Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 11 of 17
Found at i:1583238 original size:17 final size:17
Alignment explanation
Indices: 1583216--1583257 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
1583206 TATATAATAT
* *
1583216 TAAATTTTTATTTTTTA
1 TAAATTTTTATGTTTCA
1583233 TAAA-TTTTATGTTTCA
1 TAAATTTTTATGTTTCA
1583249 T-AATTTTTA
1 TAAATTTTTA
1583258 GTGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 16 0.73
17 4 0.18
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TAAATTTTTATGTTTCA
Found at i:1583926 original size:50 final size:50
Alignment explanation
Indices: 1583867--1584102 Score: 391
Period size: 50 Copynumber: 4.7 Consensus size: 50
1583857 TATACTTAGA
* *
1583867 GTCAACAATTATGGTCACCTTTCTCTATTGTCAAAGATTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAATC
*
1583917 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAATC
* *
1583967 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAATC
*
1584017 GTCAACAATTACGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAATC
** *
1584067 GTCAACAATTGCGGCCACTTCTCTCTATTGTCAAAG
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAG
1584103 GTACTTTCCA
Statistics
Matches: 177, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 177 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAATC
Found at i:1588543 original size:50 final size:50
Alignment explanation
Indices: 1588484--1588721 Score: 314
Period size: 50 Copynumber: 4.8 Consensus size: 50
1588474 TATACTTAGA
* *
1588484 GTCAACAATTATGGTCACCTTTCTCTATTGTTAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
1588534 GTCAACAATTATGGTCATCTCTCTCTATTGTCAAAAGTTAGTGAAGAATC
1 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1588584 GTCAACAATTATGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGGATC
1 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* ** * * *
1588634 GTCTACAATTATGACCACCTCTCTCTATTGTCAAAGATTGATGAAAAATC
1 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
*** * *
1588684 GTCAACAATTACATTCACCTTTATCTATTGTCAAAGGT
1 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGT
1588722 ATTTTCCACC
Statistics
Matches: 162, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 162 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (50 bp):
GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1589186 original size:11 final size:11
Alignment explanation
Indices: 1589170--1589200 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1589160 TTATTTAATT
1589170 TTTTATTTTTA
1 TTTTATTTTTA
*
1589181 TTTTATTATTA
1 TTTTATTTTTA
1589192 TTTTATTTT
1 TTTTATTTT
1589201 GAATTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:1589794 original size:25 final size:23
Alignment explanation
Indices: 1589766--1589831 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
1589756 TATAAATCAC
1589766 ATTTTTTATATATTTTTTATTCTTA
1 ATTTTTTATATATTTTTTA--CTTA
*
1589791 A-TTTTTATTATATTTTTTACTTT
1 ATTTTTTA-TATATTTTTTACTTA
*
1589814 ATTTATT-TATATTTTTTA
1 ATTTTTTATATATTTTTTA
1589832 ATTTTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 11 0.30
23 4 0.11
24 10 0.27
25 12 0.32
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (23 bp):
ATTTTTTATATATTTTTTACTTA
Found at i:1589806 original size:24 final size:23
Alignment explanation
Indices: 1589768--1589831 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
1589758 TAAATCACAT
1589768 TTTTTA-TATATTTTTTATTCTTAA
1 TTTTTATTATATTTTTTA--CTTAA
*
1589792 TTTTTATTATATTTTTTACTTTA
1 TTTTTATTATATTTTTTACTTAA
*
1589815 TTTAT-TTATATTTTTTA
1 TTTTTATTATATTTTTTA
1589832 ATTTTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.32
23 8 0.22
24 6 0.16
25 11 0.30
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTATTATATTTTTTACTTAA
Found at i:1589831 original size:13 final size:12
Alignment explanation
Indices: 1589766--1589831 Score: 59
Period size: 11 Copynumber: 5.7 Consensus size: 12
1589756 TATAAATCAC
1589766 ATTTTTTA-TAT
1 ATTTTTTATTAT
*
1589777 ATTTTTTATTCTT
1 ATTTTTTATT-AT
*
1589790 AATTTTTATTAT
1 ATTTTTTATTAT
1589802 ATTTTTTACTT-T
1 ATTTTTTA-TTAT
*
1589814 A-TTTAT-TTAT
1 ATTTTTTATTAT
1589824 ATTTTTTA
1 ATTTTTTA
1589832 ATTTTAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
9 2 0.05
10 2 0.05
11 16 0.37
12 11 0.26
13 12 0.28
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:1589842 original size:25 final size:23
Alignment explanation
Indices: 1589774--1589846 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 23
1589764 ACATTTTTTA
*
1589774 TATATTTTTTATTCTTAATTTTTAT
1 TATATTTTTTATT-TTAATTTAT-T
*
1589799 TATATTTTTTACTTT-ATTTATT
1 TATATTTTTTATTTTAATTTATT
1589821 TATATTTTTTAATTTTAAATTTATT
1 TATATTTTTT-ATTTT-AATTTATT
1589846 T
1 T
1589847 TAAACAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 11 0.26
23 9 0.21
24 2 0.05
25 20 0.48
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (23 bp):
TATATTTTTTATTTTAATTTATT
Found at i:1590804 original size:2 final size:2
Alignment explanation
Indices: 1590797--1590845 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
1590787 GCAAGGTAAA
* *
1590797 TC TC TC TC TC TC TC TC TC TC TG TC TC TG TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1590839 TC TC TC T
1 TC TC TC T
1590846 ATATATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.45, G:0.04, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1591895 original size:34 final size:33
Alignment explanation
Indices: 1591857--1591969 Score: 79
Period size: 34 Copynumber: 3.2 Consensus size: 33
1591847 CTTCCCACAA
1591857 TTTGCATCTGCAATTTGTTCACTGATGTTTCCCC
1 TTTGCATCTGCAATTTGTTCACT-ATGTTTCCCC
* * * *
1591891 TTTGCTTCCTCCTATTCCT-TTCA--ATTTCTTCCCAC
1 TTTGCAT-CTGCAATT--TGTTCACTATGT-TTCCC-C
*
1591926 AATTTGCATCTGCAATTTGTTTACTTATGTTTCCCC
1 --TTTGCATCTGCAATTTGTTCAC-TATGTTTCCCC
1591962 TTTGCATC
1 TTTGCATC
1591970 CTCCTATTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
33 3 0.05
34 20 0.34
35 10 0.17
36 11 0.19
37 12 0.20
38 3 0.05
ACGTcount: A:0.15, C:0.28, G:0.10, T:0.47
Consensus pattern (33 bp):
TTTGCATCTGCAATTTGTTCACTATGTTTCCCC
Found at i:1591956 original size:71 final size:71
Alignment explanation
Indices: 1591840--1591980 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 71
1591830 ATGCATTAGA
*
1591840 TCAATTTCTTCCCACAATTTGCATCTGCAATTTGTTCACTGATGTTTCCCCTTTGCTTCCTCCTA
1 TCAATTTCTTCCCACAATTTGCATCTGCAATTTGTTCACTGATGTTTCCCCTTTGCATCCTCCTA
1591905 TTCCTT
66 TTCCTT
* *
1591911 TCAATTTCTTCCCACAATTTGCATCTGCAATTTGTTTACTTATGTTTCCCCTTTGCATCCTCCTA
1 TCAATTTCTTCCCACAATTTGCATCTGCAATTTGTTCACTGATGTTTCCCCTTTGCATCCTCCTA
1591976 TTCCT
66 TTCCT
1591981 ATTAGTTTGT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.16, C:0.30, G:0.08, T:0.45
Consensus pattern (71 bp):
TCAATTTCTTCCCACAATTTGCATCTGCAATTTGTTCACTGATGTTTCCCCTTTGCATCCTCCTA
TTCCTT
Found at i:1593296 original size:29 final size:29
Alignment explanation
Indices: 1593263--1593345 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
1593253 TCAGATTATC
1593263 TTTAGATTTTCTAATATATGAAACTCTCT
1 TTTAGATTTTCTAATATATGAAACTCTCT
1593292 TTTAGATTTTCTAATATATGAAACTCTCT
1 TTTAGATTTTCTAATATATGAAACTCTCT
* *
1593321 TTTAGATTTTTTAATATGTGAAACT
1 TTTAGATTTTCTAATATATGAAACT
1593346 ATCTAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.49
Consensus pattern (29 bp):
TTTAGATTTTCTAATATATGAAACTCTCT
Found at i:1594516 original size:2 final size:2
Alignment explanation
Indices: 1594509--1594537 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1594499 CTTATTTTAT
1594509 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1594538 GACAGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1597992 original size:34 final size:34
Alignment explanation
Indices: 1597949--1598017 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
1597939 CTTGTGGAGA
*
1597949 TAAAATTAAATATTTACTTATGAGAATCCAGGGT
1 TAAAATTAAATATTCACTTATGAGAATCCAGGGT
*
1597983 TAAAATTAAATATTCACTTATGGGAATCCAGGGT
1 TAAAATTAAATATTCACTTATGAGAATCCAGGGT
1598017 T
1 T
1598018 TTTATTCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (34 bp):
TAAAATTAAATATTCACTTATGAGAATCCAGGGT
Found at i:1603065 original size:3 final size:3
Alignment explanation
Indices: 1603046--1603080 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1603036 TCAACCATCA
* *
1603046 ATG AAG ATG AAG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1603081 AAGGTTGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:1608898 original size:28 final size:28
Alignment explanation
Indices: 1608852--1608910 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1608842 GTTATACGAG
* *
1608852 ATTACAATAATAATCATGGAAATTAAAT
1 ATTACAATAATAATAATGGAAAATAAAT
*
1608880 ATTACAATAATTAA-AATGGAAAATATAT
1 ATTACAATAA-TAATAATGGAAAATAAAT
1608908 ATT
1 ATT
1608911 CCAAAGAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (28 bp):
ATTACAATAATAATAATGGAAAATAAAT
Found at i:1609945 original size:27 final size:27
Alignment explanation
Indices: 1609914--1609969 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
1609904 ATATCCTTTA
1609914 ATCATATATCTCAAAAATAGTAAAAGT
1 ATCATATATCTCAAAAATAGTAAAAGT
1609941 ATCATATATCTCAAAAATAGTAAAAGT
1 ATCATATATCTCAAAAATAGTAAAAGT
1609968 AT
1 AT
1609970 GGTTTAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (27 bp):
ATCATATATCTCAAAAATAGTAAAAGT
Found at i:1614379 original size:13 final size:13
Alignment explanation
Indices: 1614361--1614386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1614351 TACAGCAAGT
1614361 ATGTATCGATACA
1 ATGTATCGATACA
1614374 ATGTATCGATACA
1 ATGTATCGATACA
1614387 CAAAAAATTG
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:1616970 original size:13 final size:13
Alignment explanation
Indices: 1616952--1616990 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1616942 ACATTTTTCT
1616952 TTGTATCGATACA
1 TTGTATCGATACA
1616965 TTGTATCGATACA
1 TTGTATCGATACA
1616978 TTGTATCGATACA
1 TTGTATCGATACA
1616991 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1617154 original size:20 final size:20
Alignment explanation
Indices: 1617111--1617157 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1617101 AAATCTTTTG
1617111 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1617132 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1617152 CAAAAT
1 CAAAAT
1617158 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1618819 original size:20 final size:20
Alignment explanation
Indices: 1618794--1618834 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1618784 TTATATGAAT
1618794 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGGGAGAA
1618814 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGGGAGAA
1618834 T
1 T
1618835 TATTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.27
Consensus pattern (20 bp):
TACTTGATTAAGGGGGAGAA
Found at i:1619581 original size:13 final size:13
Alignment explanation
Indices: 1619563--1619588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1619553 TATAGCAAGT
1619563 ATGTATCGATACA
1 ATGTATCGATACA
1619576 ATGTATCGATACA
1 ATGTATCGATACA
1619589 CAAAAAATTG
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:1625944 original size:20 final size:21
Alignment explanation
Indices: 1625912--1625954 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
1625902 AAGATAAGTA
*
1625912 TTTTTATTCTT-AATT-AATT
1 TTTTTATTATTAAATTAAATT
1625931 TTTTTACTTATTAAATTAAATT
1 TTTTTA-TTATTAAATTAAATT
1625953 TT
1 TT
1625955 AAATTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 4 0.20
22 6 0.30
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTATTATTAAATTAAATT
Found at i:1625995 original size:35 final size:32
Alignment explanation
Indices: 1625921--1625996 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 32
1625911 ATTTTTATTC
*
1625921 TTAATTAATTTTTTTACTTATTAAATTAAATT
1 TTAATTAATTTTTTTACTTATTAAATTAAATA
* *
1625953 TTAAATTAATGATTTTTTGCTTATTGAATTAAAATA
1 TT-AATTAAT--TTTTTTACTTATTAAATT-AAATA
1625989 TTAATTAA
1 TTAATTAA
1625997 ATTTATTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 2 0.05
33 7 0.19
35 22 0.59
36 6 0.16
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (32 bp):
TTAATTAATTTTTTTACTTATTAAATTAAATA
Found at i:1626014 original size:31 final size:31
Alignment explanation
Indices: 1625979--1626038 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1625969 TTGCTTATTG
1625979 AATTAA-AATATTAATTAAATTTATTCTTAGT
1 AATTAATAATATTAATT-AATTTATTCTTAGT
* * *
1626010 AATTAATGATTTTAATTATTTTATTCTTA
1 AATTAATAATATTAATTAATTTATTCTTA
1626039 ACTAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
AATTAATAATATTAATTAATTTATTCTTAGT
Found at i:1630653 original size:237 final size:236
Alignment explanation
Indices: 1630141--1630703 Score: 706
Period size: 237 Copynumber: 2.4 Consensus size: 236
1630131 ATATTTCAAT
* ** * *
1630141 CTCAATTTTATTTCCAAAACATCAATTTTCCATAATCGAGGATACTCCAACCCTGTTATTT-TCG
1 CTCAGTTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCT-G
*
1630205 AGGGGATACTCCAACCCCAA-TTTTATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCA
65 AGGGGATACTCCAACCCCAATTTTTA-TTCTAAAACACCAATTTTCCACAATAGAGGATACTCCA
* * * **
1630269 AAGTCGTTATTTTCGAGGAGATACTCTAACCCCGATTTATTTCCAAAGCACCAATTTTTTACAAT
129 AACTCATTATTTTCGAGGAGATACTCTAACCCCGATTTATTTCCAAAACACCAATTTTCCACAAT
* * * * *
1630334 CGGGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCTATC
194 CGAGGATACTCCAAACTCGTTATTTTCGAGGGGATAATCTAAC
* * *
1630377 CTCAGTTTTATTTCCAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGA
1 CTCAGTTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGA
* ** *
1630442 AGGGATACTCCAACCCCAATTTTTATTCTAAAACACTGATTTTTCACAATTAG-GGATACTCC-A
66 GGGGATACTCCAACCCCAATTTTTATTCTAAAACACCAATTTTCCACAA-TAGAGGATACTCCAA
* * * ****
1630505 ACCCTATTATTTTTGAGG-GAATACTCTAACCCCGACTTTATTTCTAAAACATTGGTTTTCCACA
130 ACTC-ATTATTTTCGAGGAG-ATACTCTAACCCCGA-TTTATTTCCAAAACACCAATTTTCCACA
* * *
1630569 ATTGAGGATACTCCAAATTTGTTATTTTCGAGGGGATAATCTAAC
192 ATCGAGGATACTCCAAACTCGTTATTTTCGAGGGGATAATCTAAC
* * *
1630614 CTCAGTTTTATTTTCAAAACATCAATTTTCCACCATCGGGGATACTCTAACTCCGTTATTTCTGA
1 CTCAGTTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGA
1630679 GGGGATACTCCAACCCC-ATTTTTAT
66 GGGGATACTCCAACCCCAATTTTTAT
1630704 CTCCAAAATA
Statistics
Matches: 281, Mismatches: 40, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
235 4 0.01
236 137 0.49
237 140 0.50
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (236 bp):
CTCAGTTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGA
GGGGATACTCCAACCCCAATTTTTATTCTAAAACACCAATTTTCCACAATAGAGGATACTCCAAA
CTCATTATTTTCGAGGAGATACTCTAACCCCGATTTATTTCCAAAACACCAATTTTCCACAATCG
AGGATACTCCAAACTCGTTATTTTCGAGGGGATAATCTAAC
Found at i:1630703 original size:158 final size:157
Alignment explanation
Indices: 1630067--1630700 Score: 595
Period size: 158 Copynumber: 4.0 Consensus size: 157
1630057 TCATTCATGT
* * * * * * * *
1630067 TTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCC-AACCCTATTA-TTTCTGGGGG
1 TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAAACTC-GTTATTTTC-GAGGG
* * * *
1630130 GATA-TTTCAATCTCAATTTTATTTCCAAAACATCAATTTTCCATAATCGAGGATACTCCAACCC
64 GATACTCT-AACCTCAATTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCC
1630194 TGTTATTTTCGAGGGGATACTCCAACCCCAA
128 TGTTATTTTCGAGGGGATACTCCAACCCC-A
* * *
1630225 TTTTATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAAAGTCGTTATTTTCGAGGAGA
1 TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAAACTCGTTATTTTCGAGGGGA
* * * * ** *
1630290 TACTCTAACCCCGA-TTTATTTCCAAAGCACCAATTTTTTACAATCGGGGATACTCTAA-CCTCG
66 TACTCTAACCTCAATTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCT-G
* * *
1630353 TTATTTTCGAGGGGATACTCTATCCTCA
130 TTATTTTCGAGGGGATACTCCAACCCCA
* * * * * * *
1630381 GTTTTATTTCCAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTA-TTTCTGAAGG
1 -TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAAACTCGTTATTTTC-GAGGG
* * * * * **
1630445 GATACTCCAACCCCAATTTT-TATTCTAAAACA-CTGATTTTTCACAATTAGGGATACTCCAACC
64 GATACTCTAACCTCAATTTTAT-TTCCAAAACATC-AATTTTCCACAATCGGGGATACTCCAACC
* * * *
1630508 CTATTATTTTTGAGGGAATACTCTAACCCCGA
127 CTGTTATTTTCGAGGGGATACTCCAACCCC-A
* ** * * * *
1630540 CTTTATTTCTAAAACATTGGTTTTCCACAATTGAGGATACTCCAAATTTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAAACTCGTTATTTTCGAGGGGA
* * * * *
1630605 TAATCTAACCTCAGTTTTATTTTCAAAACATCAATTTTCCACCATCGGGGATACTCTAACTCC-G
66 TACTCTAACCTCAATTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAAC-CCTG
1630669 TTA-TTTCTGAGGGGATACTCCAACCCCA
130 TTATTTTC-GAGGGGATACTCCAACCCCA
1630697 TTTT
1 TTTT
1630701 TATCTCCAAA
Statistics
Matches: 380, Mismatches: 80, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
156 8 0.02
157 133 0.35
158 218 0.57
159 21 0.06
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (157 bp):
TTTTATTTCTAAAACACCGATTTTCCACAATCGAGGATACTCCAAACTCGTTATTTTCGAGGGGA
TACTCTAACCTCAATTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCTGT
TATTTTCGAGGGGATACTCCAACCCCA
Found at i:1630711 original size:79 final size:78
Alignment explanation
Indices: 1630066--1630711 Score: 534
Period size: 79 Copynumber: 8.2 Consensus size: 78
1630056 TTCATTCATG
* * * * * * *
1630066 TTTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCTATTA-TTTCTGGGGG
1 TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCC-GTTATTTTC-GAGGG
* * * *
1630130 GATATTTCAATCTCA
64 GATACTCCAACCCCA
* * *
1630145 ATTTTATTTCCAAAACATCAATTTTCCATAATCGAGGATACTCCAACCCTGTTATTTTCGAGGGG
1 TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCC-GTTATTTTCGAGGGG
1630210 ATACTCCAACCCCA
65 ATACTCCAACCCCA
* * * * ** *
1630224 ATTTTATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAAAGTCGTTATTTTCGAGGAG
1 TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCC-AACCCGTTATTTTCGAGGGG
*
1630289 ATACTCTAACCCCGA
65 ATACTCCAACCCC-A
* * ** *
1630304 --TTTATTTCCAAAGCACCAATTTTTTACAATCGGGGATACTCTAACCTCGTTATTTTCGAGGGG
1 TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACC-CGTTATTTTCGAGGGG
* * *
1630367 ATACTCTATCCTCA
65 ATACTCCAACCCCA
* * * * * *
1630381 GTTTTATTTCCAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTA-TTTCTGAAGG
1 TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAA-CCCGTTATTTTC-GAGGG
1630445 GATACTCCAACCCCAA
64 GATACTCCAACCCC-A
* * * ** * *
1630461 TTTTTA-TTCTAAAACA-CTGATTTTTCACAATTAGGGATACTCCAACCCTATTATTTTTGAGGG
1 TTTTTATTTCCAAAACATC-AATTTTCCACAATCGGGGATACTCCAACCC-GTTATTTTCGAGGG
* *
1630524 AATACTCTAACCCCGA
64 GATACTCCAACCCC-A
* * *** * * ***
1630540 -CTTTATTTCTAAAACATTGGTTTTCCACAATTGAGGATACTCCAAATTTGTTATTTTCGAGGGG
1 TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCC-AACCCGTTATTTTCGAGGGG
* * *
1630604 ATAATCTAACCTCA
65 ATACTCCAACCCCA
* * * *
1630618 GTTTTATTTTCAAAACATCAATTTTCCACCATCGGGGATACTCTAACTCCGTTA-TTTCTGAGGG
1 TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAAC-CCGTTATTTTC-GAGGG
1630682 GATACTCCAACCCCA
64 GATACTCCAACCCCA
*
1630697 TTTTTATCTCCAAAA
1 TTTTTATTTCCAAAA
1630712 TATTAAATTT
Statistics
Matches: 464, Mismatches: 85, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
77 3 0.01
78 81 0.17
79 359 0.77
80 21 0.05
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCGTTATTTTCGAGGGGA
TACTCCAACCCCA
Found at i:1631877 original size:2 final size:2
Alignment explanation
Indices: 1631870--1631919 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
1631860 AAATAGCTTG
* * *
1631870 AT AT AT AT AT GT AT AT AT AT AT AT GT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1631912 AT AT AT AT
1 AT AT AT AT
1631920 GTGTGTGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1631889 original size:14 final size:14
Alignment explanation
Indices: 1631870--1631921 Score: 90
Period size: 14 Copynumber: 3.9 Consensus size: 14
1631860 AAATAGCTTG
1631870 ATATATATATGTAT
1 ATATATATATGTAT
1631884 ATATATATATG--T
1 ATATATATATGTAT
1631896 ATATATATATGTAT
1 ATATATATATGTAT
1631910 ATATATATATGT
1 ATATATATATGT
1631922 GTGTGTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.33
14 24 0.67
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:1635096 original size:118 final size:118
Alignment explanation
Indices: 1634883--1635096 Score: 270
Period size: 118 Copynumber: 1.8 Consensus size: 118
1634873 GTGTTCCCTA
*
1634883 TCTTGTAGTTTGTTTTCTGCCCAAAGGACTCTATAACACAGTAATAAGTGTAAAAGTCATTAGGG
1 TCTTGTAGTTTGTTTTCTGCCCAAAGGACTCTATAACACAGTAATAAGTATAAAAGTCATTAGGG
*** * *
1634948 CAAAGTGCTATGCTATTTGATTAGTAGCAAACCTATTATGATAAAGAGGGTTG
66 CAAACCACTATGCTATTTGATCAATAGCAAACCTATTATGATAAAGAGGGTTG
* * * ** *
1635001 TCTTGTAGTTTGTTTTTTGTCCAAAGGACTCTGTAACATGGTAATAAGTATAAAAGT-GTCTAGG
1 TCTTGTAGTTTGTTTTCTGCCCAAAGGACTCTATAACACAGTAATAAGTATAAAAGTCAT-TAGG
* *
1635065 GCAAACCATTATGCTATTCT-ATCAATGGCAAA
65 GCAAACCACTATGCTATT-TGATCAATAGCAAA
1635097 ATCTTTACTA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
117 1 0.01
118 78 0.98
119 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (118 bp):
TCTTGTAGTTTGTTTTCTGCCCAAAGGACTCTATAACACAGTAATAAGTATAAAAGTCATTAGGG
CAAACCACTATGCTATTTGATCAATAGCAAACCTATTATGATAAAGAGGGTTG
Found at i:1637060 original size:13 final size:13
Alignment explanation
Indices: 1637042--1637066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1637032 AATTGTTTCT
1637042 TACAAAATTAAAA
1 TACAAAATTAAAA
1637055 TACAAAATTAAA
1 TACAAAATTAAA
1637067 CATTAAATAT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
TACAAAATTAAAA
Found at i:1642227 original size:13 final size:13
Alignment explanation
Indices: 1642209--1642234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1642199 CTATTTATGA
1642209 TGTATCGATACAC
1 TGTATCGATACAC
1642222 TGTATCGATACAC
1 TGTATCGATACAC
1642235 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1642295 original size:10 final size:10
Alignment explanation
Indices: 1642268--1642307 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
1642258 TAGTGATACG
1642268 TGAACAGTG-
1 TGAACAGTGA
1642277 TGAACAGTGA
1 TGAACAGTGA
*
1642287 TGAATAGTGA
1 TGAACAGTGA
*
1642297 TGAATAGTGA
1 TGAACAGTGA
1642307 T
1 T
1642308 ACATGAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 9 0.31
10 20 0.69
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.28
Consensus pattern (10 bp):
TGAACAGTGA
Found at i:1642449 original size:53 final size:53
Alignment explanation
Indices: 1642385--1642521 Score: 240
Period size: 53 Copynumber: 2.6 Consensus size: 53
1642375 CTACTTCCAA
1642385 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGA-CC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAAT-ATCC
*
1642438 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATATCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATATCC
1642491 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1642522 TATGCAATTT
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
52 1 0.01
53 66 0.82
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATATCC
Found at i:1642554 original size:20 final size:20
Alignment explanation
Indices: 1642491--1642561 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1642481 GCCAATATCC
**
1642491 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1642511 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1642531 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1642551 TGTATCGATAC
1 TGTATCGATAC
1642562 TTTTTAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1642627 original size:21 final size:21
Alignment explanation
Indices: 1642601--1642641 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1642591 GTCAACCTTG
1642601 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1642622 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1642642 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1651889 original size:13 final size:13
Alignment explanation
Indices: 1651871--1651898 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1651861 ACAAAGAAAT
1651871 TTGTATCGATACA
1 TTGTATCGATACA
1651884 TTGTATCGATACA
1 TTGTATCGATACA
1651897 TT
1 TT
1651899 AAAATTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1651904 original size:33 final size:32
Alignment explanation
Indices: 1651850--1651917 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
1651840 AGTTTTCCAA
1651850 ATTGTATCAATACAAAGAAATTTGTATC-GATAC
1 ATTGTATCAATACAAAGAAA-TTGTATCAG-TAC
* *
1651883 ATTGTATCGATACATTA-AAATTGTATCAGTAC
1 ATTGTATCAATACA-AAGAAATTGTATCAGTAC
1651915 ATT
1 ATT
1651918 TCGACTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 13 0.42
33 17 0.55
34 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (32 bp):
ATTGTATCAATACAAAGAAATTGTATCAGTAC
Found at i:1658806 original size:18 final size:18
Alignment explanation
Indices: 1658783--1658827 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
1658773 CTCTTTTTGT
1658783 TTTCTTTTTATCTCC-TTC
1 TTTCTTTTTAT-TCCATTC
*
1658801 TTTCTTTTTCTTCCATTC
1 TTTCTTTTTATTCCATTC
1658819 TTTCTTTTT
1 TTTCTTTTT
1658828 TTTTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTATTCCATTC
Found at i:1658840 original size:18 final size:18
Alignment explanation
Indices: 1658783--1658847 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
1658773 CTCTTTTTGT
* * *
1658783 TTTCTTTTTATCTCCTTC
1 TTTCTTTTTTTTTCATTC
* *
1658801 TTTCTTTTTCTTCCATTC
1 TTTCTTTTTTTTTCATTC
* *
1658819 TTTCTTTTTTTTTCTTTT
1 TTTCTTTTTTTTTCATTC
1658837 TTTCCTTTTTT
1 TTT-CTTTTTT
1658848 CCTCCCTTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 31 0.82
19 7 0.18
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTCTTTTTTTTTCATTC
Found at i:1663474 original size:22 final size:22
Alignment explanation
Indices: 1663433--1663483 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
1663423 ACATAAAACA
*
1663433 AATTAT-TAATATTTCAAAATTT
1 AATTATATAATATTT-AAAATAT
1663455 AATTATATAATACTTT-AAATAT
1 AATTATATAATA-TTTAAAATAT
*
1663477 AGTTATA
1 AATTATA
1663484 ACACAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 17 0.68
23 5 0.20
24 3 0.12
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTATATAATATTTAAAATAT
Found at i:1664647 original size:2 final size:2
Alignment explanation
Indices: 1664640--1664684 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1664630 TCCGGCCGTT
1664640 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1664682 TA T
1 TA T
1664685 TCACAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1671456 original size:25 final size:25
Alignment explanation
Indices: 1671421--1671468 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1671411 TTACTACAAT
* *
1671421 TATAAATATATATTTACTTCTTATA
1 TATAAAAATATATTTACATCTTATA
1671446 TATAAAAATATATTTACATCTTA
1 TATAAAAATATATTTACATCTTA
1671469 GATAAGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAAAAATATATTTACATCTTATA
Found at i:1673791 original size:17 final size:17
Alignment explanation
Indices: 1673768--1673804 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
1673758 ACAAAAATTA
1673768 AATATATATT--TATCG
1 AATATATATTCATATCG
1673783 AATATATATTCATATCG
1 AATATATATTCATATCG
1673800 AATAT
1 AATAT
1673805 TCACATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
17 10 0.50
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (17 bp):
AATATATATTCATATCG
Found at i:1674138 original size:21 final size:20
Alignment explanation
Indices: 1674112--1674176 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
1674102 ATAGCGGTTG
1674112 TAATAATATTAATTATTATAA
1 TAATAA-ATTAATTATTATAA
* *
1674133 TAATAAAATTAAATACTATAA
1 TAAT-AAATTAATTATTATAA
**
1674154 CGATGAAATTAATTATTATAA
1 TAAT-AAATTAATTATTATAA
1674175 TA
1 TA
1674177 GTGAGATTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
TAATAAATTAATTATTATAA
Found at i:1674185 original size:21 final size:21
Alignment explanation
Indices: 1674119--1674186 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
1674109 TTGTAATAAT
* *
1674119 ATTAATTATTATAATAATAAA
1 ATTAATTATTATAATAGTGAA
* * *
1674140 ATTAAATACTATAA-CGATGAA
1 ATTAATTATTATAATAG-TGAA
*
1674161 ATTAATTATTATAATAGTGAG
1 ATTAATTATTATAATAGTGAA
1674182 ATTAA
1 ATTAA
1674187 AATTAATGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
ATTAATTATTATAATAGTGAA
Found at i:1674430 original size:18 final size:18
Alignment explanation
Indices: 1674392--1674431 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1674382 TAAATTTTTA
* * *
1674392 TTATATAATTATTTAATT
1 TTATATAATCATGTAAAT
1674410 TTATATAATCATGTAAAT
1 TTATATAATCATGTAAAT
1674428 TTAT
1 TTAT
1674432 TTATAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
TTATATAATCATGTAAAT
Found at i:1675036 original size:20 final size:20
Alignment explanation
Indices: 1675011--1675049 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1675001 CTTATTACTT
*
1675011 GAAAATATCTTTCTTTTTAA
1 GAAAATATCTTACTTTTTAA
*
1675031 GAAAATTTCTTACTTTTTA
1 GAAAATATCTTACTTTTTA
1675050 TTTGAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
GAAAATATCTTACTTTTTAA
Found at i:1676326 original size:19 final size:18
Alignment explanation
Indices: 1676301--1676384 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 18
1676291 ATTTCAACAA
1676301 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1676319 TGTTGTATCGATACATAAG
1 T-TTGTATCGATACATAAG
1676338 TATTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1676354 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1676370 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1676385 ATGTATTGCT
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
18 1 0.02
19 42 0.72
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1676359 original size:13 final size:13
Alignment explanation
Indices: 1676341--1676365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1676331 ACATAAGTAT
1676341 TGTATCGATACAA
1 TGTATCGATACAA
1676354 TGTATCGATACA
1 TGTATCGATACA
1676366 TAAGTTTTGT
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:1676363 original size:32 final size:32
Alignment explanation
Indices: 1676322--1676390 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
1676312 ACATAAGTGT
1676322 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
1676354 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1676386 TGTAT
1 TGTAT
1676391 TGCTACAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1676519 original size:52 final size:52
Alignment explanation
Indices: 1676463--1676591 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1676453 CACTGATCTT
1676463 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACAATATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACAATATGAAA
* *
1676515 TGTATCGATACATACAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACAATATGAAA
**
1676567 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
1676592 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACAATATGAAA
Found at i:1678201 original size:10 final size:11
Alignment explanation
Indices: 1678186--1678214 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1678176 CCAGCAGACG
1678186 ATTTTTTCAA-
1 ATTTTTTCAAC
1678196 ATTTTTTCAAC
1 ATTTTTTCAAC
1678207 ATTTTTTC
1 ATTTTTTC
1678215 CTAAAAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTTTCAAC
Found at i:1679976 original size:32 final size:32
Alignment explanation
Indices: 1679922--1679997 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
1679912 AAAAAAATAT
* * **
1679922 TTCTTAAAGGATATTATTTCTTTATAAAAGAG
1 TTCTAAAAGAATATTACGTCTTTATAAAAGAG
1679954 TTCTAAAAGAATATTACGTCTTTATAAAAGAG
1 TTCTAAAAGAATATTACGTCTTTATAAAAGAG
1679986 TTCTAAAAGAAT
1 TTCTAAAAGAAT
1679998 TTAGCTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (32 bp):
TTCTAAAAGAATATTACGTCTTTATAAAAGAG
Found at i:1680082 original size:46 final size:45
Alignment explanation
Indices: 1680009--1680124 Score: 187
Period size: 46 Copynumber: 2.5 Consensus size: 45
1679999 TAGCTTCTTA
1680009 ATTTATCTCTTAATTAATTTAATTTTATTAGAGATAAAATATTTTC
1 ATTTATCTCTTAATTAATTTAA-TTTATTAGAGATAAAATATTTTC
* *
1680055 ATTTATCTCTTAATTAATTTTAATTTATTAGATATAAACTATTTTC
1 ATTTATCTCTTAATTAA-TTTAATTTATTAGAGATAAAATATTTTC
*
1680101 ATTTATCTTTTAATTAATTTAATT
1 ATTTATCTCTTAATTAATTTAATT
1680125 AAACTAGGGA
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
45 7 0.11
46 54 0.82
47 5 0.08
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (45 bp):
ATTTATCTCTTAATTAATTTAATTTATTAGAGATAAAATATTTTC
Found at i:1680683 original size:19 final size:20
Alignment explanation
Indices: 1680659--1680709 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1680649 TAGCCAAACT
**
1680659 TGTATCGATACA-CAAAGTA
1 TGTATCGATACACCAAAAAA
1680678 TGTATCGATACACCAAAAAA
1 TGTATCGATACACCAAAAAA
1680698 TGTATCGATACA
1 TGTATCGATACA
1680710 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
TGTATCGATACACCAAAAAA
Found at i:1684823 original size:33 final size:33
Alignment explanation
Indices: 1684786--1684852 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1684776 TTCAACGATT
1684786 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1684819 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1684852 T
1 T
1684853 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:1684824 original size:13 final size:13
Alignment explanation
Indices: 1684806--1684830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1684796 CATAAAATGT
1684806 TGTATCGATACAA
1 TGTATCGATACAA
1684819 TGTATCGATACA
1 TGTATCGATACA
1684831 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:1684914 original size:13 final size:13
Alignment explanation
Indices: 1684896--1684920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1684886 ATTACTCACA
1684896 TGTATCGATACAT
1 TGTATCGATACAT
1684909 TGTATCGATACA
1 TGTATCGATACA
1684921 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:1685057 original size:52 final size:52
Alignment explanation
Indices: 1684929--1685049 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1684919 CACTGATCTT
*
1684929 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1684981 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1685033 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1685050 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1692575 original size:52 final size:52
Alignment explanation
Indices: 1692497--1692697 Score: 341
Period size: 52 Copynumber: 3.9 Consensus size: 52
1692487 CGAAATATGA
*
1692497 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1692549 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1692601 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
1692653 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
1692698 ATGTATCGAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
51 2 0.01
52 141 0.99
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:1692704 original size:13 final size:13
Alignment explanation
Indices: 1692686--1692710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1692676 CAAAGATCAG
1692686 TGTATCGATACAA
1 TGTATCGATACAA
1692699 TGTATCGATACA
1 TGTATCGATACA
1692711 TTTAAGTGAT
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:1692791 original size:13 final size:13
Alignment explanation
Indices: 1692773--1692797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1692763 CAAAAAAACA
1692773 TGTATCGATACAT
1 TGTATCGATACAT
1692786 TGTATCGATACA
1 TGTATCGATACA
1692798 ACACTTTATG
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:1692896 original size:21 final size:21
Alignment explanation
Indices: 1692855--1692896 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1692845 GTTGGGACCT
*
1692855 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1692876 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1692897 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1693592 original size:49 final size:48
Alignment explanation
Indices: 1693539--1693810 Score: 204
Period size: 49 Copynumber: 5.3 Consensus size: 48
1693529 ATATGCTGCT
** *
1693539 AGCGATATTAGGCTCGAAGATAAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGATATT-GGCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* * * ** *
1693588 AGCGACATTGGACTTAAAGATGAAGATGAGAAAATATG-TCGATTCACGGCC
1 AGCGATATTGG-CTTAAAGAT-AA-AGGTGCCAATATGCT-GATTCAAGGCC
* * *
1693639 AACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCC
1 AGCGATATT-GGCTTAAAGAT-----AAAGG-TGCCAATATGCTGATTCAAGGCC
* * *
1693694 AGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGATATTG-GCTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGGCC
* * *
1693746 AGCTATATTGGACTTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGG-CTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
*
1693795 AGCTATATTGGGCTTA
1 AGCGATATT-GGCTTA
1693811 GAAGGGTTGC
Statistics
Matches: 180, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
48 2 0.01
49 55 0.31
50 5 0.03
51 34 0.19
52 40 0.22
53 7 0.04
54 3 0.02
55 33 0.18
56 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (48 bp):
AGCGATATTGGCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
Found at i:1693941 original size:30 final size:30
Alignment explanation
Indices: 1693831--1694284 Score: 366
Period size: 30 Copynumber: 15.5 Consensus size: 30
1693821 CACCGACTTG
* * *
1693831 TGTGGGCTTTGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1693861 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1693888 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
**
1693916 TGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* * *
1693946 TGTGGGCTTTTGAACAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1693976 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
** *
1694004 TGTGGGCTTTTGAAAAATATGCCACTAACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* *
1694034 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* *
1694064 TGTGGGC---TGAAAA-GAGTGCTA-TAGAGT
1 TGTGGGCTTTTGAAAAGGA-TGCCACT-GACT
* ** * * *
1694091 TGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTT----TTGAAAAGGA-TGCCACTGACT
* * *
1694126 TGTGGACTTTGGAAAA-GATGCCACCGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*** * *
1694155 TGTGGGCTCCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1694185 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* ** *
1694212 TGTGGGCTTTCGAAAAAAATGCCACCGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
**
1694242 TGTGGGC-TTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1694271 TGTGGACTTTTGAA
1 TGTGGGCTTTTGAA
1694285 GGGTGATGAA
Statistics
Matches: 348, Mismatches: 54, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.01
27 60 0.17
28 58 0.17
29 52 0.15
30 148 0.43
31 5 0.01
34 5 0.01
35 18 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAGGATGCCACTGACT
Found at i:1693997 original size:58 final size:59
Alignment explanation
Indices: 1693815--1694071 Score: 317
Period size: 58 Copynumber: 4.4 Consensus size: 59
1693805 GGCTTAGAAG
* * * *
1693815 GGTTGCCACCGACTTGTGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AA
1 GGTTGCCACTGAC-T-TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
* *
1693874 GGTTGCCACTGACTTGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGCTTTTGAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
** *
1693931 AATATGCCACTGACTTGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTT-AAA
1 GGT-TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
***
1693990 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTAACTTGTGGGCTTTTGAAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTG-AAA
* *
1694050 GGGTGCCACTAACTTGTGGGCT
1 GGTTGCCACTGACTTGTGGGCT
1694072 GAAAAGAGTG
Statistics
Matches: 174, Mismatches: 17, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
55 22 0.13
56 4 0.02
57 13 0.07
58 71 0.41
59 16 0.09
60 48 0.28
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (59 bp):
GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
Found at i:1694000 original size:88 final size:87
Alignment explanation
Indices: 1693815--1694071 Score: 383
Period size: 88 Copynumber: 2.9 Consensus size: 87
1693805 GGCTTAGAAG
* * *** * *
1693815 GGTTGCCACCGACTTGTGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGTT
1 GGTTGCCACTGAC-T-TGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAGGGT
*
1693878 GCCACTGACTTGTGGGCTTTTAAA
64 GCCACTAACTTGTGGGCTTTTAAA
1693902 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAACAGGGTG
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAA-AGGGTG
1693967 CCACTAACTTGTGGGCTTTTAAA
65 CCACTAACTTGTGGGCTTTTAAA
*
1693990 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTAACTTGTGGGCTTTTGAAAAGGGTG
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTG-AAAGGGTG
1694055 CCACTAACTTGTGGGCT
65 CCACTAACTTGTGGGCT
1694072 GAAAAGAGTG
Statistics
Matches: 157, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
85 32 0.20
86 5 0.03
87 13 0.08
88 105 0.67
89 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (87 bp):
GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAGGGTGC
CACTAACTTGTGGGCTTTTAAA
Found at i:1694157 original size:29 final size:29
Alignment explanation
Indices: 1694108--1694280 Score: 161
Period size: 29 Copynumber: 5.9 Consensus size: 29
1694098 TTACAAAAGA
* * *
1694108 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* **
1694138 AAAAGATGCCACCGACTTGTGGGCTCCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1694167 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
1694196 -AAGGTTGCCACTGACTTGTGGGCTTTCGA
1 AAAAGATGCCACTGACTTGTGGGCTTT-GG
* * *
1694225 AAAAAATGCCACCGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1694254 AAAAAATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
1694281 TGAAGGGTGA
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
27 21 0.18
28 2 0.02
29 50 0.42
30 46 0.39
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:1694215 original size:121 final size:116
Alignment explanation
Indices: 1693993--1694275 Score: 282
Period size: 121 Copynumber: 2.4 Consensus size: 116
1693983 TTTTAAAGGT
* * * ***
1693993 TGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCA
1 TGCCACCGACTTGTGGGC-TTTGAAAAAAATGCCACTGACTTGTGGGCTCCGGAAAAGGGTGCCA
* * *
1694058 CTAACTTGTGGGCTGAAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGAAAAAGAG
65 CTAACTTGTGGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTAC----GAAAAA-AA
* * * * * *
1694115 TGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTCCGGAAAAGGGTGCCAC
1 TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGGCTCCGGAAAAGGGTGCCAC
* * *** * *
1694180 TGATTTGTGGGCTTTGAAG-GTTGCCACT-GACTTGTGGGCTTTCGAAAAAAA
66 TAACTTGTGGGCTGAAAAGAG-TGCCA-TAGACTTGTGAGCTTACGAAAAAAA
1694231 TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGG
1 TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGG
1694276 ACTTTTGAAG
Statistics
Matches: 133, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
116 40 0.30
117 6 0.05
120 1 0.01
121 70 0.53
122 16 0.12
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (116 bp):
TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGGCTCCGGAAAAGGGTGCCAC
TAACTTGTGGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTACGAAAAAAA
Found at i:1695725 original size:1 final size:1
Alignment explanation
Indices: 1695721--1695865 Score: 101
Period size: 1 Copynumber: 145.0 Consensus size: 1
1695711 CCGGACCCCC
* * * * * * * *
1695721 TTTTTTTTGTTTGTTTTTTTATTGTTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** ** ** ** **
1695786 TTTGTTTTTTTTTGTTTTTCATTTTTTCGTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1695851 TTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTT
1695866 GGAGGACGCC
Statistics
Matches: 108, Mismatches: 36, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 108 1.00
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:1695766 original size:27 final size:27
Alignment explanation
Indices: 1695722--1695865 Score: 132
Period size: 28 Copynumber: 5.1 Consensus size: 27
1695712 CGGACCCCCT
*
1695722 TTTTTTTGTTTGTTTTTTTATTGTTTTTTG
1 TTTTTTT-TTTG-TTTTTT-TTGTTTTTTA
1695752 TTTTTTTTTTGTTTTTTTTGTTTTTT-
1 TTTTTTTTTTGTTTTTTTTGTTTTTTA
*
1695778 TTTTTGTTTTTGTTTTTTTTTGTTTTTCA
1 TTTTT-TTTTTG-TTTTTTTTGTTTTTTA
* * *
1695807 TTTTTTCGTTT-TTTTTTTGGTTTTTCA
1 TTTTTT-TTTTGTTTTTTTTGTTTTTTA
* *
1695834 TTTTTTTCGTTT-TTTTTTTTTTTTTTTG
1 TTTTTTT--TTTGTTTTTTTTGTTTTTTA
1695862 TTTT
1 TTTT
1695866 GGAGGACGCC
Statistics
Matches: 100, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.05
27 36 0.36
28 40 0.40
29 12 0.12
30 7 0.07
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.85
Consensus pattern (27 bp):
TTTTTTTTTTGTTTTTTTTGTTTTTTA
Found at i:1695774 original size:42 final size:37
Alignment explanation
Indices: 1695721--1695860 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 37
1695711 CCGGACCCCC
1695721 TTTTTTTTGTTTGTTTTTTTATTGTTTTTTGTTTTTTTTTTG
1 TTTTTTTT-TTT-TTTTTTT-TTG-TTTTTG-TTTTTTTTTG
*
1695763 TTTTTTTTGTTTTTTTTTTTGTTTTTGTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTGTTTTTGTTTTTTTTTG
** *
1695800 TTTTTCATTTTTTCGTTTTTTTTTTGGTTTTTCATTTTTTTCG
1 -TTTT--TTTTTT--TTTTTTTTTT-GTTTTTGTTTTTTTTTG
1695843 TTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTT
1695861 GTTTTGGAGG
Statistics
Matches: 87, Mismatches: 5, Indels: 16
0.81 0.05 0.15
Matches are distributed among these distances:
37 10 0.11
38 18 0.21
39 3 0.03
40 18 0.21
41 2 0.02
42 22 0.25
43 14 0.16
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.86
Consensus pattern (37 bp):
TTTTTTTTTTTTTTTTTTTTGTTTTTGTTTTTTTTTG
Found at i:1697123 original size:279 final size:279
Alignment explanation
Indices: 1696623--1697180 Score: 1116
Period size: 279 Copynumber: 2.0 Consensus size: 279
1696613 CAGACAGCTA
1696623 ATTTGGAGACATTTGCATACGAGGCAGCCTCCACCCACTTGGTGAAATAGTCAATTGCTACCAAG
1 ATTTGGAGACATTTGCATACGAGGCAGCCTCCACCCACTTGGTGAAATAGTCAATTGCTACCAAG
1696688 ATGAAACGATGTCCGTTGGAAGCTTTAGGAGTGATTGGCCCAATCACATCGATGCCCCACATAGA
66 ATGAAACGATGTCCGTTGGAAGCTTTAGGAGTGATTGGCCCAATCACATCGATGCCCCACATAGA
1696753 GAAGGGCCATGGGGTTGTCAGGACATGGAGTGATACCGGCGAGACATTGATCTTGTCTGCATAGA
131 GAAGGGCCATGGGGTTGTCAGGACATGGAGTGATACCGGCGAGACATTGATCTTGTCTGCATAGA
1696818 TTTGACATTTATGGCATTTCCGGGCATAATTGATGCAGTCCCTTTCGAGGGTCAACCAGTAATAA
196 TTTGACATTTATGGCATTTCCGGGCATAATTGATGCAGTCCCTTTCGAGGGTCAACCAGTAATAA
1696883 CCTGCTCTCATAATTTGCT
261 CCTGCTCTCATAATTTGCT
1696902 ATTTGGAGACATTTGCATACGAGGCAGCCTCCACCCACTTGGTGAAATAGTCAATTGCTACCAAG
1 ATTTGGAGACATTTGCATACGAGGCAGCCTCCACCCACTTGGTGAAATAGTCAATTGCTACCAAG
1696967 ATGAAACGATGTCCGTTGGAAGCTTTAGGAGTGATTGGCCCAATCACATCGATGCCCCACATAGA
66 ATGAAACGATGTCCGTTGGAAGCTTTAGGAGTGATTGGCCCAATCACATCGATGCCCCACATAGA
1697032 GAAGGGCCATGGGGTTGTCAGGACATGGAGTGATACCGGCGAGACATTGATCTTGTCTGCATAGA
131 GAAGGGCCATGGGGTTGTCAGGACATGGAGTGATACCGGCGAGACATTGATCTTGTCTGCATAGA
1697097 TTTGACATTTATGGCATTTCCGGGCATAATTGATGCAGTCCCTTTCGAGGGTCAACCAGTAATAA
196 TTTGACATTTATGGCATTTCCGGGCATAATTGATGCAGTCCCTTTCGAGGGTCAACCAGTAATAA
1697162 CCTGCTCTCATAATTTGCT
261 CCTGCTCTCATAATTTGCT
1697181 TGGCCATTCG
Statistics
Matches: 279, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
279 279 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (279 bp):
ATTTGGAGACATTTGCATACGAGGCAGCCTCCACCCACTTGGTGAAATAGTCAATTGCTACCAAG
ATGAAACGATGTCCGTTGGAAGCTTTAGGAGTGATTGGCCCAATCACATCGATGCCCCACATAGA
GAAGGGCCATGGGGTTGTCAGGACATGGAGTGATACCGGCGAGACATTGATCTTGTCTGCATAGA
TTTGACATTTATGGCATTTCCGGGCATAATTGATGCAGTCCCTTTCGAGGGTCAACCAGTAATAA
CCTGCTCTCATAATTTGCT
Found at i:1705849 original size:10 final size:10
Alignment explanation
Indices: 1705834--1705860 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1705824 ATGTATCAAG
1705834 CAAAAACAAA
1 CAAAAACAAA
1705844 CAAAAACAAA
1 CAAAAACAAA
1705854 CAAAAAC
1 CAAAAAC
1705861 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:1710067 original size:52 final size:52
Alignment explanation
Indices: 1709989--1710189 Score: 341
Period size: 52 Copynumber: 3.9 Consensus size: 52
1709979 CGAAATATGA
*
1709989 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1710041 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
1710093 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
1710145 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
1710190 ATGTATCGAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
51 2 0.01
52 141 0.99
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:1710196 original size:13 final size:13
Alignment explanation
Indices: 1710178--1710202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1710168 CAAAGATCAG
1710178 TGTATCGATACAA
1 TGTATCGATACAA
1710191 TGTATCGATACA
1 TGTATCGATACA
1710203 TTTAAGTGAT
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:1710283 original size:13 final size:13
Alignment explanation
Indices: 1710265--1710289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1710255 CAAAAAAACA
1710265 TGTATCGATACAT
1 TGTATCGATACAT
1710278 TGTATCGATACA
1 TGTATCGATACA
1710290 ACACTTTATG
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:1710388 original size:21 final size:21
Alignment explanation
Indices: 1710347--1710388 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1710337 GTTGGGACCT
*
1710347 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1710368 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1710389 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1711678 original size:13 final size:13
Alignment explanation
Indices: 1711660--1711698 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1711650 ACATCATTCT
1711660 TTGTATCGATACA
1 TTGTATCGATACA
1711673 TTGTATCGATACA
1 TTGTATCGATACA
*
1711686 CTGTATCGATACA
1 TTGTATCGATACA
1711699 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1714254 original size:13 final size:13
Alignment explanation
Indices: 1714236--1714261 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1714226 TACACAAAGT
1714236 ATGTATCGATACA
1 ATGTATCGATACA
1714249 ATGTATCGATACA
1 ATGTATCGATACA
1714262 CCAAAAAATG
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:1714259 original size:32 final size:33
Alignment explanation
Indices: 1714218--1714281 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1714208 TAGCCAAACT
**
1714218 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
1714250 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
1714282 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:1716352 original size:20 final size:19
Alignment explanation
Indices: 1716327--1716390 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
1716317 GGAAAAATTA
1716327 TATCGATACATGACTGAATG
1 TATCGATACAT-ACTGAATG
*
1716347 TATCGATATATACTGGCAATG
1 TATCGATACATACT-G-AATG
* *
1716368 TGTCGATACATTACTGATTG
1 TATCGATACA-TACTGAATG
1716388 TAT
1 TAT
1716391 TGACACATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 3 0.08
20 16 0.44
21 13 0.36
22 4 0.11
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (19 bp):
TATCGATACATACTGAATG
Found at i:1716585 original size:13 final size:14
Alignment explanation
Indices: 1716550--1716586 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1716540 ATCAAAATTC
*
1716550 ATGTCAAG-GTCAA
1 ATGTCAAGCTTCAA
1716563 ATGTCAAGCTTCAA
1 ATGTCAAGCTTCAA
1716577 AT-TCAAGCTT
1 ATGTCAAGCTT
1716587 TGATCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (14 bp):
ATGTCAAGCTTCAA
Found at i:1717288 original size:13 final size:13
Alignment explanation
Indices: 1717270--1717294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1717260 TCACTATTCA
1717270 TGTATCGATACAG
1 TGTATCGATACAG
1717283 TGTATCGATACA
1 TGTATCGATACA
1717295 CTATAAATAG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1717826 original size:34 final size:35
Alignment explanation
Indices: 1717763--1717829 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
1717753 CTAAGTGATT
1717763 GAGAGGTTCTATCTTAACCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAACCTTTG-AAAAGATAGAGA
*
1717799 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAACCTTTGAAAAGATAG
1717830 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
36 9 0.31
37 12 0.41
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAACCTTTGAAAAGATAGAGA
Found at i:1718946 original size:21 final size:21
Alignment explanation
Indices: 1718920--1718961 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1718910 AATCAACCGT
* *
1718920 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
1718941 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
1718962 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:1719526 original size:84 final size:84
Alignment explanation
Indices: 1719353--1719513 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
1719343 ACTCAAAGAA
* * * * * *
1719353 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
*
1719418 TATGAAAGAGTTACAAAAT
66 TAAGAAAGAGTTACAAAAT
* * *
1719437 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAATAGAGGAGA
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAAATAGAGAAGA
1719501 A-AAGAAATGAGTT
65 ATAAGAAA-GAGTT
1719514 GCAAGTGGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 5 0.08
84 58 0.89
85 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.18, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAGAAAGAGTTACAAAAT
Found at i:1721011 original size:13 final size:13
Alignment explanation
Indices: 1720993--1721017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1720983 TTTTCCAGAT
1720993 TGTATCGATACAA
1 TGTATCGATACAA
1721006 TGTATCGATACA
1 TGTATCGATACA
1721018 TTACTTCAGT
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:1723416 original size:34 final size:35
Alignment explanation
Indices: 1723353--1723419 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1723343 CTAAGTGATT
1723353 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1723389 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1723420 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1725699 original size:97 final size:95
Alignment explanation
Indices: 1725520--1725705 Score: 228
Period size: 97 Copynumber: 1.9 Consensus size: 95
1725510 TTATTTATCA
*
1725520 AGATACTCCAACCCCACCCTCCAAGGGGATACTCTAACTCACTTTTAAACATGTCAAGATTTAAA
1 AGATACTCCAACCCCACCCTCCAAGGAGATACTCTAACTCACTTTTAAACATGTCAAGATTTAAA
* * **
1725585 TTTTATTTTTGTTTAAATTATCATCATCGG
66 TCTTATTCTTGCCTAAATTATCATCATCGG
* * * * * * * *
1725615 AGATACTCTAACCCCATTCTTCTAAGGAGATACTCTAACTTTATTTTTAAACTTGTCAATATTTA
1 AGATACTCCAACCCCA-CCCTCCAAGGAGATACTCTAAC-TCACTTTTAAACATGTCAAGATTTA
*
1725680 AATCTTATTCTTGCCTAAATTGTCAT
64 AATCTTATTCTTGCCTAAATTATCAT
1725706 TGTAGGGGAC
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
95 15 0.20
96 18 0.24
97 42 0.56
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (95 bp):
AGATACTCCAACCCCACCCTCCAAGGAGATACTCTAACTCACTTTTAAACATGTCAAGATTTAAA
TCTTATTCTTGCCTAAATTATCATCATCGG
Found at i:1725744 original size:97 final size:95
Alignment explanation
Indices: 1725524--1725746 Score: 223
Period size: 97 Copynumber: 2.3 Consensus size: 95
1725514 TTATCAAGAT
* * *
1725524 ACTCCAACCCCA-CCCTCCAAGGGGATACTCTAACTCACTTTTAAACATGTCAAGATTTAAATTT
1 ACTCCAACCCCATTCCTCTAA-GGGATACTCTAACTCACTTTTAAACATGTCAAGATTTAAATCT
* ** * *
1725588 TATTTTTGTTTAAATTATCATCATCGGAGAT
65 TATTCTTGCCTAAATTATCATCATAGGAGAC
* * * * * *
1725619 ACTCTAACCCCATTCTTCTAAGGAGATACTCTAACTTTATTTTTAAACTTGTCAATATTTAAATC
1 ACTCCAACCCCATTCCTCTAAGG-GATACTCTAAC-TCACTTTTAAACATGTCAAGATTTAAATC
* ** *
1725684 TTATTCTTGCCTAAATTGTCATTGTAGGGGAC
64 TTATTCTTGCCTAAATTATCATCATAGGAGAC
* *
1725716 ACTCCAACTCTATTCCTCTGAAGGGATACTC
1 ACTCCAACCCCATTCCTCT-AAGGGATACTC
1725747 CAACCCCATT
Statistics
Matches: 102, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
95 13 0.13
96 16 0.16
97 69 0.68
98 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (95 bp):
ACTCCAACCCCATTCCTCTAAGGGATACTCTAACTCACTTTTAAACATGTCAAGATTTAAATCTT
ATTCTTGCCTAAATTATCATCATAGGAGAC
Found at i:1729182 original size:20 final size:20
Alignment explanation
Indices: 1729157--1729194 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1729147 TAAAACCCAT
1729157 ATGTATCGATATATTTTACA
1 ATGTATCGATATATTTTACA
1729177 ATGTATCGATATATTTTA
1 ATGTATCGATATATTTTA
1729195 TATTCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
ATGTATCGATATATTTTACA
Found at i:1733098 original size:20 final size:20
Alignment explanation
Indices: 1733051--1733102 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1733041 CTCTTAACAA
*
1733051 TTTA-TTAAGTTAATTATTTT
1 TTTACTTAA-TTAATGATTTT
1733071 TATT-CTTAATTAATGATTTT
1 T-TTACTTAATTAATGATTTT
1733091 TTTACTT-ATTAA
1 TTTACTTAATTAA
1733103 ATTAAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.25
20 15 0.54
21 6 0.21
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTACTTAATTAATGATTTT
Found at i:1733177 original size:28 final size:28
Alignment explanation
Indices: 1733119--1733179 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
1733109 ACATTAATTA
* * *
1733119 ATTTTATTCCTAATTAATGATTTTAGAT
1 ATTTTATTCCTAATTAATGATATAAAAT
*
1733147 ATTTGTATTCTTAATTAATGA-ATAAAAT
1 ATTT-TATTCCTAATTAATGATATAAAAT
1733175 ATTTT
1 ATTTT
1733180 TGGATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.04
28 12 0.43
29 15 0.54
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (28 bp):
ATTTTATTCCTAATTAATGATATAAAAT
Found at i:1734118 original size:20 final size:22
Alignment explanation
Indices: 1734062--1734130 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
1734052 AGTAATTATT
* * *
1734062 TATTTAAATATTTAAATATATA
1 TATTTATATATTAAAAAATATA
1734084 TATTTATATATTAAAAAATATA
1 TATTTATATATTAAAAAATATA
* *
1734106 TATTTA-ATA-TAAAAATTAAA
1 TATTTATATATTAAAAAATATA
1734126 TATTT
1 TATTT
1734131 TAAACTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 14 0.33
21 3 0.07
22 25 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTATATATTAAAAAATATA
Found at i:1736601 original size:13 final size:13
Alignment explanation
Indices: 1736582--1736620 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1736572 ACTATTTATG
1736582 ATGTATCGATACA
1 ATGTATCGATACA
*
1736595 CTGTATCGATACA
1 ATGTATCGATACA
1736608 ATGTATCGATACA
1 ATGTATCGATACA
1736621 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1736721 original size:21 final size:22
Alignment explanation
Indices: 1736691--1736745 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
1736681 ACAGTGATCT
1736691 ATGAACAGTGATGTATCAATAC
1 ATGAACAGTGATGTATCAATAC
*
1736713 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCAATAC
1736734 ATGAACAGTGAT
1 ATGAACAGTGAT
1736746 AAATAGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCAATAC
Found at i:1736844 original size:53 final size:53
Alignment explanation
Indices: 1736778--1736914 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
1736768 CTACTACCAA
1736778 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1736831 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
1736884 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1736915 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1736947 original size:20 final size:20
Alignment explanation
Indices: 1736902--1736955 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1736892 TACATATTTG
*
1736902 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
1736922 TCTGTATCGATAC-ATTTAAA
1 TGTGTATCGATACTA-TGAAA
1736942 TGTGTATCGATACT
1 TGTGTATCGATACT
1736956 TTTCAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:1737020 original size:21 final size:21
Alignment explanation
Indices: 1736994--1737034 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1736984 GTCAACCTTG
1736994 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1737015 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1737035 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1737841 original size:50 final size:46
Alignment explanation
Indices: 1737787--1737881 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 46
1737777 TGCAAGCTCT
*
1737787 CCCCCTTAATACAAATGTTCTTCTCCTTAAACCAATAAACAATAATCTCG
1 CCCCCTTAATAC-AATG-TC-AC-CCTTAAACCAATAAACAATAATCTCG
**
1737837 CCCCCTTAATACGTTGTCACCCTTAAACCAATAAACAATAATCTC
1 CCCCCTTAATACAATGTCACCCTTAAACCAATAAACAATAATCTC
1737882 TTCCCCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 25 0.60
47 1 0.02
48 2 0.05
49 2 0.05
50 12 0.29
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.28
Consensus pattern (46 bp):
CCCCCTTAATACAATGTCACCCTTAAACCAATAAACAATAATCTCG
Found at i:1740747 original size:21 final size:21
Alignment explanation
Indices: 1740723--1740764 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1740713 ATCCATTTCT
* *
1740723 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
1740744 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
1740765 ATGATTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:1742412 original size:13 final size:13
Alignment explanation
Indices: 1742393--1742431 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1742383 ACTATTTATG
1742393 ATGTATCGATACA
1 ATGTATCGATACA
*
1742406 CTGTATCGATACA
1 ATGTATCGATACA
1742419 ATGTATCGATACA
1 ATGTATCGATACA
1742432 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1742532 original size:21 final size:22
Alignment explanation
Indices: 1742502--1742556 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
1742492 ACAGTGATCT
1742502 ATGAACAGTGATGTATCAATAC
1 ATGAACAGTGATGTATCAATAC
*
1742524 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCAATAC
1742545 ATGAACAGTGAT
1 ATGAACAGTGAT
1742557 AAATAGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCAATAC
Found at i:1742663 original size:53 final size:53
Alignment explanation
Indices: 1742589--1742725 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
1742579 CTATTACCAA
*
1742589 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1742642 TGTATCAATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1742695 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
1742726 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 63 0.80
54 16 0.20
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1742758 original size:20 final size:20
Alignment explanation
Indices: 1742695--1742765 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1742685 GCCAATGTCC
**
1742695 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1742715 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
1742735 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1742755 TGTATCGATAC
1 TGTATCGATAC
1742766 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1742831 original size:21 final size:21
Alignment explanation
Indices: 1742805--1742845 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1742795 GTCAACCTTG
1742805 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1742826 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1742846 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1743365 original size:21 final size:21
Alignment explanation
Indices: 1743330--1743390 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
1743320 AACAGTTTAA
1743330 TATATTTTTATATATTAAAAAC
1 TATATTTTTA-ATATTAAAAAC
* *
1743352 TATATTTTTAATA-TACAAAT
1 TATATTTTTAATATTAAAAAC
*
1743372 TAAATATTTTAA-ATTAAAA
1 TATAT-TTTTAATATTAAAA
1743391 TCACAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 10 0.30
21 13 0.39
22 10 0.30
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTTTTAATATTAAAAAC
Found at i:1745189 original size:20 final size:20
Alignment explanation
Indices: 1745164--1745202 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1745154 AAATTAAAAC
1745164 ATTAATTAATTTTA-TTATTA
1 ATTAA-TAATTTTAGTTATTA
*
1745184 ATTAATGATTTTAGTTATT
1 ATTAATAATTTTAGTTATT
1745203 TGTATTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTAATAATTTTAGTTATTA
Found at i:1752207 original size:51 final size:52
Alignment explanation
Indices: 1752106--1752226 Score: 174
Period size: 51 Copynumber: 2.3 Consensus size: 52
1752096 GAGATAACAA
* *
1752106 CGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTGTTCTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAAT
* *
1752158 CGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATGTTCTAAAAAATAAAAT
*
1752209 CGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
1752227 TCGGAAATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 35 0.56
52 28 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAAT
Found at i:1752292 original size:79 final size:79
Alignment explanation
Indices: 1752158--1752463 Score: 479
Period size: 79 Copynumber: 3.9 Consensus size: 79
1752148 AAAATAAAAT
* * *
1752158 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1752223 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
1752237 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGTAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
1752302 CCCCACGAAAATAA
66 CCCCTCGGAAATAA
* *
1752316 CAGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA-AAGATAAAACCGGGATTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAA-ATAAAACCGGGGTTGGAGTA
1752380 TCCCCTCGGAAATAA
65 TCCCCTCGGAAATAA
* *
1752395 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1752460 CCCC
66 CCCC
1752464 AATTAAAGGA
Statistics
Matches: 204, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
78 2 0.01
79 200 0.98
80 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:1752461 original size:51 final size:51
Alignment explanation
Indices: 1752395--1752669 Score: 268
Period size: 51 Copynumber: 5.4 Consensus size: 51
1752385 TCGGAAATAA
* *
1752395 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAAC
* *
1752446 CGGGGTTGGAGTATCCCCAATTAA-AGGAAATTGGTGTTTT-GAAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTAAGA-AAAATTGATGTTTTAG-AAATAAAAC
* * * * * *
1752497 CGGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTGAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATT-AAGAAAAATTGATGTTTT-AGAAATAAAAC
* * * * * * *
1752550 CGGGTTTAGAGTATCCCCGATTATGGAAAGTT-AGTGTTTTAGAAATGAAAC
1 CGGGGTTGGAGTATCCCCAATTAAGAAAAATTGA-TGTTTTAGAAATAAAAC
* * ** * * *
1752601 CGGGGTTGGAGTATCCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAAC
1752652 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1752670 TCGGAGATAA
Statistics
Matches: 186, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.01
51 127 0.68
52 29 0.16
53 28 0.15
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:1752631 original size:104 final size:103
Alignment explanation
Indices: 1752395--1752631 Score: 302
Period size: 104 Copynumber: 2.3 Consensus size: 103
1752385 TCGGAAATAA
* * * *
1752395 CGGGGTTGGAGTATCCCCAATTATGA-AAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAATTAAGAGAAATTTGATGTTTTAAAAATAAAATCGGGGTTAGAGTA
*
1752459 TCCCCAATTAAAGGAAATTGGTGTTTTGAAAATAAAAC
66 TCCCCAATTAAAGGAAATTAGTGTTTTGAAAATAAAAC
* * *
1752497 CGGGGTTGGAGTATCCCCGATTAA-AGGAAATTTGGTGTTTTGAAAAATAAAATCGGGTTTAGAG
1 CGGGGTTGGAGTATCCCCAATTAAGA-GAAATTTGATGTTTT-AAAAATAAAATCGGGGTTAGAG
* * *
1752561 TATCCCCGATT-ATGGAAAGTTAGTGTTTT-AGAAATGAAAC
64 TATCCCCAATTAAAGGAAA-TTAGTGTTTTGA-AAATAAAAC
*
1752601 CGGGGTTGGAGTATCCCCCATTAAGAGAAAT
1 CGGGGTTGGAGTATCCCCAATTAAGAGAAAT
1752632 CAATATTTTG
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
101 1 0.01
102 22 0.19
103 19 0.16
104 74 0.63
105 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (103 bp):
CGGGGTTGGAGTATCCCCAATTAAGAGAAATTTGATGTTTTAAAAATAAAATCGGGGTTAGAGTA
TCCCCAATTAAAGGAAATTAGTGTTTTGAAAATAAAAC
Found at i:1752787 original size:51 final size:50
Alignment explanation
Indices: 1752683--1752803 Score: 163
Period size: 51 Copynumber: 2.4 Consensus size: 50
1752673 GAGATAACGA
* * * ***
1752683 GGTTGGAGTATCCTCGATTGAAAAATTGGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTAAAAAATTGGTGTTTTTGAAAATAAAACCAG
1752733 GGTTGGAGTATCCCCGATTAAAGGAAATTGGTG-TTTTGAAAATAAAACCAG
1 GGTTGGAGTATCCCCGATTAAA--AAATTGGTGTTTTTGAAAATAAAACCAG
1752784 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
1752804 TGAGCAATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 20 0.32
51 34 0.54
52 9 0.14
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTAAAAAATTGGTGTTTTTGAAAATAAAACCAG
Found at i:1753802 original size:43 final size:43
Alignment explanation
Indices: 1753755--1753893 Score: 199
Period size: 43 Copynumber: 3.2 Consensus size: 43
1753745 TCTCGCTGGA
*
1753755 GCTGCTGTTGCGTGCTGGAGCCGCAGTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
* *
1753798 GCTGCTGTTGCATGCTGGAGCTGCAGTCGTTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
* * * *
1753841 GCTGCTGTTGCGTGCTAGAGCTGTC-GCCGCCGCTGGAGTTGGT
1 GCTGCTGTTGCGTGCTGGAGCTG-CAGTCGCTGCTGGAGTTGCT
1753884 GCTGCTGTTG
1 GCTGCTGTTG
1753894 GAGCTGCTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 85 0.99
44 1 0.01
ACGTcount: A:0.07, C:0.24, G:0.39, T:0.30
Consensus pattern (43 bp):
GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
Found at i:1753804 original size:18 final size:18
Alignment explanation
Indices: 1753729--1753804 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
1753719 AAATTGCTAC
*
1753729 CTGCTGGAGTTGCTGCT-
1 CTGCTGGAGCTGCTGCTG
*
1753746 CTCGCTGGAGCTGCTGTTG
1 CT-GCTGGAGCTGCTGCTG
* *
1753765 CGTGCTGGAGCCGCAG-TCG
1 C-TGCTGGAGCTGCTGCT-G
*
1753784 CTGCTGGAGTTGCTGCTG
1 CTGCTGGAGCTGCTGCTG
1753802 CTG
1 CTG
1753805 TTGCATGCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.04
18 29 0.62
19 15 0.32
20 1 0.02
ACGTcount: A:0.07, C:0.26, G:0.38, T:0.29
Consensus pattern (18 bp):
CTGCTGGAGCTGCTGCTG
Found at i:1754322 original size:51 final size:51
Alignment explanation
Indices: 1754249--1754401 Score: 263
Period size: 51 Copynumber: 3.0 Consensus size: 51
1754239 TCCAATTGCA
1754249 ATTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGC
1 ATTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGC
1754300 ATTTTCTATTTCCTTT-CCATGCTGCATTTTTTATTTCCTTTCCCATGCTGC
1 ATTTT-TATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGC
* *
1754351 ATTTTTTATTTCCTTTCCCATGCTGCATTTTCTATTTTCTTTCCCATGCTG
1 A-TTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTG
1754402 TAAGTTTTCA
Statistics
Matches: 97, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
51 51 0.53
52 46 0.47
ACGTcount: A:0.12, C:0.27, G:0.08, T:0.54
Consensus pattern (51 bp):
ATTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGC
Found at i:1754337 original size:77 final size:78
Alignment explanation
Indices: 1754245--1754401 Score: 289
Period size: 77 Copynumber: 2.0 Consensus size: 78
1754235 TGTCTCCAAT
1754245 TGCAATTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGCATTTTCTATT
1 TGCAATTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGCATTTTCTATT
1754310 TCCTTT-CCATGC
66 TCCTTTCCCATGC
*
1754322 TGCATTTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGCATTTTCTATT
1 TGCAATTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGCATTTTCTATT
*
1754387 TTCTTTCCCATGC
66 TCCTTTCCCATGC
1754400 TG
1 TG
1754402 TAAGTTTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 69 0.90
78 8 0.10
ACGTcount: A:0.12, C:0.27, G:0.08, T:0.53
Consensus pattern (78 bp):
TGCAATTTTTATTTCCTTTCCCATGCTGCATTTTTTATTTCCTTTCCCATGCTGCATTTTCTATT
TCCTTTCCCATGC
Done.