966 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
36628984 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
* *
36629002 TTTTATTTTACTATTATGA
1 TTTTA-ATTACTTTTATGA
36629021 AGAAAACTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:36631135 original size:26 final size:26
Alignment explanation
Indices: 36631060--36631139 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
36631050 TGAAATTCTC
*
36631060 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
36631086 ATCATGGTAA-A--TGCCTAACCCATT
1 ATCATGG-AACATTTACCTAACCCATT
*
36631110 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
36631136 ATCA
1 ATCA
36631140 ATTTGTATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 2 0.04
24 20 0.43
26 22 0.48
27 2 0.04
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36633294 original size:27 final size:28
Alignment explanation
Indices: 36633264--36633322 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
36633254 ACACACTCGG
*
36633264 AATAAT-ATAAATCCTC-CATAACACACC
1 AATAATAATAAAGCCTCTCA-AACACACC
*
36633291 AAT-ATAATATAGCCTCTCAAACACACC
1 AATAATAATAAAGCCTCTCAAACACACC
36633318 AATAA
1 AATAA
36633323 GGCATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.07
27 22 0.81
28 3 0.11
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (28 bp):
AATAATAATAAAGCCTCTCAAACACACC
Found at i:36634339 original size:14 final size:14
Alignment explanation
Indices: 36634289--36634345 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
36634279 TTCTTTTTCC
36634289 TTTACTTTAGTTTTAT
1 TTTA-TTTA-TTTTAT
* * *
36634305 TCTATTTACTTTAA
1 TTTATTTATTTTAT
*
36634319 TTAATTTATTTTAT
1 TTTATTTATTTTAT
*
36634333 TTTATTTGTTTTA
1 TTTATTTATTTTA
36634346 CATTAATAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 25 0.78
15 4 0.12
16 3 0.09
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:36639452 original size:26 final size:26
Alignment explanation
Indices: 36639414--36639471 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
36639404 CATGAAATTC
36639414 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
36639440 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36639466 TTATCA
1 TTATCA
36639472 ATTTGTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36639990 original size:106 final size:106
Alignment explanation
Indices: 36639805--36640000 Score: 365
Period size: 106 Copynumber: 1.8 Consensus size: 106
36639795 GGGCGTTACA
* *
36639805 AATGTTTTGGCTGAAAATGATATTTTTAGATTTCACGATTTCAAAAGCTAGGATTAAATTTCTGA
1 AATGTTTTGGCTGAAAATGATATTTTCAGATTTCACGATTTCAAAAGCTAGGATTAAACTTCTGA
36639870 GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
66 GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
*
36639911 AATGTTTTGGCTGAAAATGATATTTTCAGATTTCATGATTTCAAAAGCTAGGATTAAACTTCTGA
1 AATGTTTTGGCTGAAAATGATATTTTCAGATTTCACGATTTCAAAAGCTAGGATTAAACTTCTGA
36639976 GTTTTTAAAACAAACTAATGTAATT
66 GTTTTTAAAACAAACTAATGTAATT
36640001 CCTCCGGATT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 87 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (106 bp):
AATGTTTTGGCTGAAAATGATATTTTCAGATTTCACGATTTCAAAAGCTAGGATTAAACTTCTGA
GTTTTTAAAACAAACTAATGTAATTTCCAAAATAACATGTC
Found at i:36647233 original size:20 final size:19
Alignment explanation
Indices: 36647191--36647237 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
36647181 GTTTATTTTT
* *
36647191 TTATAAAAATAAAAAAGAT
1 TTATAAAAATAAAAAACAA
*
36647210 TTATAAAAATAAATACACAA
1 TTATAAAAATAAA-AAACAA
36647230 TTATAAAA
1 TTATAAAA
36647238 GTATATAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (19 bp):
TTATAAAAATAAAAAACAA
Found at i:36654505 original size:20 final size:21
Alignment explanation
Indices: 36654476--36654516 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
36654466 ACACCTTCAA
36654476 TTTTCCCTTTTTC-TTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
*
36654496 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
36654517 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:36654784 original size:18 final size:19
Alignment explanation
Indices: 36654735--36654784 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
36654725 TATAATATAA
36654735 TTATTTAATTAATAAATATC
1 TTATTTAA-TAATAAATATC
36654755 TT-TTATAAAATAATAAATAT-
1 TTATT-T--AATAATAAATATC
36654775 TTATTTAATA
1 TTATTTAATA
36654785 TCTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTTAATAATAAATATC
Found at i:36654956 original size:19 final size:21
Alignment explanation
Indices: 36654910--36654956 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
36654900 TATAATAAAT
* *
36654910 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
36654931 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
36654949 TAATTAAA
1 TAATTAAA
36654957 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:36656719 original size:30 final size:28
Alignment explanation
Indices: 36656622--36656761 Score: 117
Period size: 30 Copynumber: 4.9 Consensus size: 28
36656612 AAAAAATTAT
*
36656622 ATTTTGACCCCTAAACTTTTTGTAAATTAC
1 ATTTTAACCCCTAAACTTTTT-TAAATT-C
36656652 ATTTTAA-CCCTAAAC-TTTTTAAATTTC
1 ATTTTAACCCCTAAACTTTTTTAAA-TTC
*
36656679 ATTTTGACCCCTAAACTTTATTTAAACTTC
1 ATTTTAACCCCTAAACTTT-TTTAAA-TTC
* * *
36656709 ACTTCAACCCCTAAACTTTCCTTAAATTAC
1 ATTTTAACCCCTAAACTTT-TTTAAATT-C
* * *
36656739 AATTTGA-CCTTAAA-TTTTTTAAA
1 ATTTTAACCCCTAAACTTTTTTAAA
36656762 AATTACACTT
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
27 16 0.17
28 17 0.18
29 18 0.20
30 41 0.45
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (28 bp):
ATTTTAACCCCTAAACTTTTTTAAATTC
Found at i:36657405 original size:37 final size:37
Alignment explanation
Indices: 36657351--36657428 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
36657341 GTTAGTGAGA
* * *
36657351 TGGGGTAGTTTGTGTTGGGTTTGAAATATTGAGTTAG
1 TGGGGTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
* * *
36657388 TGGGTTAGTCTGTGTTGGGCTTGGATTATTAAGTTAG
1 TGGGGTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
36657425 TGGG
1 TGGG
36657429 CTGGGGTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (37 bp):
TGGGGTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
Found at i:36657801 original size:14 final size:15
Alignment explanation
Indices: 36657777--36657805 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36657767 TATATCATGT
36657777 ATATATATATTTTTA
1 ATATATATATTTTTA
36657792 ATAT-TATATTTTTA
1 ATATATATATTTTTA
36657806 TGTACCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATATATATTTTTA
Found at i:36657971 original size:22 final size:22
Alignment explanation
Indices: 36657944--36658011 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
36657934 TATTATCATT
36657944 TATTTTAATATTATTATGTATA
1 TATTTTAATATTATTATGTATA
* *
36657966 TATTTTAACATTACTA-GTTATA
1 TATTTTAATATTATTATG-TATA
* *
36657988 TATTTTTACTA-TCTTATGTATA
1 TA-TTTTAATATTATTATGTATA
36658010 TA
1 TA
36658012 CTTCAAACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 29 0.78
23 7 0.19
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTTAATATTATTATGTATA
Found at i:36662106 original size:46 final size:46
Alignment explanation
Indices: 36662049--36662224 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
36662039 TATTTGGGCA
36662049 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
36662095 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
36662142 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* ** *
36662188 CCCGAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36662225 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:36662204 original size:93 final size:93
Alignment explanation
Indices: 36662045--36662217 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
36662035 GGGATATTTG
* *
36662045 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
36662110 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * **
36662138 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGTTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
36662203 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
36662218 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:36664614 original size:4 final size:4
Alignment explanation
Indices: 36664607--36664635 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
36664597 CATTTATTTG
36664607 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
36664636 GCATATCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:36672068 original size:44 final size:43
Alignment explanation
Indices: 36672019--36672182 Score: 242
Period size: 44 Copynumber: 3.7 Consensus size: 43
36672009 ATTATGCCTA
*
36672019 AAAAAAGATCAAGGTGAAATCCCGAAAAGGGCGTCTTAGTTAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTT-GTTAAC
36672063 AAAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGGTTAAC
1 -AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTT-GTTAAC
36672108 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTG-TTAAC
* *
36672152 ACAAAAGAT-TAGGATGAAAACCCG-AAAGGGC
1 AAAAAAGATCAAGG-TGAAAACCCGAAAAGGGC
36672183 TTTCTAATGA
Statistics
Matches: 113, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
43 11 0.10
44 60 0.53
45 42 0.37
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (43 bp):
AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGTTAAC
Found at i:36672119 original size:89 final size:87
Alignment explanation
Indices: 36672019--36672182 Score: 251
Period size: 89 Copynumber: 1.9 Consensus size: 87
36672009 ATTATGCCTA
*
36672019 AAAAAAGATCAAGGTGAAATCCCGAAAAGGGCGTCTT-AGTTAACAAAAAAAGATCAAGG-TGAA
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGA-TTAAC-AAAAAAGAT-AAGGATGAA
36672082 AACCCGAAAAGGGCGTCTTGGTTAAC
63 AACCCG-AAAGGGCGTCTTGGTTAAC
* *
36672108 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAACACAAAAGATTAGGATGAAAAC
1 AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAACAAAAAAGATAAGGATGAAAAC
36672173 CCGAAAGGGC
66 CCGAAAGGGC
36672183 TTTCTAATGA
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
87 10 0.14
88 18 0.26
89 41 0.59
90 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (87 bp):
AAAAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAACAAAAAAGATAAGGATGAAAAC
CCGAAAGGGCGTCTTGGTTAAC
Found at i:36674724 original size:48 final size:48
Alignment explanation
Indices: 36674664--36674952 Score: 488
Period size: 48 Copynumber: 6.0 Consensus size: 48
36674654 TATAGATATG
36674664 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
36674712 TGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
36674760 TGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
** *
36674808 TGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
36674856 TGTGGTAAATCCAAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
36674904 TGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
36674952 T
1 T
36674953 ATTGTGGCCG
Statistics
Matches: 223, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 223 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:36675135 original size:37 final size:37
Alignment explanation
Indices: 36675085--36675194 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
36675075 GGAAATATAT
36675085 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
36675122 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
36675159 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
36675195 TCGAGCTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:36675871 original size:35 final size:35
Alignment explanation
Indices: 36675825--36675897 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
36675815 TTCACTGGTT
36675825 TTAAATTGCTTAAGACTTACTAAGCTTACAAAAGC
1 TTAAATTGCTTAAGACTTACTAAGCTTACAAAAGC
36675860 TTAAATTGCTTAAGACTTACTAAGCTTACAAAAGC
1 TTAAATTGCTTAAGACTTACTAAGCTTACAAAAGC
36675895 TTA
1 TTA
36675898 CTCTGTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (35 bp):
TTAAATTGCTTAAGACTTACTAAGCTTACAAAAGC
Found at i:36677085 original size:76 final size:74
Alignment explanation
Indices: 36676947--36677210 Score: 268
Period size: 76 Copynumber: 3.5 Consensus size: 74
36676937 TCTGTTCGTT
* * * * * *
36676947 AAAATAAACTCATATTGCAATAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTTCAATTTCT
36677012 GTCTTTCGAAA
66 GT-TTTC-AAA
** * * *
36677023 AAAATTGACTCATATTGCGAGAAGTGAGTTGAACCTTAGGACACGCTGAAGTAATTTT-AATTT-
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGT-ATTTTCAATTTC
*
36677086 TTTTTACTCATAAAA
65 TGTTT--TC---AAA
*
36677101 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTT-GGCTCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG---ACACGCTGAGGTATTTTCAATT
36677165 TCTGTTTTC--A
63 TCTGTTTTCAAA
*
36677175 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
36677211 CGGGCCACAT
Statistics
Matches: 158, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
74 37 0.23
75 2 0.01
76 49 0.31
77 7 0.04
78 36 0.23
79 7 0.04
80 16 0.10
81 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTCAAA
Found at i:36677202 original size:74 final size:74
Alignment explanation
Indices: 36676947--36677246 Score: 236
Period size: 74 Copynumber: 4.0 Consensus size: 74
36676937 TCTGTTCGTT
* * * * ** *
36676947 AAAATAAACTCATATTGCAATAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCCACACGCTGAGGTATTTTCAATTT
36677010 CTGTCTTTCGAAA
65 CTGT-TTTC--AA
** * *
36677023 AAAATTGACTCATATTGCGAGAAGTGAGTTGAACCTTAGG--ACACGCTGAAGTAATTTT-AATT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCCACACGCTGAGGT-ATTTTCAATT
*
36677085 T-TTTTTACTCATAAAA
64 TCTGTTT--TC----AA
*
36677101 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-CACACGCTGAGGTATTTTCAATTT
36677166 CTGTTTTC-A
65 CTGTTTTCAA
* * * * ** *
36677175 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGCCACATGCCAAGGTATTTTTAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCCACACGCTGAGGTATTTTCAATTT
*
36677240 TTGTTTT
65 CTGTTTT
36677247 TAATTTCCGT
Statistics
Matches: 186, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
74 63 0.34
75 5 0.03
76 48 0.26
77 7 0.04
78 36 0.19
79 7 0.04
80 16 0.09
81 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCCACACGCTGAGGTATTTTCAATTTC
TGTTTTCAA
Found at i:36677491 original size:77 final size:77
Alignment explanation
Indices: 36677277--36677554 Score: 283
Period size: 80 Copynumber: 3.5 Consensus size: 77
36677267 ATATATATAT
* *
36677277 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
*
36677342 TCTGTTTTTCAAAAA
66 TTTGTTTTT---AAA
* * * * *
36677357 AAAATTAACTCATATTACGAGAGGTGAATTGAGGCTCGGGTCACATGCCGAGATATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
36677422 TTTGTCTTTT-AA
66 TTTGT-TTTTAAA
* * * * *
36677434 AAAATCAACTCATATTGCGAGAGTTGAGTTAAGCCTCAGGTCACACGCTGAGGTA-TTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAA--
*
36677498 TTTTTTGCTTTTT-CA
64 -TTTTTG-TTTTTAAA
* * * * * *
36677513 AAGATCAACTCATAATCCGAGATGTGAGTTGAACTTCGGGTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
36677555 GCATCCCAAC
Statistics
Matches: 165, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
76 7 0.04
77 47 0.28
79 44 0.27
80 63 0.38
81 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (77 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTCAATT
TTTGTTTTTAAA
Found at i:36677806 original size:30 final size:29
Alignment explanation
Indices: 36677772--36677912 Score: 108
Period size: 30 Copynumber: 4.7 Consensus size: 29
36677762 AAAAATAAAA
*
36677772 AAATTATATTTTAACCCCTAAACTTTT-TGT
1 AAATT-TATTTTGACCCCTAAACTTTTCT-T
* *
36677802 AAATTGTATTTTGACCTCTAACCTTTTCTT
1 AAATT-TATTTTGACCCCTAAACTTTTCTT
*
36677832 AAATTTCATTTTGACCCCTAAAATTTAT-TT
1 AAATTT-ATTTTGACCCCTAAACTTT-TCTT
* * * * *
36677862 AAACTTCACTTCGACCCCTAAAATTTCCTT
1 AAA-TTTATTTTGACCCCTAAACTTTTCTT
*
36677892 AAATTATAATTTGA-CCCTAAA
1 AAATT-TATTTTGACCCCTAAA
36677913 TATTTAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
29 10 0.11
30 77 0.85
31 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.43
Consensus pattern (29 bp):
AAATTTATTTTGACCCCTAAACTTTTCTT
Found at i:36678562 original size:37 final size:37
Alignment explanation
Indices: 36678508--36678587 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 37
36678498 GTTAGTGAGA
* * *
36678508 TAGGGTAGTTTGTGTTGGGTTTGAAATATTAAGTTAG
1 TAGGTTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
* * *
36678545 TAGGTTAGTCTGTGTTGGGCTTGGATTGTTAAGTTAG
1 TAGGTTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
*
36678582 TGGGTT
1 TAGGTT
36678588 GGGGTTGGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.44
Consensus pattern (37 bp):
TAGGTTAGTCTGTGTTGGGCTTGAAATATTAAGTTAG
Found at i:36689683 original size:3 final size:3
Alignment explanation
Indices: 36689661--36689767 Score: 76
Period size: 3 Copynumber: 36.7 Consensus size: 3
36689651 AAATATATAT
* * * * * * *
36689661 ATA ATA GTA ATA A-A AAA ATA ATA GTA ATA ATA ATT ACA AAA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
36689708 ATA A-A GTA A-A ATG ATA ATA ATA CTA ATG TTA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36689754 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
36689768 TGGACATAAA
Statistics
Matches: 77, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
2 5 0.06
3 72 0.94
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36693217 original size:18 final size:18
Alignment explanation
Indices: 36693194--36693247 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
36693184 CCACCACCAA
36693194 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
36693212 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
36693224 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
36693242 CTCCAC
1 CTCCAC
36693248 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:36693220 original size:30 final size:30
Alignment explanation
Indices: 36693184--36693252 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
36693174 CTAGCCTTTG
36693184 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
36693214 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
36693244 CCACCACCA
1 CCACCACCA
36693253 CTTGTACCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.52, G:0.06, T:0.14
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:36693858 original size:25 final size:25
Alignment explanation
Indices: 36693748--36693943 Score: 95
Period size: 25 Copynumber: 8.0 Consensus size: 25
36693738 TGTTATATTT
* *
36693748 TTTAATATTATATTATATATAT-TC
1 TTTAATACTATATTATGTATATATC
* *
36693772 TTT--TAATATATTAGGTATAT-TC
1 TTTAATACTATATTATGTATATATC
* * * *
36693794 -TAAATTCTATATTACGTATATATA
1 TTTAATACTATATTATGTATATATC
*
36693818 TATT-ATACTATTTTATGTATATATC
1 T-TTAATACTATATTATGTATATATC
* * *
36693843 TTTAATACTATATTATTTATATTTTTT
1 TTTAATACTATATTATGTATA--TATC
** *
36693870 TTCCTACATGTTATCTTATGTATATAT-
1 TT--TA-ATACTATATTATGTATATATC
* *
36693897 TTTAAT--TATATTATGTATGTATT
1 TTTAATACTATATTATGTATATATC
* * *
36693920 TTTTACACTATATTATGTACATAT
1 TTTAATACTATATTATGTATATAT
36693944 TTTTTTTATA
Statistics
Matches: 130, Mismatches: 28, Indels: 27
0.70 0.15 0.15
Matches are distributed among these distances:
21 1 0.01
22 30 0.23
23 18 0.14
24 8 0.06
25 49 0.38
26 1 0.01
27 6 0.05
28 2 0.02
29 2 0.02
30 13 0.10
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
TTTAATACTATATTATGTATATATC
Found at i:36693864 original size:50 final size:49
Alignment explanation
Indices: 36693752--36693864 Score: 111
Period size: 50 Copynumber: 2.3 Consensus size: 49
36693742 ATATTTTTTA
* * *
36693752 ATATTATATTATATATATTCTTTTAATATATTAGGTATATTCTAAATTCT
1 ATATTAT-TTATATATATTATTATAATATATTAGGTATATTCTAAATACT
** * * * *
36693802 ATATTACGTATATATA-TATTATACTATTTTATGTATATATCTTTAATACT
1 ATATTATTTATATATATTATTATAATATATTAGGTATAT-TC-TAAATACT
36693852 ATATTATTTATAT
1 ATATTATTTATAT
36693865 TTTTTTTCCT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
48 17 0.34
49 10 0.20
50 23 0.46
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (49 bp):
ATATTATTTATATATATTATTATAATATATTAGGTATATTCTAAATACT
Found at i:36694038 original size:25 final size:24
Alignment explanation
Indices: 36694010--36694065 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
36694000 GTTATATTTT
*
36694010 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
36694035 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
36694058 CACTATTA
1 CACTATTA
36694066 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:36695189 original size:17 final size:15
Alignment explanation
Indices: 36695159--36695198 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
36695149 ATTAAAAATA
36695159 TTAAATAAATGAATT
1 TTAAATAAATGAATT
36695174 TTAAATTAATATGAATT
1 TTAAA-TAA-ATGAATT
36695191 TT-AATAAA
1 TTAAATAAA
36695199 AAAAATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 5 0.22
17 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
TTAAATAAATGAATT
Found at i:36700692 original size:19 final size:18
Alignment explanation
Indices: 36700639--36700692 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
36700629 TAAACTTATT
36700639 AAAAAACATTATATTTTTTA
1 AAAAAAC-TTATA-TTTTTA
** *
36700659 AATTAATTTATATTTTTA
1 AAAAAACTTATATTTTTA
36700677 AAAAAACTTATCATTT
1 AAAAAACTTAT-ATTT
36700693 ATGTATAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 14 0.52
19 9 0.33
20 4 0.15
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAAACTTATATTTTTA
Done.