Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 28 of 126
Found at i:8710833 original size:15 final size:16
Alignment explanation
Indices: 8710803--8710835 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8710793 ATTGCCCTAC
8710803 AATATATATATAACAT
1 AATATATATATAACAT
*
8710819 AATATA-ATATGACAT
1 AATATATATATAACAT
8710834 AA
1 AA
8710836 ACATACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (16 bp):
AATATATATATAACAT
Found at i:8729492 original size:167 final size:165
Alignment explanation
Indices: 8729218--8729553 Score: 573
Period size: 167 Copynumber: 2.0 Consensus size: 165
8729208 CCCCTAAATC
* *
8729218 CTCTCTTTCTATATCTGTTTCCTTGCTTCACTCCAATTTCTTGTATATTTCTGATGTTCCCTATA
1 CTCTCTTTCTATACCAGTTTCCTTGCTTCACTCCAATTTCTTGTATATTTCTGATGTTCCCTATA
* *
8729283 AATTTCCATCTTATCACTCTTTTCCCTACTTGTGTATTTCCACTAATCAAATCAATGTCTCTACA
66 AATTTCCATATTATCACTCTTTTCCCTACTTGTGTATTTCCACTAATCAAATCAATATCTCTACA
* *
8729348 GAATGGTAAGGAATTCTAGTTACCTTGAACTCCAT
131 GAATGATAAGAAATTCTAGTTACCTTGAACTCCAT
* *
8729383 CTCTCTTTCTATACCAGTTTCCTTGCTTCACTCTAATTTCTTTTGTCTATTTCTGATGTTCCCTA
1 CTCTCTTTCTATACCAGTTTCCTTGCTTCACTCCAATTTC--TTGTATATTTCTGATGTTCCCTA
*
8729448 TAAATTTCCATATTATCACTCTTTTCCCTACTTGTGTATTTCCACTAATCAAATCGATATCTCTA
64 TAAATTTCCATATTATCACTCTTTTCCCTACTTGTGTATTTCCACTAATCAAATCAATATCTCTA
8729513 CAGAATGATAAGAAATTCTAGTTACCTTGAACTCCAT
129 CAGAATGATAAGAAATTCTAGTTACCTTGAACTCCAT
8729550 CTCT
1 CTCT
8729554 TTACTTTCGA
Statistics
Matches: 160, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
165 37 0.23
167 123 0.77
ACGTcount: A:0.24, C:0.25, G:0.08, T:0.43
Consensus pattern (165 bp):
CTCTCTTTCTATACCAGTTTCCTTGCTTCACTCCAATTTCTTGTATATTTCTGATGTTCCCTATA
AATTTCCATATTATCACTCTTTTCCCTACTTGTGTATTTCCACTAATCAAATCAATATCTCTACA
GAATGATAAGAAATTCTAGTTACCTTGAACTCCAT
Found at i:8738364 original size:22 final size:23
Alignment explanation
Indices: 8738331--8738378 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
8738321 CAATTTATAT
8738331 AAATTTATTAAAAAAAT-TATTAA
1 AAATTTATTAAAAAAATAT-TTAA
*
8738354 AAATTTA-TAAACAAATATTTAA
1 AAATTTATTAAAAAAATATTTAA
8738376 AAA
1 AAA
8738379 ATAGTCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATTTATTAAAAAAATATTTAA
Found at i:8738369 original size:12 final size:11
Alignment explanation
Indices: 8738322--8738380 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
8738312 TGGTCCAATC
*
8738322 AATTTAT-ATA
1 AATTTATAAAA
8738332 AATTTATTAAAA
1 AATTTA-TAAAA
* *
8738344 AAATTATTAAA
1 AATTTATAAAA
8738355 AATTTATAAACA
1 AATTTATAAA-A
8738367 AATATT-TAAAA
1 AAT-TTATAAAA
8738378 AAT
1 AAT
8738381 AGTCAATCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
10 6 0.15
11 17 0.43
12 15 0.38
13 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTATAAAA
Found at i:8738379 original size:23 final size:23
Alignment explanation
Indices: 8738331--8738380 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
8738321 CAATTTATAT
*
8738331 AAATTTATTAAAAAAATTATTAA
1 AAATTTATTAAAAAAATTATAAA
8738354 AAATTTA-TAAACAAATATT-TAAA
1 AAATTTATTAAA-AAA-ATTATAAA
8738377 AAAT
1 AAAT
8738381 AGTCAATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.17
23 17 0.71
24 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATTTATTAAAAAAATTATAAA
Found at i:8741169 original size:26 final size:27
Alignment explanation
Indices: 8741121--8741179 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
8741111 GGTTGAAGAA
*
8741121 GGAAAGAATGAGTTTTGT-TTTTTAAT
1 GGAAAGAATGAGTTATGTCTTTTTAAT
*
8741147 GGAAAGAATGGGTTATGTCTTTTTTAAT
1 GGAAAGAATGAGTTATGTC-TTTTTAAT
8741175 GGAAA
1 GGAAA
8741180 TAATCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 16 0.55
28 13 0.45
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (27 bp):
GGAAAGAATGAGTTATGTCTTTTTAAT
Found at i:8741178 original size:28 final size:26
Alignment explanation
Indices: 8741121--8741179 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
8741111 GGTTGAAGAA
*
8741121 GGAAAGAATGAGTTTTGTTTTTTAAT
1 GGAAAGAATGAGTTTTCTTTTTTAAT
*
8741147 GGAAAGAATGGGTTATGTCTTTTTTAAT
1 GGAAAGAATGAGTT-T-TCTTTTTTAAT
8741175 GGAAA
1 GGAAA
8741180 TAATCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 13 0.45
27 1 0.03
28 15 0.52
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (26 bp):
GGAAAGAATGAGTTTTCTTTTTTAAT
Found at i:8741540 original size:30 final size:30
Alignment explanation
Indices: 8741466--8741594 Score: 100
Period size: 30 Copynumber: 4.3 Consensus size: 30
8741456 AAAATCATTT
* *
8741466 TTTAACCCTCAAAGTTTT-CAAAAATTTAAA
1 TTTAACCCTTAAA-TTTTCCAAAAATTCAAA
** * **
8741496 CCTGACCCCCAAATTTTCCAAAAATTCAAA
1 TTTAACCCTTAAATTTTCCAAAAATTCAAA
* * * *
8741526 TTTCACCCTTAAATTTTCTAAAGATTCAAG
1 TTTAACCCTTAAATTTTCCAAAAATTCAAA
* *
8741556 TTTAACCCATAAAGTTTT-CAAAAATTAAAA
1 TTTAACCCTTAAA-TTTTCCAAAAATTCAAA
*
8741586 TTTGACCCT
1 TTTAACCCT
8741595 GTTTTAATAT
Statistics
Matches: 76, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
29 4 0.05
30 68 0.89
31 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.34
Consensus pattern (30 bp):
TTTAACCCTTAAATTTTCCAAAAATTCAAA
Found at i:8745978 original size:82 final size:82
Alignment explanation
Indices: 8745841--8746006 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 82
8745831 GTTCTGCAAA
*
8745841 AAAGGACGGGTATGTCAATAATGATCAGCTGCTAATCCACTGTTTCCAGGACAGTTTGACAGGAT
1 AAAGGACGGGTATATCAATAATGATCAGCTGCTAATCCACTGTTTCCAGGACAGTTTGACAGGAT
8745906 CAGCTTCAAGGTGGTAT
66 CAGCTTCAAGGTGGTAT
8745923 AAAGGACGGGTATATCAATAATGATCAGCTGCTAATCCACTGTTTCCAGGACAGTTTGACAGGAT
1 AAAGGACGGGTATATCAATAATGATCAGCTGCTAATCCACTGTTTCCAGGACAGTTTGACAGGAT
8745988 CAGCTTCAAGGTGGTAT
66 CAGCTTCAAGGTGGTAT
8746005 AA
1 AA
8746007 TTAATTGAGT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (82 bp):
AAAGGACGGGTATATCAATAATGATCAGCTGCTAATCCACTGTTTCCAGGACAGTTTGACAGGAT
CAGCTTCAAGGTGGTAT
Found at i:8753170 original size:50 final size:50
Alignment explanation
Indices: 8753089--8753216 Score: 175
Period size: 50 Copynumber: 2.6 Consensus size: 50
8753079 CTTTTATCTT
* * **
8753089 TAAAGCTGTGGAGGAGCAGATTGAAACCGCAATAGCAAATCTCATACACC
1 TAAAGCTGTAGAGGGGCAGATTGAAGTCGCAATAGCAAATCTCATACACC
* * * * *
8753139 TAAAGCTGTAGAGGGGCAAAATGAAGTCGCAATGGTAAATCTCATTCACC
1 TAAAGCTGTAGAGGGGCAGATTGAAGTCGCAATAGCAAATCTCATACACC
8753189 TAAAGCTGTAGAGGGGCAGATTGAAGTC
1 TAAAGCTGTAGAGGGGCAGATTGAAGTC
8753217 ACAAGGACGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (50 bp):
TAAAGCTGTAGAGGGGCAGATTGAAGTCGCAATAGCAAATCTCATACACC
Found at i:8753316 original size:40 final size:40
Alignment explanation
Indices: 8753268--8753398 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
8753258 AGTTACAACC
* * *
8753268 TCCAATCTCTTATCCTAACCAGAGGGCAGATTGAAGACCA
1 TCCAATCTCTTACCCTAATCAGAGGGCAGATTGAAGACAA
* ** * *
8753308 TCCGATCTCTTACCCCGATCATG-GGGCAGATTGAAAACTA
1 TCCAATCTCTTACCCTAATCA-GAGGGCAGATTGAAGACAA
*
8753348 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
1 TCCAATCTCTTACCCTAATCAGAGGGCAGATTGAAGACAA
8753388 TCCAATCTCTT
1 TCCAATCTCTT
8753399 GCCCCGATCA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 73 0.97
41 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
TCCAATCTCTTACCCTAATCAGAGGGCAGATTGAAGACAA
Found at i:8753404 original size:80 final size:80
Alignment explanation
Indices: 8753268--8753419 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 80
8753258 AGTTACAACC
* * *
8753268 TCCAATCTCTTATCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATCATGGG
1 TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGG
8753333 GCAGATTGAAAACTA
66 GCAGATTGAAAACTA
* * *
8753348 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAATCCAATCTCTTGCCCCGATCATGGG
1 TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGG
8753413 GCAGATT
66 GCAGATT
8753420 TAAATAATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (80 bp):
TCCAATCTCTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGG
GCAGATTGAAAACTA
Found at i:8753415 original size:40 final size:40
Alignment explanation
Indices: 8753291--8753419 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 40
8753281 CCTAACCAGA
* *
8753291 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
* * * **
8753331 GGGCAGATTGAAAACTATCCAATCTTTTACCCTAATCA-G
1 GGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
*
8753370 AGGGCAGATTGAAGACAATCCAATCTCTTGCCCCGATCATG
1 -GGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
8753411 GGGCAGATT
1 GGGCAGATT
8753420 TAAATAATTC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 73 0.97
41 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
GGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATG
Found at i:8753445 original size:80 final size:79
Alignment explanation
Indices: 8753268--8753441 Score: 242
Period size: 80 Copynumber: 2.2 Consensus size: 79
8753258 AGTTACAACC
* * * *
8753268 TCCAATCTCTTATCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATCATGGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGG
8753333 GCAGATTGAAAACTA
66 GCAGATTGAAAAC-A
* *
8753348 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAATCCAATCTCTTGCCCCGATCATGGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGG
*
8753413 GCAGATTTAAATA-A
66 GCAGATTGAAA-ACA
* *
8753427 TTCTATCTTTTACCC
1 TCCAATCTTTTACCC
8753442 CTAAAGTTAT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 14 0.17
80 69 0.82
81 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (79 bp):
TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAATCCAATCTCTTACCCCGATCATGGG
GCAGATTGAAAACA
Found at i:8753896 original size:6 final size:6
Alignment explanation
Indices: 8753887--8753940 Score: 69
Period size: 6 Copynumber: 9.5 Consensus size: 6
8753877 TTAAATCTAT
* *
8753887 TTTAAA TTTAAA TTTAAA TTT-AA TTT-AA TTTAAG TTTGAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
8753932 TTTAAA TTT
1 TTTAAA TTT
8753941 GATATTATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
5 15 0.35
6 28 0.65
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:8753911 original size:17 final size:16
Alignment explanation
Indices: 8753891--8753959 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
8753881 ATCTATTTTA
8753891 AATTTAAATTTAAATTT
1 AATTT-AATTTAAATTT
*
8753908 AATTTAATTTAAGTTT
1 AATTTAATTTAAATTT
8753924 GAATTTAATTTAAATTT
1 -AATTTAATTTAAATTT
*
8753941 GATATT-ATTGTAAATTT
1 AAT-TTAATT-TAAATTT
8753958 AA
1 AA
8753960 AATGTCCATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
16 15 0.33
17 30 0.67
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:8753913 original size:5 final size:5
Alignment explanation
Indices: 8753891--8753936 Score: 56
Period size: 5 Copynumber: 8.4 Consensus size: 5
8753881 ATCTATTTTA
8753891 AATTT AAATTT AAATTT AATTT AATTT AAGTTT GAATTT AATTT AA
1 AATTT -AATTT -AATTT AATTT AATTT AA-TTT -AATTT AATTT AA
8753937 ATTTGATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 19 0.50
6 17 0.45
7 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (5 bp):
AATTT
Found at i:8753916 original size:22 final size:22
Alignment explanation
Indices: 8753870--8753936 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
8753860 ATGATCATTT
* * *
8753870 TTTAAAATTAAATCTATTTTAAA
1 TTTAAATTTAAATTTAATTT-AA
8753893 TTTAAATTTAAATTTAATTTAA
1 TTTAAATTTAAATTTAATTTAA
* *
8753915 TTTAAGTTTGAATTTAATTTAA
1 TTTAAATTTAAATTTAATTTAA
8753937 ATTTGATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 22 0.56
23 17 0.44
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (22 bp):
TTTAAATTTAAATTTAATTTAA
Found at i:8755966 original size:59 final size:58
Alignment explanation
Indices: 8755863--8756072 Score: 305
Period size: 59 Copynumber: 3.6 Consensus size: 58
8755853 GCTCTCTAGT
*
8755863 CCCCGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCGCCAAAAATTACCATTTTA
1 CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTA
* * * *
8755920 CCCTCAAACTTTCCAAAATCCCATTTTTAACCTTGATTTTACCAAAAATTACCATTTTA
1 CCC-CGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTA
* *
8755979 CCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA
1 CCCC-GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTA
* * *
8756038 CCCCGAACTTTCCAAAATTACATGTTTACCCTCGA
1 CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGA
8756073 AAGTTAAAAA
Statistics
Matches: 134, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
57 3 0.02
58 44 0.33
59 87 0.65
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (58 bp):
CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTA
Found at i:8756005 original size:28 final size:28
Alignment explanation
Indices: 8755863--8756097 Score: 130
Period size: 29 Copynumber: 8.1 Consensus size: 28
8755853 GCTCTCTAGT
*
8755863 CCCCGAACTTTCCAAAATT-CCATTTTAA
1 CCCCGAACTTTCAAAAATTACCATTTT-A
*
8755891 CCTCG-A-TTTCGCCAAAAATTACCATTTTA
1 CCCCGAACTTT---CAAAAATTACCATTTTA
* * *
8755920 CCCTCAAACTTTCCAAAA-TCCCATTTTTAA
1 CCC-CGAACTTTCAAAAATTACCA-TTTT-A
** *
8755950 CCTTG-ATTTTACCAAAAATTACCATTTTA
1 CCCCGAACTTT--CAAAAATTACCATTTTA
*
8755979 CCCCTGAACTTTCTAAAATT-CCATTTTTAA
1 CCCC-GAACTTTCAAAAATTACCA-TTTT-A
8756009 CCCCG-A-TTTCACCAAAAATTACCATTTTA
1 CCCCGAACTTT---CAAAAATTACCATTTTA
*
8756038 CCCCGAACTTTCCAAAATTA-CATGTTTA
1 CCCCGAACTTTCAAAAATTACCAT-TTTA
** *
8756066 CCCTCGAAAGTT-AAAAATTACCATTTCA
1 CCC-CGAACTTTCAAAAATTACCATTTTA
8756094 CCCC
1 CCCC
8756098 CGAGCATCTA
Statistics
Matches: 160, Mismatches: 22, Indels: 51
0.69 0.09 0.22
Matches are distributed among these distances:
26 3 0.02
27 8 0.05
28 44 0.28
29 49 0.31
30 38 0.24
31 15 0.09
32 3 0.02
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (28 bp):
CCCCGAACTTTCAAAAATTACCATTTTA
Found at i:8768074 original size:114 final size:114
Alignment explanation
Indices: 8767816--8768066 Score: 448
Period size: 114 Copynumber: 2.2 Consensus size: 114
8767806 AGGTGGTCAT
*
8767816 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAATGCTCAACGCAAGCAAATCTTCGAACCAA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCAAGCAAATCTTCGAACCAA
8767881 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAATGGTTAG
66 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAATGGTTAG
* * * *
8767930 CTTCCTAATGAGATACAGAGAAGAATACCAACTCAACGTTCAATGCGAGCAAATCTTCGAACCAA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCAAGCAAATCTTCGAACCAA
*
8767995 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAATAAAATGGTTAG
66 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAATGGTTAG
8768044 CTTCCTGATGAGATACAGAGAAG
1 CTTCCTGATGAGATACAGAGAAG
8768067 TGGACCAAAT
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 130 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (114 bp):
CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCAAGCAAATCTTCGAACCAA
GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAATGGTTAG
Found at i:8768217 original size:314 final size:309
Alignment explanation
Indices: 8767621--8768266 Score: 916
Period size: 314 Copynumber: 2.1 Consensus size: 309
8767611 AGGCGATCAT
* * * *
8767621 CTTCCTGATGAGATGCAGAGAAGAGCACCAACTCAACACTCAATGCAAATTTTCGAACCCAGCTT
1 CTTCCTGATGAGATACAGAGAAGAACACCAACTCAACACTCAATGCAAATCTTCGAACCAAGCTT
*
8767686 CCTGATGAAACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTAATGAGATACAGAG
66 CCTGATGAAACACTGAGAAGCAAGTCGAAACAATAAAATGGTTAGCTTCCTAATGAGATACAGAG
* * * * * *
8767751 AAGTTGACCTAATTCGTCTCCTAATGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGTGGTCAT
131 AAGTGGACCAAATTCGTCTCCTAAGGAGATCCAAAGAAGAGAATTAAAACAAGCGAGGCGGTCAT
* * ** *
8767816 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAATGCTCAACGCAAGCAAATCTTCGAACCAA
196 CTTCCTGATGAGACACAGAAAAGAATACCAACTCAACACTCAACACAAGCAAATCTTCGAACCAA
*
8767881 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAATGGTTAG
261 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAAAGGTTAG
* * **
8767930 CTTCCTAATGAGATACAGAGAAGAATACCAACTCAACGTTCAATGCGAGCAAATCTTCGAACCAA
1 CTTCCTGATGAGATACAGAGAAGAACACCAACTCAACACTCAAT----GCAAATCTTCGAACCAA
* *
8767995 GCTTCCTGATGAGACACTGAGAAGCAAGTC-AAAGCAATAAAATGGTTAGCTTCCTGATGAGATA
62 GCTTCCTGATGAAACACTGAGAAGCAAGTCGAAA-CAATAAAATGGTTAGCTTCCTAATGAGATA
* * * * *
8768059 CAGAGAAGTGGACCAAATTCGTCTTTCTGAGGATATCCAAAGAAGAGAATTGAAACGAGCGAGGC
126 CAGAGAAGTGGACCAAATTCGTC-TCCTAAGGAGATCCAAAGAAGAGAATTAAAACAAGCGAGGC
* *
8768124 GGTCATCTTCTTGATGAGACACAGAAAAGAATACCAACTCAACACTCAACACGAGCAAATCTTCG
190 GGTCATCTTCCTGATGAGACACAGAAAAGAATACCAACTCAACACTCAACACAAGCAAATCTTCG
* * * *
8768189 AACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAG
255 AACCAAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAAAGGTTAG
*
8768244 CTTCCTGATGAGACACAGAGAAG
1 CTTCCTGATGAGATACAGAGAAG
8768267 TGGACCAGAT
Statistics
Matches: 295, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
309 38 0.13
312 3 0.01
313 93 0.32
314 161 0.55
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (309 bp):
CTTCCTGATGAGATACAGAGAAGAACACCAACTCAACACTCAATGCAAATCTTCGAACCAAGCTT
CCTGATGAAACACTGAGAAGCAAGTCGAAACAATAAAATGGTTAGCTTCCTAATGAGATACAGAG
AAGTGGACCAAATTCGTCTCCTAAGGAGATCCAAAGAAGAGAATTAAAACAAGCGAGGCGGTCAT
CTTCCTGATGAGACACAGAAAAGAATACCAACTCAACACTCAACACAAGCAAATCTTCGAACCAA
GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAACAATAAAAAGGTTAG
Found at i:8768322 original size:200 final size:200
Alignment explanation
Indices: 8767930--8768419 Score: 721
Period size: 200 Copynumber: 2.4 Consensus size: 200
8767920 AAATGGTTAG
* ** ** *
8767930 CTTCCTAATGAGATACAGAGAAGAATACCAACTCAACGTTCAATGCGAGCAAATCTTCGAACCAA
1 CTTCCTTATGAGATACAGAGAAGAATACCAACTCAACACTCAACACGAGCAAATCTTCGAACCCA
* *
8767995 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAATAAAATGGTTAGCTTCCTGATGAGATAC
66 GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAATAAAAAGGTTAGCTTCCTGATGAGACAC
* * ** *
8768060 AGAGAAGTGGACCAAATTCGTCTTTCTGAGGATATCCAAAGAAGAGAATTGAAACGAGCGAGGCG
131 AGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGAGAATCAAAACAAGCGAGGCG
8768125 GTCAT
196 GTCAT
* *
8768130 CTT-CTTGATGAGACACAGAAAAGAATACCAACTCAACACTCAACACGAGCAAATCTTCGAACCC
1 CTTCCTT-ATGAGATACAGAGAAGAATACCAACTCAACACTCAACACGAGCAAATCTTCGAACCC
* *
8768194 AGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTGATGAGACA
65 AGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAATAAAAAGGTTAGCTTCCTGATGAGACA
* * *
8768259 CAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGC
130 CAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGAGAATCAAAACAAGCGAGGC
8768324 GGTCAT
195 GGTCAT
* * * *
8768330 CTTCCTTATGAGATACAGAGAAGAACACCAGCTCAGCACTCAAACACGAGCAAATCTTCAAACCC
1 CTTCCTTATGAGATACAGAGAAGAATACCAACTCAACACTC-AACACGAGCAAATCTTCGAACCC
* *
8768395 AGCTTCCTGATGAGATACGGAGAAG
65 AGCTTCCTGATGAGACACTGAGAAG
8768420 AACACCAACT
Statistics
Matches: 259, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
199 2 0.01
200 209 0.81
201 48 0.19
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (200 bp):
CTTCCTTATGAGATACAGAGAAGAATACCAACTCAACACTCAACACGAGCAAATCTTCGAACCCA
GCTTCCTGATGAGACACTGAGAAGCAAGTCAAAGCAATAAAAAGGTTAGCTTCCTGATGAGACAC
AGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGAGAATCAAAACAAGCGAGGCG
GTCAT
Found at i:8768439 original size:67 final size:67
Alignment explanation
Indices: 8768330--8768476 Score: 215
Period size: 67 Copynumber: 2.2 Consensus size: 67
8768320 AGGCGGTCAT
* *
8768330 CTTCCTTATGAGATACAGAGAAGAACACCAGCTCAGCACTCAAACACGAGCAAATCTTC-AAACC
1 CTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCACTC-AACACGAGCAAATCTTCGAAACC
8768394 CAG
65 CAG
* * ** *
8768397 CTTCCTGATGAGATACGGAGAAGAACACCAACTCAGCGCTCAATGCGAGCAAATCTTCGAACCCC
1 CTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCACTCAACACGAGCAAATCTTCGAAACCC
8768462 AG
66 AG
8768464 CTTCCTGATGAGA
1 CTTCCTGATGAGA
8768477 CACTAAGAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 15 0.21
67 57 0.79
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (67 bp):
CTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCACTCAACACGAGCAAATCTTCGAAACCC
AG
Found at i:8768874 original size:17 final size:17
Alignment explanation
Indices: 8768839--8768906 Score: 75
Period size: 17 Copynumber: 4.0 Consensus size: 17
8768829 AACCATTTTA
*
8768839 AAATTTACTTTGAAA-TT
1 AAATTTAATTT-AAATTT
* *
8768856 AAATCTATTTTAAATTT
1 AAATTTAATTTAAATTT
*
8768873 AAATTTAATTTAAGTTT
1 AAATTTAATTTAAATTT
*
8768890 GAATTTAATTTAAATTT
1 AAATTTAATTTAAATTT
8768907 GATATTATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 3 0.07
17 40 0.93
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (17 bp):
AAATTTAATTTAAATTT
Found at i:8768875 original size:6 final size:6
Alignment explanation
Indices: 8768864--8768906 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
8768854 TTAAATCTAT
* *
8768864 TTTAAA TTTAAA TTT-AA TTTAAG TTTGAA TTT-AA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
8768907 GATATTATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:8770092 original size:23 final size:23
Alignment explanation
Indices: 8769920--8770074 Score: 154
Period size: 23 Copynumber: 6.7 Consensus size: 23
8769910 CGAAGTACTT
8769920 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
* *
8769946 AATAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * *
8769968 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
8769990 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
8770014 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
8770037 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
8770060 AACAGTAAGCACACA
1 AACAGTAAGCACACA
8770075 CAATGCTGAA
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.16
23 72 0.65
24 3 0.03
26 13 0.12
27 5 0.05
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:8773556 original size:58 final size:59
Alignment explanation
Indices: 8773458--8773663 Score: 288
Period size: 59 Copynumber: 3.5 Consensus size: 59
8773448 TCTCTAGTCC
*
8773458 CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCC
1 CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCT
* * * * * *
8773517 CAAACTTTCTAAAATTCCA-TTTTAACCTCGATTTTACCAAAAATTACTATTTTACCCT
1 CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCT
* *
8773575 CGAACATTCCAAAATTTCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCT
1 CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCT
* * * *
8773634 TGAACTTTCTAAAATTACATTTTTACCCCC
1 CGAACTTTCCAAAATTCCATTTTTAACCCC
8773664 GAAAGTTAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
58 49 0.39
59 77 0.61
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (59 bp):
CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCT
Found at i:8773648 original size:29 final size:29
Alignment explanation
Indices: 8773496--8773689 Score: 125
Period size: 29 Copynumber: 6.7 Consensus size: 29
8773486 CCAATTTCAC
* *
8773496 CAAAAATTACCATTTTACCCCCAAACTTT
1 CAAAAATTACCATTTTACCCTCGAACTTT
* * *
8773525 CTAAAATT-CCATTTTAACCTCG-ATTTT
1 CAAAAATTACCATTTTACCCTCGAACTTT
* *
8773552 ACCAAAAATTACTATTTTACCCTCGAACATT
1 --CAAAAATTACCATTTTACCCTCGAACTTT
* *
8773583 CCAAAATT-TCATTTTTAACCC-C-AA-TTT
1 CAAAAATTACCA-TTTT-ACCCTCGAACTTT
*
8773610 CACCAAAAATTACCATTTTACCCTTGAACTTT
1 ---CAAAAATTACCATTTTACCCTCGAACTTT
* * **
8773642 CTAAAATTA-CATTTTTACCCCCGAAAGTT
1 CAAAAATTACCA-TTTTACCCTCGAACTTT
*
8773671 -AAAAATTACCATTTCACCC
1 CAAAAATTACCATTTTACCC
8773690 CCGACATCCA
Statistics
Matches: 126, Mismatches: 24, Indels: 31
0.70 0.13 0.17
Matches are distributed among these distances:
27 6 0.05
28 30 0.24
29 53 0.42
30 27 0.21
31 7 0.06
32 3 0.02
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCTCGAACTTT
Found at i:8775696 original size:25 final size:28
Alignment explanation
Indices: 8775660--8775716 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 28
8775650 GTTGAAGAAG
* *
8775660 GAAAGAATGAGTT-T-TGTTTTTTAA-T
1 GAAAGAAGGAGTTATGTCTTTTTTAATT
8775685 GAAAGAAGGAGTTATGTCTTTTTTAATT
1 GAAAGAAGGAGTTATGTCTTTTTTAATT
8775713 GAAA
1 GAAA
8775717 TAATCAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 12 0.44
26 1 0.04
27 9 0.33
28 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (28 bp):
GAAAGAAGGAGTTATGTCTTTTTTAATT
Found at i:8776055 original size:30 final size:30
Alignment explanation
Indices: 8776013--8776103 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
8776003 ATTTTTTAAC
*
8776013 CTCC-AAAGTTTTCAAAAATTCAAATTTGA
1 CTCCTAAAGTTTTCAAAAATTAAAATTTGA
* * * *
8776042 CTCCTAAATTTTTCTAAAAATTTAAGTTTAA
1 CTCCTAAAGTTTTC-AAAAATTAAAATTTGA
*
8776073 C-CCATAAAGTTTTCAACAATTAAAATTTGA
1 CTCC-TAAAGTTTTCAAAAATTAAAATTTGA
8776103 C
1 C
8776104 CCCGTTTTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
29 4 0.08
30 23 0.46
31 23 0.46
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.37
Consensus pattern (30 bp):
CTCCTAAAGTTTTCAAAAATTAAAATTTGA
Found at i:8791141 original size:61 final size:59
Alignment explanation
Indices: 8791073--8791187 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 59
8791063 AGTGATTATC
* *
8791073 TTAATATTAAATTTAATTTAACGCTTATTTTGTAGATAA-TATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATTTAACACTTA-TTT-T-GATAAGTATTATATTAATTTAATAAGAT
* *
8791134 TTAATATTAAATTTAATTTAATATTTATTTTGATAAGTATTATATTAATTTAAT
1 TTAATATTAAATTTAATTTAACACTTATTTTGATAAGTATTATATTAATTTAAT
8791188 CTAATATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 5 0.10
59 17 0.35
60 3 0.06
61 24 0.49
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (59 bp):
TTAATATTAAATTTAATTTAACACTTATTTTGATAAGTATTATATTAATTTAATAAGAT
Found at i:8791891 original size:21 final size:22
Alignment explanation
Indices: 8791866--8791962 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 22
8791856 CGTTTCTGGT
8791866 TTTTTTTATTGTTTTGGTGTTA
1 TTTTTTTATTGTTTTGGTGTTA
* *
8791888 TTTTTTTACTT-TTTTGGTTTTG
1 TTTTTTTA-TTGTTTTGGTGTTA
* * * *
8791910 TTTTTGCTGTTATTTTTGTTGTTA
1 TTTTT-TTATT-GTTTTGGTGTTA
* *
8791934 TTTTTGTTATTGTTTTGCTTTTA
1 TTTTT-TTATTGTTTTGGTGTTA
8791957 TTTTTT
1 TTTTTT
8791963 CTTCTGTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
22 25 0.42
23 17 0.29
24 17 0.29
ACGTcount: A:0.07, C:0.03, G:0.14, T:0.75
Consensus pattern (22 bp):
TTTTTTTATTGTTTTGGTGTTA
Found at i:8791949 original size:23 final size:23
Alignment explanation
Indices: 8791865--8791988 Score: 80
Period size: 23 Copynumber: 5.3 Consensus size: 23
8791855 CCGTTTCTGG
* *
8791865 TTTTTTTTATTGTTTTGGTGTTA
1 TTTTTGTTATTGTTTTGTTGTTA
*
8791888 TTTTT-TTACTT-TTTTGGTT-TTG
1 TTTTTGTTA-TTGTTTT-GTTGTTA
* * *
8791910 TTTTTGCTGTTATTTTTGTTGTTA
1 TTTTTGTTATT-GTTTTGTTGTTA
8791934 TTTTTGTTATTGTTTTGCTT-TTA
1 TTTTTGTTATTGTTTTG-TTGTTA
*
8791957 TTTTT-TCT-TCTGTTTTGATTGTTG
1 TTTTTGT-TAT-TGTTTTG-TTGTTA
8791981 TTTTTGTT
1 TTTTTGTT
8791989 GTTTGGATGT
Statistics
Matches: 80, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
22 18 0.22
23 36 0.45
24 25 0.31
25 1 0.01
ACGTcount: A:0.06, C:0.04, G:0.15, T:0.74
Consensus pattern (23 bp):
TTTTTGTTATTGTTTTGTTGTTA
Found at i:8791958 original size:35 final size:34
Alignment explanation
Indices: 8791865--8791962 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 34
8791855 CCGTTTCTGG
*
8791865 TTTTTT-TTATTGTTTTGGTGTTATTTTTTTACT
1 TTTTTTGTTATTGTTTTGCTGTTATTTTTTTACT
* *
8791898 TTTTTGGTT-TTGTTTTTGCTGTTATTTTTGTT-GT
1 TTTTTTGTTATTG-TTTTGCTGTTATTTTT-TTACT
*
8791932 TATTTTTGTTATTGTTTTGCTTTTATTTTTT
1 T-TTTTTGTTATTGTTTTGCTGTTATTTTTT
8791963 CTTCTGTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
33 8 0.15
34 20 0.36
35 24 0.44
36 3 0.05
ACGTcount: A:0.07, C:0.03, G:0.14, T:0.76
Consensus pattern (34 bp):
TTTTTTGTTATTGTTTTGCTGTTATTTTTTTACT
Found at i:8791982 original size:35 final size:31
Alignment explanation
Indices: 8791865--8791984 Score: 87
Period size: 35 Copynumber: 3.5 Consensus size: 31
8791855 CCGTTTCTGG
* * *
8791865 TTTTTTTTATTGTTTTGGTGTTATTTTTTTAC
1 TTTTTGTT-TTGTTTTGCTGTTATTTTTTTTC
*
8791897 TTTTTTGGTTTTGTTTTTGCTGTTATTTTTGTTGTTA
1 -TTTTT-GTTTTG-TTTTGCTGTTA-TTTT-TT-TTC
*
8791934 TTTTTGTTATTGTTTTGCTTTTATTTTTTCTTC
1 TTTTTGTT-TTGTTTTGCTGTTATTTTTT-TTC
8791967 TGTTTTGATTGTTGTTTT
1 T-TTTTG-TT-TTGTTTT
8791985 TGTTGTTTGG
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
33 13 0.18
34 21 0.30
35 26 0.37
36 10 0.14
37 1 0.01
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (31 bp):
TTTTTGTTTTGTTTTGCTGTTATTTTTTTTC
Found at i:8791990 original size:12 final size:12
Alignment explanation
Indices: 8791898--8791991 Score: 56
Period size: 12 Copynumber: 7.9 Consensus size: 12
8791888 TTTTTTTACT
8791898 TTTTTGGTT-TTG
1 TTTTT-GTTGTTG
* *
8791910 TTTTTGCTGTTA
1 TTTTTGTTGTTG
*
8791922 TTTTTGTTGTTA
1 TTTTTGTTGTTG
*
8791934 TTTTTGTTATTG
1 TTTTTGTTGTTG
*
8791946 -TTTTGCTT-TTA
1 TTTTTG-TTGTTG
8791957 TTTTT-TCT-TCTG
1 TTTTTGT-TGT-TG
8791969 -TTTTGATTGTTG
1 TTTTTG-TTGTTG
8791981 TTTTTGTTGTT
1 TTTTTGTTGTT
8791992 TGGATGTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
10 1 0.02
11 15 0.23
12 43 0.65
13 7 0.11
ACGTcount: A:0.05, C:0.04, G:0.17, T:0.73
Consensus pattern (12 bp):
TTTTTGTTGTTG
Found at i:8802214 original size:11 final size:11
Alignment explanation
Indices: 8802198--8802245 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 11
8802188 ATTTTATTAC
8802198 TTAATTTTAAA
1 TTAATTTTAAA
8802209 TTAATTTTAAAATA
1 TTAATTTT--AA-A
8802223 TTATATTTTAAA
1 TTA-ATTTTAAA
8802235 TTAATTTTAAA
1 TTAATTTTAAA
8802246 ATATTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 16 0.48
12 4 0.12
13 4 0.12
14 4 0.12
15 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAATTTTAAA
Found at i:8802232 original size:26 final size:26
Alignment explanation
Indices: 8802201--8802263 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
8802191 TTATTACTTA
8802201 ATTTTAAATTAATTTTAAAATATTAT
1 ATTTTAAATTAATTTTAAAATATTAT
8802227 ATTTTAAATTAATTTTAAAATATTAT
1 ATTTTAAATTAATTTTAAAATATTAT
8802253 ATTTTAAATTA
1 ATTTTAAATTA
8802264 CTATAATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTTAAATTAATTTTAAAATATTAT
Found at i:8802268 original size:15 final size:15
Alignment explanation
Indices: 8802208--8802260 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
8802198 TTAATTTTAA
8802208 ATTA-ATTTTAAAAT
1 ATTATATTTTAAAAT
8802222 ATTATATTTT--AA-
1 ATTATATTTTAAAAT
8802234 ATTA-ATTTTAAAAT
1 ATTATATTTTAAAAT
8802248 ATTATATTTTAAA
1 ATTATATTTTAAA
8802261 TTACTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.15
12 4 0.12
13 4 0.12
14 8 0.24
15 13 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATATTTTAAAAT
Found at i:8802650 original size:15 final size:15
Alignment explanation
Indices: 8802602--8802652 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
8802592 TAATTTGTTG
8802602 ATAATATAATATAA-T
1 ATAATATAA-ATAATT
*
8802617 ATAATATAAAGTCACTT
1 ATAATATAAA-T-AATT
*
8802634 ATTATATAAATAATT
1 ATAATATAAATAATT
8802649 ATAA
1 ATAA
8802653 CAAAAGTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 1 0.03
15 16 0.55
16 2 0.07
17 10 0.34
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (15 bp):
ATAATATAAATAATT
Found at i:8807053 original size:5 final size:5
Alignment explanation
Indices: 8807043--8807068 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8807033 AAGCAAGTAG
8807043 CAGGC CAGGC CAGGC CAGGC CAGGC C
1 CAGGC CAGGC CAGGC CAGGC CAGGC C
8807069 TAGAGCAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.38, T:0.00
Consensus pattern (5 bp):
CAGGC
Found at i:8807090 original size:7 final size:7
Alignment explanation
Indices: 8807078--8807104 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8807068 CTAGAGCAGT
8807078 GTAAAGA
1 GTAAAGA
8807085 GTAAAGA
1 GTAAAGA
8807092 GTAAAGA
1 GTAAAGA
8807099 GTAAAG
1 GTAAAG
8807105 GAGTGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (7 bp):
GTAAAGA
Found at i:8810225 original size:4 final size:4
Alignment explanation
Indices: 8810216--8810241 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8810206 GTGGTAATGG
8810216 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
8810242 TGTTGTCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:8813179 original size:29 final size:28
Alignment explanation
Indices: 8813147--8813256 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 28
8813137 ATGGATACCC
*
8813147 GGGGGCAAAATGGTAATTTTGGTGAAATT
1 GGGGGTAAAATGG-AATTTTGGTGAAATT
* * *
8813176 GGGGTTAGAAATGGAATTTT--AGAAGCTT
1 GGGGGTA-AAATGGAATTTTGGTGAA-ATT
8813204 CGGGGGTAAAATGGTAATTTTTGGTGAAATT
1 -GGGGGTAAAATGG-AA-TTTTGGTGAAATT
*
8813235 GGGGTTAAAAATGGAATTTTGG
1 GGGGGT-AAAATGGAATTTTGG
8813257 AAGTTTTGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
27 3 0.05
28 8 0.12
29 25 0.38
30 17 0.26
31 9 0.14
32 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.33
Consensus pattern (28 bp):
GGGGGTAAAATGGAATTTTGGTGAAATT
Found at i:8813241 original size:59 final size:57
Alignment explanation
Indices: 8813146--8813342 Score: 250
Period size: 59 Copynumber: 3.4 Consensus size: 57
8813136 TATGGATACC
* *
8813146 CGGGGGCAAAATGGTAATTTTGGTGAAATTGGGGTTAGAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTA-AAATGGAATTTTAGAAGATT
* *
8813204 CGGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAGTTT
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATTGGGGTT-AAAATGGAATTTTAGAAGATT
* * * * * * *
8813263 TGGGGATAAAATGGTAATTTTAGTGTAATCGGGGTTTTAAAATGAAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATTGGGG--TTAAAATGGAATTTTAGAAGATT
8813322 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
8813343 TGAAAGTTTT
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
58 30 0.25
59 88 0.73
60 3 0.02
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (57 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAATGGAATTTTAGAAGATT
Found at i:8813265 original size:29 final size:28
Alignment explanation
Indices: 8813153--8813375 Score: 102
Period size: 30 Copynumber: 7.6 Consensus size: 28
8813143 ACCCGGGGGC
*
8813153 AAAATGGTAATTTTGGTGAA-ATTGGGGTT
1 AAAATGGTAATTTT-G-GAAGTTTGGGGTT
* * *
8813182 AGAAATGG-AATTTTAGAAGCTTCGGGGGT
1 A-AAATGGTAATTTTGGAAG-TTTGGGGTT
*
8813211 AAAATGGTAATTTTTGGTGAA-ATTGGGGTT
1 AAAATGGTAA-TTTT-G-GAAGTTTGGGGTT
*
8813241 AAAAATGG-AATTTTGGAAGTTTTGGGGAT
1 -AAAATGGTAATTTTGGAAG-TTTGGGGTT
*
8813270 AAAATGGTAATTTTAGTGTAA--TCGGGGTTTT
1 AAAATGGTAATTTT-G-G-AAGTTTGGGG--TT
* ** * *
8813301 AAAAT-GAAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTGGAAG-TTTGGGGTT
* *
8813329 AAAATGGTAATTTTTGAAAGTTTTGGGGTC
1 AAAATGGTAA-TTTTGGAAG-TTTGGGGTT
*
8813359 AAAAT-ATAATTTTGGAA
1 AAAATGGTAATTTTGGAA
8813376 AAGTTTTAGG
Statistics
Matches: 149, Mismatches: 24, Indels: 43
0.69 0.11 0.20
Matches are distributed among these distances:
27 8 0.05
28 27 0.18
29 44 0.30
30 51 0.34
31 14 0.09
32 5 0.03
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (28 bp):
AAAATGGTAATTTTGGAAGTTTGGGGTT
Found at i:8813376 original size:29 final size:29
Alignment explanation
Indices: 8813336--8813433 Score: 126
Period size: 29 Copynumber: 3.3 Consensus size: 29
8813326 GGTAAAATGG
*
8813336 TAATTTTTGAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAGTTTTGGGGTCAAAATA
*
8813365 TAATTTTGGAAAAGTTTTAGGGTC-AAATA
1 TAATTTTGG-AAAGTTTTGGGGTCAAAATA
* * *
8813394 TAATTTTTGAAAGTTTCGGGGTCAAAAGA
1 TAATTTTGGAAAGTTTTGGGGTCAAAATA
8813423 TAATTTCTGGA
1 TAATTT-TGGA
8813434 CAATTTAGGG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.20
29 31 0.53
30 16 0.27
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (29 bp):
TAATTTTGGAAAGTTTTGGGGTCAAAATA
Found at i:8814243 original size:22 final size:21
Alignment explanation
Indices: 8814218--8814259 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8814208 TTTCTTCTGT
8814218 TTCTTTCT-TTCTTCTATTTTTG
1 TTCTTT-TATTCTT-TATTTTTG
8814240 TTCTTTTATTCTTTATTTTT
1 TTCTTTTATTCTTTATTTTT
8814260 CTGTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (21 bp):
TTCTTTTATTCTTTATTTTTG
Found at i:8815358 original size:17 final size:16
Alignment explanation
Indices: 8815338--8815428 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 16
8815328 GACTTTCTTT
8815338 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
8815355 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
8815371 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
8815389 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
*
8815405 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
*
8815422 TTTAATT
1 TTAAATT
8815429 CCCAAATGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.02
16 13 0.21
17 41 0.65
18 8 0.13
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:8815364 original size:6 final size:6
Alignment explanation
Indices: 8815355--8815426 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
8815345 TATAATAACA
* *
8815355 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
8815400 GTAAAT TTAAGA- TTAAA- ATAAAT TTAA
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAA
8815427 TTCCCAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
5 18 0.34
6 34 0.64
7 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:8815426 original size:11 final size:11
Alignment explanation
Indices: 8815354--8815416 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
8815344 TTATAATAAC
8815354 ATTAAATTTAA
1 ATTAAATTTAA
*
8815365 ATTAAATTCAA
1 ATTAAATTTAA
8815376 ATTTAAATTTAA
1 A-TTAAATTTAA
*
8815388 ATTGAATTTAA
1 ATTAAATTTAA
*
8815399 AGTAAATTTAA
1 ATTAAATTTAA
8815410 GATTAAA
1 -ATTAAA
8815417 ATAAATTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 29 0.66
12 15 0.34
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:8815766 original size:31 final size:31
Alignment explanation
Indices: 8815731--8815962 Score: 141
Period size: 31 Copynumber: 7.7 Consensus size: 31
8815721 TTATCCAACT
8815731 TTACTTCAATTTCAAGAGGATGACGTTGCTC
1 TTACTTCAATTTCAAGAGGATGACGTTGCTC
** * ** **
8815762 TTACTTCAAAGTCATG-TTAT--C--CACTC
1 TTACTTCAATTTCAAGAGGATGACGTTGCTC
8815788 -TACTTCAATTTCAAGAGGATGACGTTGCTC
1 TTACTTCAATTTCAAGAGGATGACGTTGCTC
* ** **
8815818 TTACTTCAATTTCATG-TTAT--CCAT--TC
1 TTACTTCAATTTCAAGAGGATGACGTTGCTC
8815844 -TACTTCAATTTCAAGAGGATGACGTTGCTC
1 TTACTTCAATTTCAAGAGGATGACGTTGCTC
** * * *
8815874 TTACTTCAATTTCAGAGATAAAGACATGTTATCCAC
1 TTACTTCAATTTCA-AGAGGATGAC--G-T-TGCTC
* *
8815910 TTTACTTCAACTTCAAGAGGATGGCGTTGCTC
1 -TTACTTCAATTTCAAGAGGATGACGTTGCTC
8815942 TTACTTCAATTTC-AGA-GATGA
1 TTACTTCAATTTCAAGAGGATGA
8815963 AGACGTGTTA
Statistics
Matches: 145, Mismatches: 38, Indels: 38
0.66 0.17 0.17
Matches are distributed among these distances:
25 26 0.18
26 9 0.06
28 6 0.04
29 4 0.03
30 12 0.08
31 52 0.36
32 10 0.07
33 1 0.01
34 2 0.01
35 1 0.01
36 9 0.06
37 13 0.09
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (31 bp):
TTACTTCAATTTCAAGAGGATGACGTTGCTC
Found at i:8815806 original size:56 final size:56
Alignment explanation
Indices: 8815719--8815950 Score: 284
Period size: 56 Copynumber: 3.9 Consensus size: 56
8815709 ATAAAGACTT
*
8815719 TGTTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAAGTCA
1 TGTTATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAAGTCA
**
8815776 TGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCA
1 TGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAAGTCA
*
8815832 TGTTATCCATTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAG
1 TGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTC-A----A-AG-T----
8815897 ACA
55 -CA
* * *
8815900 TGTTATCCACTTTACTTCAACTTCAAGAGGATGGCGTTGCTCTTACTTCAA
1 TGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
8815951 TTTCAGAGAT
Statistics
Matches: 153, Mismatches: 10, Indels: 18
0.85 0.06 0.10
Matches are distributed among these distances:
56 93 0.61
57 9 0.06
61 1 0.01
63 2 0.01
67 1 0.01
68 47 0.31
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (56 bp):
TGTTATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAAGTCA
Found at i:8815939 original size:68 final size:67
Alignment explanation
Indices: 8815832--8816435 Score: 650
Period size: 68 Copynumber: 8.4 Consensus size: 67
8815822 TTCAATTTCA
* * *
8815832 TGTTATCCATTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAG
1 TGTTATCCACTCTACTTCAATTTCAAG-GGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAG
*
8815897 ACA
65 ACG
* *
8815900 TGTTATCCACTTTACTTCAACTTCAAGAGGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAG-GGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAG
8815965 ACG
65 ACG
* * *
8815968 TGTTATCCACTCTACTTCAATTTCAAGGGATGAAGAGGTGTTATCCACTCTACTTCAATTTCAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGAT-----GGCG-T-TGCTCT-TACTTCAATTTC-AG
*
8816033 GGATGAAGACG
57 AGATGAAGACG
*
8816044 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAA-GGGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAG
8816109 ACG
65 ACG
* *
8816112 TGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAGA
1 TGTTATCCACTCTACTTCAATTTCAAGGGATG--G-C--G-T-TGCTCT-TACTTCAATTTCAGA
8816177 GATGAAGACG
58 GATGAAGACG
* *
8816187 TGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGATG--G-C--G-T-TGCTCT-TACTTCAATTTC-AG
*
8816252 GGATGAAGACG
57 AGATGAAGACG
*
8816263 TGTTATCCACTCTACTTCAATTTCAAGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGA
1 TGTTATCCACTCTACTTCAATTTCAAGGGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAGA
8816328 CG
66 CG
* *
8816330 TGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGATG--G-C--G-T-TGCTCT-TACTTCAATTTC-A-
* * **
8816395 GGGATGACGTTG
56 GAGATGAAGACG
8816407 TGTTATCCACTCTACTTCAATTTCAAGGG
1 TGTTATCCACTCTACTTCAATTTCAAGGG
8816436 GATAACGTTG
Statistics
Matches: 475, Mismatches: 32, Indels: 49
0.85 0.06 0.09
Matches are distributed among these distances:
67 54 0.11
68 137 0.29
69 16 0.03
70 7 0.01
71 2 0.00
72 7 0.01
73 4 0.01
74 12 0.03
75 111 0.23
76 83 0.17
77 42 0.09
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (67 bp):
TGTTATCCACTCTACTTCAATTTCAAGGGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAGA
CG
Found at i:8816009 original size:38 final size:38
Alignment explanation
Indices: 8815943--8816435 Score: 727
Period size: 38 Copynumber: 13.4 Consensus size: 38
8815933 GCGTTGCTCT
*
8815943 TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
*
8815980 TACTTCAATTTCAAGGGATGAAGAGGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
8816018 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
* * *
8816056 TACTTCAATTTCAAGGG--GATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
*
8816087 TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
8816124 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
*
8816162 TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
8816199 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
8816237 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
* *
8816275 TACTTCAATTTCAAGGGAT---GAC--G-T-TGCTCT-
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
*
8816305 TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
8816342 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
1 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
* **
8816380 TACTTCAATTTCAAGGGGATGACGTTGTGTTATCCACTC
1 TACTTCAATTTCAA-GGGATGAAGACGTGTTATCCACTC
8816419 TACTTCAATTTCAAGGG
1 TACTTCAATTTCAAGGG
8816436 GATAACGTTG
Statistics
Matches: 414, Mismatches: 22, Indels: 39
0.87 0.05 0.08
Matches are distributed among these distances:
29 5 0.01
30 15 0.04
31 16 0.04
32 13 0.03
33 2 0.00
34 3 0.01
35 5 0.01
36 13 0.03
37 72 0.17
38 235 0.57
39 35 0.08
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (38 bp):
TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTC
Found at i:8816024 original size:106 final size:110
Alignment explanation
Indices: 8815875--8816431 Score: 666
Period size: 106 Copynumber: 5.1 Consensus size: 110
8815865 ACGTTGCTCT
* * * *
8815875 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTTTACTTCAACTTCAAGAGGATG-G-C-G-
1 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAG-GGATGAGACGGT
* *
8815936 T-TGCTCT-TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
65 TATCCACTCTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
* *
8815980 TACTTCAATTTCAAGGGATGAAGAGGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGT
1 TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATG-AGACG-
** * * *
8816045 GTTATCCACTCTACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
63 GTTATCCACTCTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
8816087 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTG
1 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATG-AGACG-G
8816152 TTATCCACTCTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
64 TTATCCACTCTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
*
8816199 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGT
1 TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATG-AGACG-
* * * *
8816264 GTTATCCACTCTACTTCAATTTCA-AG-GGATGAC--G-T-TGCTCT-
63 GTTATCCACTCTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
8816305 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTG
1 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATG-AGACG-G
* * **
8816370 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGTGTTATCCACTC
64 TTATCCACTCTACTTCAATTTC-A-GAGATGAAGACGTGTTATCCACTC
8816419 TACTTCAATTTCA
1 TACTTCAATTTCA
8816432 AGGGGATAAC
Statistics
Matches: 394, Mismatches: 33, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
105 91 0.23
106 121 0.31
107 24 0.06
108 7 0.02
109 6 0.02
110 3 0.01
111 11 0.03
112 26 0.07
113 92 0.23
114 13 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (110 bp):
TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAGACGGTT
ATCCACTCTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTC
Found at i:8816060 original size:144 final size:148
Alignment explanation
Indices: 8815875--8816435 Score: 732
Period size: 144 Copynumber: 3.9 Consensus size: 148
8815865 ACGTTGCTCT
* * * *
8815875 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTTTACTTCAACTTCAAGAGGATG-G-C-G-
1 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAG-GGATGAGACGGT
* *
8815936 T-TGCTCT-TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGA
65 TATCCACTCTACTTCAATTTCAAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGA
8815998 TGAAGAGGTGTTATCCACTC
130 TGAAGA-GTGTTATCCACTC
*
8816018 TACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG--GATGAC-G
1 TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGA-GACGG
* *
8816080 -T-TGCTCT-TACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
64 TTATCCACTCTACTTCAATTTCAAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
8816141 ATGAAGACGTGTTATCCACTC
129 ATGAAGA-GTGTTATCCACTC
8816162 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTG
1 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATG-AGACG-G
*
8816227 TTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
64 TTATCCACTCTACTTCAATTTCAAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG
* * *
8816292 AT---GA-CG-T-TGCTCT-
129 ATGAAGAGTGTTATCCACTC
8816305 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTG
1 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATG-AGACG-G
* * **
8816370 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGTGTTATCCACTCTACTTCAATTTCAAGG
64 TTATCCACTCTACTTCAATTTCAA-GAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
8816435 G
128 G
8816436 GATAACGTTG
Statistics
Matches: 388, Mismatches: 16, Indels: 27
0.90 0.04 0.06
Matches are distributed among these distances:
141 1 0.00
143 145 0.37
144 172 0.44
145 5 0.01
146 2 0.01
147 1 0.00
148 3 0.01
149 4 0.01
150 12 0.03
151 43 0.11
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (148 bp):
TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAGACGGTT
ATCCACTCTACTTCAATTTCAAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGAT
GAAGAGTGTTATCCACTC
Found at i:8816136 original size:181 final size:175
Alignment explanation
Indices: 8815907--8816445 Score: 740
Period size: 181 Copynumber: 3.0 Consensus size: 175
8815897 ACATGTTATC
* * * * * *
8815907 CACTTTACTTCAACTTCAAGAGGATGGCGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTT
1 CACTCTACTTCAATTTCAAG-GGAAGACGTTCCACTTACTTCAATTTCAGAGATGAAGACGTGTT
*
8815972 ATCCACTCTACTTCAATTTCAAGGGATGAAGAGGTGTTATCCACTCTACTTCAATTTCAAGGGAT
65 ATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGAT
8816037 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
130 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
* * *
8816083 CTCT-TACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAG
1 CACTCTACTTCAATTTCA-AG-GGAAGAC--G-T-TCCACT-TACTTCAATTTC-AGAGATGAAG
*
8816147 ACGTGTTATCCACTCTACTTCAATTTC-AGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
58 ACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTC
* *
8816211 AAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATC
123 AAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGG--GATGAC--G-T-TG
* * *
8816270 CACTCTACTTCAATTTCAAGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTA
1 CACTCTACTTCAATTTCAAGGGAAGACGTTCCACTTACTTCAATTTCAGAGATGAAGACGTGTTA
8816335 TCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
66 TCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA-GGGAT
* ** *
8816400 GACGTTGTGTTATCCACTCTACTTCAATTTCAAGGGGATAACGTTG
130 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
8816446 AGACCTGCAG
Statistics
Matches: 322, Mismatches: 25, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
175 12 0.04
176 11 0.03
177 1 0.00
178 2 0.01
179 1 0.00
180 44 0.14
181 140 0.43
182 78 0.24
183 6 0.02
184 1 0.00
185 1 0.00
186 6 0.02
187 6 0.02
188 13 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (175 bp):
CACTCTACTTCAATTTCAAGGGAAGACGTTCCACTTACTTCAATTTCAGAGATGAAGACGTGTTA
TCCACTCTACTTCAATTTCAAGGGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGATG
AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
Found at i:8816410 original size:39 final size:39
Alignment explanation
Indices: 8816329--8816445 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
8816319 AGATGAAGAC
* **
8816329 GTGTTATCCACTCTACTTCAATTTCAA-GGGATGAAGAC
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTT
8816367 GTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTT
*
8816406 GTGTTATCCACTCTACTTCAATTTCAAGGGGATAACGTT
1 GTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTT
8816445 G
1 G
8816446 AGACCTGCAG
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 27 0.36
39 47 0.64
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (39 bp):
GTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTT
Found at i:8828434 original size:29 final size:29
Alignment explanation
Indices: 8828405--8828539 Score: 75
Period size: 29 Copynumber: 4.6 Consensus size: 29
8828395 GCTTCGAGGG
*
8828405 TAAAATGGTAATTTTTGGTGAA-ATTGGGGT
1 TAAAATGGTAATTTTT-G-GAAGATTGGGGA
*
8828435 TAAAAATGG-AA-TTTTGGAAGTTTTGGGGA
1 T-AAAATGGTAATTTTTGGAAG-ATTGGGGA
* * * *
8828464 TAAAATGGTAATTTTAGTGTA-ATCGGGGT
1 TAAAATGGTAATTTTTG-GAAGATTGGGGA
** *
8828493 TAAAAATGG-AA-TTTTAAAAGATTCGGGGGG
1 T-AAAATGGTAATTTTTGGAAGATT--GGGGA
8828523 TAAAATGGTAATTTTTG
1 TAAAATGGTAATTTTTG
8828540 AAAGTTTTGG
Statistics
Matches: 79, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
27 4 0.05
28 13 0.16
29 28 0.35
30 21 0.27
31 13 0.16
ACGTcount: A:0.34, C:0.01, G:0.28, T:0.36
Consensus pattern (29 bp):
TAAAATGGTAATTTTTGGAAGATTGGGGA
Found at i:8828442 original size:59 final size:57
Alignment explanation
Indices: 8828343--8828537 Score: 246
Period size: 59 Copynumber: 3.3 Consensus size: 57
8828333 TGGATACCCG
* * * *
8828343 GGGGCAAAATGGTAATTTTGGTGAAATCAGGGTTAGAAATGGAATTTTAGAAGCTTC
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTC
* * * *
8828400 GAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAGTTTT
1 G-GGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTC
* * *
8828459 GGGGATAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTC
1 GGGG-TAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTC
8828517 GGGGGGTAAAATGGTAATTTT
1 --GGGGTAAAATGGTAATTTT
8828538 TGAAAGTTTT
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 51 0.43
59 63 0.53
60 4 0.03
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGATTC
Found at i:8828551 original size:29 final size:30
Alignment explanation
Indices: 8828428--8828595 Score: 102
Period size: 30 Copynumber: 5.7 Consensus size: 30
8828418 TTTGGTGAAA
*
8828428 TTGGGGTTAAAAATGG-AA-TTTTGGAAGTT
1 TTGGGGTT-AAAATGGTAATTTTTGAAAGTT
* *
8828457 TTGGGGATAAAATGGTAATTTTAGTGTAA---
1 TTGGGGTTAAAATGGTAATTTT--TGAAAGTT
* *
8828486 TCGGGGTTAAAAATGG-AA-TTTTAAAAGATT
1 TTGGGGTT-AAAATGGTAATTTTTGAAAG-TT
** *
8828516 CGGGGGGTAAAATGGTAATTTTTGAAAGTT
1 TTGGGGTTAAAATGGTAATTTTTGAAAGTT
* * *
8828546 TTGGGGTCAAAAT-ATAATTTTGGAAAAGTT
1 TTGGGGTTAAAATGGTAATTTTTG-AAAGTT
* *
8828576 TCGGGGTTAAAA-GATAATTT
1 TTGGGGTTAAAATGGTAATTT
8828596 CTGGACAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 25
0.72 0.12 0.17
Matches are distributed among these distances:
26 3 0.03
28 10 0.09
29 32 0.30
30 51 0.47
31 8 0.07
32 4 0.04
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (30 bp):
TTGGGGTTAAAATGGTAATTTTTGAAAGTT
Found at i:8828565 original size:117 final size:115
Alignment explanation
Indices: 8828348--8828570 Score: 290
Period size: 117 Copynumber: 1.9 Consensus size: 115
8828338 ACCCGGGGGC
* * * *
8828348 AAAATGGTAATTTTGGTGAAATCAGGGTTAGAAATGGAATTTTAGAAGCTTCGAGGGTAAAATGG
1 AAAATGGTAATTTTAGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGTAAAATGG
*
8828413 TAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAGTTTTGGGGAT
66 TAATTTTT-GTGAAATTGGGGTCAAAAAT-GAATTTTGGAAGTTTTGGGGAT
* * *
8828465 AAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGGTAAAATG
1 AAAATGGTAATTTTAGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTC-GAGGGTAAAATG
8828530 GTAA-TTTT-TGAAAGTTTTGGGGTCAAAATAT-AATTTTGGAA
65 GTAATTTTTGTGAAA---TTGGGGTCAAAA-ATGAATTTTGGAA
8828571 AAGTTTCGGG
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
115 5 0.05
117 60 0.65
118 26 0.28
119 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.35
Consensus pattern (115 bp):
AAAATGGTAATTTTAGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGTAAAATGG
TAATTTTTGTGAAATTGGGGTCAAAAATGAATTTTGGAAGTTTTGGGGAT
Found at i:8829429 original size:22 final size:21
Alignment explanation
Indices: 8829368--8829429 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 21
8829358 CCCCTTTTTC
*
8829368 CTTTCTTTTCTTCTGTTTCTTT
1 CTTTCTTTTTTTCTG-TTCTTT
8829390 CTTTCTTCTATTTT-TGTTCTTT
1 CTTTCTT-T-TTTTCTGTTCTTT
8829412 -TATTCTTATTTTTCTGTT
1 CT-TTCTT-TTTTTCTGTT
8829430 TTATATCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 5 0.15
22 23 0.68
23 3 0.09
24 3 0.09
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.73
Consensus pattern (21 bp):
CTTTCTTTTTTTCTGTTCTTT
Found at i:8830522 original size:17 final size:16
Alignment explanation
Indices: 8830502--8830589 Score: 81
Period size: 17 Copynumber: 5.2 Consensus size: 16
8830492 GACTTTCTTT
8830502 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
8830519 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
8830535 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
8830553 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
*
8830569 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
8830586 TTAA
1 TTAA
8830590 TTCCCAAATG
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
16 13 0.21
17 41 0.66
18 8 0.13
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:8830528 original size:6 final size:6
Alignment explanation
Indices: 8830519--8830573 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
8830509 TATAATAACA
* *
8830519 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
8830564 GTAAAT TTAA
1 TTAAAT TTAA
8830574 GATTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:8830534 original size:11 final size:11
Alignment explanation
Indices: 8830518--8830589 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
8830508 TTATAATAAC
8830518 ATTAAATTTAA
1 ATTAAATTTAA
*
8830529 ATTAAATTCAA
1 ATTAAATTTAA
8830540 ATTTAAATTTAA
1 A-TTAAATTTAA
*
8830552 ATTGAATTTAA
1 ATTAAATTTAA
*
8830563 AGTAAATTTAA
1 ATTAAATTTAA
*
8830574 GATTAAA-ATAA
1 -ATTAAATTTAA
8830585 ATTAA
1 ATTAA
8830590 TTCCCAAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
10 5 0.10
11 32 0.62
12 15 0.29
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:8831060 original size:27 final size:27
Alignment explanation
Indices: 8831029--8831102 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 27
8831019 TTTAATTTAA
* *
8831029 GTTTTTATATTATTTTTTATTTATTTT
1 GTTTTTATATTATTTTTTATATAATTT
*
8831056 GTTTTTATAATTAATTATTTATATAATTT
1 GTTTTTAT-ATT-ATTTTTTATATAATTT
* *
8831085 GTATTTA-ATTAATTTTTA
1 GTTTTTATATTATTTTTTA
8831103 ATATTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.15
27 11 0.28
28 3 0.08
29 19 0.49
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (27 bp):
GTTTTTATATTATTTTTTATATAATTT
Found at i:8833462 original size:23 final size:22
Alignment explanation
Indices: 8833436--8833497 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
8833426 TAAAATTATG
8833436 ATTTAATTAAAAATAAAT-AATAA
1 ATTTAA-TAAAAATAAATAAAT-A
* *
8833459 ATTTTATAAAAATAATTAAATA
1 ATTTAATAAAAATAAATAAATA
8833481 ATTTGAATAAAAATAAA
1 ATTT-AATAAAAATAAA
8833498 ACAGAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATTTAATAAAAATAAATAAATA
Found at i:8833468 original size:22 final size:23
Alignment explanation
Indices: 8833443--8833497 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
8833433 ATGATTTAAT
*
8833443 TAAAAATAAAT-AATAAATTT-TA
1 TAAAAATAAATAAAT-AATTTGAA
*
8833465 TAAAAATAATTAAATAATTTGAA
1 TAAAAATAAATAAATAATTTGAA
8833488 TAAAAATAAA
1 TAAAAATAAA
8833498 ACAGAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAAAATAAATAAATAATTTGAA
Found at i:8833609 original size:20 final size:21
Alignment explanation
Indices: 8833586--8833631 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
8833576 ATAAATACTA
*
8833586 AAACCCTATTTTAAAAACC-T
1 AAACCCTAATTTAAAAACCTT
8833606 AAACCCTAATTTAAAAACCTT
1 AAACCCTAATTTAAAAACCTT
8833627 AAACC
1 AAACC
8833632 AAATTAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
AAACCCTAATTTAAAAACCTT
Found at i:8833636 original size:20 final size:20
Alignment explanation
Indices: 8833595--8833640 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8833585 AAAACCCTAT
*
8833595 TTTAAAAACCTAAACCCTAA
1 TTTAAAAACCTAAACCCAAA
8833615 TTTAAAAACCTTAAA-CCAAA
1 TTTAAAAACC-TAAACCCAAA
8833635 -TTAAAA
1 TTTAAAA
8833641 CAAAAACACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 6 0.25
20 14 0.58
21 4 0.17
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (20 bp):
TTTAAAAACCTAAACCCAAA
Found at i:8834640 original size:20 final size:19
Alignment explanation
Indices: 8834617--8834664 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
8834607 ATCCTCAAAT
*
8834617 TTTAAAAAACACCAGAAAAA
1 TTTAAAAAA-AACAGAAAAA
*
8834637 TTTAAAGAAAAACATAAAAA
1 TTTAAA-AAAAACAGAAAAA
*
8834657 TTCAAAAA
1 TTTAAAAA
8834665 GAAATTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (19 bp):
TTTAAAAAAAACAGAAAAA
Found at i:8848521 original size:33 final size:33
Alignment explanation
Indices: 8848480--8848545 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8848470 TTTTTAAAAT
8848480 TTTATTCTCTTATCTTGACTTATATAAATTAAC
1 TTTATTCTCTTATCTTGACTTATATAAATTAAC
8848513 TTTATTCTCTTATCTTGACTTATATAAATTAAC
1 TTTATTCTCTTATCTTGACTTATATAAATTAAC
8848546 ACATGTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (33 bp):
TTTATTCTCTTATCTTGACTTATATAAATTAAC
Found at i:8849516 original size:34 final size:34
Alignment explanation
Indices: 8849478--8849546 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
8849468 AATTACTTAC
* *
8849478 AAATGAAGAAAATTTTATTCATAATAAATTATAG
1 AAATGAAAAAAAATTTATTCATAATAAATTATAG
*
8849512 AAATGAAAAAAAATTTATTCATACTAAATTATAG
1 AAATGAAAAAAAATTTATTCATAATAAATTATAG
8849546 A
1 A
8849547 TTAAAACGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.33
Consensus pattern (34 bp):
AAATGAAAAAAAATTTATTCATAATAAATTATAG
Found at i:8852337 original size:40 final size:40
Alignment explanation
Indices: 8852269--8852348 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
8852259 GTTTTAGTGC
* * * **
8852269 TGTTTTTTTACTGTTTTGATTGCTTTTTTTGTTATTTTGG
1 TGTTTTTTTACTATTTTGAGTGCCTTTTTTACTATTTTGG
8852309 TGTTATTTTTACTATTTTG-GTGCCTTTTTTACTATTTTGG
1 TGTT-TTTTTACTATTTTGAGTGCCTTTTTTACTATTTTGG
8852349 GTGCTGTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 21 0.62
41 13 0.38
ACGTcount: A:0.10, C:0.07, G:0.16, T:0.66
Consensus pattern (40 bp):
TGTTTTTTTACTATTTTGAGTGCCTTTTTTACTATTTTGG
Found at i:8852358 original size:21 final size:19
Alignment explanation
Indices: 8852272--8852359 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 19
8852262 TTAGTGCTGT
* *
8852272 TTTTTTACTGTTTTGATTGC
1 TTTTTTACTATTTTG-GTGC
** *
8852292 TTTTTTTGTTATTTTGGTGT
1 -TTTTTTACTATTTTGGTGC
8852312 TATTTTTACTATTTTGGTGCC
1 T-TTTTTACTATTTTGGTG-C
8852333 TTTTTTACTATTTTGGGTGC
1 TTTTTTACTATTTT-GGTGC
8852353 TGTTTTT
1 T-TTTTT
8852360 GTTGCTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 32 0.58
21 22 0.40
ACGTcount: A:0.09, C:0.08, G:0.17, T:0.66
Consensus pattern (19 bp):
TTTTTTACTATTTTGGTGC
Found at i:8852359 original size:41 final size:41
Alignment explanation
Indices: 8852273--8852359 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
8852263 TAGTGCTGTT
* * * ** *
8852273 TTTTTACTGTTTTGATTGCTTTTTTTGTTATTTTGGTGTTA
1 TTTTTACTATTTTGAGTGCCTTTTTTACTATTTTGGTGCTA
*
8852314 TTTTTACTATTTTG-GTGCCTTTTTTACTATTTTGGGTGCTG
1 TTTTTACTATTTTGAGTGCCTTTTTTACTATTTT-GGTGCTA
8852355 TTTTT
1 TTTTT
8852360 GTTGCTATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 15 0.39
41 23 0.61
ACGTcount: A:0.09, C:0.08, G:0.17, T:0.66
Consensus pattern (41 bp):
TTTTTACTATTTTGAGTGCCTTTTTTACTATTTTGGTGCTA
Found at i:8852389 original size:12 final size:12
Alignment explanation
Indices: 8852374--8852433 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
8852364 CTATTTTTTA
*
8852374 TATTTTTATTGT
1 TATTTTTGTTGT
*
8852386 TA-TTTTGCTGT
1 TATTTTTGTTGT
** *
8852397 TATTTTTACTGC
1 TATTTTTGTTGT
* *
8852409 TGTTTTGGTTGT
1 TATTTTTGTTGT
8852421 TATTTTTGTTGT
1 TATTTTTGTTGT
8852433 T
1 T
8852434 TAGATATTAT
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
11 9 0.25
12 27 0.75
ACGTcount: A:0.10, C:0.05, G:0.17, T:0.68
Consensus pattern (12 bp):
TATTTTTGTTGT
Found at i:8852402 original size:23 final size:24
Alignment explanation
Indices: 8852374--8852433 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
8852364 CTATTTTTTA
8852374 TATTTTTATTGTTATTTT-GCTGT
1 TATTTTTATTGTTATTTTGGCTGT
* * * *
8852397 TATTTTTACTGCTGTTTTGGTTGT
1 TATTTTTATTGTTATTTTGGCTGT
*
8852421 TATTTTTGTTGTT
1 TATTTTTATTGTT
8852434 TAGATATTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.10, C:0.05, G:0.17, T:0.68
Consensus pattern (24 bp):
TATTTTTATTGTTATTTTGGCTGT
Found at i:8855809 original size:19 final size:18
Alignment explanation
Indices: 8855755--8855847 Score: 79
Period size: 19 Copynumber: 5.2 Consensus size: 18
8855745 TAATAAATTA
*
8855755 AAATTAAAATTTCATACAT
1 AAATTAAAATTT-ATATAT
* *
8855774 ACATTAAAATAATTATAT-C
1 AAATTAAAAT--TTATATAT
8855793 AAATTAAAATTTATATAT
1 AAATTAAAATTTATATAT
*
8855811 --ATT-AAA-TTATACATT
1 AAATTAAAATTTATATA-T
8855826 AAATTAAAATTTATATAT
1 AAATTAAAATTTATATAT
8855844 AAAT
1 AAAT
8855848 ACTTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
14 6 0.10
15 4 0.07
16 3 0.05
17 9 0.15
18 8 0.14
19 24 0.41
20 3 0.05
21 2 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTAAAATTTATATAT
Found at i:8855820 original size:31 final size:32
Alignment explanation
Indices: 8855784--8855844 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
8855774 ACATTAAAAT
8855784 AATTAT-ATCAAATTAAAATTTATATATATTA
1 AATTATAATCAAATTAAAATTTATATATATTA
*
8855815 AATTATACATTAAATTAAAATTTATATATA
1 AATTATA-ATCAAATTAAAATTTATATATA
8855845 AATACTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 6 0.22
33 21 0.78
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
AATTATAATCAAATTAAAATTTATATATATTA
Found at i:8859096 original size:74 final size:74
Alignment explanation
Indices: 8858975--8859128 Score: 308
Period size: 74 Copynumber: 2.1 Consensus size: 74
8858965 TATACTCTGT
8858975 TTATTAATTAATGCTTTTGACTGTATTAATTCACTTAGTATTCATTTCTATACTTTTATGTATAT
1 TTATTAATTAATGCTTTTGACTGTATTAATTCACTTAGTATTCATTTCTATACTTTTATGTATAT
8859040 ATCTTTTCC
66 ATCTTTTCC
8859049 TTATTAATTAATGCTTTTGACTGTATTAATTCACTTAGTATTCATTTCTATACTTTTATGTATAT
1 TTATTAATTAATGCTTTTGACTGTATTAATTCACTTAGTATTCATTTCTATACTTTTATGTATAT
8859114 ATCTTTTCC
66 ATCTTTTCC
8859123 TTATTA
1 TTATTA
8859129 TGGATTTCCT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 80 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (74 bp):
TTATTAATTAATGCTTTTGACTGTATTAATTCACTTAGTATTCATTTCTATACTTTTATGTATAT
ATCTTTTCC
Found at i:8865786 original size:21 final size:21
Alignment explanation
Indices: 8865732--8865787 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
8865722 CACATAAACA
*
8865732 TTTAACTAATTTTTTTAAAAAT
1 TTTAA-TAATGTTTTTAAAAAT
* * *
8865754 TTTAAAATATGTTTTTATAATT
1 TTTAATA-ATGTTTTTAAAAAT
8865776 TTTAATAATGTT
1 TTTAATAATGTT
8865788 AATGATCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTAATAATGTTTTTAAAAAT
Found at i:8877892 original size:51 final size:51
Alignment explanation
Indices: 8877775--8878013 Score: 284
Period size: 52 Copynumber: 4.6 Consensus size: 51
8877765 TTTCATTTAA
* ** * *
8877775 TACTCACGATGACA-TATAGTCATCGGACCCTTGTTCCGTATAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGACCTTTAATCCGTAAAGG-ATTCATT
* * * * *
8877827 CACTCACGATGACACTGAGTCATCGGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
8877878 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAAGA-TCTATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTC-ATT
*
8877929 TACTCACGATGACACTTAGGCATCGGACCCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGA-CCTTTAATCCGTAAAGGATTCATT
* *
8877981 TACTCACAATAACACTTAGTCATCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
8878014 CGTTTATAAC
Statistics
Matches: 159, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
50 2 0.01
51 74 0.47
52 80 0.50
53 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:8877961 original size:103 final size:103
Alignment explanation
Indices: 8877828--8878013 Score: 293
Period size: 103 Copynumber: 1.8 Consensus size: 103
8877818 GAATTCATAC
* * * * * *
8877828 ACTCACGATGACACTGAGTCATCGGACCTTTAATTCGTCATGGATTCATTTACTCACGATGACAC
1 ACTCACGATGACACTGAGGCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACAATAACAC
8877893 TTAGTCATCGGAC-CTTTAATCCATAAAAGATCTATTT
66 TTAGTCATCGGACTCTTTAATCCATAAAAGATCTATTT
*
8877930 ACTCACGATGACACTTAGGCATCGGACCCTTTAATCCGTAAAGGATTCATTTACTCACAATAACA
1 ACTCACGATGACACTGAGGCATCGGA-CCTTTAATCCGTAAAGGATTCATTTACTCACAATAACA
8877995 CTTAGTCATCGGACTCTTT
65 CTTAGTCATCGGACTCTTT
8878014 CGTTTATAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
102 24 0.32
103 47 0.63
104 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (103 bp):
ACTCACGATGACACTGAGGCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACAATAACAC
TTAGTCATCGGACTCTTTAATCCATAAAAGATCTATTT
Found at i:8884760 original size:10 final size:10
Alignment explanation
Indices: 8884733--8884765 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8884723 ATAATATATC
8884733 AAATACATTTA
1 AAATACA-TTA
8884744 AAA-ACATTA
1 AAATACATTA
8884753 AAATACATTA
1 AAATACATTA
8884763 AAA
1 AAA
8884766 AAATTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 12 0.57
11 3 0.14
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATACATTA
Found at i:8884943 original size:37 final size:35
Alignment explanation
Indices: 8884895--8884990 Score: 108
Period size: 37 Copynumber: 2.7 Consensus size: 35
8884885 AATAACATCC
*
8884895 AAACAAC--AAAAATAACAACTAAAATAGCAGT-A
1 AAACAACATAAAAATAACAACTAAAATAACAGTAA
* *
8884927 AAACAACATTAAAAAAATAGCAACAAAAATAACAGTAA
1 AAACAACA-T--AAAAATAACAACTAAAATAACAGTAA
*
8884965 AAACAACATGAAAATAACAACTAAAA
1 AAACAACATAAAAATAACAACTAAAA
8884991 CAGAAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
32 7 0.13
35 14 0.27
37 22 0.42
38 9 0.17
ACGTcount: A:0.68, C:0.15, G:0.05, T:0.12
Consensus pattern (35 bp):
AAACAACATAAAAATAACAACTAAAATAACAGTAA
Found at i:8885027 original size:27 final size:29
Alignment explanation
Indices: 8884997--8885057 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 29
8884987 AAAACAGAAA
*
8884997 AAAAATACCAAAACAGTAA-AAAAAC-AT
1 AAAAATACCAAAAAAGTAACAAAAACAAT
* *
8885024 AAAAATAGCAAAAAAGTAACTAAAACAAT
1 AAAAATACCAAAAAAGTAACAAAAACAAT
8885053 AAAAA
1 AAAAA
8885058 AATAGCACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 17 0.59
28 5 0.17
29 7 0.24
ACGTcount: A:0.72, C:0.11, G:0.05, T:0.11
Consensus pattern (29 bp):
AAAAATACCAAAAAAGTAACAAAAACAAT
Found at i:8885028 original size:19 final size:18
Alignment explanation
Indices: 8884987--8885061 Score: 55
Period size: 20 Copynumber: 3.9 Consensus size: 18
8884977 AATAACAACT
8884987 AAAACAGAAAAAAAATACC
1 AAAACAGAAAAAAAATA-C
8885006 AAAACAGTAAAAAAACATA-
1 AAAACAG-AAAAAAA-ATAC
* * *
8885025 AAAATAGCAAAAAAGTAAC
1 AAAACAGAAAAAAAAT-AC
8885044 TAAAACA-ATAAAAAAATA
1 -AAAACAGA-AAAAAAATA
8885062 GCACCAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
17 1 0.02
18 7 0.16
19 14 0.32
20 19 0.43
21 3 0.07
ACGTcount: A:0.73, C:0.11, G:0.05, T:0.11
Consensus pattern (18 bp):
AAAACAGAAAAAAAATAC
Found at i:8886821 original size:22 final size:22
Alignment explanation
Indices: 8886791--8886834 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8886781 CGAAAGGGTG
*
8886791 GAAATTTAAAAT-TATATTTTAT
1 GAAAATTAAAATGTA-ATTTTAT
8886813 GAAAATTAAAATGTAATTTTAT
1 GAAAATTAAAATGTAATTTTAT
8886835 TATCATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
GAAAATTAAAATGTAATTTTAT
Found at i:8886853 original size:32 final size:27
Alignment explanation
Indices: 8886817--8886895 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 27
8886807 TTTTATGAAA
8886817 ATTAAAATGTAATTTTATTATCATTTGATAG
1 ATTAAAATGTAATTTTATTAT--TTT--TAG
* *
8886848 TATTAAATTGAAATTTTA-TATTTTTAG
1 -ATTAAAATGTAATTTTATTATTTTTAG
*
8886875 ATTAAAATATAATTTTATTAT
1 ATTAAAATGTAATTTTATTAT
8886896 ATATTAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
26 14 0.34
27 6 0.15
29 3 0.07
31 3 0.07
32 15 0.37
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (27 bp):
ATTAAAATGTAATTTTATTATTTTTAG
Found at i:8887167 original size:90 final size:91
Alignment explanation
Indices: 8887010--8887189 Score: 353
Period size: 90 Copynumber: 2.0 Consensus size: 91
8887000 TGGTCATTCA
8887010 ACAATTTAGTAATTTTTCATTTCGAGTATTTTTTGTTAATATTATTAACTTTATTTTTTTCTATC
1 ACAATTTAGTAATTTTTCATTTCGAGTATTTTTTGTTAATATTATTAACTTTATTTTTTTCTATC
8887075 ATTCATTCATTAACTCAGTAACAAAC
66 ATTCATTCATTAACTCAGTAACAAAC
8887101 ACAATTTAGTAATTTTTCATTTCGAGTA-TTTTTGTTAATATTATTAACTTTATTTTTTTCTATC
1 ACAATTTAGTAATTTTTCATTTCGAGTATTTTTTGTTAATATTATTAACTTTATTTTTTTCTATC
8887165 ATTCATTCATTAACTCAGTAACAAA
66 ATTCATTCATTAACTCAGTAACAAA
8887190 TGATGGTATG
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 61 0.69
91 28 0.31
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.51
Consensus pattern (91 bp):
ACAATTTAGTAATTTTTCATTTCGAGTATTTTTTGTTAATATTATTAACTTTATTTTTTTCTATC
ATTCATTCATTAACTCAGTAACAAAC
Found at i:8894808 original size:3 final size:3
Alignment explanation
Indices: 8894800--8894838 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
8894790 AACAAGAAAT
8894800 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
8894839 CAGCAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8899779 original size:15 final size:14
Alignment explanation
Indices: 8899759--8899809 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
8899749 ACAAAACGAT
8899759 AATATAAATAATTAA
1 AATATAAAT-ATTAA
*
8899774 AATATAACAT-TTTA
1 AATATAA-ATATTAA
*
8899788 AATATAAATGACTAA
1 AATATAAAT-ATTAA
8899803 AATATAA
1 AATATAA
8899810 CCTGAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 16 0.53
16 2 0.07
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
AATATAAATATTAA
Found at i:8904156 original size:79 final size:79
Alignment explanation
Indices: 8904063--8904224 Score: 222
Period size: 79 Copynumber: 2.1 Consensus size: 79
8904053 TTTTTAAAAT
*
8904063 TTTAAATTAATAAAGGTAAAATTGT-ACTTTGGC-CCCCCT-AAAATGATAAAATTTCGATTTAA
1 TTTAAATTAATAAAGGTAAAATT-TCA-TTT-GCACCCCCTAAAAATAATAAAATTTCGATTTAA
*
8904125 TTCTTTAAAAATTATAA
63 TCCTTTAAAAATTATAA
* * *
8904142 TTTAAATTAGTAAAGGTAAAATTTCATTTTCAGCCCCTAAAAATAATAAAATTTCGATTTAATCC
1 TTTAAATTAATAAAGGTAAAATTTCATTTGCACCCCCTAAAAATAATAAAATTTCGATTTAATCC
*
8904207 TTTAAAAATTATAT
66 TTTAAAAATTATAA
8904221 TTTA
1 TTTA
8904225 CTATCGTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 9 0.12
79 64 0.86
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (79 bp):
TTTAAATTAATAAAGGTAAAATTTCATTTGCACCCCCTAAAAATAATAAAATTTCGATTTAATCC
TTTAAAAATTATAA
Found at i:8909376 original size:15 final size:13
Alignment explanation
Indices: 8909346--8909380 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 13
8909336 AAATCTTACT
8909346 TTTTATTAAATTTA
1 TTTT-TTAAATTTA
8909360 TTTTTTAAATTTA
1 TTTTTTAAATTTA
8909373 TATTTTTA
1 T-TTTTTA
8909381 TCAAAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTAAATTTA
Found at i:8911409 original size:6 final size:6
Alignment explanation
Indices: 8911400--8911431 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
8911390 CAAAGAAGGG
*
8911400 TTTGGT TTTGAT TTTGAT TTTGAT TTTGAT TT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TT
8911432 GAGAGAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.19, T:0.69
Consensus pattern (6 bp):
TTTGAT
Found at i:8914694 original size:25 final size:25
Alignment explanation
Indices: 8914666--8914715 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8914656 TAATGGTCAG
*
8914666 AGTTTAAGTAGGAAAAAAAAATCAA
1 AGTTTAACTAGGAAAAAAAAATCAA
* * *
8914691 AGTTTAACTGGGAGAAGAAAATCAA
1 AGTTTAACTAGGAAAAAAAAATCAA
8914716 GAAGCTTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (25 bp):
AGTTTAACTAGGAAAAAAAAATCAA
Found at i:8915761 original size:19 final size:19
Alignment explanation
Indices: 8915737--8915775 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8915727 TTTAATTTTT
8915737 CCCCAAAAACTTTTACTTC
1 CCCCAAAAACTTTTACTTC
8915756 CCCCAAAAACTTTTACTTC
1 CCCCAAAAACTTTTACTTC
8915775 C
1 C
8915776 TCTTAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (19 bp):
CCCCAAAAACTTTTACTTC
Found at i:8917250 original size:17 final size:18
Alignment explanation
Indices: 8917207--8917249 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
8917197 CTTATTTGAC
8917207 AATA-TTTTTATCTCAAA
1 AATACTTTTTATCTCAAA
*
8917224 AATACTTTTTAT-TCCAA
1 AATACTTTTTATCTCAAA
8917241 AA-ACTTTTT
1 AATACTTTTT
8917250 TTAGAAGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 10 0.42
18 7 0.29
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (18 bp):
AATACTTTTTATCTCAAA
Found at i:8918177 original size:13 final size:14
Alignment explanation
Indices: 8918159--8918200 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
8918149 GGACTTAGGG
*
8918159 TTTTGTTTTTCGT-
1 TTTTGTTTTTCATC
8918172 TTTTGTTTTTCATC
1 TTTTGTTTTTCATC
*
8918186 TTTTTTTTTTC-TC
1 TTTTGTTTTTCATC
8918199 TT
1 TT
8918201 AAAAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTTCATC
Found at i:8922234 original size:13 final size:13
Alignment explanation
Indices: 8922216--8922280 Score: 85
Period size: 13 Copynumber: 5.0 Consensus size: 13
8922206 AGTTTAGCAT
*
8922216 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
8922229 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
8922242 TGCTTTGGAAAAG
1 TGCTTTTGAAAAG
*
8922255 TGATTTTGAAAAG
1 TGCTTTTGAAAAG
*
8922268 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
8922281 CTTGGTTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:8922827 original size:19 final size:21
Alignment explanation
Indices: 8922803--8922851 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
8922793 TTTAAACTTT
8922803 AAAAAGCAAAA-AAAGAAAA-
1 AAAAAGCAAAAGAAAGAAAAC
8922822 AAAAAG-AGAAAGAAAGAAAAC
1 AAAAAGCA-AAAGAAAGAAAAC
*
8922843 AAATAGCAA
1 AAAAAGCAA
8922852 TGCCTATACC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 9 0.36
20 8 0.32
21 6 0.24
22 1 0.04
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAGCAAAAGAAAGAAAAC
Found at i:8924501 original size:282 final size:282
Alignment explanation
Indices: 8923997--8924559 Score: 1108
Period size: 282 Copynumber: 2.0 Consensus size: 282
8923987 GATAAGCAGT
8923997 TAATATACGCTAATCTCTTAGCTATGCATTACTTTTACATAGGGTTTTATTTTATCCATCTTCAT
1 TAATATACGCTAATCTCTTAGCTATGCATTACTTTTACATAGGGTTTTATTTTATCCATCTTCAT
8924062 TGACATTCTACGTAATCTGAAGTTTAAATTAAGATGCAGACGAGCTTTTATTAATTTATAAATGA
66 TGACATTCTACGTAATCTGAAGTTTAAATTAAGATGCAGACGAGCTTTTATTAATTTATAAATGA
8924127 TTCTTCCATCAAAAAAGGAAATATATGAATGATTTACTGCATGCATAATTGAATCAATTCAAAGA
131 TTCTTCCATCAAAAAAGGAAATATATGAATGATTTACTGCATGCATAATTGAATCAATTCAAAGA
8924192 ACCATATTCTTATTGCACCTGTTGCTGCTAGGAACACCTTACTTGAAATAAATGAGCCAGTGCAA
196 ACCATATTCTTATTGCACCTGTTGCTGCTAGGAACACCTTACTTGAAATAAATGAGCCAGTGCAA
*
8924257 AGCGTGTGTCAACAGTGGCATA
261 AGCGTGTGTCAACAATGGCATA
8924279 TAATATACGCTAATCTCTTAGCTATGCATTACTTTTACATAGGGTTTTATTTTATCCATCTTCAT
1 TAATATACGCTAATCTCTTAGCTATGCATTACTTTTACATAGGGTTTTATTTTATCCATCTTCAT
8924344 TGACATTCTACGTAATCTGAAGTTTAAATTAAGATGCAGACGAGCTTTTATTAATTTATAAATGA
66 TGACATTCTACGTAATCTGAAGTTTAAATTAAGATGCAGACGAGCTTTTATTAATTTATAAATGA
*
8924409 TTCTTCCATTAAAAAAGGAAATATATGAATGATTTACTGCATGCATAATTGAATCAATTCAAAGA
131 TTCTTCCATCAAAAAAGGAAATATATGAATGATTTACTGCATGCATAATTGAATCAATTCAAAGA
8924474 ACCATATTCTTATTGCACCTGTTGCTGCTAGGAACACCTTACTTGAAATAAATGAGCCAGTGCAA
196 ACCATATTCTTATTGCACCTGTTGCTGCTAGGAACACCTTACTTGAAATAAATGAGCCAGTGCAA
8924539 AGCGTGTGTCAACAATGGCAT
261 AGCGTGTGTCAACAATGGCAT
8924560 GCTCCTAATT
Statistics
Matches: 279, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
282 279 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (282 bp):
TAATATACGCTAATCTCTTAGCTATGCATTACTTTTACATAGGGTTTTATTTTATCCATCTTCAT
TGACATTCTACGTAATCTGAAGTTTAAATTAAGATGCAGACGAGCTTTTATTAATTTATAAATGA
TTCTTCCATCAAAAAAGGAAATATATGAATGATTTACTGCATGCATAATTGAATCAATTCAAAGA
ACCATATTCTTATTGCACCTGTTGCTGCTAGGAACACCTTACTTGAAATAAATGAGCCAGTGCAA
AGCGTGTGTCAACAATGGCATA
Found at i:8924864 original size:44 final size:44
Alignment explanation
Indices: 8924801--8924886 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
8924791 CCTGATTGTT
* *
8924801 GTTTTATTCTATTTTCTGATTGATGCAAATATTGTTGATGTATC
1 GTTTTATTCTATTTCCTGATTGATGCAAATATTCTTGATGTATC
*
8924845 GTTTTATTCTATTTCCTGATTGATGCAAATTTTCTTGATGTA
1 GTTTTATTCTATTTCCTGATTGATGCAAATATTCTTGATGTA
8924887 GACTGATCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.52
Consensus pattern (44 bp):
GTTTTATTCTATTTCCTGATTGATGCAAATATTCTTGATGTATC
Found at i:8928219 original size:27 final size:27
Alignment explanation
Indices: 8928165--8928226 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
8928155 TTTATTTAAT
* *
8928165 AAAAATGTTGGAATTTTCTTATCAAAA
1 AAAAATGTTGGAATTTTATAATCAAAA
*
8928192 AAAAATGTTGGAATTTTATGAATGAAAA
1 AAAAATGTTGGAATTTTAT-AATCAAAA
8928220 AATAAAT
1 AA-AAAT
8928227 ATTAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 18 0.60
28 8 0.27
29 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (27 bp):
AAAAATGTTGGAATTTTATAATCAAAA
Found at i:8928462 original size:17 final size:17
Alignment explanation
Indices: 8928442--8928474 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8928432 AGTAAAGCCT
8928442 CTCCTC-TCTTCTCTTTG
1 CTCCTCTTCTTC-CTTTG
8928459 CTCCTCTTCTTCCTTT
1 CTCCTCTTCTTCCTTT
8928475 CTTCTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.42, G:0.03, T:0.55
Consensus pattern (17 bp):
CTCCTCTTCTTCCTTTG
Found at i:8937601 original size:21 final size:22
Alignment explanation
Indices: 8937575--8937629 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
8937565 TGGAGCATAC
8937575 TGTCTCGAGACACAACAAAT-A-
1 TGTCTCGAGACA-AACAAATGAT
* * *
8937596 TGTCTCAAGACAAATACATGAT
1 TGTCTCGAGACAAACAAATGAT
8937618 TGTCTCGAGACA
1 TGTCTCGAGACA
8937630 TGACTCCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 12 0.43
22 11 0.39
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (22 bp):
TGTCTCGAGACAAACAAATGAT
Found at i:8938008 original size:24 final size:23
Alignment explanation
Indices: 8937981--8938026 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
8937971 TAACACTGAA
*
8937981 AATATATTTAAATACGATCAAAGT
1 AATATATTCAAATACGAT-AAAGT
* *
8938005 AATATGTTCAAATTCGATAAAG
1 AATATATTCAAATACGATAAAG
8938027 AGAATTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
AATATATTCAAATACGATAAAGT
Found at i:8940472 original size:43 final size:43
Alignment explanation
Indices: 8940411--8940497 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
8940401 GGACATTACT
8940411 AAACGAAACAAACTATTTAATATATTTTTATGAAATAAATATA
1 AAACGAAACAAACTATTTAATATATTTTTATGAAATAAATATA
8940454 AAACGAAACAAACTATTTAATATATTTTTATGAAATAAATATA
1 AAACGAAACAAACTATTTAATATATTTTTATGAAATAAATATA
8940497 A
1 A
8940498 CAATCACTCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (43 bp):
AAACGAAACAAACTATTTAATATATTTTTATGAAATAAATATA
Found at i:8952610 original size:13 final size:13
Alignment explanation
Indices: 8952592--8952617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8952582 CACTATTATA
8952592 TTGTTATTATTTG
1 TTGTTATTATTTG
8952605 TTGTTATTATTTG
1 TTGTTATTATTTG
8952618 GATATTGTAT
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:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (13 bp):
TTGTTATTATTTG
Found at i:8953229 original size:25 final size:25
Alignment explanation
Indices: 8953201--8953273 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 25
8953191 GATTTGACAC
*
8953201 TTTTTTTTAATTTGTTA-TCT-AATT
1 TTTTTTTTAATTTGGTACT-TAAATT
*
8953225 TTTTTGTTCAATTTGGTACTTAAATT
1 TTTTT-TTTAATTTGGTACTTAAATT
*
8953251 TTTTTTTTAATTTGGTACCTAAA
1 TTTTTTTTAATTTGGTACTTAAA
8953274 CTTGACACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.12
25 27 0.64
26 10 0.24
ACGTcount: A:0.23, C:0.07, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTTTTTTAATTTGGTACTTAAATT
Found at i:8964913 original size:31 final size:30
Alignment explanation
Indices: 8964878--8964936 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
8964868 TTTTAAATAA
*
8964878 AAAACTTCAAAATAATTTAATAACTTAAACG
1 AAAACTTCAAAATAATTCAATAA-TTAAACG
**
8964909 AAAACTTTTAAATAATTCAATAATTAAA
1 AAAACTTCAAAATAATTCAATAATTAAA
8964937 TTGTAGCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAACTTCAAAATAATTCAATAATTAAACG
Found at i:8969607 original size:146 final size:145
Alignment explanation
Indices: 8969344--8969641 Score: 551
Period size: 146 Copynumber: 2.0 Consensus size: 145
8969334 CTGATGGCCG
*
8969344 ACACCTCTTTATCTGATTAAAAAATATCGTTTTTGGGTGTTAGTGTCAACCAACAAAGGACCAAA
1 ACACCTCTTTATCTGATTAAAAAATATCATTTTTGGGTGTTAGTGTCAACCAACAAAGGACCAAA
*
8969409 CTCACCCAACAAAAGGGGATGAAAATATTGCAACATTGAACCCCTTTGTTTTCCATTTTTTTATT
66 CTCACCCAACAAAAGGGGATGAAAATATTGCAACATTAAACCCCTTTGTTTTCCATTTTTTTATT
8969474 TCTTAAGTTTATTTA
131 TCTTAAGTTTATTTA
* *
8969489 ACACCTCTTTATCTGATTAAAAAAATATCATTTTTTGGTGTTAGTGTCAACCAACAAAGGGCCAA
1 ACACCTCTTTATCTGATT-AAAAAATATCATTTTTGGGTGTTAGTGTCAACCAACAAAGGACCAA
8969554 ACTCACCCAACAAAAGGGGATGAAAATATTGCAACATTAAACCCCTTTGTTTTCCATTTTTTTAT
65 ACTCACCCAACAAAAGGGGATGAAAATATTGCAACATTAAACCCCTTTGTTTTCCATTTTTTTAT
8969619 TTCTTAAGTTTATTTA
130 TTCTTAAGTTTATTTA
8969635 ACACCTC
1 ACACCTC
8969642 CTTGTTTCTA
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
145 18 0.12
146 130 0.88
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (145 bp):
ACACCTCTTTATCTGATTAAAAAATATCATTTTTGGGTGTTAGTGTCAACCAACAAAGGACCAAA
CTCACCCAACAAAAGGGGATGAAAATATTGCAACATTAAACCCCTTTGTTTTCCATTTTTTTATT
TCTTAAGTTTATTTA
Found at i:8978524 original size:59 final size:59
Alignment explanation
Indices: 8978402--8978705 Score: 286
Period size: 58 Copynumber: 5.2 Consensus size: 59
8978392 AAATATTGAT
* * * * * **
8978402 AAAATGGT-AGTTTTGGTGAAATCGAGGTTAAAAATAGAA-TTATCGAAAGTT-TAGGGA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTA-GGAAAGTTCGGGGGA
* *
8978459 TAAAATGGTAATTTTTGGTAAAATCGGGG-TCAAAATGGAATTTAGGAAAGTTTGGGGGCA
1 -AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTAGGAAAGTTCGGGGG-A
* * * ** * *
8978519 AAAAT-GTAATTTTTAGTGAAATTGGGGTTAAAAATAAAATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTAGGAAAGTTCGGGGGA
* *
8978577 AAAATGGTGATTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTA--AAAGTTCGGGGGA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATG-GAATTTAGGAAAGTTCGGGGGA
* * * *
8978635 AAAATGGTAATTTTTGGTGAAATC-GGG-TCAAAATGGAATTTTGAAAAGTTCGGGGGTA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTAGGAAAGTTCGGGGG-A
*
8978693 AAAA-CGTAATTTT
1 AAAATGGTAATTTT
8978706 GAGAAGTTTT
Statistics
Matches: 204, Mismatches: 32, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
55 5 0.02
56 7 0.03
57 23 0.11
58 87 0.43
59 77 0.38
60 5 0.02
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTAGGAAAGTTCGGGGGA
Found at i:8978626 original size:117 final size:116
Alignment explanation
Indices: 8978402--8978705 Score: 357
Period size: 117 Copynumber: 2.6 Consensus size: 116
8978392 AAATATTGAT
* * * * * ** *
8978402 AAAATGGT-AGTTTTGGTGAAATCGAGGTTAAAAATAGAATTATCGAAAGTTTAGGGATAAAATG
1 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGGTAAAATG
* *
8978466 GTAATTTTTGGTAAAATCGGGGTCAAAATGGAATTTAGGAAAGTTTGGGGGCA
66 GTAATTTTTGGTAAAATCGGGGTAAAAATGGAATTTA-GAAAGTTCGGGGG-A
* *
8978519 AAAAT-GTAATTTTTAGTGAAATTGGGGTTAAAAATAAAATTTTGGAAAGTTCGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGGTAAAATG
* *
8978583 GTGATTTTTGGTAAAATCGGGGTTAAAAATGAGATTTTA-AAAGTTCGGGGGA
66 GTAATTTTTGGTAAAATCGGGG-TAAAAATG-GAATTTAGAAAGTTCGGGGGA
* * * * **
8978635 AAAATGGTAATTTTTGGTGAAA-TCGGG-TCAAAATGGAATTTTGAAAAGTTCGGGGGTAAAAAC
1 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGGTAAAATG
8978698 GTAATTTT
66 GTAATTTT
8978706 GAGAAGTTTT
Statistics
Matches: 160, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
115 37 0.23
116 12 0.08
117 98 0.61
118 7 0.04
119 6 0.04
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (116 bp):
AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGGTAAAATG
GTAATTTTTGGTAAAATCGGGGTAAAAATGGAATTTAGAAAGTTCGGGGGA
Found at i:8978696 original size:29 final size:29
Alignment explanation
Indices: 8978484--8978713 Score: 106
Period size: 29 Copynumber: 7.9 Consensus size: 29
8978474 TGGTAAAATC
* * * *
8978484 GGGGTCAAAATGGAATTTAGGAAAGTTTG
1 GGGGTAAAAATGGAATTTTGAAAAGTTCG
* * *
8978513 GGGGCAAAAATGTAATTTTTAGTGAAA-TT-G
1 GGGGTAAAAATGGAA-TTTT-G-AAAAGTTCG
* ** *
8978543 GGGTTAAAAATAAAATTTTGGAAAGTTCG
1 GGGGTAAAAATGGAATTTTGAAAAGTTCG
*
8978572 GGGGT-AAAATGGTGATTTTTGGTAAAA--TCG
1 GGGGTAAAAAT-G-GAATTTT-G-AAAAGTTCG
*
8978602 GGGTTAAAAAT-GAGATTTT-AAAAGTTCG
1 GGGGTAAAAATGGA-ATTTTGAAAAGTTCG
*
8978630 GGGG-AAAAATGGTAATTTTTGGTGAAA--TC-
1 GGGGTAAAAATGG-AA-TTTT-G-AAAAGTTCG
*
8978659 -GGGTCAAAATGGAATTTTGAAAAGTTCG
1 GGGGTAAAAATGGAATTTTGAAAAGTTCG
* * *
8978687 GGGGTAAAAACGTAATTTTGAGAAGTT
1 GGGGTAAAAATGGAATTTTGAAAAGTT
8978714 TTTGGAGTCA
Statistics
Matches: 154, Mismatches: 23, Indels: 48
0.68 0.10 0.21
Matches are distributed among these distances:
25 3 0.02
26 5 0.03
27 16 0.10
28 23 0.15
29 59 0.38
30 29 0.19
31 9 0.06
32 10 0.06
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTGAAAAGTTCG
Found at i:8978754 original size:30 final size:28
Alignment explanation
Indices: 8978659--8978765 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 28
8978649 TGGTGAAATC
* * **
8978659 GGGTCAAAATGGAATTTTGAAAAGTTCGG
1 GGGTCAAAATGTAATTTTGAGAAGTT-TT
* *
8978688 GGGTAAAAACGTAATTTTGAGAAGTTTTT
1 GGGTCAAAATGTAATTTTGAGAAG-TTTT
8978717 GGAGTCAAAATGTAAATTTTGAGAAGTTTT
1 GG-GTCAAAATGT-AATTTTGAGAAGTTTT
* *
8978747 GAGGTCAAAGTATAATTTT
1 G-GGTCAAAATGTAATTTT
8978766 TGGACAATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 28 0.44
30 23 0.36
31 13 0.20
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.35
Consensus pattern (28 bp):
GGGTCAAAATGTAATTTTGAGAAGTTTT
Done.