Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold475
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: 1773841
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 11 of 12
Found at i:1614290 original size:13 final size:13
Alignment explanation
Indices: 1614272--1614296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1614262 ATTACTCAAA
1614272 TGTATCGATACAT
1 TGTATCGATACAT
1614285 TGTATCGATACA
1 TGTATCGATACA
1614297 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1614361 original size:52 final size:52
Alignment explanation
Indices: 1614305--1614433 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1614295 CACTGATCTT
*
1614305 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1614357 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1614409 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1614434 CCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1621336 original size:7 final size:7
Alignment explanation
Indices: 1621314--1621353 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
1621304 AGTCAAAAGT
*
1621314 AAACACA
1 AAACAAA
1621321 AAA-AAA
1 AAACAAA
1621327 AAACAAA
1 AAACAAA
1621334 AAACAACA
1 AAACAA-A
1621342 AAACAAA
1 AAACAAA
1621349 AAACA
1 AAACA
1621354 CACACAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 5 0.17
7 18 0.60
8 7 0.23
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACAAA
Found at i:1621365 original size:15 final size:15
Alignment explanation
Indices: 1621314--1621353 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1621304 AGTCAAAAGT
*
1621314 AAACACAAAA-AA-A
1 AAACAAAAAACAACA
1621327 AAACAAAAAACAACA
1 AAACAAAAAACAACA
1621342 AAACAAAAAACA
1 AAACAAAAAACA
1621354 CACACAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 13 0.54
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAAAAACAACA
Found at i:1621641 original size:23 final size:21
Alignment explanation
Indices: 1621615--1621657 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1621605 AAAAGAAACA
1621615 AAACAAAAAAGGAAAAAAAGAAG
1 AAACAAAAAA--AAAAAAAGAAG
*
1621638 AAACAAACAAAAAAAAAGAA
1 AAACAAAAAAAAAAAAAGAA
1621658 AAAAAGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (21 bp):
AAACAAAAAAAAAAAAAGAAG
Found at i:1621643 original size:28 final size:29
Alignment explanation
Indices: 1621603--1621663 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
1621593 GTTCTTTTCC
* *
1621603 AAAA-AAGAAACAAA-ACAAAAAAGGAAA
1 AAAAGAAGAAACAAACAAAAAAAAAGAAA
1621630 AAAAGAAGAAACAAACAAAAAAAAAGAAA
1 AAAAGAAGAAACAAACAAAAAAAAAGAAA
1621659 AAAAG
1 AAAAG
1621664 GGAAAAACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.13
28 10 0.33
29 16 0.53
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (29 bp):
AAAAGAAGAAACAAACAAAAAAAAAGAAA
Found at i:1621659 original size:27 final size:27
Alignment explanation
Indices: 1621603--1621663 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
1621593 GTTCTTTTCC
1621603 AAAAAAGAAACAAAACAAAAAAGGAAAA
1 AAAAAAGAAACAAAACAAAAAA-GAAAA
*
1621631 AAAGAAGAAAC-AAACAAAAAA-AAAGA
1 AAAAAAGAAACAAAACAAAAAAGAAA-A
1621657 AAAAAAG
1 AAAAAAG
1621664 GGAAAAACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 3 0.10
26 7 0.23
27 10 0.33
28 10 0.33
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (27 bp):
AAAAAAGAAACAAAACAAAAAAGAAAA
Found at i:1622718 original size:30 final size:31
Alignment explanation
Indices: 1622621--1622871 Score: 202
Period size: 34 Copynumber: 7.8 Consensus size: 31
1622611 ATACCTTTTT
*
1622621 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTTC
1622652 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTCTTC
*
1622684 AAAGTCCACCACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTTC
*
1622714 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
* * * *
1622745 AAAGCCCACAACTCCGTGGCACCTTTTCCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTT-CTTC
* * * *
1622777 TTAAAGCCCACAACTCCGTGGCACCTTTTCCTTC
1 --AAAGTCCACGACTCAGTGGCATCTTTT-CTTC
* * * * *
1622811 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 --AAAGTCCACGACTCAGTGGCATC-TTTTC--TTC
* * *
1622847 AAAGCCCACAACTCCGTGGCATCTT
1 AAAGTCCACGACTCAGTGGCATCTT
1622872 GTTCCTTTTA
Statistics
Matches: 199, Mismatches: 10, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
30 30 0.15
31 54 0.27
32 27 0.14
33 2 0.01
34 80 0.40
35 4 0.02
36 2 0.01
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTC
Found at i:1622783 original size:34 final size:33
Alignment explanation
Indices: 1622652--1623603 Score: 875
Period size: 34 Copynumber: 28.8 Consensus size: 33
1622642 ATCTCTTCTC
* * *
1622652 AAAGTCCACGACTCAGTGGCATCCTTTT-C-TTC
1 AAAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
* * * * *
1622684 AAAGTCCACCACTCAGTGGCA--TTTT-GTCTC
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * *
1622714 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
1622745 AAAGCCCACAACTCCGTGGCACCTTTTCCTTCTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTT-TT
*
1622779 AAAGCCCACAACTCCGTGGCACCTTTTCCTTCTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTT-TT
* *
1622813 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
* *
1622847 AAAGCCCACAACTCCGTGGCATCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
1622881 -AAG-CCTACAACTCCGTGGTACCTTTTTCTTTT
1 AAAGTCC-ACAACTCCGTGGCACCTTTTCCTTTT
*
1622913 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
* *
1622950 AAAGTCCACAACCCCGTGGCACCTATTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
1622983 -AAGTCCACAACTCCGTGGCACCTTTT--TTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
**
1623013 AAAACCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
* * *
1623049 AAAGTCCATAACCCCGTGGCACCTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
1623082 -AAGTCCACAACTCCGTGGCACC--TT-CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
1623111 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
* *
1623148 AAAGTCCACAACCCCGTGGCACCTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
1623181 -AAGTCCACAACTCCATGGCACCTTTT--TTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
1623211 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
*
1623247 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* * *
1623281 -AAGTCCACGACTCCGTGGTACC---TACTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
1623310 CAAAGTCCGCGACTCCGTGGCA-C-TTT-CTTTT
1 -AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
1623341 CAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTT
* * * *
1623378 AAAGTTCACAATTCCATGGCATCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
*
1623412 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
* *
1623445 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
1623478 CAAAGCCCACCACTCTGT-GCTACCTTTT-CTTTT
1 -AAAGTCCACAACTCCGTGGC-ACCTTTTCCTTTT
* *
1623511 TAAGTCCACAACTTCGTGGCACTCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTT
* *
1623546 AAAGTCCACAACTCTGTGGCACCTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
1623579 -AAGTCCACAACTTCGTGGCACCTTT
1 AAAGTCCACAACTCCGTGGCACCTTT
1623604 CACCCTTTTT
Statistics
Matches: 778, Mismatches: 87, Indels: 110
0.80 0.09 0.11
Matches are distributed among these distances:
29 15 0.02
30 31 0.04
31 123 0.16
32 141 0.18
33 120 0.15
34 181 0.23
35 48 0.06
36 104 0.13
37 15 0.02
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:1623045 original size:99 final size:98
Alignment explanation
Indices: 1622652--1623603 Score: 1002
Period size: 99 Copynumber: 9.6 Consensus size: 98
1622642 ATCTCTTCTC
* * * ** * * *
1622652 AAAGTCCACGACTCAGTGGCATCCT-TTTCTTCAAAGTCCACCACTCAGTGGCA--TTTTGTCTC
1 AAAGTCCACAACTCCGTGGCA-CCTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT-TTTC
* * * *
1622714 AAAGTCCACGACTCAGTGGCA-T-TTTTT-C-TTC
64 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
1622745 AAAGCCCACAACTCCGTGGCACCTTTTCCTTCTTAAAGCCCACAACTCCGTGGCACCTTTTCCTT
1 AAAGTCCACAACTCCGTGGCACCTGTTCCTT-TT-AAGTCCACAACTCCGTGGCACCTTTT--TT
* *
1622810 CTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
62 -TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
1622847 AAAGCCCACAACTCCGTGGCATCTTGTTCCTTTTAAG-CCTACAACTCCGTGGTACCTTTTTCTT
1 AAAGTCCACAACTCCGTGGCA-CCTGTTCCTTTTAAGTCC-ACAACTCCGTGGCACC--TTT-TT
1622911 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
61 TTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* *
1622950 AAAGTCCACAACCCCGTGGCACCTATTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTCAA
1 AAAGTCCACAACTCCGTGGCACCTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTCAA
*
1623015 AACCCACAACTCCGTGGCACTCTTTTTCCCTTTT
66 AGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* * *
1623049 AAAGTCCATAACCCCGTGGCACCTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAA
1 AAAGTCCACAACTCCGTGGCACCTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTCAA
1623114 AGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
66 AGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* *
1623148 AAAGTCCACAACCCCGTGGCACCTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTTTCAA
1 AAAGTCCACAACTCCGTGGCACCTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTCAA
1623213 AGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
66 AGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* * * **
1623247 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGTACCTACTTTTCA
1 AAAGTCCACAACTCCGTGGCACC-TGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTCA
* * *
1623312 AAGTCCGCGACTCCGTGGCA--C--TTT-CTTTT
65 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * * * * *
1623341 CAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTTAAAGTTCACAATTCCATGGCATCTTGTT
1 -AAAGTCCACAACTCCGTGGCAC-C-TGTT-CCTTTT-AAGTCCACAACTCCGTGGCACCTT-TT
* * *
1623406 CCTTT-TAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
60 --TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * * * *
1623445 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGT-GCTACCTTTTCTT
1 AAAGTCCACAACTCCGTGGCACCTGTTCCTTTT--AAGTCCACAACTCCGTGGC-ACCTTTT-TT
** * *
1623509 TTTAAGTCCACAACTTCGTGGCACTCTTTTTCCTTTT
62 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
1623546 AAAGTCCACAACTCTGTGGCACCTGTTCCTTTTAAGTCCACAACTTCGTGGCACCTTT
1 AAAGTCCACAACTCCGTGGCACCTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
1623604 CACCCTTTTT
Statistics
Matches: 745, Mismatches: 78, Indels: 66
0.84 0.09 0.07
Matches are distributed among these distances:
92 3 0.00
93 23 0.03
94 5 0.01
95 36 0.05
96 8 0.01
97 10 0.01
98 19 0.03
99 296 0.40
100 113 0.15
101 104 0.14
102 62 0.08
103 61 0.08
104 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (98 bp):
AAAGTCCACAACTCCGTGGCACCTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTCAA
AGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:1623611 original size:67 final size:66
Alignment explanation
Indices: 1622714--1623623 Score: 878
Period size: 67 Copynumber: 13.7 Consensus size: 66
1622704 ATTTTGTCTC
* * * * *
1622714 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTCCTT-
1622777 TT
65 TT
* *
1622779 AAAGCCCACAACTCCGTGGCACCTTTTCCTTCTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTT-TTAAAGCCCACAACTCCGTGGCACC-TTTTCCT
1622844 TTT
64 TTT
* * * * *
1622847 AAAGCCCACAACTCCGTGGCATCTTGTTCCTTTT-AAGCCTACAACTCCGTGGTACCTTTTTCTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTCCTT
1622911 TT
65 TT
* * * *
1622913 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTATTC
1 -AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTTAAAGCCCACAACTCCGTGGCACCTTTTC
1622978 CTTTT
62 CTTTT
* *
1622983 -AAGTCCACAACTCCGTGGCACCTTTT--TTTCAAAACCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTTT-CC
1623045 TTTT
63 TTTT
* * * *
1623049 AAAGTCCATAACCCCGTGGCACCTGTTCCTTTT-AAGTCCACAACTCCGTGGCACC--TT-CTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
1623110 T
66 T
* * * *
1623111 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTGTTC
1 -AAAGTCCACAACTCCGTGGCAC-C-TTTT-CCTTTTAAAGCCCACAACTCCGTGGCACCTTTTC
1623176 CTTTT
62 CTTTT
* *
1623181 -AAGTCCACAACTCCATGGCACCTTTT--TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTTT-CC
1623243 TTTT
63 TTTT
* * * * *
1623247 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT-AAGTCCACGACTCCGTGGTACC---TACTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTCCTT
1623308 TT
65 TT
* * *
1623310 CAAAGTCCGCGACTCCGTGGCA-C-TTT-CTTTTCAAAGCCCACAACTTCGTGGCACTCTTTTTC
1 -AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT-AAAGCCCACAACTCCGTGGCAC-C-TTTT-
1623372 CCTTTT
61 CCTTTT
* * * * * *
1623378 AAAGTTCACAATTCCATGGCATCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAAGCCCACAACTCCGTGGCACC-TTTTCCT
1623442 TTT
64 TTT
* * * *
1623445 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCTGT-GCTACCTTTT-CT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTT-AAAGCCCACAACTCCGTGGC-ACCTTTTCCT
1623508 TTT
64 TTT
* * * * *
1623511 TAAGTCCACAACTTCGTGGCACTCTTTTTCCTTTTAAAGTCCACAACTCTGTGGCACCTGTTCCT
1 AAAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
1623576 TTT
64 TTT
* *
1623579 -AAGTCCACAACTTCGTGGCACCTTTCACCCTTTTTAAAGCCCACA
1 AAAGTCCACAACTCCGTGGCACCTTT--TCC-TTTTAAAGCCCACA
1623624 CAAGTCGGTG
Statistics
Matches: 707, Mismatches: 84, Indels: 105
0.79 0.09 0.12
Matches are distributed among these distances:
60 5 0.01
61 2 0.00
62 23 0.03
63 71 0.10
64 24 0.03
65 30 0.04
66 70 0.10
67 204 0.29
68 173 0.24
69 64 0.09
70 36 0.05
71 5 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (66 bp):
AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTCCTTT
T
Found at i:1623718 original size:33 final size:33
Alignment explanation
Indices: 1623605--1623864 Score: 355
Period size: 33 Copynumber: 8.2 Consensus size: 33
1623595 GGCACCTTTC
*
1623605 ACCCTT-TTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
1623637 ACCC-T-ACTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
1623668 ACCC-TCTATAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
1623700 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
1623733 CCCCTT-T-TAAAG-CC-CACAAGTCAGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1623762 A-CC-T-TCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
1623792 A-CCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
1623824 ACCATTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1623857 ACCCTTCT
1 ACCCTTCT
1623865 AAACCCAATA
Statistics
Matches: 206, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.01
28 7 0.03
29 15 0.07
30 19 0.09
31 36 0.17
32 59 0.29
33 68 0.33
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1623785 original size:124 final size:125
Alignment explanation
Indices: 1623604--1623871 Score: 423
Period size: 124 Copynumber: 2.1 Consensus size: 125
1623594 TGGCACCTTT
* *
1623604 CACCCTTTTTAAAGCCCACACAAGTCGGTGGCAACCCTACTAAAGCCCACACAAGTCGGTGGCAA
1 CACCCCTTTTAAAG-CC-CACAAGTCAGTGGCAACCCTACTAAAGCCCACACAAGTCGGTGGCAA
*
1623669 CCCTCTATAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGG
64 CCCTCTATAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTTGGTGG
*
1623731 CACCCCTTTTAAAGCCCACAAGTCAGTGGCAA-CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CACCCCTTTTAAAGCCCACAAGTCAGTGGCAACCCTACTAAAGCCCACACAAGTCGGTGGCAACC
* * *
1623795 TTCTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTTGGTGG
66 CTCTATAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTTGGTGG
* *
1623855 CAACCCTTCTAAA-CCCA
1 CACCCCTTTTAAAGCCCA
1623872 ATATAGCTGG
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
123 4 0.03
124 98 0.74
125 15 0.11
126 2 0.02
127 13 0.10
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (125 bp):
CACCCCTTTTAAAGCCCACAAGTCAGTGGCAACCCTACTAAAGCCCACACAAGTCGGTGGCAACC
CTCTATAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTTGGTGG
Found at i:1623973 original size:43 final size:43
Alignment explanation
Indices: 1623869--1624143 Score: 271
Period size: 43 Copynumber: 5.9 Consensus size: 43
1623859 CCTTCTAAAC
*
1623869 CCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
* * *
1623918 CCAATGTAGCTGGCCTTAAATCAGCACATTGGCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGT
* *
1623961 CCAATATCGCTGGCCTTGAATCAGCATATTGGTACTTTTTTCACCTTTAAGC
1 CCAATATAGCTGGCCTTGAATCAGCATATTGG---------CACCTTTAAGT
*
1624013 CCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
* * *
1624062 CCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGT
1624105 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1624144 TCCATCTTTA
Statistics
Matches: 192, Mismatches: 19, Indels: 36
0.78 0.08 0.15
Matches are distributed among these distances:
43 82 0.43
45 2 0.01
47 1 0.01
49 67 0.35
52 40 0.21
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (43 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGT
Found at i:1624028 original size:52 final size:51
Alignment explanation
Indices: 1623950--1624187 Score: 253
Period size: 52 Copynumber: 4.8 Consensus size: 51
1623940 AGCACATTGG
* *
1623950 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACTTTTTT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC-TTTTT
* * *
1624002 CACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGTATATTGGCAC--CTT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTT
* * * *
1624051 CATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGG--------
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTT
*
1624094 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTT
* * ** *
1624146 CATCTTTAAGTTCAATGCAGCTGGCCTTGAATCAGCACATTG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
1624188 ACATCATTTT
Statistics
Matches: 157, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
43 39 0.25
49 39 0.25
52 79 0.50
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (51 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTT
Found at i:1624122 original size:92 final size:94
Alignment explanation
Indices: 1624002--1624187 Score: 304
Period size: 92 Copynumber: 2.0 Consensus size: 94
1623992 GTACTTTTTT
*
1624002 CACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGTATATTGGCACC-TT-CATCTTTAAGTCCA
1 CACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCA
*
1624065 ATGTAGCTGACCTTGAATCAGCACATTGG
66 ATGCAGCTGACCTTGAATCAGCACATTGG
* *
1624094 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCATCTTTAAGTCC
*
1624159 AATGCAGCTGGCCTTGAATCAGCACATTG
65 AATGCAGCTGACCTTGAATCAGCACATTG
1624188 ACATCATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
92 45 0.52
94 2 0.02
95 39 0.45
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (94 bp):
CACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCA
ATGCAGCTGACCTTGAATCAGCACATTGG
Found at i:1624128 original size:144 final size:144
Alignment explanation
Indices: 1623859--1624190 Score: 520
Period size: 144 Copynumber: 2.3 Consensus size: 144
1623849 TGGTGGCAAC
*
1623859 CCTTCTAAACCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATG
* *
1623924 TAGCTGGCCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
65 TAGCTGACCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
* * *
1623989 TTGGTACTTTTTTCA
130 TTGGCACCTTTTCCA
* *
1624004 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGT
*
1624069 AGCTGACCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGACCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1624134 TGGCACCTTTTCCA
131 TGGCACCTTTTCCA
* ** ** *
1624148 TCTTTAAGTTCAATGCAGCTGGCCTTGAATCAGCACATTGACA
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACA
1624191 TCATTTTTCT
Statistics
Matches: 170, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
144 166 0.98
145 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (144 bp):
CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGT
AGCTGACCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
TGGCACCTTTTCCA
Found at i:1624569 original size:33 final size:33
Alignment explanation
Indices: 1624532--1624598 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1624522 TTCAACGATT
1624532 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1624565 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1624598 T
1 T
1624599 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1624570 original size:13 final size:13
Alignment explanation
Indices: 1624552--1624576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1624542 CATAAAATGT
1624552 TGTATCGATACAA
1 TGTATCGATACAA
1624565 TGTATCGATACA
1 TGTATCGATACA
1624577 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1624657 original size:13 final size:13
Alignment explanation
Indices: 1624639--1624663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1624629 ATTACTCAAA
1624639 TGTATCGATACAT
1 TGTATCGATACAT
1624652 TGTATCGATACA
1 TGTATCGATACA
1624664 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1624727 original size:51 final size:52
Alignment explanation
Indices: 1624672--1624791 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
1624662 CACTGATCTT
*
1624672 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1624723 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1624775 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1624792 TAACTCTTCA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
51 19 0.29
52 44 0.67
53 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1632060 original size:13 final size:13
Alignment explanation
Indices: 1632042--1632067 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1632032 CCTAATCTTC
1632042 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
1632055 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
1632068 TAAAAAAAGG
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:1632062 original size:12 final size:12
Alignment explanation
Indices: 1632045--1632075 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1632035 AATCTTCACA
1632045 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
1632057 AAAAAAAAAAAT
1 AAAAAAAAAAAC
1632069 AAAAAAA
1 AAAAAAA
1632076 GGGGAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.94, C:0.03, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:1633059 original size:31 final size:31
Alignment explanation
Indices: 1633021--1633103 Score: 157
Period size: 31 Copynumber: 2.7 Consensus size: 31
1633011 ATACCTTTTT
*
1633021 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1633052 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1633083 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1633104 TCTTTTCCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTGCTC
Found at i:1633155 original size:34 final size:35
Alignment explanation
Indices: 1633081--1633661 Score: 692
Period size: 34 Copynumber: 16.8 Consensus size: 35
1633071 CAATCTCTGC
* * * *
1633081 TCAAAGTCCACGACTCAGTGGCA-TC-TTTTCCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
*
1633114 T-AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
1633147 TCAAAGCCCACAACTCCGTGGCACT-TTTTTCATCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T-TT
*
1633183 T--AAGTCCACAACTCCGTGGCAC-CTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
*
1633215 TTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* * *
1633249 TTAAAGCCCACAACTCTGTGGCACACTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* *
1633284 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTT
1633321 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* * *
1633355 TTAAAGCCCACAACTCTGTGGCACACTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* *
1633390 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTT
1633427 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* *
1633461 TTAAAGCCCACAACTCCGTGGCACTCTTTTTC-CT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* *
1633495 TCTAAGCCCACAACTCCGTGGCACTCTTTTTC-CT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* *
1633529 TCTAAGCCCACAACTCCGTGGCACTCTTTTTC-CT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
*
1633563 TCTAAGCCCACAACTCCGTGGCACTCTTTTTTTCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTC--TTTTT-CTTT
* * *
1633601 TTAAAGCCCACAACTCTGTGGCAC-CTTGTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* * *
1633635 T-TAAGTCCACAACTTCGTGGCA-TCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTT
1633662 CACCCTTCCT
Statistics
Matches: 496, Mismatches: 31, Indels: 42
0.87 0.05 0.07
Matches are distributed among these distances:
32 22 0.04
33 29 0.06
34 257 0.52
35 92 0.19
36 20 0.04
37 54 0.11
38 22 0.04
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (35 bp):
TCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
Found at i:1633350 original size:106 final size:105
Alignment explanation
Indices: 1633083--1633661 Score: 765
Period size: 106 Copynumber: 5.6 Consensus size: 105
1633073 ATCTCTGCTC
* * * *
1633083 AAAGTCCACGACTCAGTGGCA-TC-TTTTCC-TTT-AAAGCCCACAACTCCGTGGCACCTTCTTC
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
* * *
1633144 TTTTCAAAGCCCACAACTCCGTGGCAC-TTTTTTCATCTTT
66 TTTTTAAAGCCCACAACTCCGTGGCACACTTTTTC-TTTTT
* * *
1633184 -AAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
*
1633246 TTTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
66 TTTTTAAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
1633286 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
*
1633351 CTTTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
65 CTTTTTAAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
1633392 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
* * *
1633457 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
65 CTTTTTAAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
* *
1633498 -AAGCCCACAACTCCGTGGCACTCTTTTTCC--TTCTAAGCCCACAACTCCGTGGCACTCTTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT
* * *
1633560 CCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTTCCTTTTT
65 CTTTTTAAAGCCCACAACTCCGTGGCACAC--TTTTT-CTTTTT
* * * * *
1633603 AAAGCCCACAACTCTGTGGCAC-CTTGTT-CTTTT-TAAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
1633662 CACCCTTCCT
Statistics
Matches: 437, Mismatches: 25, Indels: 29
0.89 0.05 0.06
Matches are distributed among these distances:
100 20 0.05
101 7 0.02
102 104 0.24
103 35 0.08
104 18 0.04
105 55 0.13
106 198 0.45
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (105 bp):
AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
TTTTTAAAGCCCACAACTCCGTGGCACACTTTTTCTTTTT
Found at i:1633714 original size:140 final size:138
Alignment explanation
Indices: 1633083--1633681 Score: 659
Period size: 140 Copynumber: 4.3 Consensus size: 138
1633073 ATCTCTGCTC
* * * *
1633083 AAAGTCCACGACTCAGTGGCA-TCTTTTCC-TT-TAAAGCCCACAACTCCGTGGCAC-CTTCTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTCTAAAGCCCACAACTCTGTGGCACTCTTCTTC
* * * *
1633144 TTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCT
66 --CTCAAAGCCCACAACTCCGTGGCACCTTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACCT
1633207 TTTTCTTTTT
129 TTTTCTTTTT
* * * *
1633217 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACACTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTCTAAAGCCCACAACTCTGTGGCACTCTTCTTC
* * * * *
1633281 TTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
66 --CTCAAAGCCCACAACTCCGTGGCAC-CTTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACC
1633346 TTTTTCTTTTT
128 TTTTTCTTTTT
* * * * *
1633357 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTCTAAAGCCCACAACTCTGTGGCACTCTTCTT-
1633422 CCTTTTCAAAGCCCACAACTCCGTGGCACC-TTTTT-CTTTTTAAAGCCCACAACTCCGTGGCAC
65 CC---TCAAAGCCCACAACTCCGTGGCACCTTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCAC
* *
1633485 TCTTTTTCCTTCT
127 -CTTTTTCTTTTT
* *
1633498 -AAGCCCACAACTCCGTGGCACTCTTTTTCC-TTCT-AAGCCCACAACTCCGTGGCACTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTCCTTTCTAAAGCCCACAACTCTGTGGCACTCTTCTT
* *
1633560 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC
65 CC-TCAAAGCCCACAACTCCGTGGCAC-C-TTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCAC
*
1633625 CTTGTTCTTTTT
127 CTTTTTCTTTTT
* * * *
1633637 -AAGTCCACAACTTCGTGGCA-TCTTTCACCCTTCCTAAAGCCCACA
1 AAAGCCCACAACTCCGTGGCACTCTTT--TCCTTTCTAAAGCCCACA
1633682 CAAGTCGATG
Statistics
Matches: 407, Mismatches: 36, Indels: 37
0.85 0.08 0.08
Matches are distributed among these distances:
134 24 0.06
135 2 0.00
136 46 0.11
137 34 0.08
138 4 0.01
139 71 0.17
140 134 0.33
141 68 0.17
142 2 0.00
143 22 0.05
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (138 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTCTAAAGCCCACAACTCTGTGGCACTCTTCTTC
CTCAAAGCCCACAACTCCGTGGCACCTTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
TTCTTTTT
Found at i:1633801 original size:49 final size:49
Alignment explanation
Indices: 1633735--1634831 Score: 955
Period size: 49 Copynumber: 21.9 Consensus size: 49
1633725 GCAACCCTTC
* * *
1633735 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
*
1633784 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
1633833 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--TTT-CATCTT
* * ** *
1633885 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--C---TT-TCATCTT
* * * * * *
1633940 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TT-TCA-TCTT
* * * ** * ** * **
1633993 CTCA-TCATCATTTTTAAGTCCAATATCGCTGGCCT-TG-A-ATCAGCA-TATTGGCATCTTTAT
1 -TAAGTC--CA-ATAT-AG--C--TGGC-CTTGAATCAGCATATTGGCACT-TT--CATC-----
1634053 CTT
48 -TT
* * * * * *
1634056 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTAGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
1634105 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATCTT
* * * * *
1634154 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
*
1634203 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* * * *
1634252 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
*
1634301 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* * * *
1634350 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
*
1634399 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* * * *
1634448 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
*
1634497 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* * *
1634546 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
* *
1634589 TAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCA-TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTCATCTT
* *
1634638 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
1634681 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--TTT-CATCTT
* * ** *
1634733 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--C---TT-TCATCTT
* * * * *
1634788 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTT
1634832 ATCACTTTTC
Statistics
Matches: 855, Mismatches: 131, Indels: 123
0.77 0.12 0.11
Matches are distributed among these distances:
43 77 0.09
45 2 0.00
47 1 0.00
48 6 0.01
49 533 0.62
50 5 0.01
51 4 0.00
52 84 0.10
53 4 0.00
54 11 0.01
55 84 0.10
56 7 0.01
57 12 0.01
58 2 0.00
59 7 0.01
60 3 0.00
61 4 0.00
62 5 0.01
63 4 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTT
Found at i:1633965 original size:55 final size:53
Alignment explanation
Indices: 1633735--1634986 Score: 708
Period size: 49 Copynumber: 24.5 Consensus size: 53
1633725 GCAACCCTTC
* * * * *
1633735 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC---TT-TCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1633784 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG--GCA-TCT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* *
1633833 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTC-CATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1633885 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTCTCATCTT
* * * * * *
1633940 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---A-CA--TTT-TC-TCATC---
1634005 TT
52 TT
* * * *
1634007 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG--GCATCTT-T-ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634056 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATT-AGCAC---CT-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGA-CACATTTTCTCATCTT
* * *
1634105 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-T-ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * * *
1634154 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC---TT-TCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634203 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG--GCA-TCT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634252 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC---CT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634301 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG--GCA-TCT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634350 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC---CT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634399 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG--GCA-TCT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634448 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC---CT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634497 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG--GCA-TCT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * *
1634546 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG--GCA------C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * * *
1634589 TAAGTCCAATATCGCTGGCCTTGAATCAGTATATTG--GCA-TCT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* *
1634638 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG--GCA------C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* *
1634681 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTC-CATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634733 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTCTCATCTT
* * * * * *
1634788 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---A-CA--TTT-TC-TCATC---
1634853 TT
52 TT
* * * *
1634855 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG--GCA-TCT-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
* * * *
1634904 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATACTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGAC--ACATTTTCTCATCTT
* * * * *
1634959 TAGGCCCAATATCGTTGGCCATGAATCA
1 TAAGTCCAATATAGCTGGCCTTGAATCA
1634987 ACATATTGGC
Statistics
Matches: 981, Mismatches: 142, Indels: 154
0.77 0.11 0.12
Matches are distributed among these distances:
43 74 0.08
45 4 0.00
47 6 0.01
48 5 0.01
49 581 0.59
50 3 0.00
51 6 0.01
52 87 0.09
53 2 0.00
54 15 0.02
55 94 0.10
56 4 0.00
57 2 0.00
58 6 0.01
60 2 0.00
61 2 0.00
62 6 0.01
63 4 0.00
64 10 0.01
66 2 0.00
67 66 0.07
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (53 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCTCATCTT
Found at i:1634174 original size:98 final size:98
Alignment explanation
Indices: 1634005--1634830 Score: 1280
Period size: 98 Copynumber: 8.5 Consensus size: 98
1633995 CATCATCATT
*
1634005 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
1634070 CTGGCCTTGACTCAGCACATTAGCACCTTCACC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
* * *
1634103 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
1634168 CTGGCCTTGACTCAGCACATTGGCACTTTCACC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
*
1634201 ATTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
1634266 CTGGCCTTGACTCAGCACATTGGCACCTTCATC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
1634299 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
1634364 CTGGCCTTGACTCAGCACATTGGCACCTTCATC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
1634397 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
1634462 CTGGCCTTGACTCAGCACATTGGCACCTTCATC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
1634495 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1634560 CTGGCCTTGACTCAGCACATTGG------CACC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
*
1634587 TTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
1634652 CTGGCCTTGAATCAGCACATTGG------CACC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
* * *
1634679 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATG
* * * *
1634744 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATC
63 TAGCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCACC
* * * *
1634786 TTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1634831 TATCACTTTT
Statistics
Matches: 686, Mismatches: 27, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
92 130 0.19
94 5 0.01
95 40 0.06
98 469 0.68
105 5 0.01
107 37 0.05
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (98 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGACTCAGCACATTGGCACCTTCACC
Found at i:1634614 original size:92 final size:92
Alignment explanation
Indices: 1634494--1634764 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
1634484 GCACCTTCAT
1634494 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
1634559 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
1634586 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1634651 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
1634678 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
1634743 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
1634765 GTTGACATCC
Statistics
Matches: 170, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
92 128 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1634968 original size:171 final size:171
Alignment explanation
Indices: 1634678--1635072 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
1634668 ACATTGGCAC
*
1634678 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
*
1634743 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATACTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
1634808 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
1634852 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
1634917 GCTGGCCTTGAATCAGCACGTTGACATACTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATACTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
1634982 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
1635023 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1635073 ATCTCTAAAA
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 169 0.80
172 5 0.02
174 38 0.18
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATACTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:1635328 original size:169 final size:170
Alignment explanation
Indices: 1635139--1635461 Score: 524
Period size: 169 Copynumber: 1.9 Consensus size: 170
1635129 CTTCGAGCCT
1635139 AATATCGCTAGCCGCATATTGGCTCTTTTATCCTTCTTCTCATCTTTCAACCCAATATCGTTGGC
1 AATATCGCTAGCCGCATATTGGCTCTTTTATCCTTCTTCTCATCTTTCAACCCAATATCGTTGGC
* *
1635204 CGTGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCATCTTTAAGTCCAATGTCGC
66 CGTGAATCAACATATTGGTCAT-TTTATCACTTTCCATCATCATCATCTTTAAGTCCAATGTCGC
* *
1635267 TGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCC
130 AGGCCTTGAATCAGCACAGTGGCACCTTTATCTTTAAGTCC
*
1635308 AATATCGCTAGCCGCATATTGGCTCTTTTATCCTTCTTCTCATCTTTCAACCCAATATTGTTGGC
1 AATATCGCTAGCCGCATATTGGCTCTTTTATCCTTCTTCTCATCTTTCAACCCAATATCGTTGGC
* * * * *
1635373 CGTGAATCAACGTATTGGTCCTTTTATCACTTTCCATCCTCATCATCTTTAAGTCCAGTGTGGCA
66 CGTGAATCAACATATTGGTCATTTTATCACTTTCCATCATCATCATCTTTAAGTCCAATGTCGCA
*
1635438 GGCCTTGAATCTGCACAGTGGCAC
131 GGCCTTGAATCAGCACAGTGGCAC
1635462 ATTGCAAAAC
Statistics
Matches: 141, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
169 93 0.66
170 48 0.34
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (170 bp):
AATATCGCTAGCCGCATATTGGCTCTTTTATCCTTCTTCTCATCTTTCAACCCAATATCGTTGGC
CGTGAATCAACATATTGGTCATTTTATCACTTTCCATCATCATCATCTTTAAGTCCAATGTCGCA
GGCCTTGAATCAGCACAGTGGCACCTTTATCTTTAAGTCC
Found at i:1636077 original size:33 final size:33
Alignment explanation
Indices: 1636040--1636106 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1636030 TTCAACGATT
1636040 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1636073 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1636106 T
1 T
1636107 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1636078 original size:13 final size:13
Alignment explanation
Indices: 1636060--1636084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1636050 CATAAAATGT
1636060 TGTATCGATACAA
1 TGTATCGATACAA
1636073 TGTATCGATACA
1 TGTATCGATACA
1636085 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1636165 original size:13 final size:13
Alignment explanation
Indices: 1636147--1636171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1636137 ATTACTCAAA
1636147 TGTATCGATACAT
1 TGTATCGATACAT
1636160 TGTATCGATACA
1 TGTATCGATACA
1636172 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1636235 original size:51 final size:52
Alignment explanation
Indices: 1636180--1636299 Score: 199
Period size: 52 Copynumber: 2.3 Consensus size: 52
1636170 CACTGATCTT
* *
1636180 TGTATCGATACATGCAGGC-AATTTGCTCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1636231 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1636283 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1636300 TAACTCTTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 19 0.29
52 43 0.66
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1639485 original size:49 final size:49
Alignment explanation
Indices: 1639413--1639529 Score: 216
Period size: 49 Copynumber: 2.4 Consensus size: 49
1639403 CTTTTCTCAT
*
1639413 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1639462 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
*
1639511 CTTTATCTTTAAGTCCAAT
1 CTTCATCTTTAAGTCCAAT
1639530 ATCACTAGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1640277 original size:13 final size:13
Alignment explanation
Indices: 1640259--1640315 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1640249 CATAAAATGT
1640259 TGTATCGATACAA
1 TGTATCGATACAA
*
1640272 TGTATCGATGCATAA
1 TGTATCGAT--ACAA
1640287 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1640304 TGTATCGATACA
1 TGTATCGATACA
1640316 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 21 0.58
15 3 0.08
17 3 0.08
19 9 0.25
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1640297 original size:32 final size:32
Alignment explanation
Indices: 1640239--1640336 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
1640229 TTCAACGATT
*
1640239 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
1640272 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1640304 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1640336 T
1 T
1640337 TTAAGCTACT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 49 0.80
33 12 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1640328 original size:19 final size:17
Alignment explanation
Indices: 1640236--1640334 Score: 70
Period size: 19 Copynumber: 5.9 Consensus size: 17
1640226 AAATTCAACG
1640236 ATTTGTATCGATACATAAA
1 ATTTGTATCGATACAT--A
1640255 ATGTTGTATCGATAC--A
1 AT-TTGTATCGATACATA
*
1640271 A--TGTATCGATGCATA
1 ATTTGTATCGATACATA
1640286 AGTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
1640303 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
1640318 AGTTTTGTATCGATACA
1 A--TTTGTATCGATACA
1640335 ATTTAAGCTA
Statistics
Matches: 65, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.32
15 4 0.06
16 2 0.03
17 2 0.03
19 24 0.37
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (17 bp):
ATTTGTATCGATACATA
Found at i:1640395 original size:13 final size:13
Alignment explanation
Indices: 1640377--1640401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1640367 ATTACTCAAA
1640377 TGTATCGATACAT
1 TGTATCGATACAT
1640390 TGTATCGATACA
1 TGTATCGATACA
1640402 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1640466 original size:52 final size:52
Alignment explanation
Indices: 1640410--1640538 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1640400 CACTGATCTT
* *
1640410 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1640462 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1640514 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1640539 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1644024 original size:1 final size:1
Alignment explanation
Indices: 1644020--1644062 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
1644010 TTTTTTGCTA
* * * *
1644020 TTTTTTCTTTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1644063 GGGTGTAAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:1644043 original size:13 final size:13
Alignment explanation
Indices: 1644027--1644062 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1644017 CTATTTTTTC
1644027 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
*
1644040 TTTTTTGTTTTGT
1 TTTTTTTTTTTGT
1644053 TTTTTTTTTT
1 TTTTTTTTTT
1644063 GGGTGTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:1644043 original size:20 final size:21
Alignment explanation
Indices: 1644010--1644062 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
1644000 GATCCTTCTA
1644010 TTTTTTGCTATTTTTTCTTTT-T
1 TTTTTTG-T-TTTTTTCTTTTGT
*
1644032 TTTTTTGTTTTTTTGTTTTGT
1 TTTTTTGTTTTTTTCTTTTGT
1644053 TTTTTT-TTTT
1 TTTTTTGTTTT
1644063 GGGTGTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 14 0.48
21 8 0.28
22 7 0.24
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.87
Consensus pattern (21 bp):
TTTTTTGTTTTTTTCTTTTGT
Found at i:1644063 original size:12 final size:12
Alignment explanation
Indices: 1644020--1644063 Score: 70
Period size: 12 Copynumber: 3.6 Consensus size: 12
1644010 TTTTTTGCTA
*
1644020 TTTTTTCTTTTT
1 TTTTTTGTTTTT
1644032 TTTTTTGTTTTT
1 TTTTTTGTTTTT
1644044 TTGTTTTGTTTTT
1 TT-TTTTGTTTTT
1644057 TTTTTTG
1 TTTTTTG
1644064 GGTGTAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 18 0.60
13 12 0.40
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:1648860 original size:21 final size:21
Alignment explanation
Indices: 1648831--1648880 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
1648821 AGCCATAATA
*
1648831 TTGTTCACCAACCGATCCAAT
1 TTGTCCACCAACCGATCCAAT
1648852 TTGTCCACCAACCGATCCAAT
1 TTGTCCACCAACCGATCCAAT
1648873 TTGTCCAC
1 TTGTCCAC
1648881 AGAGACTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.36, G:0.10, T:0.28
Consensus pattern (21 bp):
TTGTCCACCAACCGATCCAAT
Found at i:1658082 original size:20 final size:20
Alignment explanation
Indices: 1658032--1658201 Score: 85
Period size: 20 Copynumber: 8.9 Consensus size: 20
1658022 GGTAAAAAGG
1658032 CATAATGTATCGATACATTA
1 CATAATGTATCGATACATTA
* *
1658052 CAGAATATATCGATACATT-
1 CATAATGTATCGATACATTA
* *
1658071 CATACATGTATCGATATATCGA
1 CATA-ATGTATCGATACAT-TA
* *
1658093 -AAAATGTATCAATACA-T-
1 CATAATGTATCGATACATTA
** * *
1658110 C--AGGGTA---A-AAATGA
1 CATAATGTATCGATACATTA
*
1658124 CATAATGTATCGATACATTG
1 CATAATGTATCGATACATTA
* *
1658144 CAGAATATATCGATACATT-
1 CATAATGTATCGATACATTA
*
1658163 CATACATGTATCGATATATTGA
1 CATA-ATGTATCGATACATT-A
*
1658185 -AAAATGTATCGATACAT
1 CATAATGTATCGATACAT
1658202 CAGGGTAAAA
Statistics
Matches: 109, Mismatches: 26, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 1 0.01
16 8 0.07
19 7 0.06
20 86 0.79
21 4 0.04
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (20 bp):
CATAATGTATCGATACATTA
Found at i:1658158 original size:92 final size:92
Alignment explanation
Indices: 1658004--1658214 Score: 363
Period size: 92 Copynumber: 2.3 Consensus size: 92
1657994 TACATTATTC
*
1658004 AATGTATCGATACATCTA-GGTAAAAA-GGCATAATGTATCGATACATTACAGAATATATCGATA
1 AATGTATCGATACATC-AGGGTAAAAATGACATAATGTATCGATACATTACAGAATATATCGATA
1658067 CATTCATACATGTATCGATATATCGAAA
65 CATTCATACATGTATCGATATATCGAAA
* *
1658095 AATGTATCAATACATCAGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATAC
1 AATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTACAGAATATATCGATAC
*
1658160 ATTCATACATGTATCGATATATTGAAA
66 ATTCATACATGTATCGATATATCGAAA
1658187 AATGTATCGATACATCAGGGTAAAAATG
1 AATGTATCGATACATCAGGGTAAAAATG
1658215 TGACACTTTT
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
90 1 0.01
91 23 0.20
92 89 0.79
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (92 bp):
AATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTACAGAATATATCGATAC
ATTCATACATGTATCGATATATCGAAA
Found at i:1658173 original size:40 final size:39
Alignment explanation
Indices: 1658124--1658201 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1658114 GTAAAAATGA
* *
1658124 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1658163 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1658202 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1661311 original size:15 final size:16
Alignment explanation
Indices: 1661281--1661347 Score: 86
Period size: 15 Copynumber: 4.3 Consensus size: 16
1661271 TATATATATA
1661281 ATTTTTAAATTTAAATT
1 ATTTTT-AATTTAAATT
1661298 ATTTTTAA-TTAAATT
1 ATTTTTAATTTAAATT
* *
1661313 ATTTTAAATTTATATT
1 ATTTTTAATTTAAATT
1661329 ATTTTT-ATTT-AATT
1 ATTTTTAATTTAAATT
1661343 ATTTT
1 ATTTT
1661348 GAATAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
14 8 0.18
15 18 0.40
16 13 0.29
17 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTAATTTAAATT
Found at i:1661321 original size:31 final size:30
Alignment explanation
Indices: 1661283--1661347 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 30
1661273 TATATATAAT
1661283 TTTTAAATTTAAATTATTTTTAATTAAATTA
1 TTTTAAATTTAAATTATTTTT-ATTAAATTA
* *
1661314 TTTTAAATTTATATTATTTTTATTTAATTA
1 TTTTAAATTTAAATTATTTTTATTAAATTA
1661344 TTTT
1 TTTT
1661348 GAATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTAAATTTAAATTATTTTTATTAAATTA
Found at i:1661417 original size:15 final size:15
Alignment explanation
Indices: 1661395--1661469 Score: 54
Period size: 15 Copynumber: 5.4 Consensus size: 15
1661385 ATTTTCATAA
*
1661395 TTAAATTATTCAGAT
1 TTAAATTATTCAAAT
* *
1661410 TTAGATTATTTAAAT
1 TTAAATTATTCAAAT
1661425 TTAAATTATT---AT
1 TTAAATTATTCAAAT
* **
1661437 TTAATTTATTCATTT
1 TTAAATTATTCAAAT
1661452 TTAAA--ATT-AAAT
1 TTAAATTATTCAAAT
1661464 TTAAAT
1 TTAAAT
1661470 AAAATTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
12 18 0.38
13 3 0.06
15 26 0.55
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
TTAAATTATTCAAAT
Found at i:1662959 original size:3 final size:3
Alignment explanation
Indices: 1662953--1662989 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1662943 ATTAAGAAAG
1662953 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1662990 AGAAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1663781 original size:9 final size:9
Alignment explanation
Indices: 1663769--1663812 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
1663759 AATTAAATTA
1663769 ATTTTATAT
1 ATTTTATAT
1663778 ATTTTTATAAT
1 A-TTTTAT-AT
*
1663789 TTTTTATAT
1 ATTTTATAT
1663798 ATTTTATAT
1 ATTTTATAT
*
1663807 TTTTTA
1 ATTTTA
1663813 ATTTAACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 16 0.53
10 12 0.40
11 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
ATTTTATAT
Found at i:1663790 original size:18 final size:19
Alignment explanation
Indices: 1663767--1663809 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1663757 AAAATTAAAT
1663767 TAATTTTATATAT-TTTTA
1 TAATTTTATATATATTTTA
*
1663785 TAATTTTTTATATATTTTA
1 TAATTTTATATATATTTTA
1663804 T-ATTTT
1 TAATTTT
1663810 TTAATTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TAATTTTATATATATTTTA
Found at i:1663810 original size:18 final size:20
Alignment explanation
Indices: 1663770--1663812 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1663760 ATTAAATTAA
1663770 TTTTATATATTTTTATAATT
1 TTTTATATATTTTTATAATT
1663790 TTTTATATA-TTTTAT-ATT
1 TTTTATATATTTTTATAATT
1663808 TTTTA
1 TTTTA
1663813 ATTTAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 6 0.26
20 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATATATTTTTATAATT
Found at i:1663838 original size:21 final size:21
Alignment explanation
Indices: 1663799--1663838 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1663789 TTTTTATATA
**
1663799 TTTTATATTTTTTAATTTAAC
1 TTTTATATTTCATAATTTAAC
*
1663820 TTTTATATTTCATATTTTA
1 TTTTATATTTCATAATTTA
1663839 TTCACTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATATTTCATAATTTAAC
Found at i:1664016 original size:9 final size:9
Alignment explanation
Indices: 1664004--1664047 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
1663994 AATTAAATTA
1664004 ATTTTATAT
1 ATTTTATAT
1664013 ATTTTTATAAT
1 A-TTTTAT-AT
*
1664024 TTTTTATAT
1 ATTTTATAT
1664033 ATTTTATAT
1 ATTTTATAT
*
1664042 TTTTTA
1 ATTTTA
1664048 ATTCAACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 16 0.53
10 12 0.40
11 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
ATTTTATAT
Found at i:1664025 original size:18 final size:19
Alignment explanation
Indices: 1664002--1664044 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1663992 AAAATTAAAT
1664002 TAATTTTATATAT-TTTTA
1 TAATTTTATATATATTTTA
*
1664020 TAATTTTTTATATATTTTA
1 TAATTTTATATATATTTTA
1664039 T-ATTTT
1 TAATTTT
1664045 TTAATTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TAATTTTATATATATTTTA
Found at i:1664045 original size:18 final size:20
Alignment explanation
Indices: 1664005--1664047 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1663995 ATTAAATTAA
1664005 TTTTATATATTTTTATAATT
1 TTTTATATATTTTTATAATT
1664025 TTTTATATA-TTTTAT-ATT
1 TTTTATATATTTTTATAATT
1664043 TTTTA
1 TTTTA
1664048 ATTCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 6 0.26
20 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATATATTTTTATAATT
Found at i:1664098 original size:235 final size:235
Alignment explanation
Indices: 1663738--1664194 Score: 851
Period size: 235 Copynumber: 1.9 Consensus size: 235
1663728 ATATATAATA
1663738 TACGAGAAGTGATTCACGTAAAATTAAATTAATTTTATATATTTTTATAATTTTTTATATATTTT
1 TACGAGAAGTGATTCACGTAAAATTAAATTAATTTTATATATTTTTATAATTTTTTATATATTTT
* *
1663803 ATATTTTTTAATTTAACTTTTATATTTCATATTTTATTCACTTAATTTAGACAGGTTGAGTTTTA
66 ATATTTTTTAATTCAACTTTTATATTTCATATTTTATTCACTTAATTTAGACACGTTGAGTTTTA
* * *
1663868 AGTAAATAAAAATTATCTAATTATTTATTAGATGTAAAAAAATTTAAATATTAAAAATAAAATAA
131 AGTAAATAAAAATTATCTAACTATTTATTAGATATAAAAAAAATTAAATATTAAAAATAAAATAA
1663933 TATTCTAAATCGATAGCATAGAATGTTATCGATTTAGAAT
196 TATTCTAAATCGATAGCATAGAATGTTATCGATTTAGAAT
1663973 TACGAGAAGTGATTCACGTAAAATTAAATTAATTTTATATATTTTTATAATTTTTTATATATTTT
1 TACGAGAAGTGATTCACGTAAAATTAAATTAATTTTATATATTTTTATAATTTTTTATATATTTT
*
1664038 ATATTTTTTAATTCAACTTTTATATTTTATATTTTATTCACTTAATTTAGACACGTTGAGTTTTA
66 ATATTTTTTAATTCAACTTTTATATTTCATATTTTATTCACTTAATTTAGACACGTTGAGTTTTA
1664103 AGTAAATAAAAATTATCTAACTATTTATTAGATATAAAAAAAATTAAATATTAAAAATAAAATAA
131 AGTAAATAAAAATTATCTAACTATTTATTAGATATAAAAAAAATTAAATATTAAAAATAAAATAA
*
1664168 TATTTTAAATCGATAGCATAGAATGTT
196 TATTCTAAATCGATAGCATAGAATGTT
1664195 GAATCAATTT
Statistics
Matches: 215, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
235 215 1.00
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (235 bp):
TACGAGAAGTGATTCACGTAAAATTAAATTAATTTTATATATTTTTATAATTTTTTATATATTTT
ATATTTTTTAATTCAACTTTTATATTTCATATTTTATTCACTTAATTTAGACACGTTGAGTTTTA
AGTAAATAAAAATTATCTAACTATTTATTAGATATAAAAAAAATTAAATATTAAAAATAAAATAA
TATTCTAAATCGATAGCATAGAATGTTATCGATTTAGAAT
Found at i:1666956 original size:20 final size:20
Alignment explanation
Indices: 1666917--1666956 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1666907 TGGTTGATAG
* * *
1666917 TTTTATTTTTTAATATATAA
1 TTTTATATTTTAAAAAATAA
1666937 TTTTATATTTTAAAAAATAA
1 TTTTATATTTTAAAAAATAA
1666957 AACTAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTATATTTTAAAAAATAA
Found at i:1669188 original size:30 final size:31
Alignment explanation
Indices: 1669154--1669233 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
1669144 TTTTATTTAA
* *
1669154 AATAAAAATTTATTTAAATATA-AATTAAAG
1 AATAAAAAATTATTTAAATATACAATAAAAG
* *
1669184 AATAAAAACTTACTT-AAT-TACAATAAAAG
1 AATAAAAAATTATTTAAATATACAATAAAAG
*
1669213 ATATAAAAAATTATCTAAATA
1 A-ATAAAAAATTATTTAAATA
1669234 AAGTAACGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
28 2 0.05
29 11 0.28
30 24 0.60
31 3 0.08
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (31 bp):
AATAAAAAATTATTTAAATATACAATAAAAG
Found at i:1670075 original size:19 final size:20
Alignment explanation
Indices: 1670047--1670088 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1670037 AAATTTACTG
*
1670047 ATTATTATATA-AATTAAAA
1 ATTATAATATAGAATTAAAA
1670066 ATTATAATATATGAATTAAAA
1 ATTATAATATA-GAATTAAAA
1670087 AT
1 AT
1670089 ATTCATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATTATAATATAGAATTAAAA
Found at i:1673723 original size:11 final size:11
Alignment explanation
Indices: 1673698--1673782 Score: 64
Period size: 13 Copynumber: 7.3 Consensus size: 11
1673688 TTAATAATTT
1673698 TAAATATAATTTA
1 TAAATATAA--TA
*
1673711 TAAATTTAATA
1 TAAATATAATA
1673722 TAAA-ATAATA
1 TAAATATAATA
*
1673732 TAAATAAAATA
1 TAAATATAATA
*
1673743 TAAAAATATAAAA
1 T--AAATATAATA
*
1673756 TATATATAATA
1 TAAATATAATA
*
1673767 AAAATTATGAATA
1 TAAA-TAT-AATA
1673780 TAA
1 TAA
1673783 TAAAATTTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
10 9 0.16
11 22 0.39
12 3 0.05
13 23 0.40
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (11 bp):
TAAATATAATA
Found at i:1673728 original size:7 final size:7
Alignment explanation
Indices: 1673718--1673759 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
1673708 TTATAAATTT
1673718 AATATAA
1 AATATAA
*
1673725 AATAATAT
1 AAT-ATAA
1673733 AA-ATAA
1 AATATAA
1673739 AATATAAA
1 AATAT-AA
1673747 AATATAA
1 AATATAA
1673754 AATATA
1 AATATA
1673760 TATAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 5 0.17
7 13 0.43
8 12 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATATAA
Found at i:1673762 original size:19 final size:20
Alignment explanation
Indices: 1673717--1673764 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
1673707 TTTATAAATT
1673717 TAATATA-AAATAATATAAA
1 TAATATATAAATAATATAAA
*
1673736 TAAAATATAAA-AATATAAA
1 TAATATATAAATAATATAAA
1673755 -ATATATATAA
1 TA-ATATATAA
1673765 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.84
20 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TAATATATAAATAATATAAA
Found at i:1674566 original size:32 final size:32
Alignment explanation
Indices: 1674488--1674582 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
1674478 AAAATAATAT
1674488 AATTATTTAAT-TAAA-TA-AAATATA--AAA
1 AATTATTTAATATAAATTATAAATATATTAAA
* *
1674515 AATATATGT-ATCATTAATTATAAATATATTAAA
1 AAT-TATTTAAT-ATAAATTATAAATATATTAAA
*
1674548 AATTATTTAATATAAATTATTAATAT-TTAAA
1 AATTATTTAATATAAATTATAAATATATTAAA
1674579 AATT
1 AATT
1674583 TATATAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
27 5 0.09
28 4 0.07
29 3 0.05
30 2 0.04
31 16 0.29
32 17 0.31
33 8 0.15
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (32 bp):
AATTATTTAATATAAATTATAAATATATTAAA
Found at i:1674581 original size:17 final size:17
Alignment explanation
Indices: 1674530--1674582 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 17
1674520 ATGTATCATT
*
1674530 AATTATAAATATATTAAA
1 AATTATTAATAT-TTAAA
1674548 AATTATTTAATA--T--A
1 AATTA-TTAATATTTAAA
1674562 AATTATTAATATTTAAA
1 AATTATTAATATTTAAA
1674579 AATT
1 AATT
1674583 TATATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 1 0.03
16 1 0.03
17 5 0.17
18 5 0.17
19 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATTAATATTTAAA
Found at i:1675026 original size:4 final size:4
Alignment explanation
Indices: 1675019--1675052 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
1675009 ATTTTGTTTG
*
1675019 ATTT ATTT ATTT ATTT ATTT ATTT ACTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1675053 AATTTAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:1675807 original size:17 final size:16
Alignment explanation
Indices: 1675784--1675835 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
1675774 TATATATTTT
1675784 TATTAATTTTTTGTT-A
1 TATTAATTTTTT-TTAA
1675800 TATATAATATTTTTTTAA
1 TAT-TAAT-TTTTTTTAA
1675818 TATTAATTTTTTATTAA
1 TATTAATTTTTT-TTAA
1675835 T
1 T
1675836 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.25
17 15 0.47
18 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTAATTTTTTTTAA
Found at i:1676263 original size:20 final size:21
Alignment explanation
Indices: 1676234--1676272 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1676224 CTTAAAGGTT
1676234 TGGGGGTTTC-ACCTCACTAG
1 TGGGGGTTTCTACCTCACTAG
*
1676254 TGGGGTTTTCTACCTCACT
1 TGGGGGTTTCTACCTCACT
1676273 GGGGTTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.13, C:0.26, G:0.26, T:0.36
Consensus pattern (21 bp):
TGGGGGTTTCTACCTCACTAG
Found at i:1676462 original size:19 final size:18
Alignment explanation
Indices: 1676417--1676467 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1676407 TAATTTTTAC
* *
1676417 TTATTATTTTACATAATT
1 TTATTATTTAATATAATT
*
1676435 TAATT-TTTAATATATATT
1 TTATTATTTAATATA-ATT
1676453 TTATTATTTAATATA
1 TTATTATTTAATATA
1676468 CATATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.26
18 11 0.41
19 9 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATTTAATATAATT
Found at i:1676479 original size:17 final size:16
Alignment explanation
Indices: 1676459--1676510 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
1676449 TATTTTATTA
1676459 TTTAATATACATATAAT
1 TTTAATATACATAT-AT
* *
1676476 TTTAATA-ACTTATTT
1 TTTAATATACATATAT
*
1676491 TTTAATATAAATAATAT
1 TTTAATATACAT-ATAT
1676508 TTT
1 TTT
1676511 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 13 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAATATACATATAT
Found at i:1676495 original size:32 final size:30
Alignment explanation
Indices: 1676453--1676540 Score: 98
Period size: 25 Copynumber: 3.1 Consensus size: 30
1676443 AATATATATT
*
1676453 TTATTATTTAATATACATATAATTTTAATAA
1 TTATTTTTTAATATA-ATATAATTTTAATAA
*
1676484 CTTATTTTTTAATATAA-ATAATATT--T--
1 -TTATTTTTTAATATAATATAATTTTAATAA
1676510 TTATTTTTTAATA-AATATAATTTTAATAA
1 TTATTTTTTAATATAATATAATTTTAATAA
1676539 TT
1 TT
1676541 TTTATTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
24 2 0.04
25 20 0.42
27 1 0.02
28 1 0.02
29 2 0.04
30 7 0.15
31 1 0.02
32 14 0.29
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TTATTTTTTAATATAATATAATTTTAATAA
Found at i:1676544 original size:32 final size:32
Alignment explanation
Indices: 1676417--1676610 Score: 110
Period size: 32 Copynumber: 6.1 Consensus size: 32
1676407 TAATTTTTAC
*
1676417 TTATTATTTTACAT-AATTTAATTTTTAATATATATT
1 TTATT-TTTTA-ATAAATATAA-TTTTAATA-AT-TT
* *
1676453 TTATTATTTAATATACATATAATTTTAATAA--C
1 TTATTTTTTAATA-A-ATATAATTTTAATAATTT
1676485 TTATTTTTTAAT--ATA-AA---TAAT-ATTT
1 TTATTTTTTAATAAATATAATTTTAATAATTT
1676510 TTATTTTTTAATAAATATAATTTTAATAATTT
1 TTATTTTTTAATAAATATAATTTTAATAATTT
*
1676542 TTATTATTATTTAAATCAATATAA-TTT-AT-A-TT
1 TTA-T-TT-TTT-AATAAATATAATTTTAATAATTT
* * *
1676574 TTATTATTTAACATAAATATAATTTTATTAAATT
1 TTATT-TTTTA-ATAAATATAATTTTAATAATTT
1676608 TTA
1 TTA
1676611 ATTATTTATT
Statistics
Matches: 127, Mismatches: 9, Indels: 46
0.70 0.05 0.25
Matches are distributed among these distances:
23 1 0.01
24 4 0.03
25 12 0.09
27 5 0.04
28 5 0.04
29 1 0.01
30 12 0.09
31 9 0.07
32 24 0.19
33 3 0.02
34 11 0.09
35 11 0.09
36 24 0.19
37 5 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (32 bp):
TTATTTTTTAATAAATATAATTTTAATAATTT
Found at i:1676555 original size:35 final size:34
Alignment explanation
Indices: 1676500--1676617 Score: 104
Period size: 35 Copynumber: 3.5 Consensus size: 34
1676490 TTTTAATATA
*
1676500 AATAATATTT-TTATTTTTTAATAAATATAATTTT
1 AATAATTTTTATTA-TTTTTAATAAATATAATTTT
*
1676534 AATAATTTTTATTATTATTTAAATCAATATAA-TTT
1 AATAATTTTTATTATT-TTT-AATAAATATAATTTT
*
1676569 -AT-A-TTTTATTA-TTTAACATAAATATAATTTT
1 AATAATTTTTATTATTTTTA-ATAAATATAATTTT
* *
1676600 ATTAAATTTTAATTATTT
1 AAT-AATTTTTATTATTT
1676618 ATTATATTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
29 1 0.01
30 11 0.16
31 4 0.06
32 9 0.13
33 1 0.01
34 14 0.21
35 16 0.24
36 12 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (34 bp):
AATAATTTTTATTATTTTTAATAAATATAATTTT
Found at i:1676557 original size:55 final size:59
Alignment explanation
Indices: 1676446--1676574 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 59
1676436 AATTTTTAAT
1676446 ATATATTTTATTATTTAATATACATATAATTTTAATAACTTATTTTTTAATATAAAT-A
1 ATATATTTTATTATTTAATATACATATAATTTTAATAACTTATTTTTTAATATAAATCA
* * *
1676504 ATAT-TTTTATTTTTTAATA-A-ATATAATTTTAATAA-TT-TTTATTATTATTTAAATCA
1 ATATATTTTATTATTTAATATACATATAATTTTAATAACTTATTT-TT-TAATATAAATCA
*
1676560 ATATAATTTA-TATTT
1 ATATATTTTATTATTT
1676575 TATTATTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
53 3 0.05
54 4 0.06
55 23 0.37
56 10 0.16
57 18 0.29
58 4 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (59 bp):
ATATATTTTATTATTTAATATACATATAATTTTAATAACTTATTTTTTAATATAAATCA
Found at i:1677096 original size:12 final size:12
Alignment explanation
Indices: 1677079--1677121 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1677069 CTTGTATATA
1677079 AAATTTTTAATT
1 AAATTTTTAATT
** *
1677091 AAATTTAGATATA
1 AAATTTTTA-ATT
1677104 AAATTTTTAATT
1 AAATTTTTAATT
1677116 AAATTT
1 AAATTT
1677122 GTATATAGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
AAATTTTTAATT
Found at i:1677127 original size:25 final size:25
Alignment explanation
Indices: 1677070--1677128 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
1677060 ACTGAACTTC
1677070 TTGTATATAAAATTTTTAATTAAAT
1 TTGTATATAAAATTTTTAATTAAAT
1677095 TTAG-ATATAAAATTTTTAATTAAAT
1 TT-GTATATAAAATTTTTAATTAAAT
1677120 TTGTATATA
1 TTGTATATA
1677129 GAGATTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (25 bp):
TTGTATATAAAATTTTTAATTAAAT
Found at i:1677238 original size:27 final size:27
Alignment explanation
Indices: 1677205--1677260 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
1677195 TTTTATGCAA
* *
1677205 AATTTTTAACTGAACTTCTTATATATAG
1 AATTTTTAACTAAACTT-GTATATATAG
*
1677233 AATTTTTAATTAAACTTGTATATATAG
1 AATTTTTAACTAAACTTGTATATATAG
1677260 A
1 A
1677261 TTAAAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (27 bp):
AATTTTTAACTAAACTTGTATATATAG
Found at i:1677239 original size:128 final size:128
Alignment explanation
Indices: 1677078--1677394 Score: 428
Period size: 128 Copynumber: 2.5 Consensus size: 128
1677068 TCTTGTATAT
* *
1677078 AAAATTTTTAATTAAA--TTT-AGATATAAAATTTTTAATTAAATTTGTATATAGAGATTAAAAC
1 AAAATTTTTAACTAAACTTTTCATATATAAAATTTTTAATTAAATTTGTATATAGAGATTAAAAC
* * * **
1677140 TAAAAATAGAATTTATAACTAACCTTTCCAGTAACAAGAATTTTAAATTAAACTTTTTTATGC
66 TAAAAATAAAATTTATAACTAACCTTTCCAATAACAAGAATTTAAAATTAAACTTTTTTACAC
* * * *
1677203 AAAATTTTTAACTGAACTTCTT-ATATATAGAATTTTTAATTAAACTTGTATATATAGATTAAAA
1 AAAATTTTTAACTAAACTT-TTCATATATAAAATTTTTAATTAAATTTGTATATAGAGATTAAAA
* *
1677267 CTAACAATAAAATTTCTAACTAACCTTTCCAATAACAAGAATTTAAAATTAAACTTTTTTACAC
65 CTAAAAATAAAATTTATAACTAACCTTTCCAATAACAAGAATTTAAAATTAAACTTTTTTACAC
* * *
1677331 AAAATTTTTAATTAAACTTTTCGTATATAAAATTTTTAATTAAATTTATACATATAGA-ATTAAA
1 AAAATTTTTAACTAAACTTTTCATATATAAAATTTTTAATTAAATTTGT--ATATAGAGATTAAA
1677395 TATCACACAT
Statistics
Matches: 166, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
125 14 0.08
127 3 0.02
128 137 0.83
129 6 0.04
130 6 0.04
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (128 bp):
AAAATTTTTAACTAAACTTTTCATATATAAAATTTTTAATTAAATTTGTATATAGAGATTAAAAC
TAAAAATAAAATTTATAACTAACCTTTCCAATAACAAGAATTTAAAATTAAACTTTTTTACAC
Found at i:1677343 original size:27 final size:28
Alignment explanation
Indices: 1677313--1677374 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
1677303 AAGAATTTAA
*
1677313 AATTAAACTTTT-TTACACAAAATTTTT
1 AATTAAACTTTTCGTACACAAAATTTTT
* *
1677340 AATTAAACTTTTCGTATATAAAATTTTT
1 AATTAAACTTTTCGTACACAAAATTTTT
1677368 AATTAAA
1 AATTAAA
1677375 TTTATACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (28 bp):
AATTAAACTTTTCGTACACAAAATTTTT
Found at i:1678033 original size:14 final size:14
Alignment explanation
Indices: 1678005--1678048 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
1677995 TCTTTAATCC
1678005 TCTTCA-TCT-TTA
1 TCTTCATTCTATTA
1678017 TCTTCATTCTATTA
1 TCTTCATTCTATTA
*
1678031 TCTTCATTCTATTT
1 TCTTCATTCTATTA
1678045 TCTT
1 TCTT
1678049 TTCTTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 20 0.69
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (14 bp):
TCTTCATTCTATTA
Found at i:1678538 original size:11 final size:11
Alignment explanation
Indices: 1678506--1678546 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
1678496 CATGTTATTG
1678506 TTTACTTTAT-
1 TTTACTTTATA
*
1678516 TTTA-TTTTTA
1 TTTACTTTATA
1678526 TTTACTTTATA
1 TTTACTTTATA
1678537 TTTACTTTAT
1 TTTACTTTAT
1678547 GTTCATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 4 0.15
10 8 0.30
11 15 0.56
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTACTTTATA
Found at i:1678545 original size:20 final size:20
Alignment explanation
Indices: 1678506--1678546 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1678496 CATGTTATTG
*
1678506 TTTACTTTATTTTATTTTTA
1 TTTACTTTATTTTATCTTTA
1678526 TTTACTTTATATTTA-CTTTA
1 TTTACTTTAT-TTTATCTTTA
1678546 T
1 T
1678547 GTTCATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTACTTTATTTTATCTTTA
Found at i:1681793 original size:29 final size:28
Alignment explanation
Indices: 1681760--1681857 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 28
1681750 ACATATAATA
1681760 TAGGATCATTTTAGCAATTTTCATCATTT
1 TAGGA-CATTTTAGCAATTTTCATCATTT
** *
1681789 TAGGACA-TTTACGTTATTTTACATAATTT
1 TAGGACATTTTA-GCAATTTT-CATCATTT
**
1681818 ATA-CTCATTTTAGCAATTTTCATGCATTT
1 -TAGGACATTTTAGCAATTTTCAT-CATTT
1681847 TAGAGACATTT
1 TAG-GACATTT
1681858 AGATTATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
27 4 0.08
28 13 0.25
29 24 0.46
30 11 0.21
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (28 bp):
TAGGACATTTTAGCAATTTTCATCATTT
Found at i:1681813 original size:59 final size:58
Alignment explanation
Indices: 1681741--1681899 Score: 188
Period size: 57 Copynumber: 2.8 Consensus size: 58
1681731 GGGCCATACA
1681741 AGTTATTTTACATATAATATAGGATCATTTTAGCAATTTTCATCATTTTAG-GACATTT
1 AGTTATTTTACATATAATATAGG-TCATTTTAGCAATTTTCATCATTTTAGAGACATTT
* *
1681799 ACGTTATTTTACATA-ATTTATA-CTCATTTTAGCAATTTTCATGCATTTTAGAGACATTT
1 A-GTTATTTTACATATA-ATATAGGTCATTTTAGCAATTTTCAT-CATTTTAGAGACATTT
*
1681858 AGATTATTTTAC--ATAATCTAAGGT-A-TTTAGCAATTTTCATCA
1 AG-TTATTTTACATATAATAT-AGGTCATTTTAGCAATTTTCATCA
1681900 CATGAGCATG
Statistics
Matches: 88, Mismatches: 5, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
56 2 0.02
57 37 0.42
58 14 0.16
59 35 0.40
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (58 bp):
AGTTATTTTACATATAATATAGGTCATTTTAGCAATTTTCATCATTTTAGAGACATTT
Found at i:1681829 original size:57 final size:58
Alignment explanation
Indices: 1681765--1681899 Score: 190
Period size: 57 Copynumber: 2.4 Consensus size: 58
1681755 TAATATAGGA
*
1681765 TCATTTTAGCAATTTTCATCATTTTAG-GACATTTACG-TTATTTTACATAATTTATA-C
1 TCATTTTAGCAATTTTCATCATTTTAGAGACATTTA-GATTATTTTACATAATCTA-AGC
*
1681822 TCATTTTAGCAATTTTCATGCATTTTAGAGACATTTAGATTATTTTACATAATCTAAGG
1 TCATTTTAGCAATTTTCAT-CATTTTAGAGACATTTAGATTATTTTACATAATCTAAGC
1681881 T-A-TTTAGCAATTTTCATCA
1 TCATTTTAGCAATTTTCATCA
1681900 CATGAGCATG
Statistics
Matches: 72, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
56 2 0.03
57 34 0.47
58 11 0.15
59 25 0.35
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (58 bp):
TCATTTTAGCAATTTTCATCATTTTAGAGACATTTAGATTATTTTACATAATCTAAGC
Found at i:1690189 original size:20 final size:20
Alignment explanation
Indices: 1690164--1690202 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1690154 CAATACAATT
1690164 AGTGAATG-CATCGATACATC
1 AGTGAATGTC-TCGATACATC
1690184 AGTGAATGTCTCGATACAT
1 AGTGAATGTCTCGATACAT
1690203 GTCTGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (20 bp):
AGTGAATGTCTCGATACATC
Found at i:1693525 original size:54 final size:55
Alignment explanation
Indices: 1693444--1693638 Score: 218
Period size: 54 Copynumber: 3.6 Consensus size: 55
1693434 GATGATGGTG
* * ** * *
1693444 ATGGTAGCGATTAGAATTTAATGTTAGTGAC-TAGTTGTCATTAGGAATGATGCC
1 ATGGTGGCGATCAGAATTTGGTGTTAGTGACTTAGTTATCATTAGGAATAATGCC
* * * * * *
1693498 TTGGTGGTGATCAAAATTTGGTGTTAGTGACTT-GTTATCACTAAGAATCATGCC
1 ATGGTGGCGATCAGAATTTGGTGTTAGTGACTTAGTTATCATTAGGAATAATGCC
* *
1693552 ATGGTGGCGATCAGAATTTGGTGTTAGTAACTTA-TTATCATT-GAGAATAATACC
1 ATGGTGGCGATCAGAATTTGGTGTTAGTGACTTAGTTATCATTAG-GAATAATGCC
*
1693606 ATGGTAGCGATCAGAATTTGGTGTTAGTGACTT
1 ATGGTGGCGATCAGAATTTGGTGTTAGTGACTT
1693639 TGTTGTCACT
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
54 116 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (55 bp):
ATGGTGGCGATCAGAATTTGGTGTTAGTGACTTAGTTATCATTAGGAATAATGCC
Found at i:1700581 original size:15 final size:15
Alignment explanation
Indices: 1700539--1700582 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
1700529 TCCCGATTTC
**
1700539 AATTTAAATTTAAAA
1 AATTTAAATTTAATT
1700554 AATTT-AA-TTAATT
1 AATTTAAATTTAATT
1700567 AATTTAAATTTAATT
1 AATTTAAATTTAATT
1700582 A
1 A
1700583 TGATCTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
15 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTAAATTTAATT
Found at i:1701557 original size:22 final size:21
Alignment explanation
Indices: 1701505--1701555 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
1701495 AAATTCAATT
1701505 AATTTAAATTTAATTAACTCA
1 AATTTAAATTTAATTAACTCA
* *
1701526 GATATTAAATTTAATTAACTTA
1 AAT-TTAAATTTAATTAACTCA
1701548 AATTTAAA
1 AATTTAAA
1701556 ATAATTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTTAAATTTAATTAACTCA
Found at i:1701581 original size:32 final size:32
Alignment explanation
Indices: 1701545--1701649 Score: 149
Period size: 32 Copynumber: 3.2 Consensus size: 32
1701535 TTTAATTAAC
*
1701545 TTAAATTTAAAATAATTTAAACTCAAAATAAT
1 TTAAATTTAAAATAATTTAAACTAAAAATAAT
*
1701577 TTAAATTTAAAATAATTTAAACTTAAAA-AAT
1 TTAAATTTAAAATAATTTAAACTAAAAATAAT
* *
1701608 TTAAATTTAAAATAACTTAAACTAAAAAATATT
1 TTAAATTTAAAATAATTTAAACT-AAAAATAAT
1701641 TATAAATTT
1 T-TAAATTT
1701650 TAAACTAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
31 25 0.38
32 31 0.47
33 3 0.05
34 7 0.11
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (32 bp):
TTAAATTTAAAATAATTTAAACTAAAAATAAT
Found at i:1701612 original size:31 final size:31
Alignment explanation
Indices: 1701545--1701637 Score: 152
Period size: 32 Copynumber: 3.0 Consensus size: 31
1701535 TTTAATTAAC
*
1701545 TTAAATTTAAAATAATTTAAACTCAAAATAAT
1 TTAAATTTAAAATAATTTAAACTTAAAA-AAT
1701577 TTAAATTTAAAATAATTTAAACTTAAAAAAT
1 TTAAATTTAAAATAATTTAAACTTAAAAAAT
*
1701608 TTAAATTTAAAATAACTTAAAC-TAAAAAAT
1 TTAAATTTAAAATAATTTAAACTTAAAAAAT
1701638 ATTTATAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.14
31 24 0.41
32 27 0.46
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (31 bp):
TTAAATTTAAAATAATTTAAACTTAAAAAAT
Found at i:1701635 original size:16 final size:16
Alignment explanation
Indices: 1701545--1701634 Score: 121
Period size: 16 Copynumber: 5.8 Consensus size: 16
1701535 TTTAATTAAC
*
1701545 TTAAATTTAAAATAAT
1 TTAAACTTAAAATAAT
*
1701561 TTAAACTCAAAATAAT
1 TTAAACTTAAAATAAT
*
1701577 TTAAATTTAAAATAAT
1 TTAAACTTAAAATAAT
1701593 TTAAACTTAAAA-AAT
1 TTAAACTTAAAATAAT
* *
1701608 TTAAATTTAAAATAAC
1 TTAAACTTAAAATAAT
1701624 TTAAAC-TAAAA
1 TTAAACTTAAAA
1701635 AATATTTATA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.29
16 46 0.71
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAACTTAAAATAAT
Found at i:1702427 original size:6 final size:7
Alignment explanation
Indices: 1702400--1702437 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
1702390 ACGCCGTTAG
*
1702400 AATTTTA
1 AATTTTT
1702407 AATTTTTT
1 AA-TTTTT
1702415 AATTTTT
1 AATTTTT
1702422 AATTTTT
1 AATTTTT
1702429 AATTTTT
1 AATTTTT
1702436 AA
1 AA
1702438 GAAAACTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
AATTTTT
Found at i:1703085 original size:31 final size:32
Alignment explanation
Indices: 1703028--1703094 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
1703018 TGTTATTGTA
* *
1703028 AAAAAAAATGTTTTTAAAAG-GTTAAAATATT
1 AAAAAAAATGTTTTTAAAAGAATAAAAATATT
* *
1703059 AAAAAAAAT-TTATTTAAAATAATAAAAATTTT
1 AAAAAAAATGTT-TTTAAAAGAATAAAAATATT
1703091 AAAA
1 AAAA
1703095 TATGAGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 2 0.07
31 16 0.53
32 12 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (32 bp):
AAAAAAAATGTTTTTAAAAGAATAAAAATATT
Found at i:1704020 original size:16 final size:16
Alignment explanation
Indices: 1703976--1704052 Score: 93
Period size: 16 Copynumber: 4.9 Consensus size: 16
1703966 TCATTTTAAA
* *
1703976 TTATTTTTAAGTTATT
1 TTATATTTAAATTATT
*
1703992 TTA-ATTCAAATTATT
1 TTATATTTAAATTATT
*
1704007 TTATATTTAAATTAAT
1 TTATATTTAAATTATT
*
1704023 TTAGATTTAAATTATT
1 TTATATTTAAATTATT
*
1704039 TTAAATTTAAATTA
1 TTATATTTAAATTA
1704053 ATAAAATCAG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
15 12 0.23
16 40 0.77
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (16 bp):
TTATATTTAAATTATT
Found at i:1704036 original size:32 final size:31
Alignment explanation
Indices: 1703976--1704054 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 31
1703966 TCATTTTAAA
* * *
1703976 TTATTTTTAAGTTATTTTAATTCAAATTATT
1 TTATATTTAAATTAATTTAATTCAAATTATT
*
1704007 TTATATTTAAATTAATTTAGATTTAAATTATT
1 TTATATTTAAATTAATTTA-ATTCAAATTATT
*
1704039 TTAAATTTAAATTAAT
1 TTATATTTAAATTAAT
1704055 AAAATCAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 16 0.38
32 26 0.62
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (31 bp):
TTATATTTAAATTAATTTAATTCAAATTATT
Found at i:1704364 original size:21 final size:20
Alignment explanation
Indices: 1704326--1704378 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
1704316 CAACTGAAGG
**
1704326 AAGAGAAAAAAAGAAAAAGAA
1 AAGAGAAAAAATTAAAAA-AA
*
1704347 AAGAGAAAAAATTTAAAAAA
1 AAGAGAAAAAATTAAAAAAA
*
1704367 ATGA-AAAAAATT
1 AAGAGAAAAAATT
1704379 GTAATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 8 0.29
20 5 0.18
21 15 0.54
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAGAGAAAAAATTAAAAAAA
Found at i:1706339 original size:15 final size:15
Alignment explanation
Indices: 1706319--1706356 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1706309 CCTGAGGTAA
*
1706319 ACCACCGCCATTTTT
1 ACCACCACCATTTTT
1706334 ACCACCACCATTTTT
1 ACCACCACCATTTTT
1706349 ACCACCAC
1 ACCACCAC
1706357 TGCCTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.45, G:0.03, T:0.26
Consensus pattern (15 bp):
ACCACCACCATTTTT
Found at i:1706881 original size:15 final size:15
Alignment explanation
Indices: 1706863--1706906 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
1706853 TTTCATTTGT
*
1706863 TGAAGCTGCTGAAGC
1 TGAAGCTGTTGAAGC
1706878 TGAAGCTGTTGAAGC
1 TGAAGCTGTTGAAGC
1706893 TGAAGCTGTTGAAG
1 TGAAGCTGTTGAAG
1706907 TTGCTGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (15 bp):
TGAAGCTGTTGAAGC
Found at i:1707897 original size:3 final size:3
Alignment explanation
Indices: 1707889--1707922 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1707879 TTAATGAGAC
*
1707889 ACA ACA ACA ACA ACA ACA ACA ACA ACA AAA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1707923 AGAACAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:1707967 original size:6 final size:6
Alignment explanation
Indices: 1707956--1707981 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1707946 GAAGAAAGAG
1707956 AGAGAT AGAGAT AGAGAT AGAGAT AG
1 AGAGAT AGAGAT AGAGAT AGAGAT AG
1707982 GGATGGAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
AGAGAT
Found at i:1714527 original size:13 final size:13
Alignment explanation
Indices: 1714495--1714527 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1714485 AACTGAAACC
1714495 AAAAAAA-AAAAA
1 AAAAAAAGAAAAA
*
1714507 AAAAAAAGAAAAG
1 AAAAAAAGAAAAA
1714520 AAAAAAAG
1 AAAAAAAG
1714528 GGAGAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:1721215 original size:32 final size:33
Alignment explanation
Indices: 1721173--1721240 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1721163 TTTTGTTTTG
*
1721173 ATATTGATACGTA-TCA-TATAGTATTTTTTAAC
1 ATATTAATACGTACT-AGTATAGTATTTTTTAAC
*
1721205 ATATTAATACGTACTAGTATAGTATTTTTTAGC
1 ATATTAATACGTACTAGTATAGTATTTTTTAAC
1721238 ATA
1 ATA
1721241 CTATTTCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (33 bp):
ATATTAATACGTACTAGTATAGTATTTTTTAAC
Found at i:1722643 original size:13 final size:13
Alignment explanation
Indices: 1722625--1722650 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1722615 TACACCAAGT
1722625 ATGTATCGATACA
1 ATGTATCGATACA
1722638 ATGTATCGATACA
1 ATGTATCGATACA
1722651 CAAAAACTTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1722736 original size:20 final size:22
Alignment explanation
Indices: 1722705--1722748 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1722695 CTATATTTTT
1722705 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
1722726 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
1722747 CA
1 CA
1722749 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:1726733 original size:15 final size:15
Alignment explanation
Indices: 1726705--1726744 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1726695 ATAAAAATAT
* *
1726705 TCAAATTGAGGAAGC
1 TCAAAATGAAGAAGC
1726720 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
*
1726735 TCCAAATGAA
1 TCAAAATGAA
1726745 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.17
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:1728835 original size:13 final size:13
Alignment explanation
Indices: 1728817--1728842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1728807 ACAGTTTTCT
1728817 TTGTATCGATACA
1 TTGTATCGATACA
1728830 TTGTATCGATACA
1 TTGTATCGATACA
1728843 GGGGGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1729006 original size:20 final size:20
Alignment explanation
Indices: 1728963--1729008 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1728953 AAATCTTTTA
1728963 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1728984 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1729004 CAAAA
1 CAAAA
1729009 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1731509 original size:20 final size:22
Alignment explanation
Indices: 1731478--1731521 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1731468 CTATATTTTT
1731478 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
1731499 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
1731520 CA
1 CA
1731522 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:1732239 original size:21 final size:21
Alignment explanation
Indices: 1732213--1732266 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1732203 AACCCTCAAT
* *
1732213 TGTATCGATACACTTTGTA-AA
1 TGTATCGATACAATTT-CAGAA
1732234 TGTATCGATACAATTTCAGAA
1 TGTATCGATACAATTTCAGAA
1732255 TGTATCGATACA
1 TGTATCGATACA
1732267 TCCATACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACAATTTCAGAA
Found at i:1734321 original size:13 final size:13
Alignment explanation
Indices: 1734303--1734328 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1734293 CATTTTTCTG
1734303 TGTATCGATACAT
1 TGTATCGATACAT
1734316 TGTATCGATACAT
1 TGTATCGATACAT
1734329 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1734325 original size:33 final size:33
Alignment explanation
Indices: 1734283--1734349 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1734273 GCCAAGGAAA
***
1734283 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1734316 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1734349 T
1 T
1734350 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1736982 original size:78 final size:78
Alignment explanation
Indices: 1736822--1737023 Score: 237
Period size: 78 Copynumber: 2.6 Consensus size: 78
1736812 GTTAATCATT
* * * *
1736822 GGGGATACTCCAA-CCTGTTATTTCCGAGGGGATACTCCAATCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTATTCCCAAAATATC
* *
1736886 GATTTCTCATAATT
65 GATTTCTCACAATC
* ** *
1736900 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCATC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTATTCCCAAAAT-ATC
1736964 GATTTCTCACAATC
65 GATTTCTCACAATC
* * * * *
1736978 GGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCG
1737024 TTATTATCTC
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
77 3 0.03
78 75 0.70
79 29 0.27
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTATTCCCAAAATATCG
ATTTCTCACAATC
Found at i:1743245 original size:55 final size:55
Alignment explanation
Indices: 1743129--1744179 Score: 1099
Period size: 55 Copynumber: 18.3 Consensus size: 55
1743119 TTAGCCCTTC
*
1743129 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGC-GCTT
1 CCAGTCCTCAAAGAGCAGGACG-C----C-TTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1743189 CCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACAAAAGTTGGTGGCA-CTT
1 CC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
*
1743244 CCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 -CCAGTCCTCAAAGAGCAGGACGCC---T-TTT-AAAGCCCACACAAGTTGGTGGCATCTT
* * * *
1743305 CCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* * * *
1743360 CCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1743415 CTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 CCAGTCCTCAAAGAGCAGGACGC-----C-TTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1743475 CCCAGTCCTCAAAGAGCAGAACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 -CCAGTCCTCAAAGAGCAGGACGCC---T-TTT-AAAGCCCACACAAGTTGGTGGCATCTT
* * * * *
1743536 CCAATCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1743591 -CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCATCTT
* * *
1743651 CTAGTCCCCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCC---T-TTT-AAAGCCCACACAAGTTGGTGGCATCTT
* * * *
1743711 CCAATCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1743766 -CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCATCTT
* * *
1743826 CCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* * * * * *
1743881 TCAGTCCCCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* * * *
1743936 CCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACATAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* * * * *
1743991 TCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1744046 CCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1744100 CCCAGTCCTCAGAGAGCAGGACGCCTTCACCTCTTAAAGCCCACACAAGTAGGTGGCA-CTTT
1 -CCAGTCCTCAAAGAGCAGGACGCC-T----T-TTAAAGCCCACACAAGTTGGTGGCATC-TT
**
1744162 TTAGTCCTCAAAGAGCAG
1 CCAGTCCTCAAAGAGCAG
1744180 AATACACTTT
Statistics
Matches: 863, Mismatches: 81, Indels: 93
0.83 0.08 0.09
Matches are distributed among these distances:
54 43 0.05
55 437 0.51
56 18 0.02
57 3 0.00
58 3 0.00
59 17 0.02
60 192 0.22
61 148 0.17
62 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT
Done.