Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 145 of 202
Found at i:45133916 original size:26 final size:26
Alignment explanation
Indices: 45133774--45133917 Score: 78
Period size: 27 Copynumber: 5.1 Consensus size: 26
45133764 TATGTTTCTA
45133774 TATATTTTATATATTTTTTTACAA-TTT
1 TATATTTT-TATA-TTTTTTACAATTTT
* *
45133801 TACCATTTTTATATTTTTTTATAATTTT
1 TA-TATTTTTATA-TTTTTTACAATTTT
* **
45133829 TAATAAATTTTAATATTTGAATTTTTTATTAAAATT
1 T-AT--ATTTT--TA--T--ATTTTTTA-CAATTTT
*
45133865 TATATTTTTATATTTTTTACGATTTT
1 TATATTTTTATATTTTTTACAATTTT
45133891 TATATTTTTAT-TTTTTT-CTAATTTT
1 TATATTTTTATATTTTTTAC-AATTTT
45133916 TA
1 TA
45133918 ATAAAAATAG
Statistics
Matches: 94, Mismatches: 10, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
24 1 0.01
25 13 0.14
26 14 0.15
27 24 0.26
28 9 0.10
29 2 0.02
30 5 0.05
31 2 0.02
32 2 0.02
33 5 0.05
34 1 0.01
35 9 0.10
36 7 0.07
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (26 bp):
TATATTTTTATATTTTTTACAATTTT
Found at i:45137880 original size:10 final size:10
Alignment explanation
Indices: 45137845--45137878 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
45137835 TATATTTTCA
45137845 ATTTAAAATT
1 ATTTAAAATT
45137855 ATTTAAAATT
1 ATTTAAAATT
* *
45137865 ATTTTAAATG
1 ATTTAAAATT
45137875 ATTT
1 ATTT
45137879 TATTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (10 bp):
ATTTAAAATT
Found at i:45138739 original size:60 final size:61
Alignment explanation
Indices: 45138626--45138739 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 61
45138616 ATGCTAACAA
** **
45138626 TTTAATTCAAAATATAAAATATTCAACAAATTTAGTGCTCAATGTTTACAAAATTTGTCAT
1 TTTAATTCAAAATATAAAATATTCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAT
* * * * *
45138687 TTTAGTTCAAATTCTAAAAT-TTCAATAAATTTAGCCCTCAAAATTTAGAAAAT
1 TTTAATTCAAAATATAAAATATTCAACAAATTTAGCCCTCAAAATTTACAAAAT
45138740 GACTAAATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
60 27 0.61
61 17 0.39
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (61 bp):
TTTAATTCAAAATATAAAATATTCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAT
Found at i:45138905 original size:20 final size:22
Alignment explanation
Indices: 45138866--45138906 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45138856 ACTAAAAAAA
*
45138866 TTAAAAATATATAGAAAATTAT
1 TTAAAAATATATAAAAAATTAT
45138888 TTAAAAATA-A-AAAAAATTA
1 TTAAAAATATATAAAAAATTA
45138907 AAAAGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TTAAAAATATATAAAAAATTAT
Found at i:45139221 original size:21 final size:18
Alignment explanation
Indices: 45139195--45139234 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
45139185 AGAGATGTGG
45139195 AAATATCTAAGAAAAAATGGA
1 AAATAT-TAA-AAAAAA-GGA
45139216 AAATATTAAAAAAAAGGA
1 AAATATTAAAAAAAAGGA
45139234 A
1 A
45139235 TAAAGGGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 3 0.16
21 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATATTAAAAAAAAGGA
Found at i:45140093 original size:16 final size:16
Alignment explanation
Indices: 45140074--45140104 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45140064 ATTATTTTAA
45140074 ATTTTAATTAGATAAT
1 ATTTTAATTAGATAAT
*
45140090 ATTTTATTTAGATAA
1 ATTTTAATTAGATAA
45140105 ATAAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAGATAAT
Found at i:45148074 original size:20 final size:20
Alignment explanation
Indices: 45148045--45148104 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
45148035 ATTTTAAAAT
* *
45148045 CAAGTGAAAATTATTTTAAC
1 CAAGTTAAAATCATTTTAAC
* * *
45148065 CAAGTTAAAATGATCTTAAT
1 CAAGTTAAAATCATTTTAAC
*
45148085 TAAGTTAAAATCATTTTAAC
1 CAAGTTAAAATCATTTTAAC
45148105 ACATCAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (20 bp):
CAAGTTAAAATCATTTTAAC
Found at i:45150572 original size:13 final size:12
Alignment explanation
Indices: 45150531--45150579 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
45150521 TTTAAAATTT
*
45150531 AAAATTTATTAA
1 AAAATTTATAAA
45150543 AAAA--T-TAAA
1 AAAATTTATAAA
45150552 AAAA-TTATAAA
1 AAAATTTATAAA
45150563 CAAAATTTATAAA
1 -AAAATTTATAAA
45150576 AAAA
1 AAAA
45150580 ATTAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 7 0.22
10 2 0.06
11 4 0.12
12 12 0.38
13 7 0.22
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:45150580 original size:13 final size:13
Alignment explanation
Indices: 45150549--45150582 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
45150539 TTAAAAAATT
45150549 AAAAAAA-TTATA
1 AAAAAAATTTATA
*
45150561 AACAAAATTTATA
1 AAAAAAATTTATA
45150574 AAAAAAATT
1 AAAAAAATT
45150583 AAAATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAAAATTTATA
Found at i:45151100 original size:6 final size:6
Alignment explanation
Indices: 45151091--45151115 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45151081 TAAAGTATTA
45151091 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
45151116 AACTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:45151445 original size:17 final size:17
Alignment explanation
Indices: 45151425--45151457 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45151415 AAAATTATTA
45151425 AAAATACAA-AAATATAG
1 AAAATA-AATAAATATAG
45151442 AAAATAAATAAATATA
1 AAAATAAATAAATATA
45151458 TATTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATAAATAAATATAG
Found at i:45151887 original size:18 final size:17
Alignment explanation
Indices: 45151864--45151906 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
45151854 AGGTTGTATA
*
45151864 TAAAATTGTAAGTATTTT
1 TAAAATTGTAACT-TTTT
*
45151882 TAAAATTTGTATCTTTTT
1 TAAAA-TTGTAACTTTTT
45151900 TAAAATT
1 TAAAATT
45151907 TTCTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (17 bp):
TAAAATTGTAACTTTTT
Found at i:45151918 original size:19 final size:20
Alignment explanation
Indices: 45151876--45151927 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
45151866 AAATTGTAAG
*
45151876 TATTTTTAAAA-TTTGTATC
1 TATTTTTAAAATTTTCTATC
45151895 T-TTTTTAAAATTTTCTAT-
1 TATTTTTAAAATTTTCTATC
45151913 TA-TTTTAAATATTTT
1 TATTTTTAAA-ATTTT
45151928 TTGCACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTTTAAAATTTTCTATC
Found at i:45151975 original size:17 final size:19
Alignment explanation
Indices: 45151934--45152004 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 19
45151924 TTTTTTGCAC
*
45151934 TTTTCTATATTTTTATAATAA
1 TTTTCTATA-TTTT-TAACAA
45151955 TTTTCTATA-TTTTAA-AA
1 TTTTCTATATTTTTAACAA
*
45151972 TTTTCCATATTTTTAACAA
1 TTTTCTATATTTTTAACAA
45151991 TTTT-T-TATTTTTAA
1 TTTTCTATATTTTTAA
45152005 TTCATATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 19 0.41
18 9 0.20
19 9 0.20
21 9 0.20
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTCTATATTTTTAACAA
Found at i:45152023 original size:17 final size:17
Alignment explanation
Indices: 45152002--45152049 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 17
45151992 TTTTTATTTT
45152002 TAATTCATATAATTTTAA
1 TAATT-ATATAATTTTAA
*
45152020 -AATTAT-TCATTTTAA
1 TAATTATATAATTTTAA
45152035 TAATTTATATAATTT
1 TAA-TTATATAATTT
45152050 GTATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 8 0.32
16 4 0.16
17 8 0.32
18 5 0.20
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTATATAATTTTAA
Found at i:45152102 original size:31 final size:28
Alignment explanation
Indices: 45152051--45152122 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
45152041 ATATAATTTG
*
45152051 TATAATTTTTGAGACATTTATACTGTTTTTTTT
1 TATAATTTTT--G-CATTTATA-T-TTATTTTT
45152084 TATATATTTTTGCATTTATATTTATTTTT
1 TATA-ATTTTTGCATTTATATTTATTTTT
45152113 TATAATTTTT
1 TATAATTTTT
45152123 TTTGTGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 6 0.16
29 11 0.30
30 1 0.03
31 8 0.22
32 1 0.03
33 4 0.11
34 6 0.16
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (28 bp):
TATAATTTTTGCATTTATATTTATTTTT
Found at i:45152126 original size:31 final size:31
Alignment explanation
Indices: 45152065--45152122 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
45152055 ATTTTTGAGA
*
45152065 CATTTATACTGTTTTTTTTTATATATTTTTG
1 CATTTATACTGTTATTTTTTATATATTTTTG
45152096 CATTTATA-T-TTATTTTTTATA-ATTTTT
1 CATTTATACTGTTATTTTTTATATATTTTT
45152123 TTTGTGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 11 0.42
30 1 0.04
31 8 0.31
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (31 bp):
CATTTATACTGTTATTTTTTATATATTTTTG
Found at i:45152170 original size:38 final size:36
Alignment explanation
Indices: 45152104--45152180 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 36
45152094 TGCATTTATA
* ** *
45152104 TTTATTTTTTATAATTTTTTTTGTGATTTTGAATAT
1 TTTATTTTTTATAATTTCTTTTACGATTTTCAATAT
*
45152140 TTTAGTTTTTTAATAATTTCTTTTACGATTTTCAGTAT
1 TTTA-TTTTTT-ATAATTTCTTTTACGATTTTCAATAT
45152178 TTT
1 TTT
45152181 TTACCGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 4 0.12
37 6 0.18
38 24 0.71
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.66
Consensus pattern (36 bp):
TTTATTTTTTATAATTTCTTTTACGATTTTCAATAT
Found at i:45155993 original size:21 final size:20
Alignment explanation
Indices: 45155952--45155994 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
45155942 ATTTTTTTAC
**
45155952 TATTTTAAATATAAAGTATT
1 TATTTTAAATATAAAAAATT
*
45155972 TATTTTATATTATAAAAAATT
1 TATTTTA-AATATAAAAAATT
45155993 TA
1 TA
45155995 AATTATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TATTTTAAATATAAAAAATT
Found at i:45156024 original size:27 final size:26
Alignment explanation
Indices: 45155971--45156025 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
45155961 TATAAAGTAT
* *
45155971 TTATTTTATATTATAAAAAATTTAAA
1 TTATTTTATATTATAAAAAAATAAAA
45155997 TTATTTATATATTA-AATAAAAATAAAA
1 TTATTT-TATATTATAA-AAAAATAAAA
45156024 TT
1 TT
45156026 TAATTCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATTTTATATTATAAAAAAATAAAA
Found at i:45160626 original size:15 final size:15
Alignment explanation
Indices: 45160606--45160639 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45160596 TTTCCTGCAC
45160606 TGGGCTGGTGGT-TAT
1 TGGGCTGG-GGTGTAT
45160621 TGGGCTGGGGTGTAT
1 TGGGCTGGGGTGTAT
45160636 TGGG
1 TGGG
45160640 TAATTCGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.06, C:0.06, G:0.53, T:0.35
Consensus pattern (15 bp):
TGGGCTGGGGTGTAT
Found at i:45175874 original size:33 final size:33
Alignment explanation
Indices: 45175832--45175900 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
45175822 TAAGGGGTGT
* *
45175832 TACATCACTGTTCAATTTTTTTACTTGTTTTGG
1 TACATCACTGCTCAATTTTTTTACTTGTATTGG
*
45175865 TACATCACTGCTCAGTTTTTTTACTTGTATTGG
1 TACATCACTGCTCAATTTTTTTACTTGTATTGG
45175898 TAC
1 TAC
45175901 TTTGGTTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (33 bp):
TACATCACTGCTCAATTTTTTTACTTGTATTGG
Found at i:45176059 original size:15 final size:15
Alignment explanation
Indices: 45176041--45176070 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45176031 TTTTACCATA
45176041 TTGAATGTTGAATTT
1 TTGAATGTTGAATTT
*
45176056 TTGAATGTTTAATTT
1 TTGAATGTTGAATTT
45176071 GTATATTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
TTGAATGTTGAATTT
Found at i:45176455 original size:30 final size:27
Alignment explanation
Indices: 45176420--45176495 Score: 66
Period size: 31 Copynumber: 2.7 Consensus size: 27
45176410 AAAAATATTT
45176420 AAAAATATTTAATAATTACAAGAAATTATA-
1 AAAAATATTTAATAATTA-AAG-AA-TA-AC
* *
45176450 AAAAATTATTAAATTTATTAAAGAATAAC
1 AAAAA-TATTTAA-TAATTAAAGAATAAC
45176479 AAAAATATTTAA-AATTA
1 AAAAATATTTAATAATTA
45176496 TTAAAAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
26 4 0.10
28 7 0.18
29 7 0.18
30 7 0.18
31 9 0.23
32 5 0.13
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAAATATTTAATAATTAAAGAATAAC
Found at i:45176462 original size:40 final size:39
Alignment explanation
Indices: 45176394--45176503 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 39
45176384 CTAAAAGATT
* * * *
45176394 AATAA-AAAACTTATAAAAAAATATTTAAAAATATTTAAT
1 AATAACAAAAATTATAAAAAATTA-TTAAAAATATTAAAG
* **
45176433 AATTACAAGAAATTATAAAAAATTATTAAATTTATTAAAG
1 AATAACAA-AAATTATAAAAAATTATTAAAAATATTAAAG
**
45176473 AATAACAAAAA-TATTTAAAATTATTAAAAAT
1 AATAACAAAAATTATAAAAAATTATTAAAAAT
45176504 CACGTCTAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
38 16 0.28
39 7 0.12
40 20 0.35
41 14 0.25
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (39 bp):
AATAACAAAAATTATAAAAAATTATTAAAAATATTAAAG
Found at i:45176497 original size:10 final size:10
Alignment explanation
Indices: 45176398--45176503 Score: 51
Period size: 10 Copynumber: 10.6 Consensus size: 10
45176388 AAGATTAATA
*
45176398 AAAAACTTATA
1 AAAAA-TTATT
*
45176409 AAAAAATATTT
1 AAAAATTA-TT
45176420 AAAAA-TATTT
1 AAAAATTA-TT
* *
45176430 AATAATTA-C
1 AAAAATTATT
*
45176439 AAGAAATTATA
1 AA-AAATTATT
45176450 AAAAATTATT
1 AAAAATTATT
*
45176460 -AAATTTATT
1 AAAAATTATT
**
45176469 AAAGAA-TAAC
1 AAA-AATTATT
45176479 AAAAA-TATT
1 AAAAATTATT
*
45176488 TAAAATTATT
1 AAAAATTATT
45176498 AAAAAT
1 AAAAAT
45176504 CACGTCTAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
9 18 0.25
10 39 0.53
11 16 0.22
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAATTATT
Found at i:45180053 original size:46 final size:46
Alignment explanation
Indices: 45179977--45180072 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
45179967 TTATAAGATG
45179977 TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
1 TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
* *
45180023 TTCAAACAACTTGGTCTTGGGAAACCCAAACCCACTAGGATGAGTA
1 TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
45180069 TTCA
1 TTCA
45180073 GTTAGCGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (46 bp):
TTCAAACAACTTGGTCTTGGAAAACACAAACCCACTAGGATGAGTA
Found at i:45181952 original size:10 final size:10
Alignment explanation
Indices: 45181929--45181965 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
45181919 TTATTTTACT
45181929 TATTATT-T-
1 TATTATTATA
45181937 TATTATTATA
1 TATTATTATA
45181947 TATTATTATA
1 TATTATTATA
45181957 TATTATTAT
1 TATTATTAT
45181966 TACTGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 7 0.26
9 1 0.04
10 19 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTATTATA
Found at i:45181954 original size:13 final size:13
Alignment explanation
Indices: 45181914--45181967 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
45181904 TCCTCCTCTC
* *
45181914 TTATTTTATTTTA
1 TTATTATATATTA
45181927 CTTATTAT-T-TTA
1 -TTATTATATATTA
45181939 TTATTATATATTA
1 TTATTATATATTA
45181952 TTA-TATATTATTA
1 TTATTATA-TATTA
45181965 TTA
1 TTA
45181968 CTGTTATTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
11 7 0.19
12 8 0.22
13 15 0.42
14 6 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATATATTA
Found at i:45182017 original size:3 final size:3
Alignment explanation
Indices: 45181914--45181997 Score: 66
Period size: 3 Copynumber: 27.7 Consensus size: 3
45181904 TCCTCCTCTC
45181914 TTA TT- TTA TT- TTA CTTA TTA TT- TTA TTA TTA TATA TTA TTA TATA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA
* * * * *
45181959 TTA TTA TTA CTG TTA TTG TTA GTTT TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
45181998 CTTCTTAGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
2 6 0.09
3 47 0.73
4 11 0.17
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45185285 original size:19 final size:20
Alignment explanation
Indices: 45185258--45185298 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
45185248 CTCTGGACAT
45185258 GCAAAAAAATGTAATTTTTA
1 GCAAAAAAATGTAATTTTTA
45185278 GCAAAAAAATGTAATTTTTA
1 GCAAAAAAATGTAATTTTTA
45185298 G
1 G
45185299 GTTTTTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (20 bp):
GCAAAAAAATGTAATTTTTA
Found at i:45187430 original size:13 final size:13
Alignment explanation
Indices: 45187397--45187423 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45187387 CAAATTCAAT
45187397 ACATAATAGATTG
1 ACATAATAGATTG
45187410 ACATAATAGATTG
1 ACATAATAGATTG
45187423 A
1 A
45187424 ATCAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
ACATAATAGATTG
Found at i:45195752 original size:25 final size:25
Alignment explanation
Indices: 45195722--45195865 Score: 135
Period size: 25 Copynumber: 5.8 Consensus size: 25
45195712 CGGATACTCC
**
45195722 ACAGCTCGTGTGAGCATACAAATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* * *
45195747 ATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
* * * *
45195772 ACAACTCATATGAGCATTCCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* * * * *
45195797 ATAGCTTGTGTGAGCGTACTGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
45195822 ACCGCTCGTGTGAGCATACCGATTC
1 ACAGCTCGTGTGAGCATACCGATTT
*
45195847 ACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATAC
45195866 ATGCACAGGA
Statistics
Matches: 89, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 89 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATTT
Found at i:45195836 original size:50 final size:50
Alignment explanation
Indices: 45195722--45195865 Score: 155
Period size: 50 Copynumber: 2.9 Consensus size: 50
45195712 CGGATACTCC
**
45195722 ACAGCTCGTGTGAGCATACAAATTTATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATCT
* * * * * * * *
45195772 ACAACTCATATGAGCATTCCGATTTATAGCTTGTGTGAGCGTACTGATCT
1 ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATCT
* * *
45195822 ACCGCTCGTGTGAGCATACCGATTCACAGCTCGT-ATGAGCATAC
1 ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGA-GAGCATAC
45195866 ATGCACAGGA
Statistics
Matches: 73, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (50 bp):
ACAGCTCGTGTGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATCT
Found at i:45209752 original size:30 final size:30
Alignment explanation
Indices: 45209707--45209793 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
45209697 GCTGCAGGGG
*
45209707 TCACACGGCCATGTGGCCAGGTCGTGTGAC
1 TCACACAGCCATGTGGCCAGGTCGTGTGAC
* *
45209737 TCACATAGCCGTGTGGCCAGGTCGTGTGAC
1 TCACACAGCCATGTGGCCAGGTCGTGTGAC
*
45209767 TCACACAGCCATGTGGTCAGGTCGTGT
1 TCACACAGCCATGTGGCCAGGTCGTGT
45209794 CTTAGGCTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (30 bp):
TCACACAGCCATGTGGCCAGGTCGTGTGAC
Found at i:45224900 original size:66 final size:66
Alignment explanation
Indices: 45224819--45224950 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
45224809 TTAAAGAGTC
** * * * * *
45224819 TTGAAAGCAAAGTATAGAGACTGGAATTATGAATAAACCTTAGCTATAGTGATAAATAACTTAAC
1 TTGAAAGCAAAGTATAGAGAAAGGAAATATAAATAAACCTTAGCTACAATGATAAATAACATAAC
45224884 T
66 T
* * *
45224885 TTGAAAGTAAGGTATAGAGAAAGGAAATGTAAATAAACCTTAGCTACAATGATAAATAACATAAC
1 TTGAAAGCAAAGTATAGAGAAAGGAAATATAAATAAACCTTAGCTACAATGATAAATAACATAAC
45224950 T
66 T
45224951 AATACTAAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (66 bp):
TTGAAAGCAAAGTATAGAGAAAGGAAATATAAATAAACCTTAGCTACAATGATAAATAACATAAC
T
Found at i:45227146 original size:16 final size:16
Alignment explanation
Indices: 45227133--45227167 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
45227123 ACATACAAAT
45227133 AAACATAAAAACAAGA
1 AAACATAAAAACAAGA
45227149 AAACATAAAAACATAGA
1 AAACATAAAAACA-AGA
45227166 AA
1 AA
45227168 GCTTATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.74, C:0.11, G:0.06, T:0.09
Consensus pattern (16 bp):
AAACATAAAAACAAGA
Found at i:45241817 original size:11 final size:11
Alignment explanation
Indices: 45241803--45241852 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
45241793 GTGGTGATAC
45241803 GGTGGTTGTAT
1 GGTGGTTGTAT
* *
45241814 GGTGGTAGTGT
1 GGTGGTTGTAT
*
45241825 AGTGG-TGCTAT
1 GGTGGTTG-TAT
45241836 GGTGGTTGTAT
1 GGTGGTTGTAT
45241847 GGTGGT
1 GGTGGT
45241853 GTTTAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 1 0.03
11 28 0.90
12 2 0.06
ACGTcount: A:0.10, C:0.02, G:0.48, T:0.40
Consensus pattern (11 bp):
GGTGGTTGTAT
Found at i:45241851 original size:22 final size:22
Alignment explanation
Indices: 45241781--45241853 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
45241771 CTGTTTTCGA
* * *
45241781 GGTGGTGCAAGGGTGG-TGATAC
1 GGTGGTGCTATGGTGGTTG-TAT
* *
45241803 GGTGGTTG-TATGGTGGTAGTGT
1 GGTGG-TGCTATGGTGGTTGTAT
*
45241825 AGTGGTGCTATGGTGGTTGTAT
1 GGTGGTGCTATGGTGGTTGTAT
45241847 GGTGGTG
1 GGTGGTG
45241854 TTTAATTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 2 0.05
22 34 0.87
23 3 0.08
ACGTcount: A:0.12, C:0.04, G:0.49, T:0.34
Consensus pattern (22 bp):
GGTGGTGCTATGGTGGTTGTAT
Found at i:45253393 original size:18 final size:18
Alignment explanation
Indices: 45253370--45253405 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45253360 TCAAATAATT
45253370 TTACCAGAAAAACTAAAC
1 TTACCAGAAAAACTAAAC
45253388 TTACCAGAAAAACTAAAC
1 TTACCAGAAAAACTAAAC
45253406 AAGTTAAATA
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:0.56, C:0.22, G:0.06, T:0.17
Consensus pattern (18 bp):
TTACCAGAAAAACTAAAC
Found at i:45264984 original size:16 final size:18
Alignment explanation
Indices: 45264958--45264991 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45264948 TTAAAATTGG
45264958 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
45264975 ATTG-GAAAATTAATTTA
1 ATTGAGAAAATTAATTTA
45264992 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:45268940 original size:28 final size:28
Alignment explanation
Indices: 45268861--45268940 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
45268851 CTCAAGGAAT
* * *
45268861 GAAGAGTCTTACTTCAACTAGGACTATT
1 GAAGAATCCTACTTCAACTAGGACTATA
* * *
45268889 GAA-AATCCAACTTCAAGTAAGACTCA-A
1 GAAGAATCCTACTTCAACTAGGACT-ATA
45268916 GAAGAATCCTACTTCAACTAGGACT
1 GAAGAATCCTACTTCAACTAGGACT
45268941 TTTATCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (28 bp):
GAAGAATCCTACTTCAACTAGGACTATA
Found at i:45271405 original size:19 final size:19
Alignment explanation
Indices: 45271381--45271420 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45271371 ATTAATTTTG
45271381 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
45271400 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
45271419 AT
1 AT
45271421 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:45286690 original size:12 final size:12
Alignment explanation
Indices: 45286673--45286702 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45286663 TCAGGCTGTT
45286673 ACACGGCCTAGC
1 ACACGGCCTAGC
*
45286685 ACACGGCCTGGC
1 ACACGGCCTAGC
45286697 ACACGG
1 ACACGG
45286703 GTACGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:45292103 original size:38 final size:35
Alignment explanation
Indices: 45292044--45292118 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 35
45292034 AATTATTCCA
45292044 AAAATAATATTATTATAATATT-TTATTATTAAATT
1 AAAATAATATTATTATAATATTATT-TTATTAAATT
* *
45292079 AAAATAAATATTTATCTTTAATATTATTTTATTAATTT
1 AAAAT-AATA-TTAT-TATAATATTATTTTATTAAATT
45292117 AA
1 AA
45292119 TATTAAGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 5 0.15
36 4 0.12
37 4 0.12
38 19 0.56
39 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (35 bp):
AAAATAATATTATTATAATATTATTTTATTAAATT
Found at i:45300972 original size:42 final size:42
Alignment explanation
Indices: 45300913--45300997 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
45300903 TTACCTCACT
45300913 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
1 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
45300955 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
1 GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
45300997 G
1 G
45300998 TATAAGTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTTGGGCAATGAAATCCCAAATTAAATCATTCATCAACATA
Found at i:45302992 original size:23 final size:23
Alignment explanation
Indices: 45302966--45303033 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 23
45302956 AGTTGTAGTG
45302966 CAATGTGGATAAACCGCCAGAAA
1 CAATGTGGATAAACCGCCAGAAA
* * *
45302989 CAATTTGCAGTTAAATCGCCAGAAA
1 CAATGTG--GATAAACCGCCAGAAA
*
45303014 CAATGTGGATAAACCACCAG
1 CAATGTGGATAAACCGCCAG
45303034 TACTCCAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 16 0.44
25 20 0.56
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (23 bp):
CAATGTGGATAAACCGCCAGAAA
Found at i:45309654 original size:25 final size:22
Alignment explanation
Indices: 45309602--45309654 Score: 52
Period size: 25 Copynumber: 2.2 Consensus size: 22
45309592 TCGGTTGGGA
*
45309602 AGAAAAAGAAAAAAAATAAAAG
1 AGAAAAAGAAAAAAAACAAAAG
*
45309624 ATGAAAACAGAGAAAAAACCAAAAG
1 A-GAAAA-AGA-AAAAAAACAAAAG
45309649 CAGAAA
1 -AGAAA
45309655 CGACAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 5 0.20
24 3 0.12
25 15 0.60
26 1 0.04
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.04
Consensus pattern (22 bp):
AGAAAAAGAAAAAAAACAAAAG
Found at i:45324060 original size:41 final size:41
Alignment explanation
Indices: 45324001--45324170 Score: 191
Period size: 41 Copynumber: 4.1 Consensus size: 41
45323991 AGAATAATGA
*
45324001 TGAATTGCACATACGTGCCCCTGTTCGTACTTCGGTAACCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAACCC
* * * * *
45324042 TGAATTCCACATATGTGCCCGTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAACCC
* * * *
45324083 TAAATTGCACATATGTGCCCCTATTTTTACTTCGGT-ACCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAACCC
* **
45324123 TTAAATTGCACATACGTGCCCCTGTTTAG-ACTTCGGTAAGTC
1 -TGAATTGCACATACGTGCCCCTGTTT-GTACTTCGGTAACCC
45324165 TGAATT
1 TGAATT
45324171 AAATAATATG
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 3 0.03
41 102 0.95
42 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAACCC
Found at i:45330856 original size:10 final size:10
Alignment explanation
Indices: 45330822--45330864 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
45330812 GGCCCAAATC
45330822 AAATAAATAAA
1 AAAT-AATAAA
*
45330833 CAA-AATATAA
1 AAATAATA-AA
45330843 AAATAATAAA
1 AAATAATAAA
45330853 AAATAATAAA
1 AAATAATAAA
45330863 AA
1 AA
45330865 CAAAGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 18 0.64
11 6 0.21
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAATAAA
Found at i:45336666 original size:6 final size:6
Alignment explanation
Indices: 45336657--45336690 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
45336647 AAAACAAAAA
45336657 AAAATC AAAATC AAAATC AAAAATC AAAAT- AAAA
1 AAAATC AAAATC AAAATC -AAAATC AAAATC AAAA
45336691 AATGAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:45336679 original size:13 final size:13
Alignment explanation
Indices: 45336657--45336693 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
45336647 AAAACAAAAA
45336657 AAAATC-AAAATC
1 AAAATCAAAAATC
45336669 AAAATCAAAAATC
1 AAAATCAAAAATC
*
45336682 AAAATAAAAAAT
1 AAAATCAAAAAT
45336694 GAGAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATCAAAAATC
Found at i:45337658 original size:14 final size:14
Alignment explanation
Indices: 45337640--45337690 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
45337630 AAAAAGTGCG
45337640 AAAAATGGAAAAAT
1 AAAAATGGAAAAAT
*
45337654 GAAAATGG-AAAAT
1 AAAAATGGAAAAAT
45337667 CAAAAA-GGAAAAAGT
1 -AAAAATGGAAAAA-T
45337682 AAAAATGGA
1 AAAAATGGA
45337691 GAGGCTAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 7 0.23
14 20 0.65
15 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.12
Consensus pattern (14 bp):
AAAAATGGAAAAAT
Found at i:45339345 original size:202 final size:200
Alignment explanation
Indices: 45338995--45339477 Score: 754
Period size: 202 Copynumber: 2.4 Consensus size: 200
45338985 CAAGAGTAAG
* * *
45338995 GGAACAGATTAATGCCACAGCGGTGAATGTTGCCACCCTGACATTGCGGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
* *
45339060 TACAGCAGCGAATCTTACCTCCTAGGCGGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCT
* *
45339125 TGCCTCCCTGATATTGCGGTTAAAAAGATTAAAGATACAGCAGCGAATCTTAAC-TCCCAGGCGG
131 TGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGATACAACAGCGAATCTT-ACTTCCCAGGCGG
45339189 TGCAGT
195 TGCAGT
* *
45339195 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCGGTTAAAAAAAGATTAAA
1 GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTT--AAAAAGATTAAA
*
45339260 GCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAAT
64 GCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAAT
* * * * *
45339325 CTTGCCTCCTTGACATTGCGGTTAAAAATATTAAAGCTACAACAGTGATTCTTACTTCCCAGGCG
129 CTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGATACAACAGCGAATCTTACTTCCCAGGCG
45339390 GTGCAGT
194 GTGCAGT
* * *
45339397 GGAACAGATTAAAGCCACAGTGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
45339462 TA-AGCGGCGAATCTTA
66 TACAGCAGCGAATCTTA
45339478 TCTTCCCCAG
Statistics
Matches: 258, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
199 12 0.05
200 62 0.24
201 2 0.01
202 182 0.71
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (200 bp):
GGAACAGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCT
TGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGATACAACAGCGAATCTTACTTCCCAGGCGGT
GCAGT
Found at i:45339445 original size:50 final size:50
Alignment explanation
Indices: 45339000--45339476 Score: 328
Period size: 50 Copynumber: 9.5 Consensus size: 50
45338990 GTAAGGGAAC
* * * * *
45339000 AGATTAATGCCACAGCGGTGAATGTTGCCACCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * * * ** * *
45339050 AGATTAAAGCTACAGCAGCGAATCTTACCT-CCTAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCT-GACATTGCAGTGAAAA
* * * *
45339100 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGATATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
** * * ** * * ** * *
45339150 AGATTAAAGATACAGCAGCGAATCTTAACTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * *
45339200 AGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCGGTTAAAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAG-T-GAAAA
* * * * * ** * *
45339252 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * *
45339302 AGATTAAAGCCACAACGGTGAATCTTGCCTCCTTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * * * * * * * ** * *
45339352 ATATTAAAGCTACAACAGTGATTCTTACTTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* * *
45339402 AGATTAAAGCCACAGTGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
* *
45339452 AGATTAAAGCTA-AGCGGCGAATCTT
1 AGATTAAAGCCACAGCGGTGAATCTT
45339477 ATCTTCCCCA
Statistics
Matches: 306, Mismatches: 117, Indels: 9
0.71 0.27 0.02
Matches are distributed among these distances:
49 14 0.05
50 251 0.82
51 5 0.02
52 36 0.12
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAGCGGTGAATCTTGCCTCCCTGACATTGCAGTGAAAA
Found at i:45339484 original size:100 final size:100
Alignment explanation
Indices: 45338995--45339477 Score: 743
Period size: 100 Copynumber: 4.8 Consensus size: 100
45338985 CAAGAGTAAG
* * * *
45338995 GGAACAGATTAATGCCACAGCGGTGAATGTTGCCACCCTGACATTGCGGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
45339060 TACAGCAGCGAATCTTACCTCCTAGGCGGTGCAGT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
* * *
45339095 GGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGATATTGCGGTTAAAAAGATTAAAGA
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
45339160 TACAGCAGCGAATCTTAACTCCCAGGCGGTGCAGT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
*
45339195 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCTCTGACATTGCGGTTAAAAAAAGATTAAA
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTT--AAAAAGATTAAA
*
45339260 GCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGT
64 GCTACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
* *
45339297 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCTTGACATTGCGGTTAAAAATATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
* * * *
45339362 TACAACAGTGATTCTTACTTCCCAGGCGGTGCAGT
66 TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
** * *
45339397 GGAACAGATTAAAGCCACAGTGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
*
45339462 TA-AGCGGCGAATCTTA
66 TACAGCAGCGAATCTTA
45339478 TCTTCCCCAG
Statistics
Matches: 350, Mismatches: 31, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
99 10 0.03
100 245 0.70
102 95 0.27
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (100 bp):
GGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGC
TACAGCAGCGAATCTTACCTCCCAGGCGGTGCAGT
Found at i:45339594 original size:44 final size:45
Alignment explanation
Indices: 45339546--45339640 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
45339536 GTGGGATGGG
* * *
45339546 TTGAAGATT-ACAGATCTTATCTCCCT-AAGCAATAGTGGAGCAGA
1 TTGAAG-TTGACAAATCTTATCTCACTGAAGCAACAGTGGAGCAGA
**
45339590 TTGAAGTTGACAAATCTTATCTCACTGAAGTTACAGTGGAGCAGA
1 TTGAAGTTGACAAATCTTATCTCACTGAAGCAACAGTGGAGCAGA
45339635 TTGAAG
1 TTGAAG
45339641 CCGATAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 2 0.05
44 21 0.48
45 21 0.48
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (45 bp):
TTGAAGTTGACAAATCTTATCTCACTGAAGCAACAGTGGAGCAGA
Found at i:45339655 original size:44 final size:45
Alignment explanation
Indices: 45339579--45339668 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
45339569 CCTAAGCAAT
** *
45339579 AGTGGAGCAGATTGAAGTTGACAAATCTTATCTCAC-TGAAGTTAC
1 AGTGGAGCAGATTGAAGCCGACAAATCCTATCTC-CTTGAAGTTAC
*
45339624 AGTGGAGCAGATTGAAGCCGA-TAATCCTATCTCCTTGAAGTTAC
1 AGTGGAGCAGATTGAAGCCGACAAATCCTATCTCCTTGAAGTTAC
45339668 A
1 A
45339669 ATAGAGCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 20 0.50
45 19 0.47
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
AGTGGAGCAGATTGAAGCCGACAAATCCTATCTCCTTGAAGTTAC
Found at i:45339888 original size:44 final size:44
Alignment explanation
Indices: 45339790--45339874 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
45339780 GAAAATGGTG
*
45339790 AATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGA
*
45339834 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCC
1 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCC
45339875 TATAATCCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:45339950 original size:44 final size:44
Alignment explanation
Indices: 45339835--45340084 Score: 118
Period size: 44 Copynumber: 5.8 Consensus size: 44
45339825 GAAGCCAGAA
* * * ** *
45339835 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCTATA--
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGATT-AA-AATAAAGG
* * ** * *
45339879 ATCCTATCTCTTTGAAGCTACAATAGAGCGGATTAAAATAAAGG
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGATTAAAATAAAGG
* *** *
45339923 ATCTTATCTCTCTGAAATTACAGTAGAGTAGA-TCGTAT-TAGG
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGATTAAAATAAAGG
* * **** **
45339965 -TCTTATCTCCCT-AAGATTACAGTGGAGCAGATTAAAGCCGATA
1 ATCTTATCTCTCTGAA-ATTACAGTAGAGCAGATTAAAATAAAGG
* * * *
45340008 ATCATATCTC-CTTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCTC-TGAAATTACAGTAGAGCAGATTAAAATAAAGG
* * * *
45340052 ATGTTATCTCTCTAAAATTATAGTAGAGTAGAT
1 ATCTTATCTCTCTGAAATTACAGTAGAGCAGAT
45340085 CGCATCAGGT
Statistics
Matches: 146, Mismatches: 51, Indels: 18
0.68 0.24 0.08
Matches are distributed among these distances:
40 2 0.01
41 25 0.17
42 7 0.05
43 7 0.05
44 102 0.70
45 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAATTACAGTAGAGCAGATTAAAATAAAGG
Found at i:45339968 original size:232 final size:232
Alignment explanation
Indices: 45339559--45339990 Score: 706
Period size: 232 Copynumber: 1.9 Consensus size: 232
45339549 AAGATTACAG
* **
45339559 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGTTGACAAATCTTATCTCACTGAAGTTAC
1 ATCTTATCTCCCTAAGCAACAGTGGAGCAGATTGAAGTCCACAAATCTTATCTCACTGAAGTTAC
*
45339624 AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGTTACAATAGAGCGGATTAAAATAAA
66 AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGCTACAATAGAGCGGATTAAAATAAA
*
45339689 GGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACA
131 GGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACA
45339754 ATGGAATAGACCAAAGATTCCTAATCGAAAATGGTGA
196 ATGGAATAGACCAAAGATTCCTAATCGAAAATGGTGA
** * *
45339791 ATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAG-CCAGAAATCTTATCTCCCTG-AGATT
1 ATCTTATCTCCCTAA-GCAACAGTGGAGCAGATTGAAGTCCACAAATCTTATCTCACTGAAG-TT
* *
45339854 ACAGTGGAGCAGATTGAAGCCTATAATCCTATCTCTTTGAAGCTACAATAGAGCGGATTAAAATA
64 ACAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGCTACAATAGAGCGGATTAAAATA
* *
45339919 AAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGTATTAGGTCTTATCTCCCTAAGATTA
129 AAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTA
*
45339984 CAGTGGA
194 CAATGGA
45339991 GCAGATTAAA
Statistics
Matches: 184, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
231 2 0.01
232 163 0.89
233 19 0.10
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (232 bp):
ATCTTATCTCCCTAAGCAACAGTGGAGCAGATTGAAGTCCACAAATCTTATCTCACTGAAGTTAC
AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGCTACAATAGAGCGGATTAAAATAAA
GGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACA
ATGGAATAGACCAAAGATTCCTAATCGAAAATGGTGA
Found at i:45340016 original size:129 final size:129
Alignment explanation
Indices: 45339836--45340119 Score: 442
Period size: 129 Copynumber: 2.2 Consensus size: 129
45339826 AAGCCAGAAA
* * * *
45339836 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCTATAATCCTATCTCTTTGAAGCTACA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGCTACA
* * *
45339901 ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGTATTAGG
66 ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
* *
45339965 TCTTATCTCCCTAAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGCTACA
* * * *
45340030 GTGGAGCGGATTAAAATAAAGGATGTTATCTCTCTAAAATTATAGTAGAGTAGATCGCATCAGG
66 ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
*
45340094 TCTTATCTCCCTGAGAATACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
45340120 ATAGACCGAA
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 140 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCCGATAATCATATCTCCTTGAAGCTACA
ATAGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
Found at i:45340640 original size:18 final size:18
Alignment explanation
Indices: 45340619--45340656 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45340609 CAAATCAAAT
45340619 AAATAAACAAAAT-ATAAA
1 AAAT-AACAAAATAATAAA
*
45340637 AAATAACTAAATAATAAA
1 AAATAACAAAATAATAAA
45340655 AA
1 AA
45340657 CAAAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATAACAAAATAATAAA
Found at i:45346282 original size:36 final size:36
Alignment explanation
Indices: 45346213--45346283 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
45346203 GAGTTACCAA
* *
45346213 TATTCTAATTCGCATATTAAATATGTTAATATTTTT
1 TATTCTAATTCGCATATTAAACATGGTAATATTTTT
* * * *
45346249 TATTCTAATTCGTATGTTAAGCATGGTATTATTTT
1 TATTCTAATTCGCATATTAAACATGGTAATATTTT
45346284 GATTTTGACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (36 bp):
TATTCTAATTCGCATATTAAACATGGTAATATTTTT
Found at i:45346341 original size:36 final size:35
Alignment explanation
Indices: 45346262--45346351 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 35
45346252 TCTAATTCGT
* *
45346262 ATGTTAAGCATGGT-ATTATTTTGATTTTGACTCAC
1 ATGTTAAGCAT-GTCATTATTTTAATTCTGACTCAC
* *
45346297 ATGCTAAGCATGTCATTATTTCTAATTCTGATTCAC
1 ATGTTAAGCATGTCATTATTT-TAATTCTGACTCAC
*
45346333 ATGTTAAGCATGCCATTAT
1 ATGTTAAGCATGTCATTAT
45346352 GTGTAATGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.04
35 17 0.36
36 28 0.60
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (35 bp):
ATGTTAAGCATGTCATTATTTTAATTCTGACTCAC
Found at i:45349188 original size:22 final size:20
Alignment explanation
Indices: 45349141--45349188 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
45349131 CAATTTAACT
*
45349141 ACAATTATGTAGTCGTTATC
1 ACAATTATGTAGTAGTTATC
*
45349161 AGCAATTATGTGGTAGTTTATCC
1 A-CAATTATGTAGTAG-TTAT-C
45349184 ACAAT
1 ACAAT
45349189 GTGCTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 8 0.35
23 2 0.09
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ACAATTATGTAGTAGTTATC
Found at i:45349263 original size:48 final size:48
Alignment explanation
Indices: 45349170--45349275 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
45349160 CAGCAATTAT
*
45349170 GTGGTAGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
1 GTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
** ** * * * *
45349218 GTGGTGGTTTATCCATGATGTGCTATGTGATTATTCATTGGTATCTAT
1 GTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
45349266 GTGGTGGTTT
1 GTGGTGGTTT
45349276 GTACACAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.42
Consensus pattern (48 bp):
GTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATCTAA
Found at i:45350914 original size:11 final size:11
Alignment explanation
Indices: 45350898--45350924 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45350888 TGTGGGATTA
45350898 CTTTCTAGAGG
1 CTTTCTAGAGG
45350909 CTTTCTAGAGG
1 CTTTCTAGAGG
45350920 CTTTC
1 CTTTC
45350925 CAGAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (11 bp):
CTTTCTAGAGG
Found at i:45358008 original size:20 final size:19
Alignment explanation
Indices: 45357983--45358032 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
45357973 AAAAGCTTAT
45357983 TTATTCAAAAACATTAAAAA
1 TTATTCAAAAACA-TAAAAA
45358003 TTATTCAAATTAACATAAAAA
1 TTATTCAAA--AACATAAAAA
45358024 -TATT-AAAAA
1 TTATTCAAAAA
45358033 TAACCTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 2 0.07
19 3 0.11
20 13 0.46
21 6 0.21
22 4 0.14
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
TTATTCAAAAACATAAAAA
Found at i:45358036 original size:20 final size:21
Alignment explanation
Indices: 45357992--45358042 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
45357982 TTTATTCAAA
* *
45357992 AACATTAAAAATTATTCAAATT
1 AACA-TAAAAATTATTAAAAAT
45358014 AACATAAAAA-TATTAAAAAT
1 AACATAAAAATTATTAAAAAT
*
45358034 AACCTAAAA
1 AACATAAAA
45358043 CTCATATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (21 bp):
AACATAAAAATTATTAAAAAT
Found at i:45363183 original size:27 final size:27
Alignment explanation
Indices: 45363129--45363183 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
45363119 ATACATGAAT
**
45363129 TCATTTCAATATTCATATCCCATTTCA
1 TCATTTCAATATTCATATCCCAACTCA
*
45363156 TCATTTC-ATATTCCATTTCCCAACTCA
1 TCATTTCAATATT-CATATCCCAACTCA
45363183 T
1 T
45363184 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCAACTCA
Found at i:45375425 original size:25 final size:25
Alignment explanation
Indices: 45375391--45375443 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
45375381 ACTTATTGTC
45375391 ACAAAATAATTTGAATGGTTTTTCT
1 ACAAAATAATTTGAATGGTTTTTCT
45375416 ACAAAATAATTTGAATGGTTTTTCT
1 ACAAAATAATTTGAATGGTTTTTCT
45375441 ACA
1 ACA
45375444 TTTTCCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (25 bp):
ACAAAATAATTTGAATGGTTTTTCT
Found at i:45381449 original size:13 final size:14
Alignment explanation
Indices: 45381430--45381463 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
45381420 AAACATACAT
45381430 AATATTTTA-AATA
1 AATATTTTATAATA
*
45381443 TATATTTTATAATA
1 AATATTTTATAATA
45381457 AATATTT
1 AATATTT
45381464 ATTATTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATTTTATAATA
Found at i:45382214 original size:111 final size:111
Alignment explanation
Indices: 45381988--45382288 Score: 399
Period size: 111 Copynumber: 2.7 Consensus size: 111
45381978 TGTTTAAATG
* * * * * ** * *
45381988 AGAAAAATCGACACACAGCGCATTAGGGCACGTTTCCTTAAATTTCCAAACGCAAAATATTATCT
1 AGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGTCT
* * * * *
45382053 TACTTCG-AAA-TTTTTAAAAGGATATTTAGTCATTTGGTTGAACG
66 TATTTTGAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACA
* *
45382097 AGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
1 AGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGTCT
*
45382162 TATTTTGAAAATTTTTTTAAAGGATATTAAGCCATTTGGTTGAACA
66 TATTTTGAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACA
* * * *
45382208 AGAAAAATCGACACCTAGCACCTTAGAGCATGTTTTCTCGAATATCCAAACGCAAAACATTGTTT
1 AGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGTCT
45382273 TATTTTGAAAATTTTT
66 TATTTTGAAAATTTTT
45382289 CTTTTTTTGA
Statistics
Matches: 167, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
109 59 0.35
110 3 0.02
111 105 0.63
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (111 bp):
AGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGTCT
TATTTTGAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACA
Found at i:45382426 original size:4 final size:4
Alignment explanation
Indices: 45382417--45382537 Score: 81
Period size: 4 Copynumber: 29.8 Consensus size: 4
45382407 ATGCAACAAC
* * ** * *
45382417 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAAA AAAT GGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
45382465 AAAT AAAT GAACAT AAAGT --AT AAAT AAAT AAAT AAAT AAACG AACAT
1 AAAT AAAT -AA-AT AAA-T AAAT AAAT AAAT AAAT AAAT AAA-T AA-AT
45382512 AAAGT --AT AAAT AAAT AAAT AAAT AAA
1 AAA-T AAAT AAAT AAAT AAAT AAAT AAA
45382538 ATAACAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
2 2 0.02
3 4 0.04
4 69 0.75
5 14 0.15
6 3 0.03
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:45382487 original size:25 final size:23
Alignment explanation
Indices: 45382417--45382504 Score: 76
Period size: 25 Copynumber: 3.8 Consensus size: 23
45382407 ATGCAACAAC
*
45382417 AAATAAATAAATAAATAAA--CT
1 AAATAAATAAATAAATAAAGTAT
* * *
45382438 AAA-ACATAAAAAAATGGACA-TAT
1 AAATAAATAAATAAAT--AAAGTAT
45382461 AAATAAATAAATGAACATAAAGTAT
1 AAATAAATAAAT-AA-ATAAAGTAT
45382486 AAATAAATAAATAAATAAA
1 AAATAAATAAATAAATAAA
45382505 CGAACATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
20 10 0.19
21 3 0.06
22 2 0.04
23 9 0.17
24 10 0.19
25 17 0.32
26 2 0.04
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (23 bp):
AAATAAATAAATAAATAAAGTAT
Found at i:45382501 original size:33 final size:32
Alignment explanation
Indices: 45382417--45382562 Score: 145
Period size: 33 Copynumber: 4.3 Consensus size: 32
45382407 ATGCAACAAC
*
45382417 AAATAAATAAATAAATAAACTAAAACATAAA--A
1 AAATAAATAAATAAATAAA-T-GAACATAAAGTA
45382449 AAATGGACATATAAATAAATAAATGAACATAAAGTA
1 AAAT--A-A-ATAAATAAATAAATGAACATAAAGTA
*
45382485 TAAATAAATAAATAAATAAACGAACATAAAGTA
1 -AAATAAATAAATAAATAAATGAACATAAAGTA
*
45382518 TAAATAAATAAATAAATAAAAT-AACAATAAAGGA
1 -AAATAAATAAATAAAT-AAATGAAC-ATAAAGTA
*
45382552 AAATAGATAAA
1 AAATAAATAAA
45382563 AATCGTAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
32 4 0.04
33 55 0.55
34 20 0.20
35 3 0.03
36 14 0.14
37 4 0.04
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (32 bp):
AAATAAATAAATAAATAAATGAACATAAAGTA
Found at i:45384448 original size:43 final size:43
Alignment explanation
Indices: 45384401--45384636 Score: 176
Period size: 43 Copynumber: 5.4 Consensus size: 43
45384391 TCTTGCTCTG
* *
45384401 CTGTAACTTCAGAGAGACAAGATCCTTTATTTAATCTGCTCCA
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTGATCTGCTCCA
* ** * * *
45384444 CTGTAACTTCAGGGAGAT-AGAATTATGTCTTTGATCTGCTCCG
1 CTGTAACTTCAGAGAGATAAG-ATCCTTTATTTGATCTGCTCCA
* * * * *
45384487 CTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCA
1 CTGTAACT-TCAGAGAGATAAGATCCT----TTATTTGATCTGCTCCA
* * * ** * *
45384533 CTGTAACCTCAGGGAGATAAGA-CC-TGATGCGATCTACTCTA
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTGATCTGCTCCA
* *
45384574 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACTTCAGAGAGATAAGATCCTTTA-TTTGATCTGCTCCA
45384618 CTGTAACTTCAGAGAGATA
1 CTGTAACTTCAGAGAGATA
45384637 GGATTAGTAG
Statistics
Matches: 152, Mismatches: 29, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
41 32 0.21
42 6 0.04
43 52 0.34
44 29 0.19
46 33 0.22
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTATTTGATCTGCTCCA
Found at i:45384544 original size:46 final size:46
Alignment explanation
Indices: 45384434--45384909 Score: 220
Period size: 44 Copynumber: 10.8 Consensus size: 46
45384424 CCTTTATTTA
*
45384434 ATCTGCTCCACTGTAA-CTTCAGGGAGAT-AGAAT-T---ATGTCTTTG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAG-ATCTGAAAT-TCTTCG
*
45384477 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * *
45384523 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG--A---TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * ** *
45384564 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATTCTTCG
* * * * ** *
45384608 ATCCGCTCCACTGTAA-CTTCAGAGAGATAGGAT-TAGTAGCT-TTAG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCT-GAAATTCTTCG
* * * *
45384653 -TTTGCTCCGCTGTAATCTCAGGAAGATAAGGTCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * *
45384698 GTCTGTTCCACTGTAATCTCAAGGAGATAAGACCTG--A---TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * * ** *
45384739 ATCTACTCTACTATAA-CTTTAGAGAGATAAGATCCT-TTATT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATTCTTCG
* ** * *
45384783 ATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-TGCTA-GCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* *
45384827 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * ** *
45384873 GTCTGTTCCACTGTAATCTCAGAAAGATAAGACCTGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA
45384910 TGCGATCTAC
Statistics
Matches: 328, Mismatches: 74, Indels: 59
0.71 0.16 0.13
Matches are distributed among these distances:
40 2 0.01
41 55 0.17
42 6 0.02
43 33 0.10
44 122 0.37
45 10 0.03
46 98 0.30
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (46 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
Found at i:45384710 original size:175 final size:175
Alignment explanation
Indices: 45384349--45384989 Score: 877
Period size: 175 Copynumber: 3.7 Consensus size: 175
45384339 TGTAATTTTA
* * * * *
45384349 GTCTGCTCCACTG-ATATGTCAGGGAGATAAGA-CTCGATGCGGTCTTGCTCTGCTGTAACTTCA
1 GTCTGTTCCACTGTA-ATCTCAGGGAGATAAGACCT-GATGCGATC-TACTCTACTGTAACTTCA
* * *
45384412 GAGAGACAAGATCCTTTA-TTTAATCTGCTCCACTGTAACTTCAGGGAGATAGAATTA-T-GTCT
63 GAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAG-CT
45384474 TT-GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
127 TTAG-TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
** *
45384523 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
*
45384588 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTAGTAGCTTTAG
66 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTTAG
* * *
45384653 TTTGCTCCGCTGTAATCTCAGGAAGATAAGGTCTGAAATTCTTCG
131 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * *
45384698 GTCTGTTCCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTACTATAACTTTAGAG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
* *
45384763 AGATAAGATCCTTTATTTTAATCTGCTCCACTGTAA-TCTCAGGGAGATAGGATT-GCTAGCTTC
66 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGATTAG-TAGCTTT
* *
45384826 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCG
129 AGTCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
** *
45384873 GTCTGTTCCACTGTAATCTCAGAAAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
* * * * *
45384938 GGATAAGATCCTTTATTTTAATTCGTTCCACTGCAA-TCTCAGGGAAATAGGA
66 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGA
45384990 ATGCTGGCTC
Statistics
Matches: 420, Mismatches: 39, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
173 33 0.08
174 73 0.17
175 312 0.74
176 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (175 bp):
GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAG
AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTTAG
TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
Found at i:45385087 original size:50 final size:50
Alignment explanation
Indices: 45385028--45385190 Score: 173
Period size: 50 Copynumber: 3.3 Consensus size: 50
45385018 GATTCGCCAT
* *
45385028 TGTGGCTTTAATCTTTTTAACTGCACCGCCTGAGAAGTAGGATTCACCGC
1 TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
** * * ** * *
45385078 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
* * ** * * *
45385128 TGTGACTTTAATCTATTCCACTACACCGCCAGGGAAGTAGGATTCGCCAC
1 TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
45385178 TGTGGCTTTAATC
1 TGTGGCTTTAATC
45385191 AAGATTCACC
Statistics
Matches: 88, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (50 bp):
TGTGGCTTTAATCTTTTTAACTGCACCGCCAGGGAAGTAGGATTCACCGC
Found at i:45385226 original size:125 final size:124
Alignment explanation
Indices: 45385068--45385440 Score: 566
Period size: 125 Copynumber: 3.0 Consensus size: 124
45385058 TGAGAAGTAG
*
45385068 GATTCACCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGA
1 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTG-
* * * * * ** *
45385133 CTTTAATCTATTCCACTACACCGCCAGGGAAGTAGGATTCGCCACTGTGGCTTTAATCAA
65 CTTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
* *
45385193 GATTCACCGATGTGGCTTTAATCTTTTTGACTGCAATGCCGGGGAAACAAGATTCACCGATGTGG
1 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGT-G
* *
45385258 CTTTAATCTGTTCCATTGCACCGCCTGAGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
65 CTTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
* *
45385318 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGC
1 GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGC
* *
45385383 TTTTAATTTGTTCCACTGCACCGCTTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATC
66 -TTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATC
45385441 TTTTTAATCG
Statistics
Matches: 225, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 2 0.01
125 222 0.99
126 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (124 bp):
GATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGATGTGC
TTTAATCTGTTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGCTGTAGCTTTAATCAA
Found at i:45385238 original size:75 final size:75
Alignment explanation
Indices: 45385115--45385265 Score: 178
Period size: 75 Copynumber: 2.0 Consensus size: 75
45385105 GTCGGGGAAA
* ** * *
45385115 CAAGATTCACCGATGTGACTTTAATCTATTCCACTACACCGCCAGGGAAGTAGGATTCGCC-ACT
1 CAAGATTCACCGATGTGACTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCACCGA-T
45385179 GTGGCTTTAAT
65 GTGGCTTTAAT
* * ** * * *
45385190 CAAGATTCACCGATGTGGCTTTAATCTTTTTGACTGCAATGCCGGGGAAACAAGATTCACCGATG
1 CAAGATTCACCGATGTGACTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCACCGATG
45385255 TGGCTTTAAT
66 TGGCTTTAAT
45385265 C
1 C
45385266 TGTTCCATTG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
75 62 0.98
76 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (75 bp):
CAAGATTCACCGATGTGACTTTAATCTATTCCACTACAACGCCAGGGAAACAAGATTCACCGATG
TGGCTTTAAT
Found at i:45385297 original size:50 final size:50
Alignment explanation
Indices: 45385190--45385287 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 50
45385180 TGGCTTTAAT
* ** * *
45385190 CAAGATTCACCGATGTGGCTTTAATCTTTTTGACTGCAATGCCGGGGAAA
1 CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCGGAGAAA
* * *
45385240 CAAGATTCACCGATGTGGCTTTAATCTGTTCCATTGCACCGCCTGAGA
1 CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCGGAGA
45385288 GGTAAGATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (50 bp):
CAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCGGAGAAA
Found at i:45385369 original size:50 final size:50
Alignment explanation
Indices: 45385315--45385490 Score: 144
Period size: 50 Copynumber: 3.5 Consensus size: 50
45385305 TAGCTTTAAT
45385315 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
** ** * *
45385365 CAAGATTCACCGATGT-GCTTTTAAT-TTGTTCCACTGCACCGCT-TGGGAGG
1 CAAGATTCACCGATGTGGC-TTTAATCTT-TTTAACTGCAATG-TAGGGGAAG
* * * * * * *
45385415 TAAGATTCGCTGCTGTAGCTTTAATCTTTTTAA-TCGTAATGTCAGGGAAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACT-GCAATGT-AGGGGAAG
* *
45385466 CTAGATTCACCGTTGTGGCTTTAAT
1 CAAGATTCACCGATGTGGCTTTAAT
45385491 ATGCTCCACT
Statistics
Matches: 94, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
49 6 0.06
50 60 0.64
51 28 0.30
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (50 bp):
CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
Found at i:45385519 original size:101 final size:100
Alignment explanation
Indices: 45385332--45385519 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 100
45385322 CACCGATGTG
* * *
45385332 GCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGCTTTTAATTTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTAGGGAAAGCAAGATTCACCGATGTGCTTTTAATATGCTCC
* *
45385397 ACTGCACCGCTTGGGAGGTAAGATTCGCTGCTGTA
66 ACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTA
* * *
45385432 GCTTTAATCTTTTTAA-TCGTAATGTCAGGGAAAGCTAGATTCACCGTTGTGGC-TTTAATATGC
1 GCTTTAATCTTTTTAACT-GCAATGT-AGGGAAAGCAAGATTCACCGATGT-GCTTTTAATATGC
*
45385495 TCCACTGCACTGCCTGGGAAGTAAG
63 TCCACTGCACCGCCTGGGAAGTAAG
45385520 GCTTTGTTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
99 1 0.01
100 22 0.29
101 51 0.67
102 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACTGCAATGTAGGGAAAGCAAGATTCACCGATGTGCTTTTAATATGCTCC
ACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTA
Found at i:45386830 original size:7 final size:7
Alignment explanation
Indices: 45386815--45386873 Score: 95
Period size: 7 Copynumber: 8.7 Consensus size: 7
45386805 TTAGCCTCTC
45386815 CATTTTT
1 CATTTTT
*
45386822 CACTTTT
1 CATTTTT
45386829 CATTTTT
1 CATTTTT
45386836 CA-TTTT
1 CATTTTT
45386842 CATTTTT
1 CATTTTT
45386849 CATTTTT
1 CATTTTT
45386856 CA-TTTT
1 CATTTTT
45386862 CATTTTT
1 CATTTTT
45386869 CATTT
1 CATTT
45386874 ATTTTTTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 12 0.25
7 36 0.75
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:45386841 original size:13 final size:14
Alignment explanation
Indices: 45386815--45386873 Score: 95
Period size: 13 Copynumber: 4.4 Consensus size: 14
45386805 TTAGCCTCTC
*
45386815 CATTTTTCACTTTT
1 CATTTTTCATTTTT
45386829 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
45386842 CATTTTTCATTTTT
1 CATTTTTCATTTTT
45386856 CA-TTTTCATTTTT
1 CATTTTTCATTTTT
45386869 CATTT
1 CATTT
45386874 ATTTTTTTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
13 26 0.60
14 17 0.40
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:45386881 original size:20 final size:20
Alignment explanation
Indices: 45386818--45386873 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
45386808 GCCTCTCCAT
*
45386818 TTTTCACTTTTCATTTTTCA
1 TTTTCATTTTTCATTTTTCA
45386838 TTTTCATTTTTCATTTTTCA
1 TTTTCATTTTTCATTTTTCA
45386858 TTTTCATTTTTCATTT
1 TTTTCATTTTTCATTT
45386874 ATTTTTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCATTTTTCATTTTTCA
Found at i:45387869 original size:6 final size:6
Alignment explanation
Indices: 45387860--45387937 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
45387850 CTTTTTGTTT
* * * *
45387860 TTTTTA TTTTGA TTTTTGA TTTTTGA TTTTT- TTTTCA TTTTCA TTTTGA
1 TTTTTA TTTTTA TTTTT-A TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
* * * * *
45387909 CTTTGA TTTTGA TTTTGA TTTTTC TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
45387938 CTTCCCTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.06
6 45 0.73
7 13 0.21
ACGTcount: A:0.13, C:0.05, G:0.09, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:45387875 original size:14 final size:15
Alignment explanation
Indices: 45387851--45387892 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
45387841 TTCTTTCTTC
*
45387851 TTTTTGTTTTTTTTA
1 TTTTTGATTTTTTTA
*
45387866 -TTTTGA-TTTTTGA
1 TTTTTGATTTTTTTA
45387879 TTTTTGATTTTTTT
1 TTTTTGATTTTTTT
45387893 TTCATTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
13 6 0.27
14 11 0.50
15 5 0.23
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (15 bp):
TTTTTGATTTTTTTA
Found at i:45387893 original size:30 final size:29
Alignment explanation
Indices: 45387857--45387918 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
45387847 CTTCTTTTTG
* *
45387857 TTTTTTTT-ATTTTGATTTTTGATTTTTGAT
1 TTTTTTTTCATTTTCA-TTTTGA-CTTTGAT
45387887 TTTTTTTTCATTTTCATTTTGACTTTGAT
1 TTTTTTTTCATTTTCATTTTGACTTTGAT
45387916 TTT
1 TTT
45387919 GATTTTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 9 0.31
30 14 0.48
31 6 0.21
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (29 bp):
TTTTTTTTCATTTTCATTTTGACTTTGAT
Found at i:45387936 original size:12 final size:12
Alignment explanation
Indices: 45387860--45387930 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
45387850 CTTTTTGTTT
*
45387860 TTTTTATTTTGA
1 TTTTGATTTTGA
45387872 TTTTTGATTTTTGA
1 -TTTTGA-TTTTGA
* *
45387886 TTTT-TTTTTCA
1 TTTTGATTTTGA
*
45387897 TTTTCATTTTGA
1 TTTTGATTTTGA
*
45387909 CTTTGATTTTGA
1 TTTTGATTTTGA
45387921 TTTTGATTTT
1 TTTTGATTTT
45387931 TCTTTTTCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
11 9 0.19
12 24 0.50
13 9 0.19
14 6 0.12
ACGTcount: A:0.14, C:0.04, G:0.10, T:0.72
Consensus pattern (12 bp):
TTTTGATTTTGA
Found at i:45391515 original size:111 final size:111
Alignment explanation
Indices: 45391278--45391581 Score: 432
Period size: 111 Copynumber: 2.8 Consensus size: 111
45391268 TTGTTTAAAT
* * * * ** * * *
45391278 GAGAAAAATCGACACCCAGCGCATTAGGGCACGTTTCCTTAAATTTCCAGACGCAAAATATTATC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACC
* * * * *
45391343 TTACTTCGAAA--TTTTTAAAAGGATATTTAGCCATTTGGTTGAAT
66 TTATTTTGAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
45391387 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACC
*
45391452 TTATTTTGAAATTTTTTTTAAAGGATATTAAGTCATTTGGTTGAAC
66 TTATTTTGAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
* * *
45391498 GAGAAAAATCGACACCCAGTACCTTAGGGCATGTTTTCTCGAATATCCAAACGCAAAACATTGCC
1 GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACC
45391563 TTATTTTGAAATTTTTTTT
66 TTATTTTGAAATTTTTTTT
45391582 TTTGAAAATG
Statistics
Matches: 175, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
109 65 0.37
111 110 0.63
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (111 bp):
GAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACC
TTATTTTGAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAAC
Found at i:45391714 original size:4 final size:4
Alignment explanation
Indices: 45391705--45391779 Score: 80
Period size: 4 Copynumber: 18.8 Consensus size: 4
45391695 ATACAACAAC
* * ** * *
45391705 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAAA AAAT GGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
45391753 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
45391780 ATAATAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
3 2 0.03
4 52 0.90
5 4 0.07
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:45392883 original size:6 final size:6
Alignment explanation
Indices: 45392872--45392899 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45392862 AAGGAAGGAA
45392872 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
45392900 GGAATTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:45394010 original size:20 final size:20
Alignment explanation
Indices: 45393985--45394024 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45393975 CGTAAAATAA
*
45393985 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45394005 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45394025 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45394014 original size:34 final size:35
Alignment explanation
Indices: 45393970--45394036 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45393960 CAGTAAAATA
*
45393970 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
45394004 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
45394037 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:45398677 original size:12 final size:12
Alignment explanation
Indices: 45398656--45398695 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
45398646 AGAATCAGCG
*
45398656 GCAGCAGCGGCA
1 GCAGCGGCGGCA
45398668 GCAGCGGCGGCA
1 GCAGCGGCGGCA
* *
45398680 GCGGCGGCGGAA
1 GCAGCGGCGGCA
45398692 GCAG
1 GCAG
45398696 TAGATTGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.50, T:0.00
Consensus pattern (12 bp):
GCAGCGGCGGCA
Found at i:45398687 original size:9 final size:9
Alignment explanation
Indices: 45398651--45398684 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
45398641 AAACAAGAAT
45398651 CAGCGGCAG
1 CAGCGGCAG
45398660 CAGCGGCAG
1 CAGCGGCAG
*
45398669 CAGCGGCGG
1 CAGCGGCAG
45398678 CAGCGGC
1 CAGCGGC
45398685 GGCGGAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.18, C:0.35, G:0.47, T:0.00
Consensus pattern (9 bp):
CAGCGGCAG
Found at i:45401871 original size:23 final size:23
Alignment explanation
Indices: 45401835--45401878 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45401825 TTACTTGGTA
45401835 GTAATGTAACTAAATGTAACATT
1 GTAATGTAACTAAATGTAACATT
*
45401858 GTAAT-TAACATAAATTTAACA
1 GTAATGTAAC-TAAATGTAACA
45401879 AAATAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
GTAATGTAACTAAATGTAACATT
Found at i:45402057 original size:21 final size:20
Alignment explanation
Indices: 45402022--45402067 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
45402012 ACTTAATATA
45402022 ATAAATAATTTAAAATGATTAT
1 ATAAATAATTTAAAAT-ATT-T
*
45402044 ATAACTAA-TTAAAATATTT
1 ATAAATAATTTAAAATATTT
45402063 ATAAA
1 ATAAA
45402068 ATATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 7 0.32
22 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
ATAAATAATTTAAAATATTT
Found at i:45412232 original size:41 final size:41
Alignment explanation
Indices: 45412186--45412305 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
45412176 TCTTAACATG
* * * *
45412186 ATACACTGGCATGAAGCCTACTAGGCTTAAAGCCTGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGATATA
* * * * *
45412227 GTACACCGGCATTAAGCCTGCTAAGCGTAAAGCCTGAAATA
1 ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGATATA
* *
45412268 ATTCACCGGCATAAAGCCTGCTAGGCTGAAAGCCTGAT
1 ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGAT
45412306 TATCACTGAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
ATACACCGGCATAAAGCCTGCTAGGCTTAAAGCCTGATATA
Found at i:45419926 original size:101 final size:102
Alignment explanation
Indices: 45419794--45419977 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
45419784 AAAGTGATGG
* *
45419794 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATC-GAATGATAATGGTCACATGTGTAGT
*
45419857 ACTATGTGCAGGGTACTATTCGTACCGGATAGTTTTGA
65 ACTATGTGCAGGCTACTATTCGTACCGGATAGTTTTGA
* * *
45419895 TCACGTATGTAGTATTATGTGCAGGAC-ACTACGTGTATCGAATGGTAATGGTCACATGTGTAGT
1 TCACGTATGTAGTACTAAGTGCAGG-CTACTACGTGTATCGAATGATAATGGTCACATGTGTAGT
45419959 ACTATGTGCAGGCTACTAT
65 ACTATGTGCAGGCTACTAT
45419978 GTGAAACGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 6 0.08
101 35 0.47
102 33 0.45
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATTCGTACCGGATAGTTTTGA
Found at i:45419957 original size:51 final size:49
Alignment explanation
Indices: 45419790--45419976 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 49
45419780 AGTGAAAGTG
* * *
45419790 ATGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGC-ACTACGTGTATC-GAATGGT
* * * * * *
45419841 A-GGTCGCATGTGTAGTACTATGTGCAGGGTACTA-TTCGTACCGGATAGTT
1 ATGGTCACATGTGTAGTACTATGTGCA-GGCACTACGT-GTATCGAAT-GGT
* * * * *
45419891 TTGATCACGTATGTAGTATTATGTGCAGGACACTACGTGTATCGAATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGG-CACTACGTGTATCGAATGGT
45419941 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGC-ACTA
45419977 TGTGAAACGA
Statistics
Matches: 104, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
49 4 0.04
50 37 0.36
51 62 0.60
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCACTACGTGTATCGAATGGT
Found at i:45419997 original size:102 final size:101
Alignment explanation
Indices: 45419794--45419997 Score: 236
Period size: 102 Copynumber: 2.0 Consensus size: 101
45419784 AAAGTGATGG
* *
45419794 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGATAGGTCACATGTGTAGTAC
* * * * * *
45419859 TATGTGCAGGGTACTATTCGTACCGGATAGTTTTGA
66 TATGTGCAGGCTACTATTCGAAACGAACAGTATTGA
* * *
45419895 TCACGTATGTAGTATTATGTGCAGGAC-ACTACGTGTATC-GAATGGTAATGGTCACATGTGTAG
1 TCACGTATGTAGTACTAAGTGCAGG-CTACTACGTGTATCGGAATGAT-A-GGTCACATGTGTAG
45419958 TACTATGTGCAGGCTACTATGT-GAAACGAACA-TCATTGA
63 TACTATGTGCAGGCTACTAT-TCGAAACGAACAGT-ATTGA
45419997 T
1 T
45419998 TAGTAAGGTG
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
100 6 0.07
101 36 0.41
102 44 0.51
103 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATTCGAAACGAACAGTATTGA
Found at i:45438219 original size:3 final size:3
Alignment explanation
Indices: 45438211--45438295 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
45438201 ATAAAGAAGG
45438211 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
45438259 GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45438296 GGATTAAAAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45438340 original size:5 final size:6
Alignment explanation
Indices: 45438321--45438378 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
45438311 TTTGGAATTC
* * *
45438321 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAT AAATGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAAT-AA AAATAA
*
45438372 AGATAA A
1 AAATAA A
45438379 CTAAATTGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 33 0.75
7 7 0.16
8 4 0.09
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:45440053 original size:27 final size:27
Alignment explanation
Indices: 45440012--45440074 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
45440002 ACACTCCGGA
* * * *
45440012 GAAATGAAAGTCTTTGTGGCAATTTAT
1 GAAATGGAAGCCTTTATGGCAATCTAT
*
45440039 GAAATGGAAGCCTTTATGGCGATCTAT
1 GAAATGGAAGCCTTTATGGCAATCTAT
*
45440066 GAAAAGGAA
1 GAAATGGAA
45440075 TGTCTTCATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (27 bp):
GAAATGGAAGCCTTTATGGCAATCTAT
Found at i:45440317 original size:10 final size:10
Alignment explanation
Indices: 45440282--45440328 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
45440272 TATAAAAATA
45440282 TTTTTATTATAT
1 TTTTTA-TA-AT
*
45440294 TTTTTGTAA-
1 TTTTTATAAT
*
45440303 GTTTTATAAT
1 TTTTTATAAT
45440313 TTTTTATAAT
1 TTTTTATAAT
45440323 TTTTTA
1 TTTTTA
45440329 CATGATATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 2 0.07
12 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:45440325 original size:18 final size:18
Alignment explanation
Indices: 45440288--45440325 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
45440278 AATATTTTTA
*
45440288 TTATATTTTTTGTAAGTT
1 TTATATTTTTTATAAGTT
45440306 TTATAATTTTTTATAA-TT
1 TTAT-ATTTTTTATAAGTT
45440324 TT
1 TT
45440326 TTACATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTATATTTTTTATAAGTT
Found at i:45440925 original size:12 final size:12
Alignment explanation
Indices: 45440908--45440941 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45440898 TGTAATCTTC
45440908 TCTTTTTTTTCT
1 TCTTTTTTTTCT
45440920 TCTTTTTTTTCT
1 TCTTTTTTTTCT
**
45440932 GGTTTTTTTT
1 TCTTTTTTTT
45440942 TTTTTGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (12 bp):
TCTTTTTTTTCT
Found at i:45441931 original size:29 final size:29
Alignment explanation
Indices: 45441882--45441955 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
45441872 AAAAACATGT
* * *
45441882 TGACGTGGACGCACTTT-AGTAAAGAGCGC
1 TGACGAGGACGC-GTTTCAGTAAAAAGCGC
*
45441911 TGACGAGGGCGCGTTTCAGTAAAAAGCGC
1 TGACGAGGACGCGTTTCAGTAAAAAGCGC
45441940 TGACGAGGACGCGTTT
1 TGACGAGGACGCGTTT
45441956 TTCCCCGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (29 bp):
TGACGAGGACGCGTTTCAGTAAAAAGCGC
Found at i:45442081 original size:27 final size:28
Alignment explanation
Indices: 45442026--45442081 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
45442016 AGGGTTTTGG
*
45442026 AAAAAAATAAATTAAGGTTTAGGATTTT
1 AAAAAAATAAATTAAGGTTTAGGAGTTT
*
45442054 AAAAAATTAAATT-AGTGTTTAGG-GTTT
1 AAAAAAATAAATTAAG-GTTTAGGAGTTT
45442081 A
1 A
45442082 TGGTCTAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (28 bp):
AAAAAAATAAATTAAGGTTTAGGAGTTT
Found at i:45442383 original size:86 final size:85
Alignment explanation
Indices: 45442285--45442452 Score: 221
Period size: 86 Copynumber: 2.0 Consensus size: 85
45442275 TGTACCGTTG
* *
45442285 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACATAT-CTCGGAATCCTCAAGAAATCT
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAA-AAATCCT-GGAATCCACAAGAAATCT
45442349 GATAGTTGGGGTTAAAAAAATA
64 GATAGTTGGGGTTAAAAAAATA
* * * * * * *
45442371 ATTCTGAAAAAATAATTTTTAGAAGATGGTTTTGAAAAAAATCCTGGGATTCACGAGAAATCTGA
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAAATCCTGGAATCCACAAGAAATCTGA
*
45442436 TAGTTGGGGTTGAAAAA
66 TAGTTGGGGTTAAAAAA
45442453 CGCTTCAAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
85 35 0.49
86 36 0.51
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (85 bp):
ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAAAAATCCTGGAATCCACAAGAAATCTGA
TAGTTGGGGTTAAAAAAATA
Found at i:45442452 original size:85 final size:86
Alignment explanation
Indices: 45442285--45442452 Score: 223
Period size: 85 Copynumber: 2.0 Consensus size: 86
45442275 TGTACCGTTG
* *
45442285 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACATATCTCGGAATCCTCAAGAAATCTG
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACAAATCTCGGAATCCACAAGAAATCTG
45442350 ATAGTTGGGGTTAAAAAAATA
66 ATAGTTGGGGTTAAAAAAATA
* * * * * * *
45442371 ATTCTGAAAAAATAATTTTTAGAAGATGGTTTTGAAAA-AAATC-CTGGGATTCACGAGAAATCT
1 ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACAAATCTC-GGAATCCACAAGAAATCT
*
45442434 GATAGTTGGGGTTGAAAAA
65 GATAGTTGGGGTTAAAAAA
45442453 CGCTTCAAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
84 1 0.01
85 36 0.51
86 34 0.48
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (86 bp):
ATTCTAAAAAAATAATTTTGAAAAGATGGTTCTGAAAACAAATCTCGGAATCCACAAGAAATCTG
ATAGTTGGGGTTAAAAAAATA
Found at i:45445720 original size:59 final size:58
Alignment explanation
Indices: 45445641--45445816 Score: 208
Period size: 59 Copynumber: 3.0 Consensus size: 58
45445631 ATATCGAAAT
* * * * *
45445641 AACTCCTAATTTATTAAATGAAACAATGAAAAAATAATTTGTACGAACATATTTAAAAG
1 AACTTCTATTTTATTAAATGAAACAAT-AAAAAATAATTTGTACAAAAATATTCAAAAG
* *
45445700 AACTTCTATTTTATTAAATGAAACAATTTAAAAATAATTTATACAAAAATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACAA-TAAAAAATAATTTGTACAAAAATATTCAAAAG
* * * * * *
45445759 AACTTCTGTTTCATCAAATGAAACAATATAAAAACAGTTTGTACAAATATATTCAAAA
1 AACTTCTATTTTATTAAATGAAACAATA-AAAAATAATTTGTACAAAAATATTCAAAA
45445817 ATAAATCAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
58 1 0.01
59 98 0.98
60 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (58 bp):
AACTTCTATTTTATTAAATGAAACAATAAAAAATAATTTGTACAAAAATATTCAAAAG
Found at i:45446203 original size:18 final size:18
Alignment explanation
Indices: 45446177--45446212 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45446167 GAGTGGAAAA
45446177 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGTT
*
45446195 AGGATACATATAAGGGTT
1 AGGAAACATATAAGGGTT
45446213 CAGATCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (18 bp):
AGGAAACATATAAGGGTT
Found at i:45447785 original size:20 final size:21
Alignment explanation
Indices: 45447738--45447785 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
45447728 ATCGACTATT
* *
45447738 ATAAAAATTATAAAAATATTA
1 ATAAAAATTACAAAAATATAA
*
45447759 AT-TAAATTACAAAAATA-AA
1 ATAAAAATTACAAAAATATAA
45447778 ATAAAAAT
1 ATAAAAAT
45447786 ATTAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.14
20 17 0.77
21 2 0.09
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAAAAATTACAAAAATATAA
Found at i:45453393 original size:11 final size:11
Alignment explanation
Indices: 45453377--45453411 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
45453367 GAGAAATCTC
45453377 ATGAAAAAAGA
1 ATGAAAAAAGA
*
45453388 ATGAAAAATGA
1 ATGAAAAAAGA
45453399 ATGAAAGAAAGA
1 ATGAAA-AAAGA
45453411 A
1 A
45453412 ACCTTCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (11 bp):
ATGAAAAAAGA
Done.