Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 141 of 259
Found at i:45800699 original size:73 final size:73
Alignment explanation
Indices: 45800619--45800756 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 73
45800609 ATCTCCTATA
* *
45800619 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATCAAAAGTATCGATACC
1 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGAAAAAATAAAAAGTATCGATACC
45800684 TTGCCTGG
66 TTGCCTGG
* * * *
45800692 TATCGATACCAATTTGAGTTTCGAAGTTTTAGGAAAATTGAGAAAAAATAAAAAGTATCGATACC
1 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGAAAAAATAAAAAGTATCGATACC
45800757 GTTAATAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (73 bp):
TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGAAAAAATAAAAAGTATCGATACC
TTGCCTGG
Found at i:45804945 original size:39 final size:42
Alignment explanation
Indices: 45804881--45804958 Score: 108
Period size: 39 Copynumber: 1.9 Consensus size: 42
45804871 GAAGAAGAAT
* * *
45804881 AAAGAAGGGAAAAAAAAGAATGAC-AAAAAA-TTGGGGGAAG
1 AAAGAAGGAAAAAAAAACAACGACAAAAAAATTTGGGGGAAG
45804921 AAAG-AGGAAAAAAAAACAACGACAAAAAAATTTGGGGG
1 AAAGAAGGAAAAAAAAACAACGACAAAAAAATTTGGGGG
45804959 GGAGAACAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 16 0.48
40 10 0.30
41 7 0.21
ACGTcount: A:0.60, C:0.05, G:0.27, T:0.08
Consensus pattern (42 bp):
AAAGAAGGAAAAAAAAACAACGACAAAAAAATTTGGGGGAAG
Found at i:45808870 original size:444 final size:444
Alignment explanation
Indices: 45808041--45808927 Score: 1747
Period size: 444 Copynumber: 2.0 Consensus size: 444
45808031 AGGTTTTGGT
45808041 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
1 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
45808106 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
66 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
*
45808171 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATGTTGTGACATAGATCGACAGTGAGTG
131 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGACAGTGAGTG
45808236 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
196 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
45808301 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
261 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
*
45808366 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTTGAAAATGATTTTATATTTTATTA
326 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
45808431 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTGC
391 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTGC
45808485 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
1 TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
*
45808550 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACTAAATGGGACTTTT
66 TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
45808615 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGACAGTGAGTG
131 ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGACAGTGAGTG
45808680 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
196 GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
45808745 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
261 AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
45808810 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
326 CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
45808875 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTG
391 ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTG
45808928 TTGTTATTGC
Statistics
Matches: 440, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
444 440 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (444 bp):
TATGAGTTTTTATGCCATTAGTATGATTGTCTTCAAAGGTGTTATAGGTTTGATTTGGCGTAAAG
TGGCATGAGTTTGAATTGGTAATACTGGCATTGGATGCATGAAAATTTTACCAAATGGGACTTTT
ACCAAAACAAGGGTGATGTCACGACCATCTGTACCCAATATTGTGACATAGATCGACAGTGAGTG
GCGTTATAAAGTTGAGACTTTTAAAGTCGTAAAGTAACCCATTGACAGATGATGTCATGACAAGA
AAACTCTAATGTGGTGACATCAACTTGCAAGTTTTGAAAGCTTTTCAATTAAGTTCTTATCCGAC
CTCAGGTTAGTAAAAGAGCTTTCATAAGCTCATATAAGACTCGAAAATGATTTTATATTTTATTA
ATGTGTTTTATACCTGAAAGCATGTTGACTTGATTAACATGTATTGAAAGTTGC
Found at i:45813165 original size:20 final size:19
Alignment explanation
Indices: 45813137--45813174 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
45813127 TTTTAAAGAC
*
45813137 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
45813156 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
45813175 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:45826757 original size:45 final size:45
Alignment explanation
Indices: 45826670--45826765 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
45826660 TCCAATCATG
* *** *
45826670 GTCTTATTCTTCTGATTCATGATGCCATATTGCCTTTTAGCTATA
1 GTCTTATTCTTCTGAATCATGATGCCATAACACCTTTCAGCTATA
* *
45826715 GTCTTATTCTT-TAGAATCATGATGCCATAACATCTTTCAGCTATG
1 GTCTTATTCTTCT-GAATCATGATGCCATAACACCTTTCAGCTATA
45826760 GTCTTA
1 GTCTTA
45826766 CTCATTTCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.44
Consensus pattern (45 bp):
GTCTTATTCTTCTGAATCATGATGCCATAACACCTTTCAGCTATA
Found at i:45826827 original size:37 final size:37
Alignment explanation
Indices: 45826776--45826847 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
45826766 CTCATTTCCG
*
45826776 GTATAATGCCATAGTTTCTTTCAACTATAGTCTTACT
1 GTATAATGCCATAGTGTCTTTCAACTATAGTCTTACT
* * *
45826813 GTATACTGCTATAGTGTCTTTCAACTATGGTCTTA
1 GTATAATGCCATAGTGTCTTTCAACTATAGTCTTA
45826848 TTCGTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (37 bp):
GTATAATGCCATAGTGTCTTTCAACTATAGTCTTACT
Found at i:45828177 original size:76 final size:77
Alignment explanation
Indices: 45828050--45828202 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 77
45828040 TGTCTCAAGA
45828050 ACATAAAAATCATGAAAAATAATTCAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
1 ACATAAAAATCATGAAAAATAATTCAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
45828115 TCCCTCAAGCTT
66 TCCCTCAAGCTT
*
45828127 ACATAAAAATCATG-AAAATAATTGAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
1 ACATAAAAATCATGAAAAATAATTCAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
45828191 TCCCTCAAGCTT
66 TCCCTCAAGCTT
45828203 GTGAATGGTG
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
76 61 0.81
77 14 0.19
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (77 bp):
ACATAAAAATCATGAAAAATAATTCAGAAATGGACTTAAATGCAAAACAAAATCAAAACCGAAGC
TCCCTCAAGCTT
Found at i:45849250 original size:46 final size:46
Alignment explanation
Indices: 45849183--45849276 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
45849173 TCTCTACTCG
45849183 TGTGGACAAAAATAGGCCATTTGCAAGGCCAATTTGCCACCCATTT
1 TGTGGACAAAAATAGGCCATTTGCAAGGCCAATTTGCCACCCATTT
45849229 TGTGGACAAAAATAGGCCATTTGCAAGGCCAATTTGCCACCCATTT
1 TGTGGACAAAAATAGGCCATTTGCAAGGCCAATTTGCCACCCATTT
45849275 TG
1 TG
45849277 CACATACCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (46 bp):
TGTGGACAAAAATAGGCCATTTGCAAGGCCAATTTGCCACCCATTT
Found at i:45849875 original size:13 final size:12
Alignment explanation
Indices: 45849857--45849895 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45849847 TTAATTTTTC
45849857 TTATTATTATTT
1 TTATTATTATTT
45849869 ATTATTATTATTT
1 -TTATTATTATTT
**
45849882 TTATGGTTATTT
1 TTATTATTATTT
45849894 TT
1 TT
45849896 CTTTTGCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:45854113 original size:60 final size:58
Alignment explanation
Indices: 45854012--45854186 Score: 185
Period size: 60 Copynumber: 2.9 Consensus size: 58
45854002 TTTCTGAAAC
* * *
45854012 CACACAGCCGTGTGACTGATTTGGGCAATTAAGGCTTCCACATGGGCGTGTGTTATGAGA
1 CACACAGCCGTGTAACTAATTTGGG-AATT-AGGGTTCCACATGGGCGTGTGTTATGAGA
* *
45854072 CACACAGCCGTGTAACTAATTTGGGAAATTAGGGTTCCCACATGGGCGTGTGCTT-CGGGA
1 CACACAGCCGTGTAACTAATTTGGG-AATTAGGGTT-CCACATGGGCGTGTG-TTATGAGA
* * *
45854132 CACAC-GACCGTGTAACTAATTTGGG-GTCTAGGGATACCACATGGACGTGTGTTAT
1 CACACAG-CCGTGTAACTAATTTGGGAAT-TAGGG-TTCCACATGGGCGTGTGTTAT
45854187 AGGATACATG
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
58 3 0.03
59 25 0.25
60 69 0.70
61 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (58 bp):
CACACAGCCGTGTAACTAATTTGGGAATTAGGGTTCCACATGGGCGTGTGTTATGAGA
Found at i:45854711 original size:14 final size:14
Alignment explanation
Indices: 45854692--45854727 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
45854682 AGTTGGTGCT
*
45854692 TTTGCATTCATACA
1 TTTGCATACATACA
*
45854706 TTTGCATACATCCA
1 TTTGCATACATACA
45854720 TTTGCATA
1 TTTGCATA
45854728 AACTTTCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (14 bp):
TTTGCATACATACA
Found at i:45861705 original size:22 final size:20
Alignment explanation
Indices: 45861652--45861707 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
45861642 TCCAATACCA
*
45861652 AATCATAGTCAAATCATTTCG
1 AATCAT-GTCGAATCATTTCG
*
45861673 AATTACTGTCGAATCATTTTCG
1 AATCA-TGTCGAATCA-TTTCG
45861695 AATCATGGTCGAA
1 AATCAT-GTCGAA
45861708 CGAGCCTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (20 bp):
AATCATGTCGAATCATTTCG
Found at i:45871328 original size:24 final size:24
Alignment explanation
Indices: 45871282--45871328 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45871272 ATCAGAGGGA
* *
45871282 GCTGGTGGAGCAGGAGTTATTGGG
1 GCTGGTGGAGCAAGAGCTATTGGG
*
45871306 GCTGGTGGAGCAAGAGCTGTTGG
1 GCTGGTGGAGCAAGAGCTATTGG
45871329 AGCTATTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.49, T:0.23
Consensus pattern (24 bp):
GCTGGTGGAGCAAGAGCTATTGGG
Found at i:45871390 original size:24 final size:24
Alignment explanation
Indices: 45871350--45871396 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45871340 CTGGTGGAGG
*
45871350 TGTATTCTACAAGTTAAACATGTC
1 TGTATTCTACAAATTAAACATGTC
45871374 TGTAGTTCT-CAAATTAAACATGT
1 TGTA-TTCTACAAATTAAACATGT
45871397 TTTGCATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (24 bp):
TGTATTCTACAAATTAAACATGTC
Found at i:45876424 original size:13 final size:13
Alignment explanation
Indices: 45876406--45876434 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45876396 TATATAATTC
45876406 CATATAAGCATTT
1 CATATAAGCATTT
45876419 CATATAAGCATTT
1 CATATAAGCATTT
45876432 CAT
1 CAT
45876435 CTAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (13 bp):
CATATAAGCATTT
Found at i:45876930 original size:20 final size:20
Alignment explanation
Indices: 45876861--45876937 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
45876851 AAAGATGCGT
*
45876861 AACAGAGGCATCGAAGTGTA
1 AACAGAGGCATCGAAGTGCA
** * *
45876881 GGCAGAGGCA-CAAATGTTCA
1 AACAGAGGCATCGAA-GTGCA
* * *
45876901 ATCAGGGGCACCGAAGTGCA
1 AACAGAGGCATCGAAGTGCA
45876921 AACAGAGGCATCGAAGT
1 AACAGAGGCATCGAAGT
45876938 ACAATCCTGT
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.13
Consensus pattern (20 bp):
AACAGAGGCATCGAAGTGCA
Found at i:45879517 original size:34 final size:35
Alignment explanation
Indices: 45879473--45879540 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
45879463 CACACAGAAG
45879473 TTCACCCTTGAATCTTCCCTTCAGAAAACATCCAC
1 TTCACCCTTGAATCTTCCCTTCAGAAAACATCCAC
*
45879508 TTCA-CCTTGAATCTTCCCTTCAGAAAGCATCCA
1 TTCACCCTTGAATCTTCCCTTCAGAAAACATCCA
45879541 TCCAGACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.29
Consensus pattern (35 bp):
TTCACCCTTGAATCTTCCCTTCAGAAAACATCCAC
Found at i:45881038 original size:13 final size:13
Alignment explanation
Indices: 45881020--45881044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45881010 ATAAACTGTA
45881020 ATATACATACATG
1 ATATACATACATG
45881033 ATATACATACAT
1 ATATACATACAT
45881045 ATTTTAAATA
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:45881085 original size:9 final size:9
Alignment explanation
Indices: 45881067--45881299 Score: 74
Period size: 9 Copynumber: 25.3 Consensus size: 9
45881057 GCTAAAGATG
45881067 ACAT-ACAT
1 ACATAACAT
45881075 ACATAACAT
1 ACATAACAT
*
45881084 ACATAATAT
1 ACATAACAT
45881093 ACAT-ACAT
1 ACATAACAT
*
45881101 AACAATAATAT
1 -AC-ATAACAT
45881112 AC---ACAT
1 ACATAACAT
45881118 A-ATAAACAT
1 ACAT-AACAT
45881127 ACAT-A-AT
1 ACATAACAT
* *
45881134 A-GTAATAT
1 ACATAACAT
45881142 ACATAACAT
1 ACATAACAT
* *
45881151 AAATAATAT
1 ACATAACAT
* *
45881160 ACAATAATAA
1 AC-ATAACAT
* *
45881170 ATAGTAATAT
1 ACA-TAACAT
*
45881180 ACCACATAACAG
1 ---ACATAACAT
45881192 ACA-AACAT
1 ACATAACAT
*
45881200 AACAATAATAT
1 -AC-ATAACAT
45881211 ACATAACAT
1 ACATAACAT
45881220 ACATAACAT
1 ACATAACAT
* *
45881229 ACATAATAA
1 ACATAACAT
*
45881238 ACAGTAATAT
1 ACA-TAACAT
45881248 ATCACGTAACAT
1 A-CA--TAACAT
45881260 ACAT-ACAT
1 ACATAACAT
*
45881268 AACAATAATAT
1 -AC-ATAACAT
*
45881279 ACATAAAAT
1 ACATAACAT
* *
45881288 ATATGACAT
1 ACATAACAT
45881297 ACA
1 ACA
45881300 GTAATAAACA
Statistics
Matches: 170, Mismatches: 29, Indels: 51
0.68 0.12 0.20
Matches are distributed among these distances:
6 5 0.03
7 4 0.02
8 19 0.11
9 84 0.49
10 31 0.18
11 14 0.08
12 11 0.06
13 2 0.01
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.25
Consensus pattern (9 bp):
ACATAACAT
Found at i:45881085 original size:13 final size:13
Alignment explanation
Indices: 45881067--45881271 Score: 63
Period size: 13 Copynumber: 15.2 Consensus size: 13
45881057 GCTAAAGATG
45881067 ACATACATACATA
1 ACATACATACATA
45881080 ACATACATA-ATA
1 ACATACATACATA
45881092 TACATACATAACAATA
1 -ACATACAT-AC-ATA
*
45881108 ATATAC--ACATA
1 ACATACATACATA
* *
45881119 ATAAACATACATA
1 ACATACATACATA
* *
45881132 ATAGTAATATACATA
1 ACA-T-ACATACATA
*
45881147 ACATAAATA-ATA
1 ACATACATACATA
*
45881159 TACAATA-ATAAATA
1 -AC-ATACATACATA
* *
45881173 GTA-ATATACCACATA
1 --ACATACA-TACATA
* *
45881188 ACAGACAAACATA
1 ACATACATACATA
45881201 AC--A-ATA-ATA
1 ACATACATACATA
45881210 TACATAACATACATA
1 -ACAT-ACATACATA
45881225 ACATACATA-ATAA
1 ACATACATACAT-A
*
45881238 ACAGTAATATATCACGTA
1 ACA-T-ACATA-CA--TA
45881256 ACATACATACATA
1 ACATACATACATA
45881269 ACA
1 ACA
45881272 ATAATATACA
Statistics
Matches: 150, Mismatches: 14, Indels: 56
0.68 0.06 0.25
Matches are distributed among these distances:
9 3 0.02
10 4 0.03
11 9 0.06
12 10 0.07
13 60 0.40
14 20 0.13
15 30 0.20
16 7 0.05
17 2 0.01
18 4 0.03
19 1 0.01
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (13 bp):
ACATACATACATA
Found at i:45881149 original size:24 final size:23
Alignment explanation
Indices: 45881073--45881225 Score: 92
Period size: 24 Copynumber: 6.7 Consensus size: 23
45881063 GATGACATAC
*
45881073 ATACATAACATACATAATAT-AC
1 ATACATAACATACATAATATAAT
*
45881095 ATACATAAC--A-ATAATATACAC
1 ATACATAACATACATAATATA-AT
45881116 ATA-ATAAACATACATAATAGTAAT
1 ATACAT-AACATACATAATA-TAAT
*
45881140 ATACATAACATAAATAATATACA-
1 ATACATAACATACATAATATA-AT
* *
45881163 ATA-ATAA-ATA-GTAATATACCAC
1 ATACATAACATACATAATATA--AT
* * *
45881185 ATAACA-GACAAACATAACAATAAT
1 AT-ACATAACATACATAA-TATAAT
45881209 ATACATAACATACATAA
1 ATACATAACATACATAA
45881226 CATACATAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
19 7 0.07
20 10 0.10
21 13 0.12
22 15 0.14
23 11 0.11
24 38 0.37
25 7 0.07
26 3 0.03
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (23 bp):
ATACATAACATACATAATATAAT
Found at i:45881152 original size:20 final size:20
Alignment explanation
Indices: 45881117--45881181 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
45881107 AATATACACA
*
45881117 TAATAAACAT-ACATAATAG
1 TAATATACATAACATAATAG
45881136 TAATATACATAACATAA-A-
1 TAATATACATAACATAATAG
*
45881154 TAATATACAATAATA-AATAG
1 TAATATAC-ATAACATAATAG
45881174 TAATATAC
1 TAATATAC
45881182 CACATAACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.25
19 16 0.40
20 14 0.35
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.29
Consensus pattern (20 bp):
TAATATACATAACATAATAG
Found at i:45881210 original size:31 final size:31
Alignment explanation
Indices: 45881084--45881280 Score: 121
Period size: 31 Copynumber: 6.0 Consensus size: 31
45881074 TACATAACAT
*
45881084 ACATAATATACATACATAACAATAATATA-C
1 ACATAACATACATACATAACAATAATATACC
* * * * *
45881114 ACATAATAAACATACATAATAGTAATATACATA
1 ACATAACATACATACATAACAATAATATAC--C
* *
45881147 ACATAA-ATAATATACAATAATAAATAGTAATATACC
1 ACATAACAT-ACATAC-AT-A-ACA-A-TAATATACC
* *
45881183 ACATAACAGACAAACATAACAATAATATACATAAC
1 ACATAACATACATACATAACAATAATATAC----C
* *
45881218 ATACATAACATACATA-ATAAACAGTAATATATC
1 --ACATAACATACATACAT-AACAATAATATACC
*
45881251 ACGTAACATACATACATAACAATAATATAC
1 ACATAACATACATACATAACAATAATATAC
45881281 ATAAAATATA
Statistics
Matches: 129, Mismatches: 20, Indels: 35
0.70 0.11 0.19
Matches are distributed among these distances:
30 26 0.20
31 32 0.25
32 4 0.03
33 14 0.11
34 3 0.02
35 4 0.03
36 14 0.11
37 24 0.19
38 8 0.06
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.25
Consensus pattern (31 bp):
ACATAACATACATACATAACAATAATATACC
Found at i:45881213 original size:69 final size:68
Alignment explanation
Indices: 45881073--45881371 Score: 345
Period size: 69 Copynumber: 4.4 Consensus size: 68
45881063 GATGACATAC
* * * * * *
45881073 ATACATAACATACATAATATACATACAT-AACAATAATATA-CACATAATAAACATACATAATAG
1 ATACATAACATAAATAATATACATA-ATAAACAGTAATATACCACATAACATACATACATAACAA
45881136 TAAT
65 TAAT
* * *
45881140 ATACATAACATAAATAATATACAATAATAAATAGTAATATACCACATAACAGACAAACATAACAA
1 ATACATAACATAAATAATATAC-ATAATAAACAGTAATATACCACATAACATACATACATAACAA
45881205 TAAT
65 TAAT
* * * *
45881209 ATACATAACATACATAACATACATAATAAACAGTAATATATCACGTAACATACATACATAACAAT
1 ATACATAACATAAATAATATACATAATAAACAGTAATATACCACATAACATACATACATAACAAT
45881274 AAT
66 AAT
* * * * * * *
45881277 ATACATAAAATATATGACATACAGTAATAAACAATAATATACCAAATTACATACATACATAACAA
1 ATACATAACATAAATAATATACA-TAATAAACAGTAATATACCACATAACATACATACATAACAA
*
45881342 TCAT
65 TAAT
*
45881346 ATACATAA-AT-AATAATATACTTAATA
1 ATACATAACATAAATAATATACATAATA
45881372 GTAATATACC
Statistics
Matches: 200, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
66 5 0.03
67 30 0.15
68 76 0.38
69 89 0.44
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (68 bp):
ATACATAACATAAATAATATACATAATAAACAGTAATATACCACATAACATACATACATAACAAT
AAT
Found at i:45881296 original size:14 final size:15
Alignment explanation
Indices: 45881095--45881380 Score: 74
Period size: 15 Copynumber: 20.3 Consensus size: 15
45881085 CATAATATAC
45881095 ATACATAACAATAAT
1 ATACATAACAATAAT
* * *
45881110 ATACA-CATAATAAAC
1 ATACATAACAAT-AAT
* *
45881125 ATACATAATAGTAAT
1 ATACATAACAATAAT
45881140 ATACATAAC-ATAA-
1 ATACATAACAATAAT
45881153 ATA-ATATACAATAAT
1 ATACATA-ACAATAAT
**
45881168 A-A-ATAGTAAT-AT
1 ATACATAACAATAAT
* *
45881180 ACCACATAACAGA-CA-
1 A-TACATAACA-ATAAT
45881195 A-ACATAACAATAAT
1 ATACATAACAATAAT
45881209 ATACATAAC-ATACAT
1 ATACATAACAATA-AT
45881224 A-ACAT-AC-ATAAT
1 ATACATAACAATAAT
*
45881236 AAACAGT---AAT-AT
1 ATACA-TAACAATAAT
* *
45881248 ATCACGTAAC-AT-AC
1 AT-ACATAACAATAAT
45881262 ATACATAACAATAAT
1 ATACATAACAATAAT
45881277 ATACATAA-AAT-AT
1 ATACATAACAATAAT
*
45881290 ATGACAT-ACAGT-A-
1 AT-ACATAACAATAAT
45881303 AT--A-AACAATAAT
1 ATACATAACAATAAT
* *
45881315 ATACCA-AATTACAT-AC
1 ATA-CATAA-CA-ATAAT
*
45881331 ATACATAACAATCAT
1 ATACATAACAATAAT
*
45881346 ATACATAAATAATAAT
1 ATACAT-AACAATAAT
* * *
45881362 ATACTTAATAGTAAT
1 ATACATAACAATAAT
45881377 ATAC
1 ATAC
45881381 CTTTTCTTAA
Statistics
Matches: 207, Mismatches: 28, Indels: 72
0.67 0.09 0.23
Matches are distributed among these distances:
10 5 0.02
11 1 0.00
12 16 0.08
13 42 0.20
14 44 0.21
15 72 0.35
16 25 0.12
17 2 0.01
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (15 bp):
ATACATAACAATAAT
Found at i:45881305 original size:137 final size:136
Alignment explanation
Indices: 45881073--45881371 Score: 379
Period size: 137 Copynumber: 2.2 Consensus size: 136
45881063 GATGACATAC
* * *
45881073 ATACATAACATACATAATATACATACAT-AACAATAATATACACATAATAAACATACATAATAGT
1 ATACATAACATACATAATATACATA-ATAAACAATAATATACACATAACAAACATACATAACAAT
* * * * *
45881137 AATATACATAACATAAATAATATACAATAATAAATAGTAATATACCACATAACAGACAAACATAA
65 AATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAGACAAACATAA
45881202 CAATAAT
130 CAATAAT
* * * *
45881209 ATACATAACATACATAACATACATAATAAACAGTAATATATCACGTAACATACATACATAACAAT
1 ATACATAACATACATAATATACATAATAAACAATAATATA-CACATAACAAACATACATAACAAT
* * * * * *
45881274 AATATACATAAAATATATGACATACAGTAATAAACAATAATATACCAAATTACATACATACATAA
65 AATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAGACAAACATAA
*
45881339 CAATCAT
130 CAATAAT
*
45881346 ATACATAA-ATA-ATAATATACTTAATA
1 ATACATAACATACATAATATACATAATA
45881372 GTAATATACC
Statistics
Matches: 140, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
135 15 0.11
136 38 0.27
137 87 0.62
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (136 bp):
ATACATAACATACATAATATACATAATAAACAATAATATACACATAACAAACATACATAACAATA
ATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAGACAAACATAAC
AATAAT
Found at i:45881511 original size:13 final size:13
Alignment explanation
Indices: 45881413--45881571 Score: 82
Period size: 13 Copynumber: 12.4 Consensus size: 13
45881403 TAATATTCAC
*
45881413 AACATACATACAT
1 AACAGACATACAT
*
45881426 AATAGACATA-AT
1 AACAGACATACAT
45881438 -AC--ACATACAT
1 AACAGACATACAT
* *
45881448 AACACAGATACAT
1 AACAGACATACAT
45881461 ATCCACA-ACATACAT
1 A---ACAGACATACAT
*
45881476 -ACATAACATACAT
1 AACA-GACATACAT
*
45881489 AATAGACATACAT
1 AACAGACATACAT
*
45881502 AACAGGCATACAT
1 AACAGACATACAT
* * **
45881515 ATTCATAACATATGT
1 A-ACA-GACATACAT
45881530 AACAGACATACAT
1 AACAGACATACAT
* *
45881543 AGCAAACATA-AT
1 AACAGACATACAT
*
45881555 AACA-ACATGCAT
1 AACAGACATACAT
45881567 AACAG
1 AACAG
45881572 TAATACACAT
Statistics
Matches: 110, Mismatches: 22, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 10 0.09
12 13 0.12
13 58 0.53
14 6 0.05
15 13 0.12
16 3 0.03
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (13 bp):
AACAGACATACAT
Found at i:45881513 original size:54 final size:54
Alignment explanation
Indices: 45881405--45881526 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
45881395 ACATGCACTA
*
45881405 ATATTCACAACATACATACATAATAGACATAATACACATACATAACACAGATAC
1 ATATTCACAACATACATACATAACAGACATAATACACATACATAACACAGATAC
* * * *
45881459 ATATCCACAACATACATACATAACATACATAATAGACATACATAACA-GGCATAC
1 ATATTCACAACATACATACATAACAGACATAATACACATACATAACACAG-ATAC
*
45881513 ATATTCATAACATA
1 ATATTCACAACATA
45881527 TGTAACAGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.23
Consensus pattern (54 bp):
ATATTCACAACATACATACATAACAGACATAATACACATACATAACACAGATAC
Found at i:45881708 original size:30 final size:30
Alignment explanation
Indices: 45881672--45881736 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
45881662 CAGCAAAAAT
* *
45881672 AAAAA-TTAGAAGTCAGATATAATACGAATA
1 AAAAATTTA-AAGTCAAATATAATACGAACA
*
45881702 AAAAATTTAAAGTCAAATATAATATGAACA
1 AAAAATTTAAAGTCAAATATAATACGAACA
45881732 AAAAA
1 AAAAA
45881737 AAGTTTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (30 bp):
AAAAATTTAAAGTCAAATATAATACGAACA
Found at i:45892290 original size:24 final size:24
Alignment explanation
Indices: 45892258--45892306 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
45892248 TGTTGAAGGT
*
45892258 AAGTTTTCACACCCTTTAGTACAA
1 AAGTTTTCAAACCCTTTAGTACAA
*
45892282 AAGTTTTCAAACGCTTTAGTACAA
1 AAGTTTTCAAACCCTTTAGTACAA
45892306 A
1 A
45892307 TTTTCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (24 bp):
AAGTTTTCAAACCCTTTAGTACAA
Found at i:45903292 original size:46 final size:47
Alignment explanation
Indices: 45903190--45903457 Score: 309
Period size: 46 Copynumber: 5.7 Consensus size: 47
45903180 ACATTATGGG
* * *
45903190 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TTGAGATGAT
* * *
45903238 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGATG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CTTGAGATGAT
* *
45903283 AAGCCAGTGTAAGA-CATGTCTCGGACAT-GCATCAGCTACGAGATGAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCT-TGAGATGAT
* *
45903330 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGAT-AT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGAGATGAT
* *
45903376 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTATGAGATGAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCT-TGAGATGAT
*
45903423 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCA
45903458 ACACCTTAAC
Statistics
Matches: 189, Mismatches: 20, Indels: 22
0.82 0.09 0.10
Matches are distributed among these distances:
45 8 0.04
46 95 0.50
47 61 0.32
48 25 0.13
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGAGATGAT
Found at i:45903370 original size:93 final size:93
Alignment explanation
Indices: 45903190--45903459 Score: 359
Period size: 93 Copynumber: 2.9 Consensus size: 93
45903180 ACATTATGGG
* * *
45903190 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-ATTGAGACGAGAG-CTAGTGTAAGA-C
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-TGAGATGATAGTC-AGTGTAAGACC
* ** *
45903252 ATGTCTAGGACAT-GCATCGGCCTTGAGATGTA
62 ATGTCTGGGACATGGCATC-AACTTGAGATATA
* *
45903284 AGCCAGTGTAAGACATGTCTCGGACATGCATCAGCTACGAGATGATAGTCAGTGTAAGACCATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGT
*
45903349 CTGGGACATGGCATCAACTTGAGATATG
66 CTGGGACATGGCATCAACTTGAGATATA
* *
45903377 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGTTATGAGATGATAGTCAGTGTAAGACCATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGT
45903442 CTGGGACATGGCATCAAC
66 CTGGGACATGGCATCAAC
45903460 ACCTTAACCA
Statistics
Matches: 158, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
92 24 0.15
93 116 0.73
94 18 0.11
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGT
CTGGGACATGGCATCAACTTGAGATATA
Found at i:45903434 original size:139 final size:142
Alignment explanation
Indices: 45903193--45903457 Score: 407
Period size: 139 Copynumber: 1.9 Consensus size: 142
45903183 TTATGGGAGC
*
45903193 CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCT
45903258 AGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGA-CATGTCTCGGACAT-GCATCAGCTA
66 AGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACCATGTCTCGGACATGGCATCAGCTA
45903321 CGAGATGATAGT
131 CGAGATGATAGT
*
45903333 CAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTGAGA-TATGAGCCAGTGTAAGACATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGA-GAGCCAGTGTAAGACATGTC
* * * *
45903396 TGGGACATGCATCGG-TTATGAGATG-ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCA
65 TAGGACATGCATCGGCCT-TGAGATGTA-AGCCAGTGTAAGACCATGTCTCGGACATGGCATCA
45903458 ACACCTTAAC
Statistics
Matches: 114, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
138 3 0.03
139 58 0.51
140 47 0.41
141 6 0.05
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (142 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCT
AGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACCATGTCTCGGACATGGCATCAGCTA
CGAGATGATAGT
Found at i:45908168 original size:30 final size:30
Alignment explanation
Indices: 45908134--45908193 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
45908124 GGATGAAAGG
45908134 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
1 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
45908164 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
1 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
45908194 CATTTGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (30 bp):
TTGGAGAAGAAAGAAAAATGATTAAGGTGA
Found at i:45916390 original size:37 final size:38
Alignment explanation
Indices: 45916341--45916437 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 38
45916331 TAGATAGATT
*
45916341 CGATGAGGCGTTGGTCGCCAC-TTTGCTTTG-ACTTAGC
1 CGATGAGACGTTGGTCGCCACTTTTGCTTTGAAC-TAGC
** *
45916378 CGATGAGACGTTGGTCGTAACTTATTTGCTTTGAACTATC
1 CGATGAGACGTTGGTCGCCAC-T-TTTGCTTTGAACTAGC
45916418 CGATGAGACGTTGGTCGCCA
1 CGATGAGACGTTGGTCGCCA
45916438 TTCTGGTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 18 0.36
40 30 0.60
41 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (38 bp):
CGATGAGACGTTGGTCGCCACTTTTGCTTTGAACTAGC
Found at i:45922969 original size:14 final size:14
Alignment explanation
Indices: 45922950--45922977 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45922940 ACGAAATTGG
45922950 GGAAAGAAAAGAAA
1 GGAAAGAAAAGAAA
45922964 GGAAAGAAAAGAAA
1 GGAAAGAAAAGAAA
45922978 AAGAGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
GGAAAGAAAAGAAA
Found at i:45925961 original size:79 final size:79
Alignment explanation
Indices: 45925796--45925972 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 79
45925786 CGGATGATAA
* * *
45925796 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
*
45925861 GCGAGTTACTATAT
66 GCAAGTTACTATAT
*
45925875 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
*
45925939 GAGCAAG-TAGTTATAT
64 GAGCAAGTTA-CTATAT
* *
45925955 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45925973 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 60 0.69
80 25 0.29
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GCAAGTTACTATAT
Found at i:45925972 original size:39 final size:40
Alignment explanation
Indices: 45925796--45925939 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
45925786 CGGATGATAA
* *
45925796 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
45925836 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45925875 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45925915 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45925940 AGCAAGTAGT
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
39 35 0.35
40 64 0.65
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45933883 original size:39 final size:40
Alignment explanation
Indices: 45933820--45934004 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
45933810 TATTCGGATG
* *
45933820 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
45933860 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
45933899 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-GCAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACT
*
45933939 ATAACCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
45933979 ATAACC-GGCTAAGTCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGCATT
45934005 GACGAGTTCT
Statistics
Matches: 135, Mismatches: 5, Indels: 11
0.89 0.03 0.07
Matches are distributed among these distances:
39 57 0.42
40 77 0.57
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:45933989 original size:79 final size:79
Alignment explanation
Indices: 45933820--45934004 Score: 286
Period size: 79 Copynumber: 2.3 Consensus size: 79
45933810 TATTCGGATG
*
45933820 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
45933885 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* *
45933899 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGGC-AGTTACT-ATAACCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGT-GCTAGTGACTAAT-ACCGGGCTAAG-CCCGAAGG
*
45933962 CATTTTTGCGAGTTACT
63 CATTTGTGCGAGTTACT
45933979 ATAACC-GGCTAAGTCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGCATT
45934005 GACGAGTTCT
Statistics
Matches: 98, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
78 2 0.02
79 65 0.66
80 31 0.32
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:45940096 original size:29 final size:30
Alignment explanation
Indices: 45940040--45940096 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
45940030 ACCCTTAAAA
* * * *
45940040 TATTTGCACTATTAGTCCTTCAACTTTTCT
1 TATTTACACTATTAATCCCTCAAATTTTCT
45940070 TATTTACACT-TTAATCCCTCAAATTTT
1 TATTTACACTATTAATCCCTCAAATTTT
45940097 GAGTATTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.49
Consensus pattern (30 bp):
TATTTACACTATTAATCCCTCAAATTTTCT
Found at i:45944464 original size:30 final size:29
Alignment explanation
Indices: 45944430--45944497 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
45944420 CACCCTTAAA
* *
45944430 ATATTTTCACTATTAGT-CCTTAAAATTTTC
1 ATATTTACACT-TTAATCCCTT-AAATTTTC
*
45944460 ATATTTACACTTTAATCCCTTAAATTTTG
1 ATATTTACACTTTAATCCCTTAAATTTTC
45944489 AGTATTTAC
1 A-TATTTAC
45944498 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (29 bp):
ATATTTACACTTTAATCCCTTAAATTTTC
Found at i:45947937 original size:40 final size:40
Alignment explanation
Indices: 45947882--45948026 Score: 263
Period size: 40 Copynumber: 3.6 Consensus size: 40
45947872 CGGATGATAA
45947882 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45947922 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45947962 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45948002 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45948027 AGCAAGTAGT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45948326 original size:22 final size:21
Alignment explanation
Indices: 45948285--45948328 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
45948275 GAATGTGCAT
45948285 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
45948307 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
45948329 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:45958789 original size:26 final size:27
Alignment explanation
Indices: 45958760--45958819 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
45958750 CCATATATAT
*
45958760 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
45958786 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
45958813 ATATCTG
1 ATATCTG
45958820 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:45973203 original size:99 final size:99
Alignment explanation
Indices: 45973032--45973228 Score: 340
Period size: 99 Copynumber: 2.0 Consensus size: 99
45973022 GAGGGGTAAG
* *
45973032 CATTTACATGCTTAGTAAGCCTGAATAACTGGAAAGTAAACTTACCGATTAATTAGCATGCATCC
1 CATTTACATGCTTAGTAAGCCTGAATAACTAGAAACTAAACTTACCGATTAATTAGCATGCATCC
* *
45973097 ATATTAGGTAATAAAACCAACAAGCATGAAATAT
66 ATATTAGGCAACAAAACCAACAAGCATGAAATAT
*
45973131 CATTTACATGCTTAGTAAGCCTGAATAACTAGAAACTAAACTTACCGATTAATTAGCATGCGTCC
1 CATTTACATGCTTAGTAAGCCTGAATAACTAGAAACTAAACTTACCGATTAATTAGCATGCATCC
*
45973196 ATTTTAGGCAACAAAACCAACAAGCATGAAATA
66 ATATTAGGCAACAAAACCAACAAGCATGAAATA
45973229 GTTTCCCTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (99 bp):
CATTTACATGCTTAGTAAGCCTGAATAACTAGAAACTAAACTTACCGATTAATTAGCATGCATCC
ATATTAGGCAACAAAACCAACAAGCATGAAATAT
Found at i:45983021 original size:9 final size:9
Alignment explanation
Indices: 45983007--45983031 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45982997 TAGTTGTGGT
45983007 TTTGGTTGA
1 TTTGGTTGA
45983016 TTTGGTTGA
1 TTTGGTTGA
45983025 TTTGGTT
1 TTTGGTT
45983032 TTGATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (9 bp):
TTTGGTTGA
Found at i:45984513 original size:14 final size:15
Alignment explanation
Indices: 45984484--45984527 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
45984474 GTTATAATTA
45984484 TATGAGCATATGAGT
1 TATGAGCATATGAGT
*
45984499 TATGA-CATTTGAGT
1 TATGAGCATATGAGT
45984513 TATGATGCTATATGA
1 TATGA-GC-ATATGA
45984528 AAATTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.54
15 5 0.21
16 1 0.04
17 5 0.21
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (15 bp):
TATGAGCATATGAGT
Found at i:45988749 original size:43 final size:41
Alignment explanation
Indices: 45988618--45988772 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 41
45988608 TGTTCTCGTA
* * *
45988618 TAAGACCATGTCTGAGACATTGGCACCGATATGTGATTTCGA-G
1 TAAGACCATGTCTGGGACAGTGGCATCGA-ATGTGA-TTC-ATG
* * * * *
45988661 TAAGACCATGTCTGGGACATTGACGTTGTAATTGTGATTCGTG
1 TAAGACCATGTCTGGGACAGTGGCATCG-AA-TGTGATTCATG
*
45988704 TAAGACCCTGTCTGGGACAGTGGCATCGACATGTGATTACATG
1 TAAGACCATGTCTGGGACAGTGGCATCGA-ATGTGATT-CATG
*
45988747 TAAGACCACGTCTGGGAC-GTTGGCAT
1 TAAGACCATGTCTGGGACAG-TGGCAT
45988773 TGTACGATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 9 0.10
43 77 0.84
44 6 0.07
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACAGTGGCATCGAATGTGATTCATG
Found at i:45988776 original size:86 final size:86
Alignment explanation
Indices: 45988613--45988776 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
45988603 ATATGTGTTC
* * * *
45988613 TCGTATAAGACCATGTCTGAGACATTGGCACCGATATGTGATTTCGAGTAAGACCATGTCTGGGA
1 TCGTATAAGACCATGTCTGAGACAGTGGCACCGACATGTGATTACGAGTAAGACCACGTCTGGGA
*
45988678 CATTGACGTTGTAATTGTGAT
66 CATTGACATTGTAATTGTGAT
* * * *
45988699 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGACATGTGATTAC-ATGTAAGACCACGTCTGGG
1 TCGTATAAGACCATGTCTGAGACAGTGGCACCGACATGTGATTACGA-GTAAGACCACGTCTGGG
* *
45988763 ACGTTGGCATTGTA
65 ACATTGACATTGTA
45988777 CGATATGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 1 0.02
86 65 0.98
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (86 bp):
TCGTATAAGACCATGTCTGAGACAGTGGCACCGACATGTGATTACGAGTAAGACCACGTCTGGGA
CATTGACATTGTAATTGTGAT
Found at i:45995202 original size:9 final size:9
Alignment explanation
Indices: 45995185--45995250 Score: 60
Period size: 9 Copynumber: 7.1 Consensus size: 9
45995175 AAAATATATA
*
45995185 TTTATAATT
1 TTTAAAATT
45995194 TTTAAAATT
1 TTTAAAATT
*
45995203 TTTTAAATT
1 TTTAAAATT
**
45995212 TTTTGAATT
1 TTTAAAATT
45995221 TTTAAAATT
1 TTTAAAATT
*
45995230 TTAAAAAATT
1 TT-TAAAATT
*
45995240 AATTAAAATT
1 -TTTAAAATT
45995250 T
1 T
45995251 GACGTGGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 33 0.72
10 12 0.26
11 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
TTTAAAATT
Found at i:45995207 original size:10 final size:10
Alignment explanation
Indices: 45995161--45995250 Score: 53
Period size: 10 Copynumber: 9.0 Consensus size: 10
45995151 CTTCTTTAAA
45995161 TTTAAAATGTT
1 TTTAAAAT-TT
*
45995172 TTAAAAATATAT
1 TTTAAAAT-T-T
*
45995184 ATTTATAA-TT
1 -TTTAAAATTT
45995194 TTTAAAATTT
1 TTTAAAATTT
45995204 TTT-AAATTT
1 TTTAAAATTT
*
45995213 TTT-GAA-TT
1 TTTAAAATTT
45995221 TTTAAAATTT
1 TTTAAAATTT
** *
45995231 TAAAAAATTA
1 TTTAAAATTT
*
45995241 ATTAAAATTT
1 TTTAAAATTT
45995251 GACGTGGTGT
Statistics
Matches: 60, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
8 5 0.08
9 19 0.32
10 21 0.35
11 9 0.15
12 1 0.02
13 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:45995213 original size:18 final size:17
Alignment explanation
Indices: 45995185--45995235 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
45995175 AAAATATATA
45995185 TTTATAATTTTTAAAATTT
1 TTTA-AATTTTTAAAA-TT
**
45995204 TTTAAATTTTTTGAATT
1 TTTAAATTTTTAAAATT
*
45995221 TTTAAAATTTTAAAA
1 TTTAAATTTTTAAAA
45995236 AATTAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 14 0.52
18 9 0.33
19 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAAATTTTTAAAATT
Found at i:46009680 original size:37 final size:37
Alignment explanation
Indices: 46009630--46009745 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
46009620 TTATTACAAA
46009630 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
46009667 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
* * * *
46009704 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
46009741 GTCTT
1 GTCTT
46009746 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
Found at i:46009990 original size:47 final size:47
Alignment explanation
Indices: 46009864--46010345 Score: 793
Period size: 47 Copynumber: 10.1 Consensus size: 47
46009854 CCCTTCGGGA
* * * * * *
46009864 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46009911 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46009960 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46010007 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46010056 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46010103 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46010152 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46010199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46010246 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46010295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46010342 CTTA
1 CTTA
46010346 CTATCATTTC
Statistics
Matches: 411, Mismatches: 16, Indels: 16
0.93 0.04 0.04
Matches are distributed among these distances:
47 234 0.57
49 177 0.43
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46010028 original size:96 final size:96
Alignment explanation
Indices: 46009864--46010345 Score: 828
Period size: 96 Copynumber: 5.0 Consensus size: 96
46009854 CCCTTCGGGA
* * * * * * *
46009864 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
46009929 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
46009960 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
46010025 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
46010056 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
46010121 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
46010152 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
46010215 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
46010246 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
46010309 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
46010342 CTTA
1 CTTA
46010346 CTATCATTTC
Statistics
Matches: 375, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
94 47 0.13
96 328 0.87
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46010179 original size:143 final size:143
Alignment explanation
Indices: 46009864--46010345 Score: 815
Period size: 143 Copynumber: 3.4 Consensus size: 143
46009854 CCCTTCGGGA
* * * * * * * *
46009864 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
46009929 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
46009992 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
*
46010007 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
46010072 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
46010137 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
46010152 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
46010217 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
46010282 TCGGCCATTAGGC
131 TCGGCCATTAGGC
46010295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
46010346 CTATCATTTC
Statistics
Matches: 322, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
143 237 0.74
145 85 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:46013290 original size:45 final size:45
Alignment explanation
Indices: 46013225--46013395 Score: 197
Period size: 45 Copynumber: 3.7 Consensus size: 45
46013215 GCATATTTTT
*
46013225 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACACGTCTCG-AG
*
46013271 GCCGATG-CATGTCCCAGACATGT-TTACACTAACTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGAC--ACGTCTCGAG
* * *
46013316 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT-G-ACACGTCTCGAG
*
46013362 GCCGATGCCATTTCCCAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTG
46013396 GCTCTCATAA
Statistics
Matches: 110, Mismatches: 7, Indels: 15
0.83 0.05 0.11
Matches are distributed among these distances:
43 9 0.08
44 3 0.03
45 44 0.40
46 28 0.25
47 14 0.13
48 12 0.11
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACACGTCTCGAG
Found at i:46025120 original size:27 final size:26
Alignment explanation
Indices: 46025076--46025126 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
46025066 CTCGCTGCAA
* *
46025076 TCTGGTGGCTTTGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
46025103 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACTTCGCCACAATATCT
46025127 TGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:46038496 original size:22 final size:22
Alignment explanation
Indices: 46038463--46038504 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46038453 AATATTGGTC
*
46038463 TTTGTGTGGCAACAT-GGGAAG
1 TTTGTGTCGCAACATAGGGAAG
46038484 TTTGATGTCGCAACATAGGGA
1 TTTG-TGTCGCAACATAGGGA
46038505 GCATAATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.29
Consensus pattern (22 bp):
TTTGTGTCGCAACATAGGGAAG
Found at i:46047321 original size:46 final size:44
Alignment explanation
Indices: 46047271--46047386 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 44
46047261 AGTGCTAGAG
*
46047271 TAAGACATGTCTGGGACATGCATTAGCCT-CGAGAAGTAAGTCAGTC
1 TAAGACATGTCTGGGACATGCATCAG-CTACGAGAAGT--GTCAGTC
* *
46047317 TAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCTACGAGAAGTGTCAGTC
46047361 TAAGACCATGTCTGGGACATGGCATC
1 TAAGA-CATGTCTGGGACAT-GCATC
46047387 GGCACAGATA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
44 11 0.17
45 16 0.25
46 37 0.58
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCAGCTACGAGAAGTGTCAGTC
Found at i:46054949 original size:93 final size:93
Alignment explanation
Indices: 46054790--46054962 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
46054780 CGCCCATAAG
* * *
46054790 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
46054855 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
46054883 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
46054948 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
46054963 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:46054958 original size:46 final size:46
Alignment explanation
Indices: 46054783--46054958 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
46054773 TGTAACCCGC
* * *
46054783 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* ** *
46054829 CCGTAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
46054879 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
46054922 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
46054959 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46057925 original size:40 final size:40
Alignment explanation
Indices: 46057841--46058065 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
46057831 TTGAATGATG
* * * *
46057841 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
46057881 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46057921 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46057960 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46058000 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46058041 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46058066 AAGGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46058087 original size:119 final size:119
Alignment explanation
Indices: 46057841--46058088 Score: 274
Period size: 119 Copynumber: 2.1 Consensus size: 119
46057831 TTGAATGATG
* *
46057841 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
46057906 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGAAGCGAGTGACTAAA
* * * **
46057960 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
46058023 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAAG-GAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTGAAGCGAGTGA-CTAAA
46058080 TCC-GGTTAA
1 TCCGGGTTAA
46058089 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
118 3 0.03
119 75 0.69
120 27 0.25
121 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGAAGCGAGTGACTAAA
Found at i:46065306 original size:40 final size:40
Alignment explanation
Indices: 46065222--46065446 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
46065212 TTGAATGATG
* * * *
46065222 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
46065262 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46065302 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
46065341 TCCAGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46065381 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46065422 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46065447 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46065468 original size:119 final size:119
Alignment explanation
Indices: 46065229--46065479 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
46065219 ATGTCCGGGC
*
46065229 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
46065294 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCAGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCAGGT
* * * **
46065348 TAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
46065411 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAATCCAGGT
* *
46065467 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
46065480 TACGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 78 0.70
120 30 0.27
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATCCAGGT
Found at i:46082496 original size:60 final size:59
Alignment explanation
Indices: 46082420--46082556 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
46082410 AACTATGTTA
* * *
46082420 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTGCGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACT-TCGA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
46082480 ATATGGGCTAGGCCCAATATACTTTGATACTGTAAAGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTTCGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
46082540 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
46082557 GTTAACACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 53 0.79
61 13 0.19
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTTCGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:46087376 original size:60 final size:59
Alignment explanation
Indices: 46087300--46087436 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
46087290 AACTATGTTA
* * *
46087300 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTGCGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
46087360 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
46087420 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
46087437 GTTAAGACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:46090971 original size:14 final size:14
Alignment explanation
Indices: 46090952--46090980 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46090942 CCTTCTGGGA
46090952 ACAGAGCTATCGAT
1 ACAGAGCTATCGAT
46090966 ACAGAGCTATCGAT
1 ACAGAGCTATCGAT
46090980 A
1 A
46090981 TTGGTGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
ACAGAGCTATCGAT
Found at i:46091896 original size:25 final size:25
Alignment explanation
Indices: 46091858--46091940 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
46091848 TGAGAATCAA
*
46091858 AATCA-AATCAGGTGACATAATTAG
1 AATCAGAATCAGGTGACAGAATTAG
* * *
46091882 AATCAGAATTAGGTGGCAGAATCAG
1 AATCAGAATCAGGTGACAGAATTAG
* *
46091907 AATCAGTATCAGGTAACAGAATTAG
1 AATCAGAATCAGGTGACAGAATTAG
46091932 AATCAGAAT
1 AATCAGAAT
46091941 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 5 0.10
25 43 0.90
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (25 bp):
AATCAGAATCAGGTGACAGAATTAG
Found at i:46093933 original size:40 final size:40
Alignment explanation
Indices: 46093860--46094063 Score: 263
Period size: 40 Copynumber: 5.1 Consensus size: 40
46093850 CGGGATTTAA
* *
46093860 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
46093899 CAGGATATAGTAACTCGCACCAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46093939 CCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46093979 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46094019 CCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
46094060 CCGG
1 CCGG
46094064 TTATCATCCA
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.11
40 101 0.69
41 24 0.16
42 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46097231 original size:40 final size:39
Alignment explanation
Indices: 46097138--46097245 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 39
46097128 AAGCCAAGTA
* * *
46097138 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCCCAATG
*
46097176 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGC-CCAATG
46097216 CCTTCGGGACTTAGCCCGGATATAGTAACT
1 CCTTCGGGACTTAGCCCGGATATAGTAACT
46097246 GTGACACCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 12 0.19
39 16 0.26
40 34 0.55
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCCCAATG
Found at i:46100518 original size:47 final size:47
Alignment explanation
Indices: 46100464--46100848 Score: 594
Period size: 47 Copynumber: 8.2 Consensus size: 47
46100454 AGTGAATGGT
46100464 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
*
46100511 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
*
46100558 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
46100605 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
*
46100652 TGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
* * *
46100699 TGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
* * *
46100746 TGTGATAAGGCCGAGTGGCCAATGTGAT-AAATGTGAGCATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAA-GTGAACATGTATATG
* * * * * **
46100793 TGAGATAAGGCCTAATGGCCGATGTGAAGAATGTGAA-AGTGTATAAA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA-TGTATATG
46100840 TGTGATAAG
1 TGTGATAAG
46100849 TCCCGAAGGG
Statistics
Matches: 313, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 3 0.01
47 308 0.98
48 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTATATG
Found at i:46100699 original size:23 final size:23
Alignment explanation
Indices: 46100626--46100700 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
46100616 CGAATGGCCA
46100626 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
* *
46100649 ATGTG-TGATAAAGCCG-A-ATGGCCA-
1 ATGTGATG--AAAG-TGAACAT-G-TAT
46100673 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
46100696 ATGTG
1 ATGTG
46100701 TGACAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTAT
Found at i:46101023 original size:37 final size:37
Alignment explanation
Indices: 46100967--46101046 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
46100957 CCGGGCTCTA
* * *
46100967 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGAGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGAGT
* *
46101004 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGAGT
46101041 AAGACT
1 AAGACT
46101047 TCGTAATAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGAGT
Found at i:46102443 original size:40 final size:40
Alignment explanation
Indices: 46102383--46102497 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
46102373 GGCGTTACAG
* * * **
46102383 TAACTCGCCCAAATGGCTTCGAGACTTAGCCCGGATGTAA
1 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAA
* *
46102423 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
1 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAA
*
46102463 TCACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 TAACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
46102498 TTATCATCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 37 0.58
41 23 0.36
42 4 0.06
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (40 bp):
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAA
Found at i:46105409 original size:27 final size:27
Alignment explanation
Indices: 46105378--46105555 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46105368 TAAATTGTAC
46105378 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46105405 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46105431 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46105459 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46105487 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46105514 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46105541 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46105556 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46105492 original size:82 final size:81
Alignment explanation
Indices: 46105379--46105534 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46105369 AAATTGTACA
* *
46105379 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46105443 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46105460 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46105525 TGCGAGTTGA
65 TGCGAATTGA
46105535 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46105546 original size:82 final size:81
Alignment explanation
Indices: 46105375--46105555 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
46105365 GATTAAATTG
* *
46105375 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46105440 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46105456 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46105520 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46105538 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46105556 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46126020 original size:49 final size:50
Alignment explanation
Indices: 46125951--46126323 Score: 326
Period size: 49 Copynumber: 7.7 Consensus size: 50
46125941 ATATATTGTA
* * *
46125951 AGGTCACATGTGTAGTACTAATTGTAGGCTACTACGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
46126001 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
46126051 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
46126101 AGGTCACACGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
46126151 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA-ATT
* * * * * * *
46126201 TGG-CTACAAGTGT-GAAAATATGTGTAGGC-A--AC-TG-A---G--ACTT
1 AGGTC-ACATGTGTAG-TACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
46126241 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
46126291 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
46126324 TGCGTACCAG
Statistics
Matches: 255, Mismatches: 50, Indels: 37
0.75 0.15 0.11
Matches are distributed among these distances:
40 20 0.08
41 4 0.02
43 3 0.01
44 2 0.01
45 1 0.00
46 1 0.00
47 1 0.00
48 2 0.01
49 111 0.44
50 54 0.21
51 56 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:46126362 original size:140 final size:140
Alignment explanation
Indices: 46126110--46126376 Score: 534
Period size: 140 Copynumber: 1.9 Consensus size: 140
46126100 TAGGTCACAC
46126110 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
46126175 AGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAAAATATGTGTAGGCAACTGAGACT
66 AGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAAAATATGTGTAGGCAACTGAGACT
46126240 TCGATCACGT
131 TCGATCACGT
46126250 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
46126315 AGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAAAATATGTGTAGGCAACTGAG
66 AGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAAAATATGTGTAGGCAACTGAG
46126377 TATCAGTTAT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 127 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (140 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
AGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAAAATATGTGTAGGCAACTGAGACT
TCGATCACGT
Found at i:46146243 original size:45 final size:44
Alignment explanation
Indices: 46146194--46146323 Score: 188
Period size: 45 Copynumber: 2.9 Consensus size: 44
46146184 GATTATCATT
*
46146194 TCATCGGCATTATAGTCTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCATCGGCATTATAG-CTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
46146239 TCATCGGCATTATAGCCTGCTAAGCCCAAAGGCCCGAATAGTGTC
1 TCATCGGCATTATAG-CTGCTAGGCTCAAAGGCCCGAATAGTATC
*
46146284 TCATCGGCATAATAGCTTGCTAGGCTCAAAGGCCCGAATA
1 TCATCGGCATTATAGC-TGCTAGGCTCAAAGGCCCGAATA
46146324 TAATACCAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
44 1 0.01
45 75 0.99
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TCATCGGCATTATAGCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:46146372 original size:38 final size:38
Alignment explanation
Indices: 46146321--46146448 Score: 175
Period size: 38 Copynumber: 3.4 Consensus size: 38
46146311 AAAGGCCCGA
* * **
46146321 ATATAATACCAGCACTAGGCCTGCATGATTTAACCAGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
*
46146359 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
* * *
46146397 ATATATTACCAGCACGAAGCCTACGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
*
46146435 ATATAATTCCAGCA
1 ATATAATACCAGCA
46146449 TATAGCCTGT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
Found at i:46152611 original size:10 final size:10
Alignment explanation
Indices: 46152598--46152655 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
46152588 GAAGAAGAAT
46152598 GAGCTGAAAC
1 GAGCTGAAAC
*
46152608 GAGCTGAATTC
1 GAGCTGAA-AC
* *
46152619 GAGCTCAAAT
1 GAGCTGAAAC
*
46152629 GAGCTGAATC
1 GAGCTGAAAC
* *
46152639 GAGCTTAAGC
1 GAGCTGAAAC
46152649 GAGCTGA
1 GAGCTGA
46152656 TTTGAGCTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
10 29 0.78
11 8 0.22
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (10 bp):
GAGCTGAAAC
Found at i:46152662 original size:20 final size:20
Alignment explanation
Indices: 46152598--46152663 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
46152588 GAAGAAGAAT
*
46152598 GAGCTGAAACGAGCTGAATTC
1 GAGCTCAAACGAGCTG-ATTC
* *
46152619 GAGCTCAAATGAGCTGAATC
1 GAGCTCAAACGAGCTGATTC
* * *
46152639 GAGCTTAAGCGAGCTGATTT
1 GAGCTCAAACGAGCTGATTC
46152659 GAGCT
1 GAGCT
46152664 GAATGGCGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (20 bp):
GAGCTCAAACGAGCTGATTC
Found at i:46154667 original size:18 final size:20
Alignment explanation
Indices: 46154644--46154683 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
46154634 TTGTTCACTT
46154644 TCTTTTATTT-TTT-TTCTC
1 TCTTTTATTTGTTTCTTCTC
*
46154662 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTATTTGTTTCTTCTC
46154682 TC
1 TC
46154684 GATTTCATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.72
Consensus pattern (20 bp):
TCTTTTATTTGTTTCTTCTC
Found at i:46154759 original size:17 final size:17
Alignment explanation
Indices: 46154730--46154776 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
46154720 CTTTTCTTGC
*
46154730 CTCTCTTTTCTTTTGAT
1 CTCTCTTTTCTTTTCAT
46154747 CTCT-TTTTGCTTTTCAT
1 CTCTCTTTT-CTTTTCAT
46154764 CTTCTTCTTTTCT
1 C-TC-TCTTTTCT
46154777 CTCTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 2 0.08
19 3 0.12
20 4 0.16
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (17 bp):
CTCTCTTTTCTTTTCAT
Found at i:46156764 original size:20 final size:20
Alignment explanation
Indices: 46156699--46156765 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
46156689 GAAGAAGGAA
* *
46156699 TGAGCTGAAACGAGTTGAATT
1 TGAGCTCAAACGAGCTG-ATT
* *
46156720 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGATT
* *
46156740 CGAGCTCAAGCGAGCTGATT
1 TGAGCTCAAACGAGCTGATT
46156760 TGAGCT
1 TGAGCT
46156766 GAATGGCGCA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGATT
Found at i:46158493 original size:3 final size:3
Alignment explanation
Indices: 46158487--46158517 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
46158477 TAATAATAAA
*
46158487 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
46158518 TGGTAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46158505 original size:18 final size:18
Alignment explanation
Indices: 46158463--46158517 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
46158453 TTGATGCAAA
* * *
46158463 AAGAAAAAGAATAATAAT
1 AAGAAAAAGAAGAAGAAG
*
46158481 AATAAAAAGAAGAAGAAG
1 AAGAAAAAGAAGAAGAAG
46158499 AAGAAAAAGAAGAAGAAG
1 AAGAAAAAGAAGAAGAAG
46158517 A
1 A
46158518 TGGTAAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (18 bp):
AAGAAAAAGAAGAAGAAG
Found at i:46162199 original size:23 final size:23
Alignment explanation
Indices: 46162173--46162299 Score: 104
Period size: 23 Copynumber: 5.7 Consensus size: 23
46162163 TCAAGATGAG
46162173 TATTAAATTAATATTAATAAATT
1 TATTAAATTAATATTAATAAATT
* *
46162196 TATTAAAATAATATT-ATTAATT
1 TATTAAATTAATATTAATAAATT
* *
46162218 TAATAAATT--TATTATTAAA-T
1 TATTAAATTAATATTAATAAATT
* * * * *
46162238 TAATAAAATACTA-TCA-AGATT
1 TATTAAATTAATATTAATAAATT
46162259 AGTATTAAATTAATATTAATAAATT
1 --TATTAAATTAATATTAATAAATT
*
46162284 TATTAAACTAATATTA
1 TATTAAATTAATATTA
46162300 TTTTTGGAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
20 15 0.19
21 5 0.06
22 15 0.19
23 39 0.49
24 2 0.03
25 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTAAATTAATATTAATAAATT
Found at i:46162222 original size:17 final size:18
Alignment explanation
Indices: 46162202--46162243 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
46162192 AATTTATTAA
*
46162202 AATAA-TATTATTAATTT
1 AATAATTATTATTAAATT
46162219 AATAAATTTATTATTAAATT
1 AAT-AA-TTATTATTAAATT
46162239 AATAA
1 AATAA
46162244 AATACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 2 0.10
19 2 0.10
20 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATAATTATTATTAAATT
Found at i:46162229 original size:88 final size:88
Alignment explanation
Indices: 46162137--46162301 Score: 312
Period size: 88 Copynumber: 1.9 Consensus size: 88
46162127 AGATAATCAC
46162137 TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
1 TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
46162202 AATAATATTATTAATTTAATAAA
66 AATAATATTATTAATTTAATAAA
*
46162225 TTTATTATTAAATTAATAAAATACTATCAAGATTAGTATTAAATTAATATTAATAAATTTATTAA
1 TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
*
46162290 ACTAATATTATT
66 AATAATATTATT
46162302 TTTGGAATAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (88 bp):
TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
AATAATATTATTAATTTAATAAA
Found at i:46162232 original size:20 final size:20
Alignment explanation
Indices: 46162207--46162244 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46162197 ATTAAAATAA
*
46162207 TATTATTAATTTAATAAATT
1 TATTATTAAATTAATAAATT
46162227 TATTATTAAATTAATAAA
1 TATTATTAAATTAATAAA
46162245 ATACTATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTATTAAATTAATAAATT
Found at i:46164784 original size:25 final size:25
Alignment explanation
Indices: 46164750--46164802 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
46164740 CAGATAGACC
46164750 TGTGATAGCATGACATTCTATTGTA
1 TGTGATAGCATGACATTCTATTGTA
*
46164775 TGTGATAGCATGACATTCTGTTGTA
1 TGTGATAGCATGACATTCTATTGTA
46164800 TGT
1 TGT
46164803 TGCAATGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.42
Consensus pattern (25 bp):
TGTGATAGCATGACATTCTATTGTA
Found at i:46177057 original size:21 final size:22
Alignment explanation
Indices: 46177031--46177084 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
46177021 TGACCTGCAG
**
46177031 CACGGGCGTGT-CCTAGGGTCA
1 CACGGGCGTGTCCCTAGGACCA
* *
46177052 CACGGGCATGTCCCTTGGACCA
1 CACGGGCGTGTCCCTAGGACCA
46177074 CACGGGCGTGT
1 CACGGGCGTGT
46177085 GGGCCCTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (22 bp):
CACGGGCGTGTCCCTAGGACCA
Found at i:46181351 original size:43 final size:42
Alignment explanation
Indices: 46181277--46181427 Score: 176
Period size: 42 Copynumber: 3.6 Consensus size: 42
46181267 ATACCAATGT
* * ** *
46181277 CATATGCCAGATATGGTCTTACATGGGATCTCCTATTGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
* ** *
46181319 CAATAGCCCAGCGATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
* ** *
46181362 CATATCCTAGATATGGTCTTACATAAAATCTCATAATGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
46181404 CATATCCCAGATATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
46181428 ATAGTCTCAG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 56 0.63
43 33 0.37
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
Found at i:46184745 original size:40 final size:40
Alignment explanation
Indices: 46184694--46184898 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
46184684 GGATGATAAT
* *
46184694 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
46184733 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
46184774 TCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* **
46184814 TCCGGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
46184854 TCCCGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
46184894 TCCGG
1 TCCGG
46184899 TTAAAGCCCG
Statistics
Matches: 149, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 148 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:46205542 original size:40 final size:40
Alignment explanation
Indices: 46205491--46205735 Score: 343
Period size: 40 Copynumber: 6.1 Consensus size: 40
46205481 GGATGATAAT
*
46205491 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
46205530 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
46205570 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
46205611 TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* * *
46205651 TCCGGGCTAAGTCCCGAAGACATTTGTGGGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATA
* * *
46205691 TCCAGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
46205731 TCCGG
1 TCCGG
46205736 TTAAAGCCCG
Statistics
Matches: 188, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.01
40 183 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:46210904 original size:17 final size:17
Alignment explanation
Indices: 46210882--46210914 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46210872 TTTTTATCAT
*
46210882 TTATCATTTATCGGGCA
1 TTATCATTGATCGGGCA
46210899 TTATCATTGATCGGGC
1 TTATCATTGATCGGGC
46210915 TTTTTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (17 bp):
TTATCATTGATCGGGCA
Found at i:46216213 original size:19 final size:19
Alignment explanation
Indices: 46216185--46216228 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
46216175 ATGTTCTTCT
* *
46216185 TTTTCCCGTCTCCCATTCG
1 TTTTCTCGTCTCACATTCG
46216204 TTTTCTCGTCTCACATTCG
1 TTTTCTCGTCTCACATTCG
46216223 TTTTCT
1 TTTTCT
46216229 TTTTCTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.34, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTTCTCGTCTCACATTCG
Found at i:46216837 original size:17 final size:18
Alignment explanation
Indices: 46216815--46216849 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46216805 TGATTTGGGC
46216815 CGTGTGGG-CCACACAGG
1 CGTGTGGGTCCACACAGG
46216832 CGTGTGGGTCCACACAGG
1 CGTGTGGGTCCACACAGG
46216850 TAGTCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.29, G:0.40, T:0.14
Consensus pattern (18 bp):
CGTGTGGGTCCACACAGG
Found at i:46219501 original size:53 final size:53
Alignment explanation
Indices: 46219431--46219533 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
46219421 ATCACATGGT
* *
46219431 CGACCACACGCCTGTGTGCTAGGCCGTGTAGTACACACGGCCGAGACACACGC
1 CGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCCGAGACACACGC
*
46219484 CGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCTGAGACACA
1 CGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCCGAGACACA
46219534 TGCCCGTGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (53 bp):
CGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCCGAGACACACGC
Found at i:46228779 original size:13 final size:13
Alignment explanation
Indices: 46228761--46228786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46228751 CATAAACATG
46228761 AAAAAATAAATTA
1 AAAAAATAAATTA
46228774 AAAAAATAAATTA
1 AAAAAATAAATTA
46228787 TCAAATTATT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATAAATTA
Found at i:46229290 original size:17 final size:18
Alignment explanation
Indices: 46229268--46229301 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46229258 ATCATATAAA
46229268 TTTTTTA-ATTCTTTTAT
1 TTTTTTATATTCTTTTAT
*
46229285 TTTTTTATTTTCTTTTA
1 TTTTTTATATTCTTTTA
46229302 CTTAATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTATATTCTTTTAT
Found at i:46231881 original size:34 final size:34
Alignment explanation
Indices: 46231838--46231941 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 34
46231828 ATTACCTATA
**
46231838 CTTTGTTTTATTACAACTTTGCCTTCAAGGCAAG
1 CTTTGTTTTATTACAACTTTAACTTCAAGGCAAG
*
46231872 CTTTGTTTTATTACAACTTTAACTTCAAGTCTAA-
1 CTTTGTTTTATTACAACTTTAACTTCAAGGC-AAG
* * * *
46231906 CTTTGTTCTATTACAGCTTTATCTTCAAGGCGAG
1 CTTTGTTTTATTACAACTTTAACTTCAAGGCAAG
46231940 CT
1 CT
46231942 CAAATTATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 1 0.02
34 57 0.95
35 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (34 bp):
CTTTGTTTTATTACAACTTTAACTTCAAGGCAAG
Found at i:46231967 original size:35 final size:35
Alignment explanation
Indices: 46231920--46232099 Score: 134
Period size: 35 Copynumber: 5.2 Consensus size: 35
46231910 GTTCTATTAC
*
46231920 AGCTTTAT-CTTCAAGGCGAGCTCAAATTATCAAAA
1 AGCTTT-TCCTTCAAGGCGAGCTCGAATTATCAAAA
* * * *
46231955 AGCTTTTCCTTCAAAGCAAGCTCGAATTGTAAAAA
1 AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
* * ** * *
46231990 ATCTTTAT-CTTCAAGGCTAGCTTCGTTTTAT-TACA
1 AGCTTT-TCCTTCAAGGCGAGC-TCGAATTATCAAAA
* ***
46232025 A-CTTTACCTTCAAAATGAGCTCGAATTATCAAAA
1 AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
* * *
46232059 AGCATTACCTTCAAGGCGAGCTCAAATTATCAAAA
1 AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
*
46232094 GGCTTT
1 AGCTTT
46232100 GCTTTCAATG
Statistics
Matches: 110, Mismatches: 29, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
33 7 0.06
34 17 0.15
35 79 0.72
36 7 0.06
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (35 bp):
AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
Found at i:46232036 original size:34 final size:34
Alignment explanation
Indices: 46231842--46232037 Score: 121
Period size: 34 Copynumber: 5.7 Consensus size: 34
46231832 CCTATACTTT
* *
46231842 GTTTTATTACAACTTTGCCTTCAAGGCAAGCTTT
1 GTTTTATTACAACTTTACCTTCAAGGCAAGCTTC
* * *
46231876 GTTTTATTACAACTTTAACTTCAAGTCTAA-CTTT
1 GTTTTATTACAACTTTACCTTCAAGGC-AAGCTTC
* * * *
46231910 GTTCTATTACAGCTTTATCTTCAAGGCGAGC-TC
1 GTTTTATTACAACTTTACCTTCAAGGCAAGCTTC
*** * * * *
46231943 AAATTATCAAAAAGCTTTTCCTTCAAAGCAAGC-TC
1 GTTTTAT-TACAA-CTTTACCTTCAAGGCAAGCTTC
* * * * *
46231978 GAATTGTA-AAAAATCTTTATCTTCAAGGCTAGCTTC
1 G--TTTTATTACAA-CTTTACCTTCAAGGCAAGCTTC
46232014 GTTTTATTACAACTTTACCTTCAA
1 GTTTTATTACAACTTTACCTTCAA
46232038 AATGAGCTCG
Statistics
Matches: 121, Mismatches: 33, Indels: 16
0.71 0.19 0.09
Matches are distributed among these distances:
33 5 0.04
34 69 0.57
35 42 0.35
36 3 0.02
37 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (34 bp):
GTTTTATTACAACTTTACCTTCAAGGCAAGCTTC
Found at i:46232045 original size:104 final size:104
Alignment explanation
Indices: 46231888--46232086 Score: 254
Period size: 104 Copynumber: 1.9 Consensus size: 104
46231878 TTTATTACAA
* * * * **
46231888 CTTTAACTTCAAGTCTAACTTTGTTCTATTACAGCTTTATCTTCAAGGCGAGCTCAAATTATCAA
1 CTTTAACTTCAAGGCTAACTTCGTTCTATTACAACTTTACCTTCAAAACGAGCTCAAATTATCAA
* * *
46231953 AAAGCTTTTCCTTCAAAGCAAGCTCGAATTGTAAAAAAT
66 AAAGCATTACCTTCAAAGCAAGCTCAAATTGTAAAAAAT
* * * * *
46231992 CTTTATCTTCAAGGCTAGCTTCGTTTTATTACAACTTTACCTTCAAAATGAGCTCGAATTATCAA
1 CTTTAACTTCAAGGCTAACTTCGTTCTATTACAACTTTACCTTCAAAACGAGCTCAAATTATCAA
* *
46232057 AAAGCATTACCTTCAAGGCGAGCTCAAATT
66 AAAGCATTACCTTCAAAGCAAGCTCAAATT
46232087 ATCAAAAGGC
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
104 79 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (104 bp):
CTTTAACTTCAAGGCTAACTTCGTTCTATTACAACTTTACCTTCAAAACGAGCTCAAATTATCAA
AAAGCATTACCTTCAAAGCAAGCTCAAATTGTAAAAAAT
Found at i:46232116 original size:104 final size:104
Alignment explanation
Indices: 46231914--46232129 Score: 227
Period size: 104 Copynumber: 2.1 Consensus size: 104
46231904 AACTTTGTTC
* * ** * * *
46231914 TATTACAGCTTTATCTTCAAGGCGAGCTCAAATTATCAAAAAGCTTTTCCTTCAAAGCAAGCTCG
1 TATTACAACTTTACCTTCAAAACGAGCTCAAATTATCAAAAAGCATTACCTTCAAAGCAAGCTCA
* * ** *
46231979 AATTGTAAAAAATCTTTATCTTCAAGGCTAGCTTCGTTT
66 AATTATAAAAAAGCTTTATCTTCAAGGAGAGCTTCATTT
* * * *
46232018 TATTACAACTTTACCTTCAAAATGAGCTCGAATTATCAAAAAGCATTACCTTCAAGGCGAGCTCA
1 TATTACAACTTTACCTTCAAAACGAGCTCAAATTATCAAAAAGCATTACCTTCAAAGCAAGCTCA
* * * *
46232083 AATTATCAAAAGGCTTT-GCTTTCAATGAGAGCTTCATTT
66 AATTATAAAAAAGCTTTATC-TTCAAGGAGAGCTTCATTT
*
46232122 TATGACAA
1 TATTACAA
46232130 ATTTGTCTTC
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
103 1 0.01
104 89 0.99
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (104 bp):
TATTACAACTTTACCTTCAAAACGAGCTCAAATTATCAAAAAGCATTACCTTCAAAGCAAGCTCA
AATTATAAAAAAGCTTTATCTTCAAGGAGAGCTTCATTT
Found at i:46233644 original size:46 final size:46
Alignment explanation
Indices: 46233476--46233695 Score: 260
Period size: 46 Copynumber: 5.0 Consensus size: 46
46233466 TTTGACGTGA
* * * * * *
46233476 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
46233522 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
46233568 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
46233614 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
46233652 TGCCATGGTATCTTTCAACCATGGTCTTCCACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
46233696 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 33 0.21
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 107 0.69
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:46233660 original size:38 final size:38
Alignment explanation
Indices: 46233609--46233684 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
46233599 CATTTCATAT
46233609 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
46233647 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTCCACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
46233685 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:46235842 original size:27 final size:28
Alignment explanation
Indices: 46235811--46235888 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 28
46235801 TCTTTATATA
46235811 CTAAAAAAATAATAATAAAATATCTTAT
1 CTAAAAAAATAATAATAAAATATCTTAT
** *
46235839 -TAAAGTATTAATAA-AATAATAT-TTAT
1 CTAAAAAAATAATAATAA-AATATCTTAT
** *
46235865 CTAATTAAATAATTATAAAATATC
1 CTAAAAAAATAATAATAAAATATC
46235889 AAAATATCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
26 6 0.16
27 30 0.79
28 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (28 bp):
CTAAAAAAATAATAATAAAATATCTTAT
Found at i:46237309 original size:69 final size:69
Alignment explanation
Indices: 46237190--46237366 Score: 194
Period size: 69 Copynumber: 2.6 Consensus size: 69
46237180 TGGTAGATCA
* *
46237190 ACCTTCAAGGCAAGCTTCATTCTATTACAACTTTGCCTTCAAGGTAAGCTCAGATTATCAAAAAG
1 ACCTTCAAGGCAAGCTTCATTCTATTACAACCTTGCCTTCAACGTAAGCTCAGATTATCAAAAAG
*
46237255 CTTT
66 CTTC
* * * * * *
46237259 ACCTTCAAGGCGAGCTTCGTTTTATTACAACGCTT-CCTTCAACGTGAGCTCGGATTATTAAAAA
1 ACCTTCAAGGCAAGCTTCATTCTATTACAAC-CTTGCCTTCAACGTAAGCTCAGATTATCAAAAA
46237323 GCTTC
65 GCTTC
* ** * * * *
46237328 GCCTTCAAACCAAGCTTTATTTTATTACATCTTTGCCTT
1 ACCTTCAAGGCAAGCTTCATTCTATTACAACCTTGCCTT
46237367 TGAGGCAGGC
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
68 2 0.02
69 85 0.96
70 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (69 bp):
ACCTTCAAGGCAAGCTTCATTCTATTACAACCTTGCCTTCAACGTAAGCTCAGATTATCAAAAAG
CTTC
Found at i:46244921 original size:37 final size:37
Alignment explanation
Indices: 46244871--46244949 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46244861 TTATTACGAA
* * *
46244871 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46244908 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46244945 GTCTT
1 GTCTT
46244950 TAGAGATCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46245194 original size:47 final size:47
Alignment explanation
Indices: 46245068--46245931 Score: 1458
Period size: 47 Copynumber: 18.1 Consensus size: 47
46245058 CCCTTCGGGA
* * * * * *
46245068 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
46245115 CCTGTCACATATATATACACTCCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46245164 CTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46245211 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46245260 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245309 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245356 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245405 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46245452 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245499 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46245546 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245595 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46245642 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245689 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245738 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245785 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245832 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245879 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46245928 CTTA
1 CTTA
46245932 CTATCATTTC
Statistics
Matches: 781, Mismatches: 24, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
47 467 0.60
49 314 0.40
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46245238 original size:96 final size:94
Alignment explanation
Indices: 46245068--46245931 Score: 1458
Period size: 96 Copynumber: 9.0 Consensus size: 94
46245058 CCCTTCGGGA
* * * * * * * *
46245068 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
**
46245133 ACTCCCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
46245164 CTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
46245229 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
46245260 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46245325 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
46245356 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46245421 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
46245452 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
46245517 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
46245546 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46245611 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
46245642 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
46245707 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
46245738 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
46245803 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
46245832 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
46245897 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
46245928 CTTA
1 CTTA
46245932 CTATCATTTC
Statistics
Matches: 742, Mismatches: 18, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
94 233 0.31
96 464 0.63
98 45 0.06
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:46245479 original size:143 final size:142
Alignment explanation
Indices: 46245068--46245931 Score: 1480
Period size: 143 Copynumber: 6.0 Consensus size: 142
46245058 CCCTTCGGGA
* * * * * * *
46245068 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
** *
46245133 ACTCCCACATTCATCACATCGGCCATTAGGCCTTATCACATATAAACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
46245198 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
46245211 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATAT
46245276 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
63 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
46245341 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
*
46245356 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATA
*
46245420 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCAC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
46245485 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
46245499 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
46245564 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
46245629 TCGGCCATTAGGC
130 TCGGCCATTAGGC
* *
46245642 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
46245707 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
46245772 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
46245785 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
46245849 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
46245914 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
46245928 CTTA
1 CTTA
46245932 CTATCATTTC
Statistics
Matches: 696, Mismatches: 19, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
141 93 0.13
143 423 0.61
145 180 0.26
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:46249611 original size:8 final size:8
Alignment explanation
Indices: 46249598--46249634 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
46249588 CAACAGCCCA
46249598 CTTTTCGG
1 CTTTTCGG
*
46249606 CTTTTCTG
1 CTTTTCGG
46249614 CTTTTCGG
1 CTTTTCGG
46249622 CTTTTCGG
1 CTTTTCGG
46249630 CTTTT
1 CTTTT
46249635 GCCGTTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.24, G:0.19, T:0.57
Consensus pattern (8 bp):
CTTTTCGG
Done.