Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 8 of 33
Found at i:955125 original size:41 final size:41
Alignment explanation
Indices: 955049--955134 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
955039 CAACCCCTGT
*
955049 AACTTGTTAACTCAAATGGTTTTATCCTGATCAACTCTTCC
1 AACTTGTTAACTCAAATGGTTTTATCCCGATCAACTCTTCC
** * *
955090 AACTTGTTAACTCGTATGGTTTTATCCCGATCAACTTTTCT
1 AACTTGTTAACTCAAATGGTTTTATCCCGATCAACTCTTCC
955131 AACT
1 AACT
955135 CGTTGGTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (41 bp):
AACTTGTTAACTCAAATGGTTTTATCCCGATCAACTCTTCC
Found at i:955149 original size:41 final size:41
Alignment explanation
Indices: 955049--955157 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 41
955039 CAACCCCTGT
* * *
955049 AACTTGTTAACTCAAATGGTTTTATCCTGATCAACTCTTCC
1 AACTCGTTAACTCATATGGTTTTATCCCGATCAACTCTTCC
* * * *
955090 AACTTGTTAACTCGTATGGTTTTATCCCGATCAACTTTTCT
1 AACTCGTTAACTCATATGGTTTTATCCCGATCAACTCTTCC
*** *
955131 AACTCGTTGGTTCATATGGTTTCATCC
1 AACTCGTTAACTCATATGGTTTTATCC
955158 TGACTAACCC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (41 bp):
AACTCGTTAACTCATATGGTTTTATCCCGATCAACTCTTCC
Found at i:958173 original size:33 final size:32
Alignment explanation
Indices: 958131--958194 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
958121 CACACCCAGA
*
958131 TGTATCGATACATATTGCTTTGTATCAATACAT
1 TGTATCGATACATATT-CATTGTATCAATACAT
* *
958164 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATATTCATTGTATCAATACA
958195 CACTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCAATACAT
Found at i:958641 original size:19 final size:20
Alignment explanation
Indices: 958596--958649 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
958586 TTTCAACAAT
*
958596 TTGTATCCATACAAAAAGTGA
1 TTGTATCGATAC-AAAAGTGA
*
958617 TTGTATCGATACATAAGTG-
1 TTGTATCGATACAAAAGTGA
958636 TTGTATCGATACAA
1 TTGTATCGATACAA
958650 TGTATCACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 6 0.20
21 11 0.37
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACAAAAGTGA
Found at i:972367 original size:34 final size:31
Alignment explanation
Indices: 972322--972417 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 31
972312 CGTCCTCCGC
*
972322 AAAAAATAAAAAAAAACAACAAAACAAAAAA
1 AAAAAACAAAAAAAAACAACAAAACAAAAAA
*
972353 AAAGAGAGACAAAAAAAAAC-A-AAAACAAAAAC
1 AAA-A-A-ACAAAAAAAAACAACAAAACAAAAAA
*
972385 AAAAAACAAAACAAAAAAAACAACAACAAAAAA
1 AAAAAACAAAA-AAAAACAACAA-AACAAAAAA
972418 GGGTTCGGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
29 6 0.11
30 6 0.11
31 5 0.09
32 16 0.30
33 10 0.19
34 11 0.20
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.01
Consensus pattern (31 bp):
AAAAAACAAAAAAAAACAACAAAACAAAAAA
Found at i:972413 original size:6 final size:6
Alignment explanation
Indices: 972323--972410 Score: 58
Period size: 6 Copynumber: 14.3 Consensus size: 6
972313 GTCCTCCGCA
* * * *
972323 AAAAAT AAAAAA AAACAAC -AAAAC AAAAA- AAAAGAG AGACAAAA AAAAAC
1 AAAAAC AAAAAC AAA-AAC AAAAAC AAAAAC AAAA-AC A-A-AAAC AAAAAC
972373 AAAAAC AAAAAC AAAAA- ACAAAAC AAAAA- AAACAAC AA
1 AAAAAC AAAAAC AAAAAC A-AAAAC AAAAAC AAA-AAC AA
972411 CAAAAAAGGG
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
5 11 0.16
6 45 0.66
7 7 0.10
8 3 0.04
9 2 0.03
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:972416 original size:13 final size:12
Alignment explanation
Indices: 972321--972417 Score: 72
Period size: 13 Copynumber: 7.6 Consensus size: 12
972311 GCGTCCTCCG
*
972321 CAAAAAATAAAA
1 CAAAAAACAAAA
*
972333 AAAAACAACAAAA
1 CAAAA-AACAAAA
972346 CAAAAAA-AAAGA
1 CAAAAAACAAA-A
* *
972358 GAGACAAAAAAAAA
1 CA-A-AAAACAAAA
972372 C-AAAAACAAAAA
1 CAAAAAAC-AAAA
972384 CAAAAAACAAAA
1 CAAAAAACAAAA
972396 CAAAAAAAACAACAA
1 C--AAAAAACAA-AA
972411 CAAAAAA
1 CAAAAAA
972418 GGGTTCGGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
11 7 0.10
12 19 0.28
13 23 0.33
14 14 0.20
15 6 0.09
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.01
Consensus pattern (12 bp):
CAAAAAACAAAA
Found at i:972417 original size:50 final size:50
Alignment explanation
Indices: 972323--972417 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
972313 GTCCTCCGCA
* *
972323 AAAAATAAAAAAAAACAACAAAACAAAAAAAAAGAGAGACAAAAAAAAAC
1 AAAAACAAAAAAAAACAACAAAACAAAAAAAAAGACAGACAAAAAAAAAC
972373 AAAAACAAAAACAAAA-AACAAAACAAAAAAAACA-ACA-ACAAAAAA
1 AAAAACAAAAA-AAAACAACAAAACAAAAAAAA-AGACAGACAAAAAA
972418 GGGTTCGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
49 8 0.20
50 28 0.68
51 5 0.12
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (50 bp):
AAAAACAAAAAAAAACAACAAAACAAAAAAAAAGACAGACAAAAAAAAAC
Found at i:973912 original size:29 final size:28
Alignment explanation
Indices: 973851--974078 Score: 248
Period size: 29 Copynumber: 8.0 Consensus size: 28
973841 CATTCCTCAC
* *
973851 CTTTTCAAAGCCCACAAGTCGGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
*
973880 CTTTTCAAAAGCCCATAAGTCAGTGGCAT
1 CTTTTC-AAAGCCCACAAGTCAGTGGCAT
973909 CTTTTCCAAAGCCCACAAGTCAGTGGCAAT
1 CTTTT-CAAAGCCCACAAGTCAGTGGC-AT
973939 C--TTCAAAAGCCCACAAGTCAGTGGCAT
1 CTTTTC-AAAGCCCACAAGTCAGTGGCAT
* *
973966 CTTTTCCAAAGTCCACAAGCCAGTGGCAAT
1 CTTTT-CAAAGCCCACAAGTCAGTGGC-AT
* * * *
973996 -TTTTCAAAGCCCATAAGTCAATGACACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
*
974024 CCTTTC-AAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
974051 CTTTTCAAAAGCCCATAAGTCAGTGGCA
1 CTTTTC-AAAGCCCACAAGTCAGTGGCA
974079 ACCTTCAAAA
Statistics
Matches: 168, Mismatches: 19, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
27 10 0.06
28 55 0.33
29 77 0.46
30 26 0.15
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:974039 original size:85 final size:87
Alignment explanation
Indices: 973853--974079 Score: 293
Period size: 85 Copynumber: 2.6 Consensus size: 87
973843 TTCCTCACCT
* *
973853 TTTCAAAGCCCACAAGTCGGTGGCACCCTTTTCAAAAGCCCATAAGTCAGTGGC-ATCTTTTCCA
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAAGCCCATAAGTCAGTGGCAATCTTTTCCA
* * *
973917 AAGCCCACAAGTCAGTGGCAATC
65 AAGCCCACAAGTCAATGACAACC
* * * *
973940 -TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGTCCACAAGCCAGTGGCAAT-TTTT-CA
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAATCTTTTCCA
* *
974002 AAGCCCATAAGTCAATGACACCCC
65 AAGCCCACAAGTCAATGACA-ACC
974026 TTTC-AAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAA
974080 CCTTCAAAAG
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
85 65 0.54
86 31 0.26
87 25 0.21
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (87 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAATCTTTTCCAA
AGCCCACAAGTCAATGACAACC
Found at i:974090 original size:85 final size:84
Alignment explanation
Indices: 973853--974124 Score: 280
Period size: 85 Copynumber: 3.2 Consensus size: 84
973843 TTCCTCACCT
* * *
973853 TTTCAAAGCCCACAAGTCGGTGGCACCCTTTTCAAAAGCCCATAAGTCAGTGGCATCTTTTCCAA
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAAGCCCATAAGTCAGTGGCAAC-TTT-CAA
* * *
973918 AGCCCACAAGTCAGTGGCAATC
63 AGCCCACAAGTCAATGACAACC
* * * * *
973940 -TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGTCCACAAGCCAGTGGCAATTTTTCAAA
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAA-CTTTCAAA
* *
974004 GCCCATAAGTCAATGACACCCC
64 GCCCACAAGTCAATGACA-ACC
*
974026 TTTC-AAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAACCTTCAAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAACTTTC-AAAG
* ***
974090 CACACAAGTTGGTG-CAACCC
65 CCCACAAGTCAATGACAA-CC
974110 TTTCGAAAGCCCACA
1 TTTC-AAAGCCCACA
974125 CAAATTGGTG
Statistics
Matches: 152, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
84 11 0.07
85 78 0.51
86 40 0.26
87 23 0.15
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCAACTTTCAAAGC
CCACAAGTCAATGACAACC
Found at i:974096 original size:57 final size:59
Alignment explanation
Indices: 973856--974098 Score: 293
Period size: 57 Copynumber: 4.2 Consensus size: 59
973846 CTCACCTTTT
* ** *
973856 CAAAGCCCACAAGTCGGTGGCACCCTTTTCAAAAGCCCATAAGTCAGTGGCATCTTTTC
1 CAAAGCCCACAAGTCAGTGGCAATCTTTTCAAAAGCCCATAAGTCAGTGGCATCTCTTC
* *
973915 CAAAGCCCACAAGTCAGTGGCAATC--TTCAAAAGCCCACAAGTCAGTGGCATCTTTTC
1 CAAAGCCCACAAGTCAGTGGCAATCTTTTCAAAAGCCCATAAGTCAGTGGCATCTCTTC
* * * * * * *
973972 CAAAGTCCACAAGCCAGTGGCAAT-TTTTC-AAAGCCCATAAGTCAATGACACCCCTTT
1 CAAAGCCCACAAGTCAGTGGCAATCTTTTCAAAAGCCCATAAGTCAGTGGCATCTCTTC
*
974029 C-AAGCCCACAAGTCAGTGGC-ATCTTTTCAAAAGCCCATAAGTCAGTGGCAAC-CTTC
1 CAAAGCCCACAAGTCAGTGGCAATCTTTTCAAAAGCCCATAAGTCAGTGGCATCTCTTC
* *
974085 AAAAGCACACAAGT
1 CAAAGCCCACAAGT
974099 TGGTGCAACC
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
55 2 0.01
56 25 0.16
57 106 0.67
58 3 0.02
59 22 0.14
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (59 bp):
CAAAGCCCACAAGTCAGTGGCAATCTTTTCAAAAGCCCATAAGTCAGTGGCATCTCTTC
Found at i:974262 original size:49 final size:42
Alignment explanation
Indices: 974158--974418 Score: 134
Period size: 49 Copynumber: 5.8 Consensus size: 42
974148 AGTCCAATAA
* *
974158 CGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCAATGT
1 CGCTGGCCTTGAATAAGCATATTGGCACCTTTAAGCCAATGT
*
974200 CGCTGGCCCTGAATAAGCATATTGGCACCGGCATCTTTAAGACCAATGT
1 CGCTGGCCTTGAATAAGCATATTGGCA----C--CTTTAAG-CCAATGT
* * * *
974249 TGCTGGCCTTGAATTAGCACATTGGCA----TAAGCCCAATAT
1 CGCTGGCCTTGAATAAGCATATTGGCACCTTTAAG-CCAATGT
* ** *
974288 CGCTGGCTTTGAATCGGCATATTGGCACCTTGTCTTTAAGACCAAAGT
1 CGCTGGCCTTGAATAAGCATATTGGCA-C----CTTTAAG-CCAATGT
* * * * *
974336 CGTTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATAT
1 CGCTGGCCTTGAATAAGCATATTGGCA----C--CTTTAAG-CCAATGT
* * *
974385 CGTTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 CGCTGGCCTTGAATAAGCATATTGGCACCTTTAA
974419 TATTCCTAAG
Statistics
Matches: 171, Mismatches: 29, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
39 32 0.19
42 25 0.15
43 6 0.04
46 1 0.01
48 39 0.23
49 67 0.39
51 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (42 bp):
CGCTGGCCTTGAATAAGCATATTGGCACCTTTAAGCCAATGT
Found at i:974355 original size:87 final size:86
Alignment explanation
Indices: 974158--974363 Score: 234
Period size: 87 Copynumber: 2.3 Consensus size: 86
974148 AGTCCAATAA
* * *
974158 CGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCAATGTCGCTGGCCCTGAATAAGCATATT
1 CGCTGGCCTTGAATCAGCACATTGGCA----TAAGCCAATATCGCTGGCCCTGAATAAGCATATT
*
974223 GGCACCGGCATCTTTAAGACCAATGT
62 GGCACCGG-ATCTTTAAGACCAAAGT
* * ** **
974249 TGCTGGCCTTGAATTAGCACATTGGCATAAGCCCAATATCGCTGGCTTTGAATCGGCATATTGGC
1 CGCTGGCCTTGAATCAGCACATTGGCATAAG-CCAATATCGCTGGCCCTGAATAAGCATATTGGC
*
974314 ACCTTG-TCTTTAAGACCAAAGT
65 ACC-GGATCTTTAAGACCAAAGT
*
974336 CGTTGGCCTTGAATCAGCACATTGGCAT
1 CGCTGGCCTTGAATCAGCACATTGGCAT
974364 CTTCATCTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
87 44 0.44
88 30 0.30
89 1 0.01
91 24 0.24
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (86 bp):
CGCTGGCCTTGAATCAGCACATTGGCATAAGCCAATATCGCTGGCCCTGAATAAGCATATTGGCA
CCGGATCTTTAAGACCAAAGT
Found at i:974409 original size:136 final size:130
Alignment explanation
Indices: 974146--974412 Score: 300
Period size: 136 Copynumber: 2.0 Consensus size: 130
974136 CATCTTCTTC
* * *
974146 TAAGTCCAATAACGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCAATGTCGCTGGCCCTG
1 TAAGCCCAATAACGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGCCAAAGTCGCTGGCCCTG
* * * *
974211 AATAAGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCTGGCCTTGAATTAGCACATTGGCA
66 AATAAGCACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
974276 TAAGCCCAATATCGCTGGCTTTGAATCGGCATATTGGCACCTTGTCTTTAAGACCAAAGTCGTTG
1 TAAGCCCAATAACGCTGGCCTTGAATCAGCATATTGGCA-C----CTTTAAG-CCAAAGTCGCTG
* * * ** * * * *
974341 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATA
60 GCCCTGAATAAGCACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACA
974406 TTGGCA
125 TTGGCA
974412 T
1 T
974413 CTTTAATATT
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
130 35 0.32
131 1 0.01
135 7 0.06
136 68 0.61
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (130 bp):
TAAGCCCAATAACGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGCCAAAGTCGCTGGCCCTG
AATAAGCACATTGGCACCGGCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:974529 original size:99 final size:100
Alignment explanation
Indices: 974339--974539 Score: 230
Period size: 99 Copynumber: 2.0 Consensus size: 100
974329 CCAAAGTCGT
* * *
974339 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCATCTT-ATCTTCAAGTCCAATATCGTTGGCCATGAATCAGCA
* * *
974404 TATTGGCATCTTTAATATTCCTAAGCCCAATGTTGC
65 CATTGGCATCTTCAATATTCCTAAGCCCAATATTGC
** * *
974440 TGGCCTTGTCTCAGCACATTGGCATTCTT-T-TTCAAGTCTAATGTCGTTGGCCATGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCA-TCTTATCTTCAAGTCCAATATCGTTGGCCATGAATCAGCA
* *
974503 CATTGTCAATCTTCACATCTT-C-AAGCCCAATATTGC
65 CATTGGC-ATCTTCA-ATATTCCTAAGCCCAATATTGC
974539 T
1 T
974540 AGCCGCATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
99 47 0.55
100 8 0.09
101 26 0.31
102 4 0.05
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (100 bp):
TGGCCTTGAATCAGCACATTGGCATCTTATCTTCAAGTCCAATATCGTTGGCCATGAATCAGCAC
ATTGGCATCTTCAATATTCCTAAGCCCAATATTGC
Found at i:975349 original size:21 final size:19
Alignment explanation
Indices: 975276--975340 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
975266 TTTCAACAAT
*
975276 TTGTATCGATACAAAAAGTG
1 TTGTATCGATAC-ATAAGTG
* *
975296 ACTGTATCGATACATAATTG
1 -TTGTATCGATACATAAGTG
975316 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
975335 TTGTAT
1 TTGTAT
975341 ATCGCTACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 23 0.59
20 5 0.13
21 11 0.28
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:975406 original size:13 final size:13
Alignment explanation
Indices: 975388--975413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
975378 CATTACGAAA
975388 TGTATCGATACAT
1 TGTATCGATACAT
975401 TGTATCGATACAT
1 TGTATCGATACAT
975414 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:978815 original size:34 final size:35
Alignment explanation
Indices: 978777--978850 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 35
978767 AATTTCTACA
978777 TTTCAAATAGCT-TTTGTATT-CTTTGTTG-TTATTC
1 TTTCAAA-AGCTATTTGTATTCCTTTG-TGCTTATTC
978811 TTTC-AAAGCTCATTTGTATTCCTTTGTGCTTATTC
1 TTTCAAAAGCT-ATTTGTATTCCTTTGTGCTTATTC
978846 TTTCA
1 TTTCA
978851 CAAACACTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
32 4 0.11
33 2 0.06
34 14 0.40
35 15 0.43
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (35 bp):
TTTCAAAAGCTATTTGTATTCCTTTGTGCTTATTC
Found at i:982466 original size:20 final size:20
Alignment explanation
Indices: 982437--982494 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
982427 ATCAAAACCC
982437 AAAATGTATCGATACAATGA
1 AAAATGTATCGATACAATGA
* * * *
982457 GAATTGTATCGATATAACGA
1 AAAATGTATCGATACAATGA
982477 AAAATGTATCGATACAAT
1 AAAATGTATCGATACAAT
982495 TTCTTTCCAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.28
Consensus pattern (20 bp):
AAAATGTATCGATACAATGA
Found at i:983282 original size:61 final size:62
Alignment explanation
Indices: 983204--983374 Score: 200
Period size: 61 Copynumber: 2.8 Consensus size: 62
983194 GGATAAGAAG
* * * * * * *
983204 AGTGCAAATATGTTGATTCAAGGTCAGCGACATTAGGCTTAAAAATGCGAAGAATGATA-AA
1 AGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTAAAAATGAGAAAAATGATACAA
* * * * * *
983265 GGTTCCACTATGCTGATTCACGGCCAACAATATCAGGCTTAAAAATGAGAAAAATGATACAA
1 AGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTAAAAATGAGAAAAATGATACAA
* *
983327 AGTGCTAATATGCTGATTCAAGGCCAACGATATTTGGCTTAAAAATGA
1 AGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTAAAAATGA
983375 CAAAGGAGCC
Statistics
Matches: 88, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
61 46 0.52
62 42 0.48
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (62 bp):
AGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTAAAAATGAGAAAAATGATACAA
Found at i:983488 original size:113 final size:112
Alignment explanation
Indices: 983334--983668 Score: 418
Period size: 113 Copynumber: 3.0 Consensus size: 112
983324 CAAAGTGCTA
* * * * *
983334 ATATGCTGATTCAAGGCCAACGATATTTGGCTTAAAAATGACAAAGGAGCCAATGTGTTGATTCA
1 ATATGCTGATTC-AGGCCAGCGATATTAGGCTTAAAGATGACAAAGGTGCCAATGTGCTGATTCA
* * *
983399 AGGTTAGTGACATTGGACTTGAGGATGAAAAGAATGATAAAGGTTCCG
65 AGGTCAGTGACATTGGACTTGAAGATGAGAAGAATGATAAAGGTTCCG
* * *
983447 ATATGCTGATTCATGGCCAGCGCTATTAGGCTGAAAGATGACAAAGGTGCCAATGTACTGATTCA
1 ATATGCTGATTCA-GGCCAGCGATATTAGGCTTAAAGATGACAAAGGTGCCAATGTGCTGATTCA
* * * *
983512 ACGCCAGCGACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCCG
65 AGGTCAGTGACATTGGACTTGAAGATGAGAAGAATGATAAAGGTTCCG
* * * ** * * * * *
983560 ATATGCTGATTTAAGCTAGTAATATTGGGTTTAAAGATGACAAAGGTGCTAATATGCTCATTCAA
1 ATATGCTGATTCAGGCCAGCGATATTAGGCTTAAAGATGACAAAGGTGCCAATGTGCTGATTCAA
*
983625 GGTCAGTGACATTTGACTTGAAGATGAGAAGAATGATAAAGGTT
66 GGTCAGTGACATTGGACTTGAAGATGAGAAGAATGATAAAGGTT
983669 ACCATGTTTC
Statistics
Matches: 188, Mismatches: 33, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
112 80 0.43
113 108 0.57
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.27
Consensus pattern (112 bp):
ATATGCTGATTCAGGCCAGCGATATTAGGCTTAAAGATGACAAAGGTGCCAATGTGCTGATTCAA
GGTCAGTGACATTGGACTTGAAGATGAGAAGAATGATAAAGGTTCCG
Found at i:988423 original size:168 final size:164
Alignment explanation
Indices: 988225--988677 Score: 477
Period size: 151 Copynumber: 2.8 Consensus size: 164
988215 ATTACGTGGT
* *
988225 TTTCTTCTCCGTAAATTTTTTCAAGAGGATTTTCATGGGTTTAAAATTTTTAAAATTCATCAAAT
1 TTTCTACTCCGTAAATTTTTTCGAGAGGATTTTC-TGGGTTTAAAATTTTTAAAATTCATCAAAT
* * * * *
988290 ATTATTATTTTTTTAATATTAATTC-GATTTTC-AAAATTTATTCATTTCCATATATTTTGAATT
65 ATTATTAATTATTTAATATTAATTCAG-TTTCCAAAAATTCATTCATTTCCATAAATTTTGAATT
*
988353 TTTTCCTTGAAATTCTCCTTTTTTTTCTAAAATACGAAA
129 TTTTCCTTAAAATTCTCC--TTTTTTC-AAAATACGAAA
* * * *** * *
988392 TTATCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTTGTTTTTTGATTTTTAATATTCATGAAA
1 TT-TCTACTCCGTAAATTTTTTCGAGAGGA-TTTTCTGGGTTTAAAATTTTTAAAATTCATCAAA
*
988457 TATTATTAATTATTTCATATTAATTCAGTTTCCAAAAATTCATTCATTTCCATAAATTTTGAATT
64 TATTATTAATTATTTAATATTAATTCAGTTTCCAAAAATTCATTCATTTCCATAAATTTTGAATT
* * *
988522 TTTTCCTTAAAATTTTCCTTTTTTCAAAATACGGAG
129 TTTTCCTTAAAATTCTCCTTTTTTCAAAATACGAAA
*
988558 TTTCTACTCCGTAATTTTTTTCGAGAGGA-----T---TTT----TTTTT-AAATTCATCAAATA
1 TTTCTACTCCGTAAATTTTTTCGAGAGGATTTTCTGGGTTTAAAATTTTTAAAATTCATCAAATA
* *** * * * *
988610 TTATTATTTATTCCGTAGTAATTCAGTTTTCAAAAATTCATTCATGTCCATGAATTTTGAATTTT
66 TTATTAATTATTTAATATTAATTCAGTTTCCAAAAATTCATTCATTTCCATAAATTTTGAATTTT
988675 TTC
131 TTC
988678 TTCCTTTCTC
Statistics
Matches: 251, Mismatches: 31, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
151 73 0.29
152 5 0.02
156 3 0.01
159 1 0.00
165 25 0.10
166 11 0.04
167 9 0.04
168 73 0.29
169 51 0.20
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (164 bp):
TTTCTACTCCGTAAATTTTTTCGAGAGGATTTTCTGGGTTTAAAATTTTTAAAATTCATCAAATA
TTATTAATTATTTAATATTAATTCAGTTTCCAAAAATTCATTCATTTCCATAAATTTTGAATTTT
TTCCTTAAAATTCTCCTTTTTTCAAAATACGAAA
Found at i:988508 original size:18 final size:19
Alignment explanation
Indices: 988479--988514 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
988469 TTTCATATTA
988479 ATTCAGTTTCCAAAAATTC
1 ATTCAGTTTCCAAAAATTC
*
988498 ATTCA-TTTCCATAAATT
1 ATTCAGTTTCCAAAAATT
988515 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTCAGTTTCCAAAAATTC
Found at i:988984 original size:13 final size:13
Alignment explanation
Indices: 988966--989000 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
988956 GTTTCAGCCT
*
988966 TTTATTTTTTAAA
1 TTTATTTTATAAA
*
988979 TTTATTTTATATA
1 TTTATTTTATAAA
988992 TTTATTTTA
1 TTTATTTTA
989001 CTTTATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTTATAAA
Found at i:989985 original size:13 final size:13
Alignment explanation
Indices: 989967--989992 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
989957 TACACCAAGT
989967 ATGTATCGATACA
1 ATGTATCGATACA
989980 ATGTATCGATACA
1 ATGTATCGATACA
989993 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:989990 original size:32 final size:33
Alignment explanation
Indices: 989949--990012 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
989939 TAGCCAAACT
**
989949 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
989981 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
990013 TTGGCTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:999322 original size:80 final size:78
Alignment explanation
Indices: 999158--999421 Score: 219
Period size: 80 Copynumber: 3.3 Consensus size: 78
999148 GTCAATCTAC
* * * * * * * *
999158 CAAAACTGAGTCTATTAGGCCTAGGTCCATACCTTTTATCAAGATCGAA-TCTTAGTTGAATTTA
1 CAAAACTGAGTC-ATTAGGCTTAGGTCCA-AACTTTTTTCAA-AACCAAGTCCTAGTTTAGTTTA
* * ***
999222 AGTTTTGTACTTGCCAT
63 GGTTTCGTACTT-TTGT
* * * * *
999239 CAAAACTGAGTCATTAGGCTTAGGTCCATACCTTTTTTCAAGACTAGGTCCTATTTTAGTTTAGG
1 CAAAACTGAGTCATTAGGCTTAGGTCCA-AACTTTTTTCAAAACCAAGTCCTAGTTTAGTTTAGG
*
999304 TTTCCTGT-TTTTTGT
65 TTT-C-GTACTTTTGT
* *
999319 CAAAACCT-AGTCATTAGACTTAGGTCCAAACTTTTTTCAAAACCAAGTCTTAGTTTAGTTTAGG
1 CAAAA-CTGAGTCATTAGGCTTAGGTCCAAACTTTTTTCAAAACCAAGTCCTAGTTTAGTTTAGG
999383 TTTCGTACTTTTGT
65 TTTCGTACTTTTGT
** *
999397 TGAAATTGAGTCATTAGGCTTAGGT
1 CAAAACTGAGTCATTAGGCTTAGGT
999422 TATATCATAT
Statistics
Matches: 149, Mismatches: 28, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
77 3 0.02
78 26 0.17
79 35 0.23
80 67 0.45
81 16 0.11
82 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (78 bp):
CAAAACTGAGTCATTAGGCTTAGGTCCAAACTTTTTTCAAAACCAAGTCCTAGTTTAGTTTAGGT
TTCGTACTTTTGT
Found at i:999419 original size:78 final size:81
Alignment explanation
Indices: 999238--999421 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
999228 GTACTTGCCA
* * * * *
999238 TCAAAA-CTGAGTCATTAGGCTTAGGTCCATACCTTTTTTCAAGACTAGGTCCTATTTTAGTTTA
1 TCAAAACCTGAGTCATTAGGCTTAGGTCCATAACTTTTTTCAAAACCAAGTCCTAGTTTAGTTTA
*
999302 GGTTTCCTGTTTTTTG
66 GGTTTCCTGTCTTTTG
* *
999318 TCAAAACCT-AGTCATTAGACTTAGGTCCA-AACTTTTTTCAAAACCAAGTCTTAGTTTAGTTTA
1 TCAAAACCTGAGTCATTAGGCTTAGGTCCATAACTTTTTTCAAAACCAAGTCCTAGTTTAGTTTA
999381 GGTTT-C-GTACTTTTG
66 GGTTTCCTGT-CTTTTG
** *
999396 TTGAAA-TTGAGTCATTAGGCTTAGGT
1 TCAAAACCTGAGTCATTAGGCTTAGGT
999422 TATATCATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
77 3 0.03
78 26 0.29
79 33 0.37
80 25 0.28
81 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (81 bp):
TCAAAACCTGAGTCATTAGGCTTAGGTCCATAACTTTTTTCAAAACCAAGTCCTAGTTTAGTTTA
GGTTTCCTGTCTTTTG
Found at i:1000659 original size:58 final size:58
Alignment explanation
Indices: 1000597--1000723 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 58
1000587 AAAGGCATGG
* * * *
1000597 AATTGCATAATAGT-CTTTAAAACATAAAAAATAACTAAAATGATCCTAAAATTTCTAA
1 AATTGCATAAAAGTAC-GTAAAACATAAAAAATAACTAAAATAACCCTAAAATTTCTAA
* * * * *
1000655 AATTGCATAAAATTACGTAAAACATTAAAAATTACTAAAATAACCCTAAAA-TGCATGA
1 AATTGCATAAAAGTACGTAAAACATAAAAAATAACTAAAATAACCCTAAAATTTC-TAA
1000713 AATTGCATAAA
1 AATTGCATAAA
1000724 TTGTTCTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
57 2 0.03
58 55 0.95
59 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (58 bp):
AATTGCATAAAAGTACGTAAAACATAAAAAATAACTAAAATAACCCTAAAATTTCTAA
Found at i:1000704 original size:29 final size:28
Alignment explanation
Indices: 1000614--1000705 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 28
1000604 TAATAGTCTT
* * *
1000614 TAAAACATAAAAAATAACTAAAATGATCC
1 TAAAACATTAAAAATTACTAAAAT-AACC
* * * * *
1000643 TAAAA-TTTCTAAAATTGCATAAAATTACG
1 TAAAACATT-AAAAATTAC-TAAAATAACC
1000672 TAAAACATTAAAAATTACTAAAATAACCC
1 TAAAACATTAAAAATTACTAAAATAA-CC
1000701 TAAAA
1 TAAAA
1000706 TGCATGAAAT
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
28 8 0.17
29 30 0.65
30 8 0.17
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (28 bp):
TAAAACATTAAAAATTACTAAAATAACC
Found at i:1000732 original size:29 final size:29
Alignment explanation
Indices: 1000700--1000792 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
1000690 TAAAATAACC
1000700 CTAAAATGCATGAAATTGCATAAATTGTT
1 CTAAAATGCATGAAATTGCATAAATTGTT
* *
1000729 CT-AAAT-CATGGCAAATTAC-TAAAATGACTT
1 CTAAAATGCAT-G-AAATTGCATAAATTG--TT
* * *
1000759 -TAAAATGTATGAAATTGCATAAATGGTC
1 CTAAAATGCATGAAATTGCATAAATTGTT
1000787 CTAAAA
1 CTAAAA
1000793 CATGGCAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
27 3 0.06
28 12 0.24
29 20 0.41
30 12 0.24
31 2 0.04
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (29 bp):
CTAAAATGCATGAAATTGCATAAATTGTT
Found at i:1000745 original size:58 final size:58
Alignment explanation
Indices: 1000683--1000832 Score: 183
Period size: 58 Copynumber: 2.6 Consensus size: 58
1000673 AAAACATTAA
* * *
1000683 AAATTACTAAAATAACCCTAAAATGCATGAAATTGCATAAATTGTTCTAAATCATGGC
1 AAATTACTAAAATAACCCTAAAATGCATGAAATTGCATAAATGGTCCTAAAACATGGC
* ** *
1000741 AAATTACTAAAATGACTTTAAAATGTATGAAATTGCATAAATGGTCCTAAAACATGGC
1 AAATTACTAAAATAACCCTAAAATGCATGAAATTGCATAAATGGTCCTAAAACATGGC
** * ** *
1000799 AAACGACTAAAGTAATGCAAAAATGCATGAAATT
1 AAATTACTAAAATAACCCTAAAATGCATGAAATT
1000833 ATATATAACC
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 76 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (58 bp):
AAATTACTAAAATAACCCTAAAATGCATGAAATTGCATAAATGGTCCTAAAACATGGC
Found at i:1000961 original size:29 final size:29
Alignment explanation
Indices: 1000929--1001030 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 29
1000919 CTTCAATACC
1000929 TCTAACATGCATGAAATGACATAATAATT
1 TCTAACATGCATGAAATGACATAATAATT
* *
1000958 TCTAA-A-CCATGGAAAATGAC-TTA-AATT
1 TCTAACATGCAT-G-AAATGACATAATAATT
*
1000985 TACCT-ACATGCATGAAATGACATAGTAATAT
1 T--CTAACATGCATGAAATGACATAATAAT-T
*
1001016 T-TAATATGCATGAAA
1 TCTAACATGCATGAAA
1001031 ACACTATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
27 8 0.14
28 13 0.23
29 28 0.49
30 6 0.11
31 2 0.04
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (29 bp):
TCTAACATGCATGAAATGACATAATAATT
Found at i:1001677 original size:10 final size:10
Alignment explanation
Indices: 1001664--1001727 Score: 67
Period size: 10 Copynumber: 6.2 Consensus size: 10
1001654 CTTTCACTTC
1001664 CTTTTTTTTT
1 CTTTTTTTTT
*
1001674 CTTTCTTTTT
1 CTTTTTTTTT
1001684 CATTCTTTTTTT
1 C-TT-TTTTTTT
1001696 CTTTTTTCTTT
1 CTTTTTT-TTT
*
1001707 -TTTTTCTTT
1 CTTTTTTTTT
*
1001716 ATTTTTTTTT
1 CTTTTTTTTT
1001726 CT
1 CT
1001728 ATTGAGAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 3 0.07
10 28 0.62
11 7 0.16
12 7 0.16
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:1001683 original size:14 final size:14
Alignment explanation
Indices: 1001665--1001727 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
1001655 TTTCACTTCC
1001665 TTTTTT-TTTCTTT
1 TTTTTTCTTTCTTT
* *
1001678 CTTTTTCATTCTTT
1 TTTTTTCTTTCTTT
*
1001692 TTTTCTTTTTTC-TT
1 TTTT-TTCTTTCTTT
*
1001706 TTTTTTCTTTATTT
1 TTTTTTCTTTCTTT
1001720 TTTTTTCT
1 TTTTTTCT
1001728 ATTGAGAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
13 10 0.25
14 25 0.62
15 5 0.12
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTCTTTCTTT
Found at i:1001710 original size:16 final size:16
Alignment explanation
Indices: 1001666--1001725 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
1001656 TTCACTTCCT
1001666 TTTTTTTTCTTTCTTT-
1 TTTTTTTT-TTTCTTTA
1001682 TTCATTCTTTTTTTCTTT-
1 TT--TT-TTTTTTTCTTTA
1001700 TTTCTTTTTTTTCTTTA
1 TTT-TTTTTTTTCTTTA
1001717 TTTTTTTTT
1 TTTTTTTTT
1001726 CTATTGAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
16 20 0.51
17 4 0.10
18 11 0.28
19 4 0.10
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTCTTTA
Found at i:1001724 original size:29 final size:29
Alignment explanation
Indices: 1001668--1001723 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
1001658 CACTTCCTTT
1001668 TTTTTTCTTTCTTTTTCATTCTTTTTTTC
1 TTTTTTCTTTCTTTTTCATTCTTTTTTTC
* *
1001697 TTTTTTCTTT-TTTTTCTTTATTTTTTT
1 TTTTTTCTTTCTTTTTCATTCTTTTTTT
1001724 TTCTATTGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (29 bp):
TTTTTTCTTTCTTTTTCATTCTTTTTTTC
Found at i:1004794 original size:14 final size:14
Alignment explanation
Indices: 1004759--1004807 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1004749 TTTCTTTTTC
* *
1004759 TTTCATCTTCTTCT
1 TTTCTTCTTCCTCT
1004773 TCTTCTTCCTTCCT-T
1 T-TTCTT-CTTCCTCT
1004788 TTTCTTCTTCCTCT
1 TTTCTTCTTCCTCT
1004802 TTTCTT
1 TTTCTT
1004808 ACTAATAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 6 0.20
14 13 0.43
15 6 0.20
16 5 0.17
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTCTTCTTCCTCT
Found at i:1005621 original size:9 final size:9
Alignment explanation
Indices: 1005607--1005648 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
1005597 CCACTCATTC
1005607 TTTTTTTAA
1 TTTTTTTAA
1005616 TTTTTTTAA
1 TTTTTTTAA
1005625 -TTTTTTAA
1 TTTTTTTAA
1005633 TTTTTTTATA
1 TTTTTTTA-A
1005643 TTTTTT
1 TTTTTT
1005649 CAAATAAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.26
9 16 0.52
10 7 0.23
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:1005630 original size:17 final size:18
Alignment explanation
Indices: 1005608--1005648 Score: 75
Period size: 17 Copynumber: 2.3 Consensus size: 18
1005598 CACTCATTCT
1005608 TTTTTTAATTTTTTTA-A
1 TTTTTTAATTTTTTTATA
1005625 TTTTTTAATTTTTTTATA
1 TTTTTTAATTTTTTTATA
1005643 TTTTTT
1 TTTTTT
1005649 CAAATAAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTAATTTTTTTATA
Found at i:1008311 original size:13 final size:13
Alignment explanation
Indices: 1008293--1008319 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1008283 ACATTATGCT
1008293 TTGTATCGATACA
1 TTGTATCGATACA
1008306 TTGTATCGATACA
1 TTGTATCGATACA
1008319 T
1 T
1008320 GATCATTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1008316 original size:33 final size:32
Alignment explanation
Indices: 1008274--1008336 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1008264 CACACTCATA
* *
1008274 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCGATACAT
*
1008307 TGTATCGATACATGATCATTGTGTCGATAC
1 TGTATCGATACATGATCATTGTATCGATAC
1008337 GTGGACAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAT
Found at i:1008328 original size:19 final size:19
Alignment explanation
Indices: 1008303--1008358 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1008293 TTGTATCGAT
1008303 ACATTGTATCGATACAT-G
1 ACATTGTATCGATACATGG
* *
1008321 ATCATTGTGTCGATACGTGG
1 A-CATTGTATCGATACATGG
1008341 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
1008359 TAAACTGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1008427 original size:13 final size:13
Alignment explanation
Indices: 1008409--1008436 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1008399 CATGGTATAA
1008409 TGTATCGATACAT
1 TGTATCGATACAT
1008422 TGTATCGATACAT
1 TGTATCGATACAT
1008435 TG
1 TG
1008437 CTTGTAACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1009312 original size:67 final size:67
Alignment explanation
Indices: 1009183--1009326 Score: 182
Period size: 67 Copynumber: 2.1 Consensus size: 67
1009173 CTTTCAAACG
* * * * * *
1009183 TGAAAGTTCCTTGTGAACCTAATGAACTTTAAAATAACTAAAATGCCCTTAAAGTACGCCTTCGA
1 TGAAAGTTCCTTGTGAACCTAAAGAACTTTAAAAAAAATAAAATACCCCTAAAGTACACCTTCGA
1009248 CA
66 CA
* * * *
1009250 TGAGAGTTCC-TGTGATCCTAAAGGACTTTAAAAAAAATCAATATACCCCTAAAGTACACCTTCG
1 TGAAAGTTCCTTGTGAACCTAAAGAACTTTAAAAAAAAT-AAAATACCCCTAAAGTACACCTTCG
1009314 ACA
65 ACA
1009317 TGAAAGTTCC
1 TGAAAGTTCC
1009327 CAGCAAACCT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 23 0.35
67 42 0.65
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (67 bp):
TGAAAGTTCCTTGTGAACCTAAAGAACTTTAAAAAAAATAAAATACCCCTAAAGTACACCTTCGA
CA
Found at i:1016545 original size:155 final size:155
Alignment explanation
Indices: 1016080--1018006 Score: 1590
Period size: 155 Copynumber: 12.4 Consensus size: 155
1016070 TAAGTTCAAG
* * *
1016080 AAAAATTATGAAAATGCCCTTAGAGGATACCTTCGACGTCGAAGTACCCGATACCCCTAAAGGAC
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * *
1016145 TTAAAAATGATTATAGATGGGATAAACCTATCCTAAATACCCACCTTCTGCATAAAAGCGGACCC
66 TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCC
* * * *
1016210 GATGACGACCTAGGACTTGATTCTG
131 GGTGACAACCTAGGACTCGATTCTA
* * * * * * * * * * * *
1016235 GAAAATTATCAAAATACCCCTAGGAGATATCTTTGATGTAGAAGTGCTCGATATCCTTAAAGGAT
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * * * * *
1016300 TTAAAAAGGATTACAAACTGGGATGAACCTATCCTAAATACCCACTTTCAACATAAAAACAGACC
66 TTAAAAAGGATTATAGA-TGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACC
* * *
1016365 CAGTTACAACCTAGTACTCGATTCTA
130 CGGTGACAACCTAGGACTCGATTCTA
* * * * *
1016391 AAAAATGATGAAAATGCCCGTAGGGGATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGAC
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * * *
1016456 TTAAAAAGAATTATAGATGGGATGAACCTATTCTAAATACCCACCTTCAGCATAAAAGTGGACTC
66 TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCC
* ** * * * *
1016521 GGTGACGATTTACGAATTGGTTCTA
131 GGTGACAACCTAGGACTCGATTCTA
* * * * * ** * *
1016546 AGAAATTATCAAAATGCCCCTATAGGTATACCTTCGACGT-GAAAGTATCCTGGGATCCCTAAAA
1 AAAAATTATGAAAATGCCCCTA-GGGGATACCTTCGACGTAG-AAGTA-CCCGATACCCCTAAAG
* ** * * *
1016610 GACTTAAAAATGATTATAGAAAGGATGGACCTATCCTAAATATCTACCTTCAGCATAAAA--GGA
63 GACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGA
* * * * * *
1016673 CCCGATGATAACCTAGGACTTGGTTTTG
128 CCCGGTGACAACCTAGGACTCGATTCTA
* * * *
1016701 AAAAATTATGAAAATGCCTCTAGCGGATACCTTCGACGTA-AGAGTATCTGATACCCCTAAAGGA
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGA-AGTACCCGATACCCCTAAAGGA
* ** * * ** *
1016765 CTTAAAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTC-TCTTTGGCATAAAAGGGGAC
65 CTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATA-CCCACCTTCAGCATAAAAGCGGAC
* * * *
1016829 TCGGTGACAACTTAGGACTCGATTTTG
129 CCGGTGACAACCTAGGACTCGATTCTA
* * * * * *
1016856 AAAAATTATGAAAATACCCCTAGGGAGATACCTTTGACGTAAAAGTACACGATACCCTTGAAGGA
1 AAAAATTATGAAAATGCCCCTAGGG-GATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGA
* * ** * * *
1016921 CTTAAAAAGGATTATAAATGGAACAAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACC
65 CTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACC
**
1016986 TAGTGACAACCTAGGACTCGAATT-TA
130 CGGTGACAACCTAGGACTCG-ATTCTA
* * ** * * * * *
1017012 AAAAATTATCAAAATGCCCTTAGGGGATATTTTTGACTTAGAAGTGCCCGATATCCCTAAAGGAT
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * *
1017077 TTAAAAATGATTACAAATGGGATGAACCTATCCTAAATACCCACCTT-AGGCATAAAAGCGGACC
66 TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCA-GCATAAAAGCGGACC
* *
1017141 CTGTAACAACCTAGGACTCGATTCTA
130 CGGTGACAACCTAGGACTCGATTCTA
* ** * * * * * *
1017167 GAAAATTATCCAAATGCCCCTAGGGGATATCTTCGATGTAGAAGTGCCTGATATCCCTAAAGGAT
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * * * * *
1017232 TTAAAAAGGATTACAAACTAGGATGAACCTATCTTAAATATCCACCATT-AGCATAAAA-CAGAC
66 TTAAAAAGGATTATAGA-TGGGATGAACCTATCCTAAATACCCACC-TTCAGCATAAAAGCGGAC
*
1017295 CCAGTGACAACCTAGGACTCGATTCTA
129 CCGGTGACAACCTAGGACTCGATTCTA
* * * * * *
1017322 GAAAATTACGAAAATGCCCC---GAGATACCTTCGATGTAGAAGTACCCAATACCCTTAAAGGAC
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * ** ** *
1017384 TTAAAAAGAATTATAGATGGGATGAACCTATCCTATATACCCACCTTTGGCATAAAAATGGACTC
66 TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCC
* * * * *
1017449 AGTGATAACCTAAGTA-TTGGTTCTA
131 GGTGACAACCT-AGGACTCGATTCTA
** *** * * * * * * *
1017474 TGAAATTACCCAAATACCCTTATAGGTATACATTCGACGT-GAAAGTATCCCGATATCCCTAAAA
1 AAAAATTATGAAAATGCCCCTA-GGGGATACCTTCGACGTAG-AAGTA-CCCGATACCCCTAAAG
* * * * *
1017538 GACTTAAAAAGGATTATAGAAGGGATGAACCTATCCTAAATATCTACCTTTAGCTTAAAA-CTGG
63 GACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGC-GG
** * *
1017602 ACTTGGTAACAACATAGGACTC-AGTTCTA
127 ACCCGGTGACAACCTAGGACTCGA-TTCTA
** * * * * * * *
1017631 AAAAATTAAAAAAATACCCCTAAGAGATACCTTCGACATAAAAGTACCCAATACCCCTAAA-GAG
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
*** * ** * * * *
1017695 TTTTTAAGGATAATAGATGAAATGAACATATCCTAAATATCTACCTTCAGCATAAAAGCGGACCT
66 TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCC
*
1017760 GGTGACAACCTAGGACTCGGTTCTA
131 GGTGACAACCTAGGACTCGATTCTA
** * * * *
1017785 AAAAATTATGAAAATGTTCCAAGGAGATACCTTCGACGTAAAAGTACCCAATACCCCTAAAGGAC
1 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * * * * * **
1017850 TTAAAAAGGATAAT-GAATGAGATGAACCTATCCTAAGTATCTACCTT-TGACATAAAAGTAGAC
66 TTAAAAAGGATTATAG-ATGGGATGAACCTATCCTAAATACCCACCTTCAG-CATAAAAGCGGAC
** * *
1017913 TTGGTGACAACCTAGGACTCGGTTTTA
129 CCGGTGACAACCTAGGACTCGATTCTA
* * ** * * * * * *
1017940 AAAAATTA-CAAAAAGGACCTCAGGGGATACCTTCGATGTAAAAGTACCTGGTACTCCTAAAAGA
1 AAAAATTATGAAAATGCCCCT-AGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGA
1018004 CTT
65 CTT
1018007 GGGATAATGC
Statistics
Matches: 1430, Mismatches: 306, Indels: 72
0.79 0.17 0.04
Matches are distributed among these distances:
150 2 0.00
151 32 0.02
152 83 0.06
153 61 0.04
154 158 0.11
155 589 0.41
156 335 0.23
157 170 0.12
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (155 bp):
AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCC
GGTGACAACCTAGGACTCGATTCTA
Found at i:1016960 original size:466 final size:465
Alignment explanation
Indices: 1016082--1017952 Score: 1759
Period size: 466 Copynumber: 4.0 Consensus size: 465
1016072 AGTTCAAGAA
* * * * *
1016082 AAATTATGAAAATGCCCTTAGAGG-ATACCTTCGACGTCG-AAGTA-CCCGATACCCCTAAAGGA
1 AAATTATCAAAATGCCCCTATAGGTATACCTTCGACGT-GAAAGTATCCCGATATCCCTAAAAGA
* * *
1016144 CTTAAAAATGATTATAGATGGGATAAACCTATCCTAAATACCCACCTTCTGCATAAAAGCGGACC
65 CTTAAAAATGATTATAGAAGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAA-CGGACC
* * * * * * *
1016209 CGATGACGACCTAGGACTTGATTCTGGAAAATTATCAAAATACCCCTAGGAGATATCTTTGATGT
129 CGATAACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAGG-GATACCTTCGACGT
* * * * **
1016274 AGAAGT-GCTCGATATCCTTAAAGGATTTAAAAAGGATTACAAACTGGGATGAACCTATCCTAAA
193 AGAAGTACCT-GATACCCCTAAAGGATTTAAAAAGGATAACAAACTGAAATGAACCTATCCTAAA
* * * * * *
1016338 TA-CCCACTTTCAACATAAAAACAGACCCAGTTACAACCTAGTACTCGATTCTAAAAAATGATGA
257 TATCTC-CTTT-AGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGATTCTAAAAAATTATGA
* * * * * *
1016402 AAATGCCCGTAGGG-GATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGACTTAAAAAGAA
320 AAATGCCC-CAGGGAGATACCTTCGACGTAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGAA
* * * * **
1016466 TTATAGATGGGATGAACCTATTCTAAATACCCACCTTCAGCATAAAAGTGGACTCGGTGACGATT
384 TTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGACTCAGTGACAACC
*
1016531 TACGAATTGGTTCTAAG
449 TAAGAATTGGTTCTAAG
* **
1016548 AAATTATCAAAATGCCCCTATAGGTATACCTTCGACGTGAAAGTATCCTGGGATCCCTAAAAGAC
1 AAATTATCAAAATGCCCCTATAGGTATACCTTCGACGTGAAAGTATCCCGATATCCCTAAAAGAC
* * * *
1016613 TTAAAAATGATTATAGAAAGGATGGACCTATCCTAAATATCTACCTTCAGCATAAAA-GGACCCG
66 TTAAAAATGATTATAGAAGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAACGGACCCG
* * * * * * * *
1016677 ATGATAACCTAGGACTTGGTTTTGAAAAATTATGAAAATGCCTCTAGCGGATACCTTCGACGTA-
131 ATAACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAG-GGATACCTTCGACGTAG
* * * *
1016741 AGAGTATCTGATACCCCTAAAGGACTTAAAAAGGATAATAGA-TGAAATGAACCTATCCTAAATA
195 A-AGTACCTGATACCCCTAAAGGATTTAAAAAGGATAACAAACTGAAATGAACCTATCCTAAATA
* ** * * * * *
1016805 TCTCTCTTTGGCATAAAAGGGGACTCGGTGACAACTTAGGACTCGATTTTGAAAAATTATGAAAA
259 TCTC-CTTTAGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAA
* * * * * * *
1016870 TACCCCTAGGGAGATACCTTTGACGTAAAAGTACACGATACCCTTGAAGGACTTAAAAAGGATTA
323 TGCCCC-AGGGAGATACCTTCGACGTAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGAATTA
* * ** * **
1016935 TAAATGGAACAAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGAC-CTAGTGACAACCTA
387 TAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGACTC-AGTGACAACCTA
* * * * *
1016999 GGACTCGAATT-TAAA
451 AGAATTG-GTTCTAAG
* ** * * * *
1017014 AAATTATCAAAATG-CCCT-TAGGGGATATTTTTGAC-TTAGAAGT-GCCCGATATCCCTAAAGG
1 AAATTATCAAAATGCCCCTATA-GGTATACCTTCGACGTGA-AAGTATCCCGATATCCCTAAAAG
* *
1017075 ATTTAAAAATGATTACA-AATGGGATGAACCTATCCTAAATACCCACCTT-AGGCATAAAAGCGG
64 ACTTAAAAATGATTATAGAA-GGGATGAACCTATCCTAAATACCCACCTTCA-GCATAAAA-CGG
* * *
1017138 ACCCTG-TAACAACCTAGGACTCGATTCT-AGAAAATTATCCAAATGCCCCTAGGGGATATCTTC
126 ACCC-GATAACAACCTAGGACTCGATTCTGA-AAAATTATCAAAATACCCCTA-GGGATACCTTC
* * * * *
1017201 GATGTAGAAGTGCCTGATATCCCTAAAGGATTTAAAAAGGATTACAAACT-AGGATGAACCTATC
188 GACGTAGAAGTACCTGATACCCCTAAAGGATTTAAAAAGGATAACAAACTGA-AATGAACCTATC
* * * *
1017265 TTAAATATCCACCATTAGCATAAAA-CAGACCCAGTGACAACCTAGGACTCGATTCTAGAAAATT
252 CTAAATAT-CTCCTTTAGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGATTCTAAAAAATT
* * * *
1017329 ACGAAAATGCCCC---GAGATACCTTCGATGTAGAAGTACCCAATACCCTTAAAGGACTTAAAAA
316 ATGAAAATGCCCCAGGGAGATACCTTCGACGTAAAAGTACCCAATACCCCTAAAGGACTTAAAAA
* * * *
1017391 GAATTATAGATGGGATGAACCTATCCTATATACCCACCTTTGGCATAAAAATGGACTCAGTGATA
381 GAATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGACTCAGTGACA
* *
1017456 ACCTAAGTATTGGTTCTATG
446 ACCTAAGAATTGGTTCTAAG
* * * * *
1017476 AAATTACCCAAATACCCTTATAGGTATACATTCGACGTGAAAGTATCCCGATATCCCTAAAAGAC
1 AAATTATCAAAATGCCCCTATAGGTATACCTTCGACGTGAAAGTATCCCGATATCCCTAAAAGAC
* * * * * **
1017541 TTAAAAAGGATTATAGAAGGGATGAACCTATCCTAAATATCTACCTTTAGCTTAAAACTGGACTT
66 TTAAAAATGATTATAGAAGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAC-GGACCC
* * * ** * *
1017606 GGTAACAACATAGGACTC-AGTTCTAAAAAATTAAAAAAATACCCCTAAGAGATACCTTCGACAT
130 GATAACAACCTAGGACTCGA-TTCTGAAAAATTATCAAAATACCCCT-AGGGATACCTTCGACGT
* ** ** * * *
1017670 AAAAGTACCCAATACCCCTAAA-GAGTTT-TTAAGGATAATAGA-TGAAATGAACATATCCTAAA
193 AGAAGTACCTGATACCCCTAAAGGA-TTTAAAAAGGATAACAAACTGAAATGAACCTATCCTAAA
* * ** *
1017732 TATCTACCTTCAGCATAAAAGCGGACCTGGTGACAACCTAGGACTCGGTTCTAAAAAATTATGAA
257 TATCT-CCTTTAGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGATTCTAAAAAATTATGAA
** * * *
1017797 AATGTTCCAAGGAGATACCTTCGACGTAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGGATA
321 AATGCCCCAGGGAGATACCTTCGACGTAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGAATT
* * * * * * * **
1017862 AT-GAATGAGATGAACCTATCCTAAGTATCTACCTTTGACATAAAAGTAGACTTGGTGACAACCT
386 ATAG-ATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGACTCAGTGACAACCT
* * * * *
1017926 AGGACTCGGTTTTAAA
450 AAGAATTGGTTCTAAG
1017942 AAATTA-CAAAA
1 AAATTATCAAAA
1017953 AGGACCTCAG
Statistics
Matches: 1134, Mismatches: 226, Indels: 91
0.78 0.16 0.06
Matches are distributed among these distances:
461 3 0.00
462 145 0.13
463 80 0.07
464 204 0.18
465 102 0.09
466 478 0.42
467 56 0.05
468 66 0.06
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (465 bp):
AAATTATCAAAATGCCCCTATAGGTATACCTTCGACGTGAAAGTATCCCGATATCCCTAAAAGAC
TTAAAAATGATTATAGAAGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAACGGACCCG
ATAACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAGGGATACCTTCGACGTAGA
AGTACCTGATACCCCTAAAGGATTTAAAAAGGATAACAAACTGAAATGAACCTATCCTAAATATC
TCCTTTAGCATAAAAGCAGACCCAGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAATGC
CCCAGGGAGATACCTTCGACGTAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGAATTATAGA
TGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGACTCAGTGACAACCTAAGAAT
TGGTTCTAAG
Found at i:1017104 original size:311 final size:306
Alignment explanation
Indices: 1016080--1018006 Score: 1606
Period size: 311 Copynumber: 6.2 Consensus size: 306
1016070 TAAGTTCAAG
* * *
1016080 AAAAATTATGAAAATGCCCTTAGAGGATACCTTCGACGTCGAAGTACCCGATACCCCTAAAGGAC
1 AAAAATTATCAAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* *
1016145 TTAAAAATGATTATAGATGGGATAAACCTATCCTAAATACCCACCTTCT-GCATAAAAGCGGACC
66 TTAAAAA-GATTATAGATGGGATGAACCTATCCTAAATACCCACCTT-TGGCATAAAAGCGGACT
* * * * * * *
1016209 CGATGACGACCTAGGACTTGATTCTGGAAAATTATCAAAATACCCCT-AGGAGATATCTTTGATG
129 CGGTGACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAAGG-GATACCTTCGACG
* * * * *
1016273 TAGAAGTGCTCGATATCCTTAAAGGATTTAAAAAGGATTACAAACTGGGATGAACCTATCCTAAA
193 TAAAAGTAC-CGATA-CCCTAAAGGACTTAAAAAGGATTATAAA-T-GGATGAACCTATCCTAAA
* * * * * * *
1016338 TACCCACTTTCAACATAAAAACAGACCCAGTTACAACCTAGTACTCGATTCTA
254 TACCTACCTTCAGCATAAAAGCAGACCTAGTGACAACCTAGGACTCGATTCTA
* * * * * *
1016391 AAAAATGATGAAAATGCCCGTAGGGGATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGAC
1 AAAAATTATCAAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* ** *
1016456 TTAAAAAGAATTATAGATGGGATGAACCTATTCTAAATACCCACCTTCAGCATAAAAGTGGACTC
66 TTAAAAAG-ATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACTC
* ** * * * * * *
1016521 GGTGACGATTTACGAATTGGTTCT-AAGAAATTATCAAAATGCCCCTATAGGTATACCTTCGACG
130 GGTGACAACCTAGGACTCGATTCTGAA-AAATTATCAAAATACCCCTA-AGGGATACCTTCGACG
* * * * *
1016585 TGAAAGTATCCTGGGAT-CCCTAAAAGACTTAAAAATGATTATAGAAAGGATGGACCTATCCTAA
193 TAAAAGTA-CC---GATACCCTAAAGGACTTAAAAAGGATTATA-AATGGATGAACCTATCCTAA
* * * * * * *
1016649 ATATCTACCTTCAGCATAAAAG--GACC-CGATGATAACCTAGGACTTGGTTTTG
253 ATACCTACCTTCAGCATAAAAGCAGACCTAG-TGACAACCTAGGACTCGATTCTA
* * * *
1016701 AAAAATTATGAAAATG-CCTCTAGCGGATACCTTCGACGTA-AGAGTATCTGATACCCCTAAAGG
1 AAAAATTATCAAAATGCCCT-TAGGGGATACCTTCGACGTAGA-AGTACCCGATACCCCTAAAGG
* ** * * *
1016764 ACTTAAAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTC-TCTTTGGCATAAAAGGGGA
64 ACTTAAAAA-GATTATAGATGGGATGAACCTATCCTAAATA-CCCACCTTTGGCATAAAAGCGGA
* * * * *
1016828 CTCGGTGACAACTTAGGACTCGATTTTGAAAAATTATGAAAATACCCCTAGGGAGATACCTTTGA
127 CTCGGTGACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAAGG-GATACCTTCGA
* **
1016893 CGTAAAAGTACACGATACCCTTGAAGGACTTAAAAAGGATTATAAATGGAACAAACCTATCCTAA
191 CGTAAAAGTAC-CGATACCC-TAAAGGACTTAAAAAGGATTATAAATGG-ATGAACCTATCCTAA
*
1016958 ATACCTACCTTCGGCATAAAAGCAGACCTAGTGACAACCTAGGACTCGAATT-TA
253 ATACCTACCTTCAGCATAAAAGCAGACCTAGTGACAACCTAGGACTCG-ATTCTA
** * * * * *
1017012 AAAAATTATCAAAATGCCCTTAGGGGATATTTTTGACTTAGAAGTGCCCGATATCCCTAAAGGAT
1 AAAAATTATCAAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
* * * *
1017077 TTAAAAATGATTACAAATGGGATGAACCTATCCTAAATACCCACCTTAGGCATAAAAGCGGACCC
66 TTAAAAA-GATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACTC
* * * * * * *
1017142 TGTAACAACCTAGGACTCGATTCT-AGAAAATTATCCAAATGCCCCTAGGGGATATCTTCGATGT
130 GGTGACAACCTAGGACTCGATTCTGA-AAAATTATCAAAATACCCCTAAGGGATACCTTCGACGT
* * * * *
1017206 AGAAGTGCCTGATATCCCTAAAGGATTTAAAAAGGATTACAAACTAGGATGAACCTATCTTAAAT
194 AAAAGTACC-GATA-CCCTAAAGGACTTAAAAAGGATTATAAA-T-GGATGAACCTATCCTAAAT
*
1017271 ATCC-ACCATT-AGCATAAAA-CAGACCCAGTGACAACCTAGGACTCGATTCTA
255 A-CCTACC-TTCAGCATAAAAGCAGACCTAGTGACAACCTAGGACTCGATTCTA
* * * * * *
1017322 GAAAATTA-CGAAAATGCCC---CGAGATACCTTCGATGTAGAAGTACCCAATACCCTTAAAGGA
1 AAAAATTATC-AAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGA
* **
1017383 CTTAAAAAGAATTATAGATGGGATGAACCTATCCTATATACCCACCTTTGGCATAAAAATGGACT
65 CTTAAAAAG-ATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACT
* * * * * * * * * * *
1017448 CAGTGATAACCTAAGTA-TTGGTTCT-ATGAAATTACCCAAATACCCTTATAGGTATACATTCGA
129 CGGTGACAACCT-AGGACTCGATTCTGA-AAAATTATCAAAATACCCCTA-AGGGATACCTTCGA
* * *
1017511 CGTGAAAGTATCCCGATATCCCTAAAAGACTTAAAAAGGATTATAGAAGGGATGAACCTATCCTA
191 CGTAAAAGTA--CCGATA-CCCTAAAGGACTTAAAAAGGATTATA-AATGGATGAACCTATCCTA
* * * * * * * *
1017576 AATATCTACCTTTAGCTTAAAA-CTGGACTTGGTAACAACATAGGACTC-AGTTCTA
252 AATACCTACCTTCAGCATAAAAGC-AGACCTAGTGACAACCTAGGACTCGA-TTCTA
** * * * * * * *
1017631 AAAAATTAAAAAAATACCCCTAAGAGATACCTTCGACATAAAAGTACCCAATACCCCTAAA-GAG
1 AAAAATTATCAAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGA-
* ** * * ** * * * **
1017695 TTTTTAAGGATAATAGATGAAATGAACATATCCTAAATATCTACCTTCAGCATAAAAGCGGAC-C
65 CTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACTC
* * * ***
1017759 TGGTGACAACCTAGGACTCGGTTCTAAAAAATTATGAAAATGTTCC-AAGGAGATACCTTCGACG
130 -GGTGACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAAGG-GATACCTTCGACG
* * * *
1017823 TAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGGATAATGAATGAGATGAACCTATCCTAAGT
193 TAAAAGTA-CCGATA-CCCTAAAGGACTTAAAAAGGATTATAAATG-GATGAACCTATCCTAAAT
* * * * * * *
1017888 ATCTACCTT-TGACATAAAAGTAGACTTGGTGACAACCTAGGACTCGGTTTTA
255 ACCTACCTTCAG-CATAAAAGCAGACCTAGTGACAACCTAGGACTCGATTCTA
* * * * * * * * *
1017940 AAAAATTA-CAAAAAGGACCTCAGGGGATACCTTCGATGTAAAAGTACCTGGTACTCCTAAAAGA
1 AAAAATTATC-AAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGA
1018004 CTT
65 CTT
1018007 GGGATAATGC
Statistics
Matches: 1301, Mismatches: 253, Indels: 126
0.77 0.15 0.08
Matches are distributed among these distances:
306 1 0.00
307 125 0.10
308 62 0.05
309 267 0.21
310 297 0.23
311 418 0.32
312 101 0.08
313 25 0.02
314 2 0.00
315 3 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (306 bp):
AAAAATTATCAAAATGCCCTTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
TTAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACTCG
GTGACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAAGGGATACCTTCGACGTAA
AAGTACCGATACCCTAAAGGACTTAAAAAGGATTATAAATGGATGAACCTATCCTAAATACCTAC
CTTCAGCATAAAAGCAGACCTAGTGACAACCTAGGACTCGATTCTA
Found at i:1017309 original size:621 final size:620
Alignment explanation
Indices: 1016079--1018006 Score: 1665
Period size: 621 Copynumber: 3.1 Consensus size: 620
1016069 CTAAGTTCAA
* *
1016079 GAAAAATTATGAAAATGCCCTTAGAGGATACCTTCGACGTCGAAGTACCCGATACCCCTAAAGGA
1 GAAAAATTATGAAAATGCCC-TAGCGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGA
* *
1016144 CTTAAAAATGATTATAGATGGGATAAACCTATCCTAAATACCCACCTTCT-GCATAAAAGCGGAC
65 CTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTT-TGGCATAAAAGCGGAC
* * * * *
1016208 CCGATGACGACCTAGGACTTGATTCTGGAAAATTATCAAAATACCCCTAGGAGATATCTTTGATG
129 CCGATGACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAGGAGATACCTTTGACG
* * * * * * **
1016273 TAGAAGTGCTCGATATCCTTAAAGGATTTAAAAAGGATTACAAACTGGGATGAACCTATCCTAAA
194 TAAAAGTACACGATACCCTTAAAGGACTTAAAAAGGATTACAAACTGGAACAAACCTATCCTAAA
* * * *
1016338 TACCCACTTTCAACATAAAAACAGACCCAGTTACAACCTAGTACTCGATTCTAAAAAATGATGAA
259 TACCCACCTTCAACATAAAAACAGACCCAGTGACAACCTAGGACTCGATTCTAAAAAATGATCAA
1016403 AATGCCCGTAGGGGATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGACTTAAAAAGAATT
324 AATGCCCGTAGGGGATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGACTTAAAAAGAATT
* * * * * * * **
1016468 ATAGATGGGATGAACCTATTCTAAATACCCACCTTCAGCATAAAAGTGGACTCGGTGACGATTTA
389 ACAAATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCCGGTAACAACCTA
* * * *
1016533 CGAATTGGTTCTAAGAAATTATCAAAATGCCCCTATAGGTATACCTTCGACGTGAAAGTATCCTG
454 CGAATCGATTCTAAGAAATTATCAAAATGCCCCTATAGGGATACCTTCGACGTGAAAGTAGCCTG
* * * * *
1016598 GGATCCCTAAAAGACTTAAAAATGATTATAGAAAGGATGGACCTATCCTAAATATCTACCTTCAG
519 AGATCCCTAAAAGACTTAAAAAGGATTACAGAAAGGATGAACCTATCCTAAATATCCACCTTCAG
* * * * *
1016663 CATAAAAGGACCCGATGATAACCTAGGACTTGGTTTT
584 CATAAAAAGACCCGATGACAACCTAGGACTCGATTCT
* *
1016700 GAAAAATTATGAAAATGCCTCTAGCGGATACCTTCGACGTA-AGAGTATCTGATACCCCTAAAGG
1 GAAAAATTATGAAAATGCC-CTAGCGGATACCTTCGACGTAGA-AGTACCCGATACCCCTAAAGG
* ** * * *
1016764 ACTTAAAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTC-TCTTTGGCATAAAAGGGGA
64 ACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATA-CCCACCTTTGGCATAAAAGCGGA
* * * * *
1016828 CTCGGTGACAACTTAGGACTCGATTTTGAAAAATTATGAAAATACCCCTAGGGAGATACCTTTGA
128 CCCGATGACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTA-GGAGATACCTTTGA
* *
1016893 CGTAAAAGTACACGATACCCTTGAAGGACTTAAAAAGGATTATAAA-TGGAACAAACCTATCCTA
192 CGTAAAAGTACACGATACCCTTAAAGGACTTAAAAAGGATTACAAACTGGAACAAACCTATCCTA
* ** * * *
1016957 AATACCTACCTTCGGCATAAAAGCAGACCTAGTGACAACCTAGGACTCGAATT-TAAAAAATTAT
257 AATACCCACCTTCAACATAAAAACAGACCCAGTGACAACCTAGGACTCG-ATTCTAAAAAATGAT
* * * * * * *
1017021 CAAAATGCCCTTAGGGGATATTTTTGACTTAGAAGTGCCCGATATCCCTAAAGGATTTAAAAATG
321 CAAAATGCCCGTAGGGGATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGACTTAAAAA-G
*
1017086 -ATTACAAATGGGATGAACCTATCCTAAATACCCACCTT-AGGCATAAAAGCGGACCCTGTAACA
385 AATTACAAATGGGATGAACCTATCCTAAATACCCACCTTCA-GCATAAAAGCGGACCCGGTAACA
* * * * * *
1017149 ACCTAGGACTCGATTCT-AGAAAATTATCCAAATGCCCCTA-GGGGATATCTTCGATGT-AGAAG
449 ACCTACGAATCGATTCTAAG-AAATTATCAAAATGCCCCTATAGGGATACCTTCGACGTGA-AAG
* * * *
1017211 T-GCCTGATATCCCTAAAGGATTTAAAAAGGATTACA-AACTAGGATGAACCTATCTTAAATATC
512 TAGCCTGAGATCCCTAAAAGACTTAAAAAGGATTACAGAA--AGGATGAACCTATCCTAAATATC
1017274 CACCATT-AGCATAAAACAGACCC-AGTGACAACCTAGGACTCGATTCT
575 CACC-TTCAGCATAAAA-AGACCCGA-TGACAACCTAGGACTCGATTCT
* * * *
1017321 -AGAAAATTACGAAAATGCCC---CGAGATACCTTCGATGTAGAAGTACCCAATACCCTTAAAGG
1 GA-AAAATTATGAAAATGCCCTAGCG-GATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGG
* * **
1017382 ACTTAAAAAGAATTATAGATGGGATGAACCTATCCTATATACCCACCTTTGGCATAAAAATGGAC
64 ACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGAC
* * * * * * * * * * *
1017447 TC-AGTGATAACCTAAGTA-TTGGTTCT-ATGAAATTACCCAAATACCCTTATAGG-TATACATT
129 CCGA-TGACAACCT-AGGACTCGATTCTGA-AAAATTATCAAAATACCC--CTAGGAGATACCTT
* * * * * * **
1017508 CGACGTGAAAGTATCCCGATATCCC-TAAAAGACTTAAAAAGGATTATAGAA--GGGATGAACCT
189 TGACGTAAAAGTA-CACGATA-CCCTTAAAGGACTTAAAAAGGATTACA-AACTGGAACAAACCT
* * * * * * *** * *
1017570 ATCCTAAATATCTACCTTTAGC-TTAAAACTGGACTTGGTAACAACATAGGACTC-AGTTCTAAA
251 ATCCTAAATACCCACCTTCAACATAAAAAC-AGACCCAGTGACAACCTAGGACTCGA-TTCTAAA
* ** * * * * * * * * * *
1017633 AAATTAAAAAAATACCCCTAAGAGATACCTTCGACATAAAAGTACCCAATACCCCT-AAAGAGTT
314 AAATGATCAAAATGCCCGTAGGGGATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGACTT
*** * * * * ** * * * *
1017697 TTTAAGGATAATAGATGAAATGAACATATCCTAAATATCTACCTTCAGCATAAAAGCGGACCTGG
379 AAAAAGAATTACAAATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCCGG
* * * * * * ** *
1017762 TGACAACCTAGGACTCGGTTCTAAAAAATTATGAAAATGTTCC-A-AGGAGATACCTTCGACGTA
444 TAACAACCTACGAATCGATTCTAAGAAATTATCAAAATGCCCCTATAGG-GATACCTTCGACGTG
** * * * * *
1017825 AAAGTA-CCCAATACCCCTAAAGGACTTAAAAAGGA-TA-ATGAATGAGATGAACCTATCCTAAG
508 AAAGTAGCCTGAGATCCCTAAAAGACTTAAAAAGGATTACA-GAAAG-GATGAACCTATCCTAAA
* * ** * * *
1017887 TATCTACCTT-TGACATAAAAGTAGACTTGGTGACAACCTAGGACTCGGTTTT
571 TATCCACCTTCAG-CATAAAA--AGACCCGATGACAACCTAGGACTCGATTCT
* ** * * * * * * * * *
1017939 AAAAAATTACAAAAAGGACCTCAGGGGATACCTTCGATGTAAAAGTACCTGGTACTCCTAAAAGA
1 GAAAAATTATGAAAATGCCCT-AGCGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGA
1018004 CTT
65 CTT
1018007 GGGATAATGC
Statistics
Matches: 1065, Mismatches: 195, Indels: 94
0.79 0.14 0.07
Matches are distributed among these distances:
616 5 0.00
617 41 0.04
618 308 0.29
619 158 0.15
620 65 0.06
621 429 0.40
622 59 0.06
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (620 bp):
GAAAAATTATGAAAATGCCCTAGCGGATACCTTCGACGTAGAAGTACCCGATACCCCTAAAGGAC
TTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCC
GATGACAACCTAGGACTCGATTCTGAAAAATTATCAAAATACCCCTAGGAGATACCTTTGACGTA
AAAGTACACGATACCCTTAAAGGACTTAAAAAGGATTACAAACTGGAACAAACCTATCCTAAATA
CCCACCTTCAACATAAAAACAGACCCAGTGACAACCTAGGACTCGATTCTAAAAAATGATCAAAA
TGCCCGTAGGGGATACTTTTGACGTAGAAGTACCCGATACCCCTAAAAGACTTAAAAAGAATTAC
AAATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACCCGGTAACAACCTACG
AATCGATTCTAAGAAATTATCAAAATGCCCCTATAGGGATACCTTCGACGTGAAAGTAGCCTGAG
ATCCCTAAAAGACTTAAAAAGGATTACAGAAAGGATGAACCTATCCTAAATATCCACCTTCAGCA
TAAAAAGACCCGATGACAACCTAGGACTCGATTCT
Found at i:1019528 original size:13 final size:14
Alignment explanation
Indices: 1019510--1019545 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
1019500 TGGAATTTTC
1019510 TTTTTTC-CTCTCT
1 TTTTTTCTCTCTCT
1019523 TTTTTTCTTCTCTCT
1 TTTTTTC-TCTCTCT
1019538 TTTTTTCT
1 TTTTTTCT
1019546 TTTTTTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 1 0.05
15 13 0.62
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTTCTCTCTCT
Found at i:1019535 original size:15 final size:15
Alignment explanation
Indices: 1019517--1019546 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1019507 TTCTTTTTTC
1019517 CTCTCTTTTTTTCTT
1 CTCTCTTTTTTTCTT
1019532 CTCTCTTTTTTTCTT
1 CTCTCTTTTTTTCTT
1019547 TTTTTTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
CTCTCTTTTTTTCTT
Found at i:1019545 original size:12 final size:12
Alignment explanation
Indices: 1019508--1019555 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
1019498 ATTGGAATTT
*
1019508 TCTTTTTTCCTC
1 TCTTTTTTTCTC
1019520 TCTTTTTTTCTTC
1 TCTTTTTTTC-TC
1019533 TCTCTTTTTT-TC
1 TCT-TTTTTTCTC
1019545 T-TTTTTTTCTC
1 TCTTTTTTTCTC
1019556 ACTTGCTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.19
11 3 0.09
12 12 0.38
13 5 0.16
14 6 0.19
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TCTTTTTTTCTC
Found at i:1019691 original size:16 final size:16
Alignment explanation
Indices: 1019666--1019713 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1019656 TTGCTGCTGC
1019666 TGTCGTTGCTCTTGCT
1 TGTCGTTGCTCTTGCT
* *
1019682 TG-CTGTTGCTGTTGTT
1 TGTC-GTTGCTCTTGCT
*
1019698 TGTCGTTACTCTTGCT
1 TGTCGTTGCTCTTGCT
1019714 GCAAAATATC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.02, C:0.21, G:0.25, T:0.52
Consensus pattern (16 bp):
TGTCGTTGCTCTTGCT
Found at i:1019833 original size:18 final size:19
Alignment explanation
Indices: 1019795--1019835 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1019785 ACTGTCTTCA
*
1019795 GCTGTTGTTCTCTTGTTTT
1 GCTGTTGTTCTCTTCTTTT
*
1019814 GCTGTTGTTGT-TTCTTTT
1 GCTGTTGTTCTCTTCTTTT
1019832 GCTG
1 GCTG
1019836 CTACTTGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.00, C:0.15, G:0.24, T:0.61
Consensus pattern (19 bp):
GCTGTTGTTCTCTTCTTTT
Found at i:1020597 original size:166 final size:165
Alignment explanation
Indices: 1020287--1021237 Score: 912
Period size: 166 Copynumber: 5.7 Consensus size: 165
1020277 TAAATATTAT
* ** * * ** * ****
1020287 ATGAGTTTTAAAAATTTTAAACCAAGAAAAATCCCCCCAACAAAATTTACGGAGAAGAAAACTTG
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACAAAGTAGAAAAAACC
* * *
1020352 GT-TTCTCGGAAAAAA-AGGAGTTTCAAGGAAAAAAATCCAAAACTCATGAAAATGAATTAGTTT
66 GTATT-TC-GAAAAAAGA-GAGTTTTAAGG-AAAAAATCAAAAACTCATGAAAATGAATTAATTT
* * * *
1020415 TTTAAAATTTATTTAATATGAATCAAATGATGATTTTTG
127 TTGAAAACTGATTTAATATGAATCAAATGATGATATTTG
* * * * *
1020454 ATGAATTATAAAAATTGAAAATCGAGAAAAATCCCCTCGAAAAAATTTACGAAGTAGAAAAAACC
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACAAAGTAGAAAAAACC
*
1020519 GTATTTCGAAAAAATGAGAGTTTTAAGGAAAAAATCAAAAACTCATAAAAATGAATTAATTTTTG
66 GTATTTCGAAAAAA-GAGAGTTTTAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG
* * *** * *
1020584 AAAATTAATTTAATGCAAATCAAATGATGATGTTTA
130 AAAACTGATTTAATATGAATCAAATGATGATATTTG
* * * * * * *
1020620 ATGAATTTTAAAAACTGAAAATCGAGAATAATCCCCTC-AAAAAATTTATAGAGTAG-AAAAATC
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACAAAGTAGAAAAAACC
* * * * * * * * *
1020683 ATATTTTAGAAAAATGAAAGTTTCAAGGAAAAAATCTAAAACTAATG-AAATGAATGAAATTTTG
66 GTA-TTTCGAAAAAAGAGAGTTTTAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG
*
1020747 AAAACTGATTTAATATGAAAT-AAATGATAATATTTG
130 AAAACTGATTTAATATG-AATCAAATGATGATATTTG
* * * ** * * * *
1020783 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCTCAAAAAAATTTGCCGACTCGAAAACATC
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACAAAGTAGAAAAAACC
* ** *
1020848 GTATTACGGGGAAAAGGGAGTTTTAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG
66 GTATTTC-GAAAAAAGAGAGTTTTAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTG
* * *
1020913 AAAAATGATTTAATATAAATCAAATGATGATGTTTG
130 AAAACTGATTTAATATGAATCAAATGATGATATTTG
* * * *
1020949 ATGAATTTTAAAAATTCAAAACCAAGAAAAATCCCTTTAAAAAAATTTACAAAGTAGAAAATACC
1 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACAAAGTAGAAAAAACC
* * * * *
1021014 ATATTTCGAAAAAAGAGGAGTTTCAAAGAAAAAAATCAAAAACTTATGAAAATGAATGAATTTTT
66 GTATTTCGAAAAAAGA-GAGTTT-TAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTT
* * **
1021079 TAAAACTGATTTAATATGAAAT-AAATTACAATATTTG
129 GAAAACTGATTTAATATG-AATCAAATGATGATATTTG
* *
1021116 ATGAATTTTGAAAATT-AAATACCAAGAAAAA-CCCCTCCAAAAAAAATTTACAAAGTAGAAAAT
1 ATGAATTTTAAAAATTGAAA-ACCAAGAAAAATCCCCT-C-AAAAAAATTTACAAAGTAGAAAAA
* * * * * * *
1021179 TCTGTATTTCAGAAAAAGGAAAATTTTAAGAAAAAAAATAAAAAACTCATGAAAATGAA
63 ACCGTATTTC-GAAAAAAGAGAGTTTTAAG-GAAAAAATCAAAAACTCATGAAAATGAA
1021238 GGAATTGTTC
Statistics
Matches: 647, Mismatches: 119, Indels: 35
0.81 0.15 0.04
Matches are distributed among these distances:
163 71 0.11
164 53 0.08
165 72 0.11
166 220 0.34
167 156 0.24
168 67 0.10
169 8 0.01
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (165 bp):
ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACAAAGTAGAAAAAACC
GTATTTCGAAAAAAGAGAGTTTTAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGA
AAACTGATTTAATATGAATCAAATGATGATATTTG
Found at i:1020764 original size:329 final size:330
Alignment explanation
Indices: 1020360--1021237 Score: 1043
Period size: 329 Copynumber: 2.6 Consensus size: 330
1020350 TGGTTTCTCG
* * * * * *
1020360 GAAAAAA-AGGAGTTTCAAGGAAAAAAATCCAAAACTCATGAAAATGAATTAGTTTTTTAAAATT
1 GAAAAAAGAGAAGTTTCAAGG-AAAAAATCAAAAACTAATGAAAATGAATGAATTTTTTAAAACT
* * * * * *
1020424 TATTTAATATG-AATCAAATGATGATTTTTGATGAATTATAAAAATTGAAAATCGAGAAAAATCC
65 GATTTAATATGAAAT-AAATGATAATATTTGATGAATTTTAAAAATT-AAAACCAAGAAAAATCC
*
1020488 CCTCGAAAAAATTTACGAAGTAGAAAAAACCGTATTTCGAAAAAATGAGAGTTTTAAGGAAAAAA
128 CCTCAAAAAAATTTACGAAGTAGAAAAAACCGTATTTCGAAAAAA-GAGAGTTTTAAGGAAAAAA
* * *
1020553 TCAAAAACTCATAAAAATGAATTAATTTTTGAAAATTAATTTAATGCAAATCAAATGATGATGTT
192 TCAAAAACTCATGAAAATGAATTAATTTTTGAAAAATAATTTAATACAAATCAAATGATGATGTT
* * * * * * *
1020618 TAATGAATTTTAAAAACTGAAAATCGAGAATAATCCC-CTCAAAAAATTTATAGAGTAGAAAA-A
257 TAATGAATTTTAAAAACTCAAAACCAAGAAAAATCCCTCTAAAAAAATTTACAAAGTAGAAAATA
*
1020681 TCATATTTTA
322 CCATA-TTTA
* * * *
1020691 GAAAAATGA-AAGTTTCAAGGAAAAAATCTAAAACTAATG-AAATGAATGAAATTTTGAAAACTG
1 GAAAAAAGAGAAGTTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTTAAAACTG
*
1020754 ATTTAATATGAAATAAATGATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTC
66 ATTTAATATGAAATAAATGATAATATTTGATGAATTTTAAAAATT-AAAACCAAGAAAAATCCCC
* * * * * * ** *
1020819 TCAAAAAAATTTGCCG-ACTCGAAAACATCGTATTACGGGGAAAAGGGAGTTTTAAGGAAAAAAT
130 TCAAAAAAATTT-ACGAAGTAGAAAAAACCGTATTTC-GAAAAAAGAGAGTTTTAAGGAAAAAAT
* *
1020883 CAAAAACTCATGAAAATGAATTAATTTTTGAAAAATGATTTAATATAAATCAAATGATGATGTTT
193 CAAAAACTCATGAAAATGAATTAATTTTTGAAAAATAATTTAATACAAATCAAATGATGATGTTT
* * *
1020948 GATGAATTTTAAAAATTCAAAACCAAGAAAAATCCCTTTAAAAAAATTTACAAAGTAGAAAATAC
258 AATGAATTTTAAAAACTCAAAACCAAGAAAAATCCCTCTAAAAAAATTTACAAAGTAGAAAATAC
*
1021013 CATATTTC
323 CATATTTA
* * *
1021021 GAAAAAAGAGGAGTTTCAAAGAAAAAAATCAAAAACTTATGAAAATGAATGAATTTTTTAAAACT
1 GAAAAAAGAGAAGTTTC-AAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTTAAAACT
* * *
1021086 GATTTAATATGAAATAAATTACAATATTTGATGAATTTTGAAAATTAAATACCAAGAAAAA-CCC
65 GATTTAATATGAAATAAATGATAATATTTGATGAATTTTAAAAATTAAA-ACCAAGAAAAATCCC
* ** * * * * *
1021150 CTCCAAAAAAAATTTACAAAGTAGAAAATTCTGTATTTCAGAAAAAGGAAAATTTTAAGAAAAAA
129 CT-C-AAAAAAATTTACGAAGTAGAAAAAACCGTATTTC-GAAAAAAGAGAGTTTTAAG-GAAAA
*
1021215 AATAAAAAACTCATGAAAATGAA
190 AATCAAAAACTCATGAAAATGAA
1021238 GGAATTGTTC
Statistics
Matches: 460, Mismatches: 73, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
329 207 0.45
330 59 0.13
331 27 0.06
332 28 0.06
333 77 0.17
334 36 0.08
335 26 0.06
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (330 bp):
GAAAAAAGAGAAGTTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTTAAAACTG
ATTTAATATGAAATAAATGATAATATTTGATGAATTTTAAAAATTAAAACCAAGAAAAATCCCCT
CAAAAAAATTTACGAAGTAGAAAAAACCGTATTTCGAAAAAAGAGAGTTTTAAGGAAAAAATCAA
AAACTCATGAAAATGAATTAATTTTTGAAAAATAATTTAATACAAATCAAATGATGATGTTTAAT
GAATTTTAAAAACTCAAAACCAAGAAAAATCCCTCTAAAAAAATTTACAAAGTAGAAAATACCAT
ATTTA
Found at i:1022252 original size:58 final size:57
Alignment explanation
Indices: 1022118--1022663 Score: 584
Period size: 58 Copynumber: 9.5 Consensus size: 57
1022108 GAAATTACTA
* * * * * * *
1022118 AAAGTCCATAGATAATGGAAAATGACCTAGATAACATCAAAATTAATAAAGTTGC--C
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGAC-TCAACATTCATAAAATTGCATC
* * * *
1022174 -TAGTCCCTA-AGTCATGGAAAATGAACTAAATGACATCAAAATTCACAAAATTGCATC
1 AAAGTCCCTAGA-TCATGGAAAATGACCTAAATGAC-TCAACATTCATAAAATTGCATC
* * *
1022231 AAAGTCCTTAAATCATGGAAAATGACCTAAATGACTCCAACATTCATAAAATTACATC
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGACT-CAACATTCATAAAATTGCATC
* * * *
1022289 AAAGTCCTTAGATCTTGAAAAATAACCTAAATGACATCAACATTCAT-AAATTGCATC
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGAC-TCAACATTCATAAAATTGCATC
* * * * *
1022346 AAAATCCCCAAATCATGGAAAATGACCTAAATGACTCCAACA-TCATGGAAATTACATC
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGACT-CAACATTCAT-AAAATTGCATC
* * *
1022404 AAAGTCCCTAGACCATAGAAAATGACCTAAATGACTCTAACATTCATAAAATTGCATT
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGACTC-AACATTCATAAAATTGCATC
* * * *
1022462 AAAGTCCCTAGACCATAGAAAATAACCTAAATGACTCTAACATTCATAAAATTACATC
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGACTC-AACATTCATAAAATTGCATC
* * * * *
1022520 AAAGTCCTTAGATCTTGAAAAATTACCTAAATGACATCAATATTCAT-AAATTGCATC
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGAC-TCAACATTCATAAAATTGCATC
* * * *
1022577 AAAATCCATAGATCATGAAAAATGACCTAAATGACTCCAACATTCATAAAATTGCATT
1 AAAGTCCCTAGATCATGGAAAATGACCTAAATGACT-CAACATTCATAAAATTGCATC
*
1022635 AAAGTCACTAGATCATGGAAAATGACCTA
1 AAAGTCCCTAGATCATGGAAAATGACCTA
1022664 TGTCGCAACG
Statistics
Matches: 418, Mismatches: 57, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
54 1 0.00
55 43 0.10
56 6 0.01
57 94 0.22
58 266 0.64
59 8 0.02
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (57 bp):
AAAGTCCCTAGATCATGGAAAATGACCTAAATGACTCAACATTCATAAAATTGCATC
Found at i:1022379 original size:173 final size:172
Alignment explanation
Indices: 1022185--1022663 Score: 590
Period size: 173 Copynumber: 2.8 Consensus size: 172
1022175 AGTCCCTAAG
* * *
1022185 TCATGGAAAATGAACTAAATGACATCAAAATTCACAAAATTGCATCAAAGTCCTTAAATCATGGA
1 TCATGGAAAATGACCTAAATGACATCAAAATTCA-AAAATTGCATCAAAGTCCATAGATCATGGA
* * *
1022250 AAATGACCTAAATGACTCCAACATTCATAAAATTACATCAAAGTCCTTAGATCTTGAAAAATAAC
65 AAATGACCTAAATGACTCCAACATTCATAAAATTGCATTAAAGTCC-TAGATCATGAAAAATAAC
*
1022315 CTAAATGACATC-AACATTCAT-AAATTGCATCAAAATCCCCAAA
129 CTAAATGAC-TCTAACATTCATAAAATTACATCAAAATCCCCAAA
* * * * * *
1022358 TCATGGAAAATGACCTAAATGAC-TCCAACA-TCATGGAAATTACATCAAAGTCCCTAGACCATA
1 TCATGGAAAATGACCTAAATGACAT-CAAAATTCA--AAAATTGCATCAAAGTCCATAGATCATG
* *
1022421 GAAAATGACCTAAATGACTCTAACATTCATAAAATTGCATTAAAGTCCCTAGACCAT-AGAAAAT
63 GAAAATGACCTAAATGACTCCAACATTCATAAAATTGCATTAAAGT-CCTAGATCATGA-AAAAT
* ** *
1022485 AACCTAAATGACTCTAACATTCATAAAATTACATCAAAGTCCTTAGA
126 AACCTAAATGACTCTAACATTCATAAAATTACATCAAAATCCCCAAA
* * * * * * *
1022532 TCTTGAAAAATTACCTAAATGACATCAATATTCATAAATTGCATCAAAATCCATAGATCATGAAA
1 TCATGGAAAATGACCTAAATGACATCAAAATTCAAAAATTGCATCAAAGTCCATAGATCATGGAA
* *
1022597 AATGACCTAAATGACTCCAACATTCATAAAATTGCATTAAAGTCACTAGATCATGGAAAATGACC
66 AATGACCTAAATGACTCCAACATTCATAAAATTGCATTAAAGTC-CTAGATCATGAAAAATAACC
1022662 TA
130 TA
1022664 TGTCGCAACG
Statistics
Matches: 262, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
172 8 0.03
173 207 0.79
174 43 0.16
175 4 0.02
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (172 bp):
TCATGGAAAATGACCTAAATGACATCAAAATTCAAAAATTGCATCAAAGTCCATAGATCATGGAA
AATGACCTAAATGACTCCAACATTCATAAAATTGCATTAAAGTCCTAGATCATGAAAAATAACCT
AAATGACTCTAACATTCATAAAATTACATCAAAATCCCCAAA
Found at i:1022512 original size:29 final size:29
Alignment explanation
Indices: 1022422--1022513 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
1022412 TAGACCATAG
*
1022422 AAAATGACCTAAATGACTCTAACATTCAT
1 AAAATAACCTAAATGACTCTAACATTCAT
** * * * *
1022451 AAAATTGCATTAAA-GTCCCTAGACCA-T-AG
1 AAAATAAC-CTAAATGACTCTA-A-CATTCAT
1022480 AAAATAACCTAAATGACTCTAACATTCAT
1 AAAATAACCTAAATGACTCTAACATTCAT
1022509 AAAAT
1 AAAAT
1022514 TACATCAAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
27 2 0.04
28 6 0.13
29 29 0.64
30 6 0.13
31 2 0.04
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.26
Consensus pattern (29 bp):
AAAATAACCTAAATGACTCTAACATTCAT
Found at i:1022578 original size:231 final size:231
Alignment explanation
Indices: 1022190--1022663 Score: 718
Period size: 231 Copynumber: 2.1 Consensus size: 231
1022180 CTAAGTCATG
* * * * *
1022190 GAAAATGAACTAAATGACATCAAAATTCACAAAATTGCATCAAAGTCCTTAAATCATGGAAAATG
1 GAAAATGACCTAAATGACATCAAAATTCACAAAATTGCATCAAAGTCCCTAAACCATAGAAAATA
1022255 ACCTAAATGACTCCAACATTCATAAAATTACATCAAAGTCCTTAGATCTTGAAAAATAACCTAAA
66 ACCTAAATGACTCCAACATTCATAAAATTACATCAAAGTCCTTAGATCTTGAAAAATAACCTAAA
* *
1022320 TGACATCAACATTCATAAATTGCATCAAAATCCCCAAATCATGGAAAATGACCTAAATGACTCCA
131 TGACATCAACATTCATAAATTGCATCAAAATCCACAAATCATGAAAAATGACCTAAATGACTCCA
* *
1022385 ACA-TCATGGAAATTACATCAAAGTCCCTAGACCATA
196 ACATTCAT-AAAATTACATCAAAGTCACTAGACCATA
* * * *
1022421 GAAAATGACCTAAATGAC-TCTAACATTCATAAAATTGCATTAAAGTCCCTAGACCATAGAAAAT
1 GAAAATGACCTAAATGACATC-AAAATTCACAAAATTGCATCAAAGTCCCTAAACCATAGAAAAT
* *
1022485 AACCTAAATGACTCTAACATTCATAAAATTACATCAAAGTCCTTAGATCTTGAAAAATTACCTAA
65 AACCTAAATGACTCCAACATTCATAAAATTACATCAAAGTCCTTAGATCTTGAAAAATAACCTAA
* * *
1022550 ATGACATCAATATTCATAAATTGCATCAAAATCCATAGATCATGAAAAATGACCTAAATGACTCC
130 ATGACATCAACATTCATAAATTGCATCAAAATCCACAAATCATGAAAAATGACCTAAATGACTCC
* * * *
1022615 AACATTCATAAAATTGCATTAAAGTCACTAGATCATG
195 AACATTCATAAAATTACATCAAAGTCACTAGACCATA
1022652 GAAAATGACCTA
1 GAAAATGACCTA
1022664 TGTCGCAACG
Statistics
Matches: 219, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
230 2 0.01
231 213 0.97
232 4 0.02
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (231 bp):
GAAAATGACCTAAATGACATCAAAATTCACAAAATTGCATCAAAGTCCCTAAACCATAGAAAATA
ACCTAAATGACTCCAACATTCATAAAATTACATCAAAGTCCTTAGATCTTGAAAAATAACCTAAA
TGACATCAACATTCATAAATTGCATCAAAATCCACAAATCATGAAAAATGACCTAAATGACTCCA
ACATTCATAAAATTACATCAAAGTCACTAGACCATA
Found at i:1025848 original size:13 final size:13
Alignment explanation
Indices: 1025830--1025857 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1025820 ATACAAAGAT
1025830 CAATGTATCGATA
1 CAATGTATCGATA
1025843 CAATGTATCGATA
1 CAATGTATCGATA
1025856 CA
1 CA
1025858 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1030263 original size:156 final size:154
Alignment explanation
Indices: 1029689--1030269 Score: 555
Period size: 154 Copynumber: 3.7 Consensus size: 154
1029679 TAGTGTATAC
* * * * * ** *
1029689 TAGAGTTACCGGGATACTTTCATGTCAAAGGTATACCTATAGAGGTATTTTTGTAAGTTTTTAAA
1 TAGAGGTACCGAGACACTTTCACGTCGAAGGTATACCTA-AG-GGTATTTTCATAATTTTTTAAA
* * * * * * *
1029754 ATTGAGTCCTAAGTTGTCATCGGGTTAACTTTTATGTCAAAGGTGGGTATTTAGGATAGGTTCAT
64 ATCGAGTCCTAGGTTGTCACCGAGTTCACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCAT
*
1029819 CCCATCTACAATCTTTTTTAGTCCTT
129 CCCATCTACAATCTTTTTTAGTCATT
* * * * * *
1029845 TAGGGGAATCGAG-CACTTTTACATCGAAGGCA-ACCCATAAGGGT-TTTTCATAATTTTTCTAA
1 TAGAGGTACCGAGACACTTTCACGTCGAAGGTATA-CC-TAAGGGTATTTTCATAATTTTT-TAA
** * * **
1029907 AATTAAGTCCTCA-GTTGTCACCAAGTCCGTTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
63 AATCGAGTCCT-AGGTTGTCACCGAGTTCACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
*
1029971 ATCCCATCTACAATCCTTTTTAGTCATT
127 ATCCCATCTACAATCTTTTTTAGTCATT
* * * * *
1029999 TAGGGGTATCG-GGCA-TTTCTACGTCGAAGGTATCCCCTAAGGGCATTTTCATAATTTTTTAAA
1 TAGAGGTACCGAGACACTTTC-ACGTCGAAGGTAT-ACCTAAGGGTATTTTCATAATTTTTTAAA
* * *
1030062 ATCGAGTCCTAGGTTGTCACCGAG-TCTACTTTTATTCTGAAGGTGGGTATTTAGGATAGGTTTA
64 ATCGAGTCCTAGGTTGTCACCGAGTTC-ACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCA
* * *
1030126 TCCCATCCATAATCTTTTTTAAGTCTTT
128 TCCCATCTACAATCTTTTTT-AGTCATT
* * * *
1030154 TAGAGTTACCGAGATACTTTCACGTCGAAGGTATACCTTAAGGGTATTTTCATAATTTTTGAGAA
1 TAGAGGTACCGAGACACTTTCACGTCGAAGGTATACC-TAAGGGTATTTTCATAATTTTTTAAAA
* * * ** * *
1030219 TCGAGTCCTAGGTTGCCACCGGGTTCGCTTTTACACCGACGGTGGGCATTT
65 TCGAGTCCTAGGTTGTCACCGAGTTCACTTTTATGCCGAAGGTGGGTATTT
1030270 GGGGGTAGGT
Statistics
Matches: 347, Mismatches: 62, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
153 17 0.05
154 185 0.53
155 50 0.14
156 89 0.26
157 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (154 bp):
TAGAGGTACCGAGACACTTTCACGTCGAAGGTATACCTAAGGGTATTTTCATAATTTTTTAAAAT
CGAGTCCTAGGTTGTCACCGAGTTCACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCC
CATCTACAATCTTTTTTAGTCATT
Found at i:1034630 original size:15 final size:15
Alignment explanation
Indices: 1034610--1034639 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1034600 ATTAGTATTT
1034610 TGGTGAACTTGTGAA
1 TGGTGAACTTGTGAA
*
1034625 TGGTGACCTTGTGAA
1 TGGTGAACTTGTGAA
1034640 GGGTTTGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.33
Consensus pattern (15 bp):
TGGTGAACTTGTGAA
Found at i:1042917 original size:16 final size:15
Alignment explanation
Indices: 1042896--1042937 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
1042886 TCCTCTAAAT
1042896 AAGAAAAACAAAAAAA
1 AAGAAAAA-AAAAAAA
*
1042912 AAGAAAAAGAAAAAA
1 AAGAAAAAAAAAAAA
1042927 AAGAAAAAAAA
1 AAGAAAAAAAA
1042938 GCATGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAAAA
Found at i:1042918 original size:9 final size:9
Alignment explanation
Indices: 1042905--1042938 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1042895 TAAGAAAAAC
1042905 AAAAAAA-A
1 AAAAAAAGA
*
1042913 AGAAAAAGA
1 AAAAAAAGA
1042922 AAAAAAAGA
1 AAAAAAAGA
1042931 AAAAAAAG
1 AAAAAAAG
1042939 CATGAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:1043696 original size:111 final size:112
Alignment explanation
Indices: 1043545--1043753 Score: 269
Period size: 111 Copynumber: 1.9 Consensus size: 112
1043535 GAAGAACAAC
* * * * *
1043545 AAATTTGTTTGATTTTTGAAAAAATTCATGCTTTATACATTTTGATCCATTTGTGCCTAGTAAAA
1 AAATTTGTTTGATTGTTGAAAAAATTCATACTTTATACATTCTGATCCATTCGTGCCTAGGAAAA
* * * *
1043610 TGGAGG-ATGTATCTTGTCACTTTTGAAATTTTTGATCCAACAACATT
66 TGG-GGCATGTACCCTATCAATTTTGAAATTTTTGATCCAACAACATT
** * * *
1043657 AAATTTGTTTGATTGTT-AGGAAATTCATATTTTGTACATTCTGATCCCTTCGTGCCTAGGAAAA
1 AAATTTGTTTGATTGTTGAAAAAATTCATACTTTATACATTCTGATCCATTCGTGCCTAGGAAAA
1043721 TGGGGCATGTACCCTATCAATTTTGAAATTTTT
66 TGGGGCATGTACCCTATCAATTTTGAAATTTTT
1043754 AGGCCTACCA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
110 2 0.02
111 64 0.78
112 16 0.20
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (112 bp):
AAATTTGTTTGATTGTTGAAAAAATTCATACTTTATACATTCTGATCCATTCGTGCCTAGGAAAA
TGGGGCATGTACCCTATCAATTTTGAAATTTTTGATCCAACAACATT
Found at i:1044677 original size:91 final size:90
Alignment explanation
Indices: 1044450--1044684 Score: 278
Period size: 89 Copynumber: 2.6 Consensus size: 90
1044440 AGGGTGCAGC
* * *
1044450 CGACACATTCCTAATCATATCCCCTTCATCCAACCATTAGATGGTA-TGATGCATCACAAAACCA
1 CGACACATTCCTAATCATATCCCTTTCATTCAACCACTAGATGGTATTGATGCATCACAAAACCA
* * *
1044514 GATTTCCTTGGGGCAAGGGTATGGC
66 GATTTCCTTAGGGCAAGGATATGGA
* * *
1044539 CCACACATTCCTAATCATATCCTCTTT-ATTCAACCACTAGATGGTATTGATG-ATCACAAAGCT
1 CGACACATTCCTAATCATATCC-CTTTCATTCAACCACTAGATGGTATTGATGCATCACAAAACC
*
1044602 AGATTTCCTTAGGGCAAGGATATCCTGA
65 AGATTTCCTTAGGGCAAGGATAT--GGA
* * * * * *
1044630 CGACTCATTTCTAATCATATCCCTTTCTTTTAGCCACTAGATTGTATTGATGCAT
1 CGACACATTCCTAATCATATCCCTTTCATTCAACCACTAGATGGTATTGATGCAT
1044685 TATGTGACCA
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
89 68 0.55
90 12 0.10
91 41 0.33
92 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (90 bp):
CGACACATTCCTAATCATATCCCTTTCATTCAACCACTAGATGGTATTGATGCATCACAAAACCA
GATTTCCTTAGGGCAAGGATATGGA
Found at i:1044851 original size:30 final size:30
Alignment explanation
Indices: 1044778--1044851 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 30
1044768 TCTCGTTCGG
* * * *
1044778 CTATACTCGGTCAAGTCTTTCCTCACTTGA
1 CTATACTTGATCAAGTATTTCATCACTTGA
*
1044808 CTATA-TTCAATCAAGTATTTCATCA-TTGGA
1 CTATACTT-GATCAAGTATTTCATCACTT-GA
1044838 CTATACTTGATCAA
1 CTATACTTGATCAA
1044852 TTTTTCTCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
29 3 0.09
30 30 0.86
31 2 0.06
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (30 bp):
CTATACTTGATCAAGTATTTCATCACTTGA
Found at i:1045006 original size:70 final size:70
Alignment explanation
Indices: 1044930--1045323 Score: 348
Period size: 70 Copynumber: 5.6 Consensus size: 70
1044920 TCCATCTTTG
*
1044930 TTTGATTGTATCTAGTCAAACTCTTT-CATCATCATTTGACTATATCTAGTCAAACTTCTTTCCA
1 TTTGATTGTATCTAGTCAAACTCTTTCCATCATCATTTGACTGTATCTAGTCAAAC-TCTTTCCA
1044994 TCATAT
65 TCATAT
* * *
1045000 TTTGATTGTATCTAGTCAAACTCTTTCCATCATTATTTGA-TTTATCTAGTCAAACTCTTTTCAT
1 TTTGATTGTATCTAGTCAAACTCTTTCCATCATCATTTGACTGTATCTAGTCAAACTCTTTCCAT
1045064 CATCAT
66 CAT-AT
** * * * ** * * **
1045070 TTTTTTTGTATCTGGTCAAACCCTTTCCATAATGGTTTGATTGTATCTGGTCAAACTCTTTTTAT
1 TTTGATTGTATCTAGTCAAACTCTTTCCATCATCATTTGACTGTATCTAGTCAAACTCTTTCCAT
**
1045135 CATCG
66 CATAT
* * * *
1045140 TTTGACTGTATCTGGTCAAACACTTCCCA-CTATCATTTGACTGTATCTAGTCAAACTCTTTCCA
1 TTTGATTGTATCTAGTCAAACTCTTTCCATC-ATCATTTGACTGTATCTAGTCAAACTCTTTCCA
*
1045204 TCATAA
65 TCATAT
** * * * * * * * *
1045210 TTTGGCTATATGTGGAT-AAACTCTTTCCATCATCGTTTAACTGTATAC-GGCCAAACCCTTTCC
1 TTTGATTGTATCTAG-TCAAACTCTTTCCATCATCATTTGACTGTAT-CTAGTCAAACTCTTTCC
**
1045273 ATCATCG
64 ATCATAT
* * * * * *
1045280 TTTAACTATATCTGGTCAAACTTTTTCCATCATCGTTTGACTGT
1 TTTGATTGTATCTAGTCAAACTCTTTCCATCATCATTTGACTGT
1045324 GTTAGGATCT
Statistics
Matches: 270, Mismatches: 46, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
69 12 0.04
70 219 0.81
71 39 0.14
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.43
Consensus pattern (70 bp):
TTTGATTGTATCTAGTCAAACTCTTTCCATCATCATTTGACTGTATCTAGTCAAACTCTTTCCAT
CATAT
Found at i:1045025 original size:35 final size:35
Alignment explanation
Indices: 1044875--1045213 Score: 288
Period size: 35 Copynumber: 9.8 Consensus size: 35
1044865 TAACTATATT
**
1044875 TAGTCAAACTCTTTCCATCAT-TGTTCAATTGTATC
1 TAGTCAAACTCTTTCCATCATAT-TTTGATTGTATC
* *
1044910 TAG-C---CGTTTTTCCATC-TTTGTTTGATTGTATC
1 TAGTCAAAC-TCTTTCCATCATAT-TTTGATTGTATC
* *
1044942 TAGTCAAACTCTTT-CATCATCA-TTTGACTATATC
1 TAGTCAAACTCTTTCCATCAT-ATTTTGATTGTATC
1044976 TAGTCAAACTTCTTTCCATCATATTTTGATTGTATC
1 TAGTCAAAC-TCTTTCCATCATATTTTGATTGTATC
1045012 TAGTCAAACTCTTTCCATCAT-TATTTGATT-TATC
1 TAGTCAAACTCTTTCCATCATAT-TTTGATTGTATC
* **
1045046 TAGTCAAACTCTTTTCATCATCATTTTTTTTGTATC
1 TAGTCAAACTCTTTCCATCAT-ATTTTGATTGTATC
* * * **
1045082 TGGTCAAACCCTTTCCATAATGGTTTGATTGTATC
1 TAGTCAAACTCTTTCCATCATATTTTGATTGTATC
* ** ** *
1045117 TGGTCAAACTCTTTTTATCATCGTTTGACTGTATC
1 TAGTCAAACTCTTTCCATCATATTTTGATTGTATC
* * * *
1045152 TGGTCAAACACTTCCCA-C-TATCATTTGACTGTATC
1 TAGTCAAACTCTTTCCATCATAT--TTTGATTGTATC
*
1045187 TAGTCAAACTCTTTCCATCATAATTTG
1 TAGTCAAACTCTTTCCATCATATTTTG
1045214 GCTATATGTG
Statistics
Matches: 249, Mismatches: 36, Indels: 38
0.77 0.11 0.12
Matches are distributed among these distances:
31 2 0.01
32 24 0.10
33 2 0.01
34 50 0.20
35 120 0.48
36 49 0.20
37 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.45
Consensus pattern (35 bp):
TAGTCAAACTCTTTCCATCATATTTTGATTGTATC
Found at i:1045096 original size:105 final size:105
Alignment explanation
Indices: 1044860--1045319 Score: 332
Period size: 105 Copynumber: 4.4 Consensus size: 105
1044850 AATTTTTCTC
* * * * ** *
1044860 TCATTTAACTATATTTAGTCAAACT-CTTTCCATCATTGTTCAATTGTATCTAG-C---CGTTTT
1 TCATTTGACTATATCTAGTCAAACTCCTTTCCATAATAGTTTGATTGTATCTAGTCAAAC-TCTT
* *
1044920 TCCATCTTTGTTTGATTGTATCTAGTCAAACTCTTTCATCA
65 TCCATCATTATTTGATTGTATCTAGTCAAACTCTTTCATCA
* * *
1044961 TCATTTGACTATATCTAGTCAAACTTCTTTCCATCATATTTTGATTGTATCTAGTCAAACTCTTT
1 TCATTTGACTATATCTAGTCAAACTCCTTTCCATAATAGTTTGATTGTATCTAGTCAAACTCTTT
1045026 CCATCATTATTTGATT-TATCTAGTCAAACTCTTTTCATCA
66 CCATCATTATTTGATTGTATCTAGTCAAACTC-TTTCATCA
*** * * * *
1045066 TCATTTTTTTTGTATCTGGTCAAAC-CCTTTCCATAATGGTTTGATTGTATCTGGTCAAACTCTT
1 TCA-TTTGACTATATCTAGTCAAACTCCTTTCCATAATAGTTTGATTGTATCTAGTCAAACTCTT
** ** * * * *
1045130 TTTATCATCGTTTGACTGTATCTGGTCAAACACTTCCCA-CTA
65 TCCATCATTATTTGATTGTATCTAGTCAAACTCTT-TCATC-A
* * * ** * * *
1045172 TCATTTGACTGTATCTAGTCAAACT-CTTTCCATCATAATTTGGCTATATGTGGAT-AAACTCTT
1 TCATTTGACTATATCTAGTCAAACTCCTTTCCATAATAGTTTGATTGTATCTAG-TCAAACTCTT
** * * * * *
1045235 TCCATCATCGTTTAACTGTATAC-GGCCAAACCCTTTCCATCA
65 TCCATCATTATTTGATTGTAT-CTAGTCAAACTCTTT-CATCA
* * * * * *
1045277 TCGTTTAACTATATCTGGTCAAACT-TTTTCCATCATCGTTTGA
1 TCATTTGACTATATCTAGTCAAACTCCTTTCCATAATAGTTTGA
1045320 CTGTGTTAGG
Statistics
Matches: 292, Mismatches: 52, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
101 23 0.08
102 24 0.08
103 1 0.00
104 15 0.05
105 190 0.65
106 39 0.13
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (105 bp):
TCATTTGACTATATCTAGTCAAACTCCTTTCCATAATAGTTTGATTGTATCTAGTCAAACTCTTT
CCATCATTATTTGATTGTATCTAGTCAAACTCTTTCATCA
Found at i:1045271 original size:35 final size:35
Alignment explanation
Indices: 1044879--1045323 Score: 229
Period size: 35 Copynumber: 12.8 Consensus size: 35
1044869 TATATTTAGT
* * * *
1044879 CAAACTCTTTCCATCATTGTTCAATTGTATCTAGC
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
* * * * * * * *
1044914 C---GTTTTTCCATCTTTGTTTGATTGTATCTAGT
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
* * * * *
1044946 CAAACTCTTT-CATCATCATTTGACTATATCTAGT
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
** * * * *
1044980 CAAACTTCTTTCCATCATATTTTGATTGTATCTAGT
1 CAAAC-TCTTTCCATCATCGTTTAACTGTATCTGGC
** * * * *
1045016 CAAACTCTTTCCATCATTATTTGA-TTTATCTAGT
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
* * *** *
1045050 CAAACTCTTTTCATCATCATTTTTTTTGTATCTGGT
1 CAAACTCTTTCCATCATC-GTTTAACTGTATCTGGC
* * * * * *
1045086 CAAACCCTTTCCATAATGGTTTGATTGTATCTGGT
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
** * *
1045121 CAAACTCTTTTTATCATCGTTTGACTGTATCTGGT
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
* * * * * *
1045156 CAAACACTTCCCA-CTATCATTTGACTGTATCTAGT
1 CAAACTCTTTCCATC-ATCGTTTAACTGTATCTGGC
** ** * * *
1045191 CAAACTCTTTCCATCATAATTTGGCTATATGTGGA
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
*
1045226 TAAACTCTTTCCATCATCGTTTAACTGTATAC-GGC
1 CAAACTCTTTCCATCATCGTTTAACTGTAT-CTGGC
* * *
1045261 CAAACCCTTTCCATCATCGTTTAACTATATCTGGT
1 CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
* *
1045296 CAAACTTTTTCCATCATCGTTTGACTGT
1 CAAACTCTTTCCATCATCGTTTAACTGT
1045324 GTTAGGATCT
Statistics
Matches: 329, Mismatches: 70, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
32 26 0.08
34 51 0.16
35 204 0.62
36 48 0.15
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (35 bp):
CAAACTCTTTCCATCATCGTTTAACTGTATCTGGC
Found at i:1045723 original size:13 final size:13
Alignment explanation
Indices: 1045705--1045730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1045695 TACACCAAGT
1045705 ATGTATCGATACA
1 ATGTATCGATACA
1045718 ATGTATCGATACA
1 ATGTATCGATACA
1045731 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1049812 original size:15 final size:15
Alignment explanation
Indices: 1049792--1049822 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1049782 GCAAGATGTC
*
1049792 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1049807 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1049822 C
1 C
1049823 CATACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1051911 original size:13 final size:13
Alignment explanation
Indices: 1051893--1051944 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
1051883 ACATTTTTCT
1051893 TTGTATCGATACA
1 TTGTATCGATACA
1051906 TTGTATCGATACA
1 TTGTATCGATACA
1051919 TTGTATCGATACA
1 TTGTATCGATACA
1051932 TTGTATCGATACA
1 TTGTATCGATACA
1051945 GGATGATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1052089 original size:21 final size:22
Alignment explanation
Indices: 1052065--1052105 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1052055 AAATCTTTTG
1052065 CAAAATACTT-GTTTTTCACTT
1 CAAAATACTTCGTTTTTCACTT
*
1052086 CAAATTACTTCGTTTTTCAC
1 CAAAATACTTCGTTTTTCAC
1052106 CAAAACCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (22 bp):
CAAAATACTTCGTTTTTCACTT
Found at i:1052109 original size:20 final size:20
Alignment explanation
Indices: 1052065--1052110 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1052055 AAATCTTTTG
1052065 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1052086 CAAATTACTTCGTTTTTCAC-
1 CAAAATACTT-GTTTTTCACT
1052106 CAAAA
1 CAAAA
1052111 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 9 0.41
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1054513 original size:32 final size:33
Alignment explanation
Indices: 1054471--1054534 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1054461 TAGCCAAACT
**
1054471 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
*
1054503 TGTATTGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1054535 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1056119 original size:451 final size:449
Alignment explanation
Indices: 1055269--1057280 Score: 1478
Period size: 451 Copynumber: 4.4 Consensus size: 449
1055259 TAAGCTTTCA
* * * * * *
1055269 GACTGTATCTGGTCAAAGTCTTCCTACCATCGTTTGACTATATCTGGTCAAATTCTTTCCATCAT
1 GACTGTATTTGGTCAAACTCTTCCTACCATTGTTTGACTATATCTAGTCAAACT-TTTCTATCAT
* * *
1055334 CGTTTGATTGTATTTGGTCAAACTCTTTCCACCATCGTTTGACTATATCTAGTCAAATTCTTTCC
65 TGTTTGATTGTATCTGGTCAAACTCTTTCCACCATCGTTTGACTATATCTAGTCAAACTCTTTCC
** *** * * * * ** * *
1055399 ACCATCATTTCACTATATCTAGTCAAACTCTTTCCACTATTGTTTAACTTATCTAGTCCAACTGT
130 ACCATTGTTTGGTTGTATCTAGTCAAACTCTTCCCACCATCGTTTGGCTTATCTAGTCAAACTCT
* * * ** * * *
1055464 TCCTACCATCATTTGGCTGTATTTGGTCAAACTTTTCCCACCATCGTTTAGCTGTATCTCTTCAA
195 TCCCACCATCATTTGGCTATATCTGGTCAAACACTTCCCACCATCATGTAGCTGTATCTCGTCAA
* * *
1055529 ACACTTCCTACCATCGTTTGACTATCTGATCAAACTTTTTCCACCATTGTTTGGCTGTATCTGGT
260 ACACTTCCCACCATCGTTTGACTATCTGATCAAACTCTTTCCACCATCGTTTGGCTGTATCTGGT
* * * *
1055594 CAAACTCTTCCCACCATCATTTGACAATCTGGTCAAACTCTTCCTACCATCGTTTGGCTGTATCC
325 CAAACACTTCCCACCATCATTTGACAATCTGATCAAACTCTTCCCACCATCATTTGGCTGTATCC
* * *
1055659 GGTCAAACTCTTTCCATTATCATTTT-ACTGTATATGGTTAAACTCTTTCCTTCAATGTTT
390 AGTCAAACTCTTTCCATTATC-TTTTGACTGCACATGGTTAAACTCTTTCCTTCAATGTTT
* *
1055719 GATTGTATTTGGTCAAACTCTTCCTACCATTGTTTGACTATATCTAGTTAAACTTTTCTTATCAT
1 GACTGTATTTGGTCAAACTCTTCCTACCATTGTTTGACTATATCTAGTCAAACTTTTC-TATCAT
* * * * *
1055784 TGTTTGATTGTATCTGGTCAAACTCTTTCCACTATCGTTTTATTGTATCTAGTTAAACTCTTTCC
65 TGTTTGATTGTATCTGGTCAAACTCTTTCCACCATCGTTTGACTATATCTAGTCAAACTCTTTCC
* * *
1055849 ACCATTGTTTGGTTGTATCTAGTCAAACTCTTCCCACCATCATTTGGCTATATTTGGTCAAACTC
130 ACCATTGTTTGGTTGTATCTAGTCAAACTCTTCCCACCATCGTTTGGCT-TATCTAGTCAAACTC
* * * * * *
1055914 TTCCCATCATCGTTTGGCTATATCTGGTCAAACACTTCCCATCATCATGTAGTTGTATTTGGTCA
194 TTCCCACCATCATTTGGCTATATCTGGTCAAACACTTCCCACCATCATGTAGCTGTATCTCGTCA
1055979 AACACTTCCCACCATCGTTTGACTATCTGATCAAACTCTTTCCACCATCGTTTGGCTGTATCTGG
259 AACACTTCCCACCATCGTTTGACTATCTGATCAAACTCTTTCCACCATCGTTTGGCTGTATCTGG
* * *
1056044 TCAAACACTTCCTACCATCATTTGATAATCTGATCAAACTTTTCCCACCATCATTTGGCTGTATC
324 TCAAACACTTCCCACCATCATTTGACAATCTGATCAAACTCTTCCCACCATCATTTGGCTGTATC
* * *
1056109 TAGTCAAACTCTTTCCATTATCTTTTGACTGCACCTGGTTAAACTTTTTCCTTCAATGTTT
389 CAGTCAAACTCTTTCCATTATCTTTTGACTGCACATGGTTAAACTCTTTCCTTCAATGTTT
* * * * *
1056170 GACTGTA-TTGTGTCAAACTCTTCATACCATTGTTTGACTGTATCTCGTCAAACTCTTCCTATTA
1 GACTGTATTTG-GTCAAACTCTTCCTACCATTGTTTGACTATATCTAGTCAAACT-TTTCTATCA
* ** * *
1056234 TTGTTTGATTGTATCTGGTTAAACTCTTTCCACCATTATTTGGCTATATCTAGTCAAACTCTTCC
64 TTGTTTGATTGTATCTGGTCAAACTCTTTCCACCATCGTTTGACTATATCTAGTCAAACTCTTTC
* * * *
1056299 CTCCATTGTTTGGTCGTATCTAGTCAAACTCTTCCCATCATCGTTTGGATGTATCTAGTCAAACT
129 CACCATTGTTTGGTTGTATCTAGTCAAACTCTTCCCACCATCGTTTGGCT-TATCTAGTCAAACT
* * * * * ** * * * ** *
1056364 CTTCCCACCATCATTTGGTTGTATTTAGTTAAACTTTTCCCATCATCGT-TTGTCCATATCTGGT
193 CTTCCCACCATCATTTGGCTATATCTGGTCAAACACTTCCCACCATCATGTAG-CTGTATCTCGT
* * ** * * * * * * * * *
1056428 CAAACTCTTACCACCATTATTTGACTGTGTTTGGTCGAGCTC-TTCCTATCATCATTTAGCTATA
257 CAAACACTTCCCACCATCGTTTGAC--TATCTGATCAAACTCTTTCC-ACCATCGTTTGGCTGTA
* * * * * * * * * * **
1056492 TTTGGTCAAACTCTTCCCACCATCGTTTGACTATCTAATCAAAGTCTTCCAACTATCGTTCGATT
319 TCTGGTCAAACACTTCCCACCATCATTTGACAATCTGATCAAACTCTTCCCACCATCATTTGGCT
** * * ** * * * *
1056557 GTAAT-TGGTCAAGCTCTTTCCATCAT-TGTTTGACTATATC-TGGTCAAGCTCTTTCCATCAAC
384 GT-ATCCAGTCAAACTCTTTCCATTATCT-TTTGACTGCA-CATGGTTAAACTCTTTCCTTCAAT
1056619 GTTT
446 GTTT
* * * ** * * * * * *
1056623 GACTATATCTGGTCAAA-TTTTTTTCATCATCGTTTGACTGTATGTGGCCAAACTCTTTCTATCA
1 GACTGTATTTGGTCAAACTCTTCCT-ACCATTGTTTGACTATATCTAGTCAAACT-TTTCTATCA
* * * * * * * * ** * *
1056687 TCGTTTGGTTGTATCTGGTTAAACTCTATCCATCATTGTTTAATTGCATCTGGTCAAACACTTTC
64 TTGTTTGATTGTATCTGGTCAAACTCTTTCCACCATCGTTTGACTATATCTAGTCAAACTCTTTC
* *** *** * * * * **
1056752 CATCATCAATTAACTATATCTGGTCAAACTTCTTTCCATCATCGTTTAACTATATCTAGTCAAAC
129 CACCATTGTTTGGTTGTATCTAGTCAAAC-TCTTCCCACCATCGTTTGGCT-TATCTAGTCAAAC
* ** * * * ** * * * * * ** * * * *
1056817 TTTTTGCATCATCGTCTAACTATATCTGGTTAAACTTCTTTCTATCATTGTTTAACTATATCTGG
192 TCTTCCCACCATCATTTGGCTATATCTGGTCAAAC-ACTTCCCACCATCATGTAGCTGTATCTCG
* * * * * **
1056882 TCAAACTCTTCTCACCATCGTTTAACTATATCTGGTCAAACTCTTTCCATCATCGTTTGATTGTA
256 TCAAACACTTCCCACCATCGTTTGAC--TATCTGATCAAACTCTTTCCACCATCGTTTGGCTGTA
* * * ** * ** * * * * * *
1056947 TCTGGTTAAACTCTTTCCATTATCGTTCAACTGCATCT-AGTCAAACACTTTCCATCATCAATTA
319 TCTGGTCAAACACTTCCCACCATCATTTGAC--AATCTGA-TCAAACTCTTCCCACCATCATTTG
* * ** * * * * * * **
1057011 ACTATATCTGGTCAAACTTTTTTCCATCATCGTTTGACTGTATC-TGGTCAAACTTTTTCAATC-
381 GCTGTATCCAGTCAAAC-TCTTTCCATTATCTTTTGACTGCA-CATGGTTAAACTCTTTCCTTCA
1057074 ATCGTTT
444 AT-GTTT
* * * * * * * * * * *
1057081 AACTGTATCTAGTTAAACTTCATTCC-ATCATCGTTTAACTGTATCTGGTCAAACTCTTCTCACC
1 GACTGTATTTGGTCAAAC-TC-TTCCTACCATTGTTTGACTATATCTAGTCAAACTTTTCT-ATC
* * * * * ** *
1057145 ATCGTTTGACTATATCTGGTCAAACTCTTCCCACAATCGTTTGGTTGTATCTAGTCAAACTC-TT
63 ATTGTTTGATTGTATCTGGTCAAACTCTTTCCACCATCGTTTGACTATATCTAGTCAAACTCTTT
* * * * * * **
1057209 CCAACCATCGTTTGG-TATATTTGGTCAAACTCTTCCCACTATCCATTTCACTATATCTAGTCAA
128 CC-ACCATTGTTTGGTTGTATCTAGTCAAACTCTTCCCACCAT-CGTTTGGCT-TATCTAGTCAA
1057273 ACTCTTCC
190 ACTCTTCC
1057281 TATTATTGTT
Statistics
Matches: 1248, Mismatches: 283, Indels: 54
0.79 0.18 0.03
Matches are distributed among these distances:
449 4 0.00
450 155 0.12
451 460 0.37
452 12 0.01
453 236 0.19
454 58 0.05
455 89 0.07
456 8 0.01
457 39 0.03
458 101 0.08
459 83 0.07
460 1 0.00
461 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (449 bp):
GACTGTATTTGGTCAAACTCTTCCTACCATTGTTTGACTATATCTAGTCAAACTTTTCTATCATT
GTTTGATTGTATCTGGTCAAACTCTTTCCACCATCGTTTGACTATATCTAGTCAAACTCTTTCCA
CCATTGTTTGGTTGTATCTAGTCAAACTCTTCCCACCATCGTTTGGCTTATCTAGTCAAACTCTT
CCCACCATCATTTGGCTATATCTGGTCAAACACTTCCCACCATCATGTAGCTGTATCTCGTCAAA
CACTTCCCACCATCGTTTGACTATCTGATCAAACTCTTTCCACCATCGTTTGGCTGTATCTGGTC
AAACACTTCCCACCATCATTTGACAATCTGATCAAACTCTTCCCACCATCATTTGGCTGTATCCA
GTCAAACTCTTTCCATTATCTTTTGACTGCACATGGTTAAACTCTTTCCTTCAATGTTT
Found at i:1057063 original size:247 final size:246
Alignment explanation
Indices: 1055305--1057593 Score: 1272
Period size: 247 Copynumber: 9.4 Consensus size: 246
1055295 CCATCGTTTG
* * * *
1055305 ACTATATCTGGTCAAATTCTTTCCATCATCGTTTGATTGTATTTGGTCAAACTCTTTCCACCATC
1 ACTATATCTGGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
* * * * * * *
1055370 GTTTGACTATATCTAGTCAAA-TTCTTTCCACCATCATTTCACTATATCTAGTCAAACTCTT-TC
66 GTTTAACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTTCT-
* * * * * * * * * *
1055433 CACTATTGTTTAACT-TATCTAGTCCAACT-GTTCCTACCATCATTTGGCTGTATTTGGTCAAAC
130 CACCATCGTTTGACTATATCTGGTCAAACTCTTTCC-ATCATCGTTTGGTTGTATCTGGTCAAAC
* * ** ** * ** *
1055496 T-TTTCCCACCATCGTTTAGCTGTATCTCTTCAAACAC-TTCCTACCATCGTTTG
194 TCTTT-CCATCATCGTTTAACTACATCTGGTCAAACACTTTCC-ATCATCAATTA
* * * * * * *
1055549 AC--TATCTGATCAAACTTTTTCCACCATTGTTTGGCTGTATCTGGTCAAACTCTTCCCACCATC
1 ACTATATCTGGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
* * * * ** * *
1055612 ATTTGAC-A-ATCTGGTCAAAC-TC-TTCCTACCATCGTTTGGCTGTATCCGGTCAAACTCTT-T
66 GTTTAACTATATCTGGTTAAACTTCTTTCC-ATCATCGTTTAACTATATCTGGTCAAACTCTTCT
** * * * * * * * *
1055672 CCATTATCATTTTACTGTATATGGTTAAACTCTTTCCTTCAAT-GTTTGATTGTATTTGGTCAAA
130 -CACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATC-ATCGTTTGGTTGTATCTGGTCAAA
* * * * * * * * *** *
1055736 CTC-TTCCTACCATTGTTTGACTATATCTAGTTAAAC-TTTTCTTATCATTGTTTG
193 CTCTTTCC-ATCATCGTTTAACTACATCTGGTCAAACACTTTC-CATCATCAATTA
* * * * * * *
1055790 ATTGTATCTGGTCAAACTCTTTCCA-CTATCGTTTTATTGTATCTAGTTAAACTCTTTCCACCAT
1 ACTATATCTGGTCAAACTCTTTCCATC-ATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCAT
* *** * * * * * * ** * *
1055854 TGTTTGGTTGTATCTAGTCAAAC-TCTTCCCACCATCATTTGGCTATATTTGGTCAAACTCTTCC
65 CGTTTAACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTTCT
* * * * * * * * *
1055918 CATCATCGTTTGGCTATATCTGGTCAAACACTTCCCATCATCATGTAGTTGTATTTGGTCAAACA
130 CACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATCATCGTTTGGTTGTATCTGGTCAAACT
* * * * * * ** *
1055983 CTTCCCACCATCGTTTGACT--ATCTGATCAAACTCTTTCCACCATCGTTTG
195 CTTTCCATCATCGTTTAACTACATCTGGTCAAACACTTTCCATCATCAATTA
* * * * * * * *
1056033 GCTGTATCTGGTCAAACAC-TTCCTACCATCATTTGA-T-AATCTGATCAAACT-TTTCCCACCA
1 ACTATATCTGGTCAAACTCTTTCC-ATCATCGTTTGACTGTATCTGGTCAAACTCTTT-CCATCA
* ** * * * * * * ** * * *
1056094 TCATTTGGCTGTATCTAGTCAAAC-TCTTTCCATTATCTTTTGACTGCACCTGGTTAAACT-TTT
64 TCGTTTAACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTTC
* * ** *
1056157 TC-CTTCAAT-GTTTGACTGTAT-TGTGTCAAACTC-TT-CATACCATTGTTTGACTGTATCTCG
129 TCAC--C-ATCGTTTGACTATATCTG-GTCAAACTCTTTCCAT--CATCGTTTGGTTGTATCTGG
* * * * ** * * * * * *
1056217 TCAAACTC-TTCCTATTATTGTTTGATTGTATCTGGTTAAACTCTTTCCACCATTATTTG
188 TCAAACTCTTTCC-ATCATCGTTTAACTACATCTGGTCAAACACTTTCCATCATCAATTA
* * * * * * *
1056276 GCTATATCTAGTCAAACTC-TTCCCTCCATTGTTTG-GTCGTATCTAGTCAAACTCTTCCCATCA
1 ACTATATCTGGTCAAACTCTTTCCAT-CATCGTTTGACT-GTATCTGGTCAAACTCTTTCCATCA
* * * * * * * *** * * * * *
1056339 TCGTTTGGA-TGTATCTAGTCAAAC-TCTTCCCACCATCATTTGGTTGTATTTAGTTAAACTTTT
64 TCGTTT-AACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTT
* * * * * * ** ** * * * *
1056402 CCCATCATCGTTTGTCCATATCTGGTCAAACTCTTACCACCATTATTTGACTGTGTTTGGTCGAG
128 CTCACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATCATCGTTTGGTTGTATCTGGTCAAA
* * * * * * * ** *
1056467 CTC-TTCCTATCATCATTTAGCTATATTTGGTCAAACTCTTCCCACCATCGTTTG
193 CTCTTTCC-ATCATCGTTTAACTACATCTGGTCAAACACTTTCCATCATCAATTA
** * * * * *
1056521 AC--TATCTAATCAAAGTC-TTCCAACTATCGTTCGATTGTAAT-TGGTCAAGCTCTTTCCATCA
1 ACTATATCTGGTCAAACTCTTTCCATC-ATCGTTTGACTGT-ATCTGGTCAAACTCTTTCCATCA
* * * * * * * * *
1056582 TTGTTTGACTATATCTGGTCAAGC-TCTTTCCATCAACGTTTGACTATATCTGGTCAAATTTTTT
64 TCGTTTAACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTTC
* * * * * *
1056646 TCATCATCGTTTGACTGTATGTGGCCAAACTCTTTCTATCATCGTTTGGTTGTATCTGGTTAAAC
129 TCACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATCATCGTTTGGTTGTATCTGGTCAAAC
* * * *
1056711 TCTATCCATCATTGTTTAATTGCATCTGGTCAAACACTTTCCATCATCAATTA
194 TCTTTCCATCATCGTTTAACTACATCTGGTCAAACACTTTCCATCATCAATTA
* * * * *
1056764 ACTATATCTGGTCAAACTTCTTTCCATCATCGTTTAACTATATCTAGTCAAACTTTTTGCATCAT
1 ACTATATCTGGTCAAAC-TCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCAT
* * *
1056829 CGTCTAACTATATCTGGTTAAACTTCTTTCTATCATTGTTTAACTATATCTGGTCAAACTCTTCT
65 CGTTTAACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTTCT
* * *
1056894 CACCATCGTTTAACTATATCTGGTCAAACTCTTTCCATCATCGTTTGATTGTATCTGGTTAAACT
130 CACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATCATCGTTTGGTTGTATCTGGTCAAACT
* * * *
1056959 CTTTCCATTATCGTTCAACTGCATCTAGTCAAACACTTTCCATCATCAATTA
195 CTTTCCATCATCGTTTAACTACATCTGGTCAAACACTTTCCATCATCAATTA
* * *
1057011 ACTATATCTGGTCAAACTTTTTTCCATCATCGTTTGACTGTATCTGGTCAAACTTTTTCAATCAT
1 ACTATATCTGGTCAAAC-TCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCAT
* * * *
1057076 CGTTTAACTGTATCTAGTTAAACTTCATTCCATCATCGTTTAACTGTATCTGGTCAAACTCTTCT
65 CGTTTAACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTTCT
* *
1057141 CACCATCGTTTGACTATATCTGGTCAAACTCTTCCCA-CAATCGTTTGGTTGTATCTAGTCAAAC
130 CACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATC-ATCGTTTGGTTGTATCTGGTCAAAC
* ** * * * * * *
1057205 TC-TTCCAACCATCGTTT-GGTATATTTGGTCAAACTCTTCCCA-CTATCCATTTC
194 TCTTTCC-ATCATCGTTTAACTACATCTGGTCAAACACTTTCCATC-AT-CAATTA
* * * * *
1057258 ACTATATCTAGTCAAACTC-TTCCTATTATTGTTTGGCTGTATCTAGG-CAAACTCTTCCCA-CT
1 ACTATATCTGGTCAAACTCTTTCC-ATCATCGTTTGACTGTATCT-GGTCAAACTCTTTCCATC-
** * * * *
1057320 ATCGTTTAAC--TATCTTATTAAACCCTT-TTT-CATCATCATTTGACTATATTTGGTCAAACAC
63 ATCGTTTAACTATATCTGGTTAAA--CTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTC
* * * * *
1057381 TT-TCCATCATTGTTTGACTATATCTGGTTAAACTCTTTCCATCATCGTTTGGCTATAT-TGGGT
126 TTCT-CACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATCATCGTTTGGTTGTATCT-GGT
* * * * * * *
1057444 CAAACCCTTTCCATTATCGTTTGACTATATATGGTCAAAC-CTTTTCCATCATCATTTG
189 CAAACTCTTTCCATCATCGTTTAACTACATCTGGTCAAACAC-TTTCCATCATCAATTA
* * * * * *
1057502 ACTGTATCTGGTCAAACCCTTTCCATCATCATTTTATTGTATCTAGTCAAACTCTTTCCATCATC
1 ACTATATCTGGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
* * * *
1057567 GTTTTACTGTATCTAGTCAAAC-TCTTT
66 GTTTAACTATATCTGGTTAAACTTCTTT
1057594 TTACCCTCAT
Statistics
Matches: 1611, Mismatches: 358, Indels: 152
0.76 0.17 0.07
Matches are distributed among these distances:
239 7 0.00
240 65 0.04
241 179 0.11
242 75 0.05
243 324 0.20
244 178 0.11
245 296 0.18
246 136 0.08
247 351 0.22
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (246 bp):
ACTATATCTGGTCAAACTCTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
GTTTAACTATATCTGGTTAAACTTCTTTCCATCATCGTTTAACTATATCTGGTCAAACTCTTCTC
ACCATCGTTTGACTATATCTGGTCAAACTCTTTCCATCATCGTTTGGTTGTATCTGGTCAAACTC
TTTCCATCATCGTTTAACTACATCTGGTCAAACACTTTCCATCATCAATTA
Found at i:1057593 original size:35 final size:35
Alignment explanation
Indices: 1055269--1057593 Score: 1584
Period size: 35 Copynumber: 66.7 Consensus size: 35
1055259 TAAGCTTTCA
* *
1055269 GACTGTATCTGGTCAAAGTC-TTCCTACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* *
1055304 GACTATATCTGGTCAAATTCTTTCCATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * *
1055339 GATTGTATTTGGTCAAACTCTTTCCACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * *
1055374 GACTATATCTAGTCAAATTCTTTCCACCATCATTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1055409 CACTATATCTAGTCAAACTCTTTCCA-CTATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATC-ATCGTTT
* * * * * *
1055444 AACT-TATCTAGTCCAACT-GTTCCTACCATCATTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * *
1055478 GGCTGTATTTGGTCAAACT-TTTCCCACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTT-CCATCATCGTTT
** * *
1055513 -AGCTGTATCTCTTCAAACAC-TTCCTACCATCGTTT
1 GA-CTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * * *
1055548 GAC--TATCTGATCAAACTTTTTCCACCATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1055581 GGCTGTATCTGGTCAAACTCTTCCCACCATCATTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* *
1055616 GAC--AATCTGGTCAAACTC-TTCCTACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * * *
1055649 GGCTGTATCCGGTCAAACTCTTTCCATTATCATTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1055684 TACTGTATATGGTTAAACTCTTTCCTTCAAT-GTTT
1 GACTGTATCTGGTCAAACTCTTTCCATC-ATCGTTT
* * * *
1055719 GATTGTATTTGGTCAAACTC-TTCCTACCATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * * * *
1055754 GACTATATCTAGTTAAACT-TTTCTTATCATTGTTT
1 GACTGTATCTGGTCAAACTCTTTC-CATCATCGTTT
*
1055789 GATTGTATCTGGTCAAACTCTTTCCA-CTATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATC-ATCGTTT
* * * * * *
1055824 TATTGTATCTAGTTAAACTCTTTCCACCATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
** * * * *
1055859 GGTTGTATCTAGTCAAACTCTTCCCACCATCATTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1055894 GGCTATATTTGGTCAAACTCTTCCCATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * * *
1055929 GGCTATATCTGGTCAAACACTTCCCATCATCATGT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * *
1055964 -AGTTGTATTTGGTCAAACACTTCCCACCATCGTTT
1 GA-CTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* *
1055999 GAC--TATCTGATCAAACTCTTTCCACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1056032 GGCTGTATCTGGTCAAACAC-TTCCTACCATCATTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * * *
1056067 GA-T-AATCTGATCAAACT-TTTCCCACCATCATTT
1 GACTGTATCTGGTCAAACTCTTT-CCATCATCGTTT
* * * *
1056100 GGCTGTATCTAGTCAAACTCTTTCCATTATCTTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * *
1056135 GACTGCACCTGGTTAAACTTTTTCCTTCAAT-GTTT
1 GACTGTATCTGGTCAAACTCTTTCCATC-ATCGTTT
*
1056170 GACTGTAT-TGTGTCAAACTC-TT-CATACCATTGTTT
1 GACTGTATCTG-GTCAAACTCTTTCCAT--CATCGTTT
* * *
1056205 GACTGTATCTCGTCAAACTC-TTCCTATTATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * * **
1056240 GATTGTATCTGGTTAAACTCTTTCCACCATTATTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * *
1056275 GGCTATATCTAGTCAAACTC-TTCCCTCCATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCCAT-CATCGTTT
* * *
1056310 G-GTCGTATCTAGTCAAACTCTTCCCATCATCGTTT
1 GACT-GTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1056345 GGA-TGTATCTAGTCAAACTCTTCCCACCATCATTT
1 -GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
** * * *
1056380 GGTTGTATTTAGTTAAACT-TTTCCCATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTT-CCATCATCGTTT
* ** * * **
1056415 GTCCATATCTGGTCAAACTCTTACCACCATTATTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * *
1056450 GACTGTGTTTGGTCGAGCTC-TTCCTATCATCATTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * * *
1056485 -AGCTATATTTGGTCAAACTCTTCCCACCATCGTTT
1 GA-CTGTATCTGGTCAAACTCTTTCCATCATCGTTT
** * * *
1056520 GAC--TATCTAATCAAAGTC-TTCCAACTATCGTTC
1 GACTGTATCTGGTCAAACTCTTTCCATC-ATCGTTT
* * *
1056553 GATTGTAAT-TGGTCAAGCTCTTTCCATCATTGTTT
1 GACTGT-ATCTGGTCAAACTCTTTCCATCATCGTTT
* * *
1056588 GACTATATCTGGTCAAGCTCTTTCCATCAACGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1056623 GACTATATCTGGTCAAATTTTTTTCATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * *
1056658 GACTGTATGTGGCCAAACTCTTTCTATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
** * * *
1056693 GGTTGTATCTGGTTAAACTCTATCCATCATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * **
1056728 AATTGCATCTGGTCAAACACTTTCCATCATCAATT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* *
1056763 AACTATATCTGGTCAAACTTCTTTCCATCATCGTTT
1 GACTGTATCTGGTCAAAC-TCTTTCCATCATCGTTT
* * * * * *
1056799 AACTATATCTAGTCAAACTTTTTGCATCATCGTCT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * *
1056834 AACTATATCTGGTTAAACTTCTTTCTATCATTGTTT
1 GACTGTATCTGGTCAAAC-TCTTTCCATCATCGTTT
* * *
1056870 AACTATATCTGGTCAAACTC-TTCTCACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTC-CATCATCGTTT
* *
1056905 AACTATATCTGGTCAAACTCTTTCCATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1056940 GATTGTATCTGGTTAAACTCTTTCCATTATCGTTC
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * * **
1056975 AACTGCATCTAGTCAAACACTTTCCATCATCAATT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * *
1057010 AACTATATCTGGTCAAACTTTTTTCCATCATCGTTT
1 GACTGTATCTGGTCAAAC-TCTTTCCATCATCGTTT
* *
1057046 GACTGTATCTGGTCAAACTTTTTCAATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1057081 AACTGTATCTAGTTAAACTTCATTCCATCATCGTTT
1 GACTGTATCTGGTCAAAC-TCTTTCCATCATCGTTT
* *
1057117 AACTGTATCTGGTCAAACTC-TTCTCACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTC-CATCATCGTTT
* *
1057152 GACTATATCTGGTCAAACTCTTCCCA-CAATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATC-ATCGTTT
** * *
1057187 GGTTGTATCTAGTCAAACTC-TTCCAACCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* * * * *
1057222 G-GTATATTTGGTCAAACTCTTCCCA-CTATCCATTT
1 GACTGTATCTGGTCAAACTCTTTCCATC-AT-CGTTT
* * * * *
1057257 CACTATATCTAGTCAAACTC-TTCCTATTATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCC-ATCATCGTTT
* *
1057292 GGCTGTATCTAGG-CAAACTCTTCCCA-CTATCGTTT
1 GACTGTATCT-GGTCAAACTCTTTCCATC-ATCGTTT
* ** * * * *
1057327 AAC--TATCTTATTAAACCCTTTTTCATCATCATTT
1 GACTGTATCTGGTCAAACTC-TTTCCATCATCGTTT
* * * *
1057361 GACTATATTTGGTCAAACACTTTCCATCATTGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* *
1057396 GACTATATCTGGTTAAACTCTTTCCATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * * *
1057431 GGCTATAT-TGGGTCAAACCCTTTCCATTATCGTTT
1 GACTGTATCT-GGTCAAACTCTTTCCATCATCGTTT
* * *
1057466 GACTATATATGGTCAAAC-CTTTTCCATCATCATTT
1 GACTGTATCTGGTCAAACTC-TTTCCATCATCGTTT
* *
1057501 GACTGTATCTGGTCAAACCCTTTCCATCATCATTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* * *
1057536 TATTGTATCTAGTCAAACTCTTTCCATCATCGTTT
1 GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
* *
1057571 TACTGTATCTAGTCAAACTCTTT
1 GACTGTATCTGGTCAAACTCTTT
1057594 TTACCCTCAT
Statistics
Matches: 1827, Mismatches: 372, Indels: 182
0.77 0.16 0.08
Matches are distributed among these distances:
32 8 0.00
33 135 0.07
34 104 0.06
35 1369 0.75
36 209 0.11
37 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.41
Consensus pattern (35 bp):
GACTGTATCTGGTCAAACTCTTTCCATCATCGTTT
Found at i:1057930 original size:43 final size:43
Alignment explanation
Indices: 1057881--1058191 Score: 153
Period size: 43 Copynumber: 7.4 Consensus size: 43
1057871 TCCCGGTCAA
* *
1057881 CCTTTTATCCCTTGTTTACCTATCGGTTTAGTCCTGAGTAAAT
1 CCTTTTATCCTTTGTTTACCTATCGATTTAGTCCTGAGTAAAT
* ** *
1057924 CCTTTTATCCTTTGTTGA-CTCATCGATCCAGTCCTG-GTTAA-
1 CCTTTTATCCTTTGTTTACCT-ATCGATTTAGTCCTGAGTAAAT
* * * *
1057965 CCTTTTATCCCTTATTTACCTATCGACTTAGTCC-CAGGTAAAT
1 CCTTTTATCCTTTGTTTACCTATCGATTTAGTCCTGA-GTAAAT
* * * * * *
1058008 CCTTTTTTCCTTTGTTGACTTATCAATTCA-TCCT-AGTTAA-
1 CCTTTTATCCTTTGTTTACCTATCGATTTAGTCCTGAGTAAAT
* * * * *
1058048 CTCTTTTATCTTTTATTTACCTATTAGCTTT-GTCC-CAGGTAAAT
1 C-CTTTTATCCTTTGTTTACCTA-TCGATTTAGTCCTGA-GTAAAT
* ** * * * * * *
1058092 CTTTTTATTTTTTGTTGACTTATTGGTCTAGT-CTGAGTTAA-
1 CCTTTTATCCTTTGTTTACCTATCGATTTAGTCCTGAGTAAAT
* **
1058133 CCTTTTATTCC-TTGTTTACCTGTCGGCTTAGTCCT-AGGTAAAT
1 CCTTTTA-TCCTTTGTTTACCTATCGATTTAGTCCTGA-GTAAAT
* *
1058176 CCTTCTATCCTCTGTT
1 CCTTTTATCCTTTGTT
1058192 AACTTGTCGG
Statistics
Matches: 194, Mismatches: 55, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
40 1 0.01
41 67 0.35
42 42 0.22
43 83 0.43
44 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.12, T:0.47
Consensus pattern (43 bp):
CCTTTTATCCTTTGTTTACCTATCGATTTAGTCCTGAGTAAAT
Found at i:1058010 original size:84 final size:84
Alignment explanation
Indices: 1057869--1058281 Score: 334
Period size: 84 Copynumber: 4.9 Consensus size: 84
1057859 TCGACTTGTT
* * * ** *
1057869 AGTCCCGGTCAACCTTTTATCCCTTGTTTACCTATCGGTTTAGT-CCTGAGTAAATCCTTTTATC
1 AGTCCTGGTTAACCTTTTATCCCTTATTTACCTATCGACTTAGTCCCAG-GTAAATCCTTTTATC
*
1057933 CTTTGTTGACTCATCGATCC
65 CTTTGTTGACTTATCGATCC
*
1057953 AGTCCTGGTTAACCTTTTATCCCTTATTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTTTCC
1 AGTCCTGGTTAACCTTTTATCCCTTATTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTATCC
* *
1058018 TTTGTTGACTTATCAATTC
66 TTTGTTGACTTATCGATCC
* ** * * *
1058037 A-TCCTAGTTAACTCTTTTATCTTTTATTTACCTAT-TAGCTTTGTCCCAGGTAAATCTTTTTAT
1 AGTCCTGGTTAAC-CTTTTATCCCTTATTTACCTATCGA-CTTAGTCCCAGGTAAATCCTTTTAT
** * * *
1058100 TTTTTGTTGACTTATTGGTCT
64 CCTTTGTTGACTTATCGATCC
* * * * * *
1058121 AGT-CTGAGTTAACCTTTTATTCCTTGTTTACCTGTCGGCTTAGTCCTAGGTAAATCCTTCTATC
1 AGTCCTG-GTTAACCTTTTATCCCTTATTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTATC
* * * *
1058185 CTCTGTTAACTTGTCGGTCC
65 CTTTGTTGACTTATCGATCC
* * * * * * * * * * *
1058205 AATCCCGATCAACTTTTTTATACTTTGTTTACCTGTC-AGTTTAGTCCCTA-GTAAATCATTTTA
1 AGTCCTGGTTAAC-CTTTTATCCCTTATTTACCTATCGA-CTTAGTCCC-AGGTAAATCCTTTTA
*
1058268 TCTTTTGTTGACTT
63 TCCTTTGTTGACTT
1058282 GTCGGTTCAT
Statistics
Matches: 261, Mismatches: 58, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
83 11 0.04
84 188 0.72
85 61 0.23
86 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.46
Consensus pattern (84 bp):
AGTCCTGGTTAACCTTTTATCCCTTATTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTATCC
TTTGTTGACTTATCGATCC
Found at i:1058239 original size:85 final size:85
Alignment explanation
Indices: 1058134--1058342 Score: 258
Period size: 85 Copynumber: 2.5 Consensus size: 85
1058124 CTGAGTTAAC
* * * *
1058134 CTTTTATTCCTTGTTTACCTGTCGGCTTAGTCCTAGGTAAATCCTTCTATCCTCTGTTAACTTGT
1 CTTTTATACTTTGTTTACCTGTCAGCTTAGTCCTAGGTAAATCATTCTATCCTCTGTTAACTTGT
*
1058199 CGGTCCAATCCCGATCAACT
66 CGGTCCAATCCCAATCAACT
* * * * * *
1058219 TTTTTATACTTTGTTTACCTGTCAGTTTAGTCCCTA-GTAAATCATTTTATCTTTTGTTGACTTG
1 CTTTTATACTTTGTTTACCTGTCAGCTTAGT-CCTAGGTAAATCATTCTATCCTCTGTTAACTTG
* * *
1058283 TCGGTTCATTGCCAATCAACT
65 TCGGTCCAATCCCAATCAACT
* *
1058304 CTTTTATCCTTTGTCTACCTGTCAGCTTAGTCCTAGGTA
1 CTTTTATACTTTGTTTACCTGTCAGCTTAGTCCTAGGTA
1058343 GCCCATTTCA
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
84 4 0.04
85 96 0.92
86 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (85 bp):
CTTTTATACTTTGTTTACCTGTCAGCTTAGTCCTAGGTAAATCATTCTATCCTCTGTTAACTTGT
CGGTCCAATCCCAATCAACT
Found at i:1058350 original size:85 final size:84
Alignment explanation
Indices: 1057877--1058367 Score: 275
Period size: 84 Copynumber: 5.8 Consensus size: 84
1057867 TTAGTCCCGG
* * * *
1057877 TCAAC-CTTTTATCCCTTGTTTACCTATCGGTTTAGTCCT-GAGTAAATCC-TTTTATCCTTTGT
1 TCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTAG-GTAAA-CCATTTTAT-CTTTGT
** * * ***
1057939 TGACTCATCGATCCAGTCCTGG
63 TGACTTGTCGGTCCAATCCCAA
* * * * * *
1057961 TTAAC-CTTTTATCCCTTATTTACCTATC-GACTTAGTCCCAGGTAAATCC-TTTTTTCCTTTGT
1 TCAACTCTTTTATCCTTTGTTTACCTGTCAG-CTTAGTCCTAGGTAAA-CCATTTTAT-CTTTGT
* ** * * *
1058023 TGACTTATCAATTC-ATCCTAG
63 TGACTTGTCGGTCCAATCCCAA
* * * * * * * * * *
1058044 TTAACTCTTTTATCTTTTATTTACCTATTAGCTTTGTCCCAGGTAAATCTTTTTATTTTTTGTTG
1 TCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTAGGTAAACCATTTTA-TCTTTGTTG
* * * * ** *
1058109 ACTTATTGGTCTAGTCTGAG
65 ACTTGTCGGTCCAATCCCAA
* * * *
1058129 TTAAC-CTTTTATTCC-TTGTTTACCTGTCGGCTTAGTCCTAGGTAAATCC-TTCTATCCTCTGT
1 TCAACTCTTTTA-TCCTTTGTTTACCTGTCAGCTTAGTCCTAGGTAAA-CCATTTTAT-CTTTGT
* *
1058191 TAACTTGTCGGTCCAATCCCGA
63 TGACTTGTCGGTCCAATCCCAA
* * * *
1058213 TCAACTTTTTTATACTTTGTTTACCTGTCAGTTTAGTCCCTA-GTAAATCATTTTATCTTTTGTT
1 TCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGT-CCTAGGTAAACCATTTTATC-TTTGTT
* * *
1058277 GACTTGTCGGTTCATTGCCAA
64 GACTTGTCGGTCCAATCCCAA
* ** *
1058298 TCAACTCTTTTATCCTTTGTCTACCTGTCAGCTTAGTCCTAGGTAGCCCATTTCATACTTTGTTG
1 TCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTAGGTAAACCATTTTAT-CTTTGTTG
1058363 ACTTG
65 ACTTG
1058368 ACTACTTCGT
Statistics
Matches: 324, Mismatches: 66, Indels: 33
0.77 0.16 0.08
Matches are distributed among these distances:
83 13 0.04
84 181 0.56
85 125 0.39
86 5 0.02
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (84 bp):
TCAACTCTTTTATCCTTTGTTTACCTGTCAGCTTAGTCCTAGGTAAACCATTTTATCTTTGTTGA
CTTGTCGGTCCAATCCCAA
Found at i:1060080 original size:11 final size:11
Alignment explanation
Indices: 1060041--1060071 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1060031 TAAGGATTAA
1060041 TCAAAAAATAT
1 TCAAAAAATAT
*
1060052 TCCAAAAATAT
1 TCAAAAAATAT
1060063 TCAAAAAAT
1 TCAAAAAAT
1060072 CTTGAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (11 bp):
TCAAAAAATAT
Found at i:1061878 original size:20 final size:20
Alignment explanation
Indices: 1061853--1061929 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
1061843 GTAAAAAAAC
1061853 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
** *
1061873 AAAATGTATTAATACATTCA
1 AAAATGTATCGATACATTGA
* *
1061893 TACATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
1061913 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
1061930 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:1061889 original size:51 final size:50
Alignment explanation
Indices: 1061813--1061960 Score: 163
Period size: 51 Copynumber: 3.1 Consensus size: 50
1061803 GACGTTTGGC
1061813 ATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAAAATGTATCG
1 ATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAC-AAATGTATCG
** * *
1061864 ATACATTGAAAAATGTATTAATACA--T---T---CATAC--ATGTATCG
1 ATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAAATGTATCG
*
1061904 ATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAATAGAATGTATCG
1 ATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACA-AATGTATCG
1061955 ATACAT
1 ATACAT
1061961 CTGTTGTTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
40 31 0.40
42 1 0.01
43 3 0.04
45 1 0.01
46 1 0.01
48 2 0.03
49 1 0.01
51 37 0.48
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.29
Consensus pattern (50 bp):
ATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAAATGTATCG
Found at i:1062426 original size:11 final size:10
Alignment explanation
Indices: 1062391--1062417 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1062381 AGTCCTCGTA
1062391 TTTTTTTCTT
1 TTTTTTTCTT
1062401 TTTTTTTCTT
1 TTTTTTTCTT
1062411 TTTTTTT
1 TTTTTTT
1062418 GTATTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:1065947 original size:155 final size:155
Alignment explanation
Indices: 1065486--1066080 Score: 605
Period size: 155 Copynumber: 3.9 Consensus size: 155
1065476 GCTTTCATGC
* * * * *
1065486 CAAAGGTGTACCCATAGGGGTATTTTTGTTATTTTTTTAGAATTGAGTCCTTGGTTGTCATCGGG
1 CAAAGGTAT-CCCTTAGGGGTATTTTTGTAATTTTTTTAAAATTGAGTCCTAGGTTGTCATCGGG
* * *
1065551 TTTGCTTTTATACCGAAGGTGGGTATTTAAGATAGGTTCATCCCATCTACAATCCTTTTTAATCC
65 TTTGCTTTTATGCCGAAGGTGGGTATTTAAGATAGGTTCATCCCATCTACAATCCTTTTTAGTCT
**
1065616 TTT-AGAGGTATCAAGCACCTT-TACAT
130 TTTAAG-GGTATCAAGCA-CTTCTATGT
* ** * * ** *
1065642 CAAAGGTATCCCTTAAGGAAATTTTTGTAATTTTTTTACAACTGAGTTTTAGGTTGTCATCGAGT
1 CAAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTTTAAAATTGAGTCCTAGGTTGTCATCGGGT
*** * *
1065707 CCACTTTTATGCCGAAGGTGGGTATTTATGATAGGTTCATCCTATCTACAATCCTTTTTAGT-TC
66 TTGCTTTTATGCCGAAGGTGGGTATTTAAGATAGGTTCATCCCATCTACAATCCTTTTTAGTCT-
**
1065771 TTTAAGGGTATCAAGTGCTTCTATGT
130 TTTAAGGGTATCAAGCACTTCTATGT
* * *
1065797 CAAAGGTA-ACCTATAGGGGTATTTTTGTAATTCTTTTAAAATTGAGTCCTAGGTTGTCATTGGG
1 CAAAGGTATCCCT-TAGGGGTATTTTTGTAATTTTTTTAAAATTGAGTCCTAGGTTGTCATCGGG
* * * *
1065861 TTTGCTTTTATGCC-ATAGATGGGTTTTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAGTC
65 TTTGCTTTTATGCCGA-AGGTGGGTATTTAAGATAGGTTCATCCCATCTACAATCCTTTTTAGTC
* * *
1065925 TTTTAAGGGTGTTAGGCACTTCTATGT
129 TTTTAAGGGTATCAAGCACTTCTATGT
* * ** * *
1065952 CGAAGGTATCCCTTAGGGGCATTTTCATAATTTTTTT--AATTGAGTCCTAGGTTGTCACCAGGT
1 CAAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTTTAAAATTGAGTCCTAGGTTGTCATCGGGT
* * * * * * * * * *
1066015 CTGTTTTTTTACCGAAGGTGGATAGTTCAGATAGGTT-ATACCATCTATAAT-ATTTTTAAGTCT
66 TTGCTTTTATGCCGAAGGTGGGTATTTAAGATAGGTTCATCCCATCTACAATCCTTTTT-AGTCT
1066078 TTT
130 TTT
1066081 TGGGTTATCG
Statistics
Matches: 361, Mismatches: 69, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
151 5 0.01
152 21 0.06
153 48 0.13
154 8 0.02
155 265 0.73
156 14 0.04
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (155 bp):
CAAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTTTAAAATTGAGTCCTAGGTTGTCATCGGGT
TTGCTTTTATGCCGAAGGTGGGTATTTAAGATAGGTTCATCCCATCTACAATCCTTTTTAGTCTT
TTAAGGGTATCAAGCACTTCTATGT
Found at i:1066162 original size:36 final size:36
Alignment explanation
Indices: 1066115--1066187 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
1066105 CGAAAGTATA
*
1066115 CTTTAAGGGCATTTTTATAATTTTTGAAAATCAAGT
1 CTTTAAGGGCATTTCTATAATTTTTGAAAATCAAGT
* *
1066151 CTTTAAGGGCATTTCTGTAATTTTTGAGAATCAAGT
1 CTTTAAGGGCATTTCTATAATTTTTGAAAATCAAGT
1066187 C
1 C
1066188 CTAAGTTGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.42
Consensus pattern (36 bp):
CTTTAAGGGCATTTCTATAATTTTTGAAAATCAAGT
Found at i:1067595 original size:31 final size:31
Alignment explanation
Indices: 1067550--1067690 Score: 173
Period size: 30 Copynumber: 4.6 Consensus size: 31
1067540 TTCAAATACC
*
1067550 TTCTCAAAGCCCACGACTCAATGGCATCT-T
1 TTCTCAAAGTCCACGACTCAATGGCATCTAT
*
1067580 TTCTTCAAAGTCCACGACACAATGGCATCTAT
1 TTC-TCAAAGTCCACGACTCAATGGCATCTAT
* *
1067612 TTC-CAAAGTCCACGACTCATTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAATGGCATCTAT
*
1067642 TTC-CAAAGTCCACGACTCAGTGGCATCT-T
1 TTCTCAAAGTCCACGACTCAATGGCATCTAT
* *
1067671 TTCGTCAAAGCCCACCACTC
1 TTC-TCAAAGTCCACGACTC
1067691 CGTGGCACCT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
29 4 0.04
30 54 0.55
31 37 0.37
32 4 0.04
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.27
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAATGGCATCTAT
Found at i:1067760 original size:33 final size:32
Alignment explanation
Indices: 1067646--1067857 Score: 160
Period size: 32 Copynumber: 6.7 Consensus size: 32
1067636 ATCTCTTTCC
* * * * *
1067646 AAAGTCCACGACTCAGTGGCATCTTTT-CGTC
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTT
* * * *
1067677 AAAGCCCACCACTCCGTGGCACCTATGCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTT
* * *
1067709 TAAGTCCACAACTTCGTGGCATCTTTCTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTT-TCCTTT
* * *
1067742 AAAGCCCACCACTCCGTGGCACCTGTTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTT
* * *
1067774 TAAGTCCACAACTTCGTGGCATCTTTCTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTT-TCCTTT
* * **
1067807 ACAGCCCACAACTCTGTGGCA-C-CCTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTCCTTT
* * *
1067837 TAAGTCCACAACTCTGTGGCA
1 AAAGCCCACAACTCCGTGGCA
1067858 CCTTCCCACA
Statistics
Matches: 141, Mismatches: 37, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
30 24 0.17
31 21 0.15
32 49 0.35
33 47 0.33
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (32 bp):
AAAGCCCACAACTCCGTGGCATCTTTTCCTTT
Found at i:1067760 original size:65 final size:64
Alignment explanation
Indices: 1067647--1067857 Score: 270
Period size: 65 Copynumber: 3.3 Consensus size: 64
1067637 TCTCTTTCCA
* * *
1067647 AAGTCCACGACTCAGTGGCATCTTT-T-CGTCAAAGCCCACCACTCCGTGGCACCTATGCCTTTT
1 AAGTCCACAACTCAGTGGCATCTTTCTCCTTTAAAGCCCACCACTCCGTGGCACCTAT-CCTTTT
*
1067710 AAGTCCACAACTTC-GTGGCATCTTTCTCCTTTAAAGCCCACCACTCCGTGGCACCTGTTCCTTT
1 AAGTCCACAAC-TCAGTGGCATCTTTCTCCTTTAAAGCCCACCACTCCGTGGCACCT-ATCCTTT
1067774 T
64 T
* * * *
1067775 AAGTCCACAACTTC-GTGGCATCTTTCTCCTTTACAGCCCACAACTCTGTGGCACC-CTCCTTTT
1 AAGTCCACAAC-TCAGTGGCATCTTTCTCCTTTAAAGCCCACCACTCCGTGGCACCTATCCTTTT
*
1067838 AAGTCCACAACTCTGTGGCA
1 AAGTCCACAACTCAGTGGCA
1067858 CCTTCCCACA
Statistics
Matches: 135, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
62 2 0.01
63 45 0.33
64 3 0.02
65 84 0.62
66 1 0.01
ACGTcount: A:0.20, C:0.35, G:0.15, T:0.29
Consensus pattern (64 bp):
AAGTCCACAACTCAGTGGCATCTTTCTCCTTTAAAGCCCACCACTCCGTGGCACCTATCCTTTT
Found at i:1067912 original size:34 final size:34
Alignment explanation
Indices: 1067863--1067951 Score: 160
Period size: 34 Copynumber: 2.6 Consensus size: 34
1067853 TGGCACCTTC
*
1067863 CCACAACTCCATGGCATCTTTTACCCTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTACCCTTTTAAGT
*
1067897 CCATAACTCCGTGGCATCTTTTACCCTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTACCCTTTTAAGT
1067931 CCACAACTCCGTGGCATCTTT
1 CCACAACTCCGTGGCATCTTT
1067952 CTCCTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.21, C:0.33, G:0.11, T:0.35
Consensus pattern (34 bp):
CCACAACTCCGTGGCATCTTTTACCCTTTTAAGT
Found at i:1068071 original size:49 final size:48
Alignment explanation
Indices: 1068013--1068529 Score: 625
Period size: 49 Copynumber: 10.9 Consensus size: 48
1068003 GTTGGTGGCA
1068013 TCTTCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
1 TCTT-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CT
** *
1068063 TCTTCTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCA--
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT
1068109 -C-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT
** *
1068154 TCACCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATTGGCACCT
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CT
* *
1068203 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT
*
1068249 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCATCATATTGGCACT
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT
*
1068294 T-TACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
1 TCT-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CT
* * ** *
1068343 TCTTCATTGAGTCCAATGCAGCTGGCCTTGAATCAGCACATTGGCA--
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT
*
1068389 -C--CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACAT
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC-T
* *
1068435 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--T
* * * * *
1068486 TCCATCTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTG
1 T-CTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
1068530 ACATCTTTTT
Statistics
Matches: 409, Mismatches: 35, Indels: 44
0.84 0.07 0.09
Matches are distributed among these distances:
43 113 0.28
44 1 0.00
45 3 0.01
46 1 0.00
47 1 0.00
48 81 0.20
49 162 0.40
50 6 0.01
51 2 0.00
52 39 0.10
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT
Found at i:1068269 original size:140 final size:140
Alignment explanation
Indices: 1068017--1068529 Score: 864
Period size: 140 Copynumber: 3.6 Consensus size: 140
1068007 GTGGCATCTT
*
1068017 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAACGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
1068082 AGCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1068147 TGGCACTTCA
131 TGGCACTTCA
*
1068157 CCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
1068222 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCATCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
1068287 TGGCACTTTA
131 TGGCACTTCA
* * *
1068297 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCATTGAGTCCAATGC
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
1068362 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1068427 TGGCACATTCA
131 TGGCAC-TTCA
* * * *
1068438 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CTTCTTTAAGTCCAA
*
1068503 TGTAGCTAGCCTTGAATCAGCACATTG
63 TGTAGCTGGCCTTGAATCAGCACATTG
1068530 ACATCTTTTT
Statistics
Matches: 349, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
140 265 0.76
141 46 0.13
143 2 0.01
144 36 0.10
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (140 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
TGGCACTTCA
Found at i:1068288 original size:92 final size:91
Alignment explanation
Indices: 1068155--1068529 Score: 411
Period size: 92 Copynumber: 4.0 Consensus size: 91
1068145 ATTGGCACTT
*
1068155 CACCTTTAAGTCCAATATAGCCGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCTTCTTTAAGTCCAAT
*
1068220 GTAGCTGGCCTTGAATCAGCACATTGG
65 ATAGCTGGCCTTGAATCAGCACATTGG
* *
1068247 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCATCATATTGGCACTT-TACCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCT-TCTTTAAGTCCAAT
*
1068311 ATAGCTGGCCTTGAATCAGCATATTGG
65 ATAGCTGGCCTTGAATCAGCACATTGG
** *
1068338 CACCTTCTTCATTGAGTCCAATGCAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGT
1 CACC-T-TT-A---AGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCTTCTTTAAGT
* *
1068398 CTAATATAGCTGGCCTTGAATCAGCATATTGG
60 CCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
1068430 CACATTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTT
1 --CA--C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--TT-CTTCTTT
* * *
1068495 AAGTTCAATGTAGCTAGCCTTGAATCAGCACATTG
56 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1068530 ACATCTTTTT
Statistics
Matches: 243, Mismatches: 17, Indels: 37
0.82 0.06 0.12
Matches are distributed among these distances:
90 1 0.00
91 45 0.19
92 118 0.49
93 2 0.01
94 3 0.01
95 1 0.00
96 3 0.01
97 34 0.14
98 1 0.00
99 1 0.00
101 34 0.14
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (91 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCTTCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGG
Found at i:1068515 original size:52 final size:52
Alignment explanation
Indices: 1068390--1068552 Score: 199
Period size: 52 Copynumber: 3.1 Consensus size: 52
1068380 ACATTGGCAC
* *
1068390 CTTTAAG-TCTAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-ATT-CAT
1 CTTTAAGTTC-AATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
*
1068439 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
* * * *
1068491 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTC-CAT
1068546 CTTTAAG
1 CTTTAAG
1068553 CCTAATATCG
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
49 38 0.38
50 2 0.02
51 2 0.02
52 41 0.41
53 1 0.01
54 5 0.05
55 10 0.10
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (52 bp):
CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
Found at i:1068800 original size:53 final size:52
Alignment explanation
Indices: 1068655--1068801 Score: 170
Period size: 53 Copynumber: 2.8 Consensus size: 52
1068645 CATATTGGCG
* *
1068655 TCTTCGTCATCTTTGAAACCCAATGTCATTGGCCTTGAATCAGCACATTGGCAT
1 TCTTC-TCATCTTT-AAACCCAATGTCGTTGGCCATGAATCAGCACATTGGCAT
* * * *
1068709 TCTTCTCATCTTCAAGA-CTAATGTCGCTGACCATGAATCAGCACATTGGCAT
1 TCTTCTCATCTTTAA-ACCCAATGTCGTTGGCCATGAATCAGCACATTGGCAT
* * *
1068761 TCTTTCTCATCTTTAAACCCAATATCGTTGGTCGTGAATCA
1 TC-TTCTCATCTTTAAACCCAATGTCGTTGGCCATGAATCA
1068802 ACGTATTGGT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
52 35 0.45
53 37 0.48
54 5 0.06
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (52 bp):
TCTTCTCATCTTTAAACCCAATGTCGTTGGCCATGAATCAGCACATTGGCAT
Found at i:1069429 original size:19 final size:18
Alignment explanation
Indices: 1069404--1069468 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
1069394 ATTTCAACGA
1069404 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1069422 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1069438 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1069454 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1069469 ATGTACAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1069442 original size:32 final size:32
Alignment explanation
Indices: 1069406--1069473 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
1069396 TTCAACGATT
1069406 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1069438 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1069470 TGTA
1 TGTA
1069474 CAGTTATGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1069443 original size:13 final size:13
Alignment explanation
Indices: 1069425--1069449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1069415 ACATAAGTGT
1069425 TGTATCGATACAA
1 TGTATCGATACAA
1069438 TGTATCGATACA
1 TGTATCGATACA
1069450 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1069518 original size:13 final size:13
Alignment explanation
Indices: 1069500--1069524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1069490 GCCAAGAAAA
1069500 TGTATCGATACAT
1 TGTATCGATACAT
1069513 TGTATCGATACA
1 TGTATCGATACA
1069525 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1069577 original size:52 final size:52
Alignment explanation
Indices: 1069533--1069662 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1069523 CACTGATCTT
1069533 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACACTATGAAA
* * *
1069585 TGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACACTATGAAA
1069637 TGTATCGATACATGCAGGCAAATTTT
1 TGTATCGATACATGCAGGC-AATTTT
1069663 CATATTTCGG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
52 66 0.93
53 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1073382 original size:107 final size:106
Alignment explanation
Indices: 1073091--1073393 Score: 313
Period size: 107 Copynumber: 2.8 Consensus size: 106
1073081 TCCACTCATT
** * * * * *
1073091 ATTGACTCATATGGTTTCATCCTTGTCAAC-CCTTTAACTTATTAGTTTGTATAGTTTCATCTTG
1 ATTGACTCATATGGTTTCATCCCAGTCAACTACTCTAACTTGTTAG-TTGTATGGTTTTATCTTG
* * * *
1073155 ACTGACTCTTTTTCGATTTAGGTTTTGCCTTGGTCATCCTTC
65 ACTAACTCTTTTTTGACTTAGGTTTTGCCTTGGTCACCCTTC
* ** * * * * **
1073197 GTTGACTTGTATGATTTCATCCCAGTCAACTATTCTAACTTGTTAGTGTATATGGTTTTGTCCCG
1 ATTGACTCATATGGTTTCATCCCAGTCAACTACTCTAACTTGTTAGT-TGTATGGTTTTATCTTG
*
1073262 AGC-AACTCCTTTTTGACTTAGGTTTTGCCTTGGTCACCCTTC
65 A-CTAACTCTTTTTTGACTTAGGTTTTGCCTTGGTCACCCTTC
* * * *
1073304 ATTGACTCATATGGTTTTATCCCAATCAACTGCTCTAACTTGTTGGTTCGTATGGTTTTATCTTG
1 ATTGACTCATATGGTTTCATCCCAGTCAACTACTCTAACTTGTTAGTT-GTATGGTTTTATCTTG
* *
1073369 ACTAACTTTTTTTTGACATAGGTTT
65 ACTAACTCTTTTTTGACTTAGGTTT
1073394 CACCTTAATC
Statistics
Matches: 155, Mismatches: 37, Indels: 9
0.77 0.18 0.04
Matches are distributed among these distances:
106 27 0.17
107 127 0.82
108 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (106 bp):
ATTGACTCATATGGTTTCATCCCAGTCAACTACTCTAACTTGTTAGTTGTATGGTTTTATCTTGA
CTAACTCTTTTTTGACTTAGGTTTTGCCTTGGTCACCCTTC
Found at i:1074042 original size:201 final size:202
Alignment explanation
Indices: 1073689--1074057 Score: 465
Period size: 201 Copynumber: 1.8 Consensus size: 202
1073679 TGTCTCGACT
* * * **
1073689 AACTCCTTTTTGACTTAGGTTTTGCCTTAGTCATCTTTCATTGACTCGTATGGTTTTGTCTTAGT
1 AACTCCTTTTTGACATAAGTTTTGCCTTAGTCATCTTTCATTGACTCATATGGTTTCATCTTAGT
* * * * * ** *
1073754 CAACCTCTCTATCTTGTTGTTTCATATGGTTTCATCCTGACCAATTCTTTTTCAACTTTGGTTTT
66 CAACCCCTCTAACTTGTTGGTTCATATAGTTTCATCCTGACCAACTCTTTTTCAACTTAAGTTTC
* * * * * *
1073819 GCCCTGGTCATCTTTTGTTGACTCATATGGTTTTATCCTTAACTTATTGGTTGGCATGATTTCAT
131 ACCCTAGTCACCTTTCGTTGACTCATATGATTTCATCCTTAACTTATTGGTTGGCATGATTTCAT
1073884 CTTGCCC
196 CTTGCCC
* * * *
1073891 AACTCTTTTTTGACATAAGTTTTGCCTT-GTCACTCTTT-GTTGACTCATATGGTTTCATTTTGG
1 AACTCCTTTTTGACATAAGTTTTGCCTTAGTCA-TCTTTCATTGACTCATATGGTTTCATCTTAG
*
1073954 TCAACCCCTCTAACTTGTTGGTTCATATAGTTTCATTCT-AGCCAACTCTTTTTCAACTTAAGTT
65 TCAACCCCTCTAACTTGTTGGTTCATATAGTTTCATCCTGA-CCAACTCTTTTTCAACTTAAGTT
* *
1074018 TCACCTTAGTCACCTTTCGTTGACTCGTATGATTTCATCC
129 TCACCCTAGTCACCTTTCGTTGACTCATATGATTTCATCC
1074058 CATGCAACCC
Statistics
Matches: 139, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
200 1 0.01
201 108 0.78
202 30 0.22
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (202 bp):
AACTCCTTTTTGACATAAGTTTTGCCTTAGTCATCTTTCATTGACTCATATGGTTTCATCTTAGT
CAACCCCTCTAACTTGTTGGTTCATATAGTTTCATCCTGACCAACTCTTTTTCAACTTAAGTTTC
ACCCTAGTCACCTTTCGTTGACTCATATGATTTCATCCTTAACTTATTGGTTGGCATGATTTCAT
CTTGCCC
Found at i:1074319 original size:106 final size:104
Alignment explanation
Indices: 1073930--1074530 Score: 338
Period size: 106 Copynumber: 5.7 Consensus size: 104
1073920 TCACTCTTTG
** * * * * *
1073930 TTGACTCATATGGTTTCATTTTGGTCAACCCCTCTAACTTGTTGGTTCATATAGTTTCATTCTAG
1 TTGACTCATATGGTTTCA-TCCGGTTAACCCCTTTAACTTGTTGGTT-GTATGGTTTCATCCTAG
* * * * * * *
1073995 CCAACTCTTTTTCAACTTAAGTTTCACCTTAGTCACCTTTCG
64 CTAACT-TTTTTTAACTTAGGTTTTACCCTAGTCACTTTTCA
* * ** * * * *
1074037 TTGACTCGTATGATTTCATCCCATGCAACCCCTTTAATTTGTT--TTGTAGGGTTTCATCC-CGA
1 TTGACTCATATGGTTTCATCCGGT-TAACCCCTTTAACTTGTTGGTTGTATGGTTTCATCCTAG-
* * * * *
1074099 CCAACTTCTTTTTGACTTAGGTTTTA-CCTCGGTTACTCTTT-G
64 CTAACTT-TTTTTAACTTAGGTTTTACCCT-AGTCACT-TTTCA
** * * * * * * **
1074141 TTGACTTGTATGGTTTTATCCCCGTTGA-TCTTTCTAACTTATTGGTTTGTATGGTTTTGTCCTA
1 TTGACTCATATGGTTTCAT-CCGGTTAACCCCTT-TAACTTGTTGG-TTGTATGGTTTCATCCTA
* *
1074205 GATAACTTTTTTTCAATTTAGGTTTTACCCTAGTCACTTTTCA
63 GCTAACTTTTTTT-AACTTAGGTTTTACCCTAGTCACTTTTCA
* *
1074248 TTGACTCATATGGTTTCATCCGGTTAACCCCTTTAACTTGTTAGCTTGTATGGTTTCATCCTGGC
1 TTGACTCATATGGTTTCATCCGGTTAACCCCTTTAACTTGTT-GGTTGTATGGTTTCATCCTAGC
* * * * *
1074313 TAACTTTTTTTTTACTTGGGTTTCACCCTAATGATCTTTT-A
65 TAAC-TTTTTTTAACTTAGGTTTTACCCTAGTCA-CTTTTCA
** * * *
1074354 TTGACTTGTATGGTTTCATCTTGGTCT-ACCCTTTTAACTTGTTGGTTCGTATTGTTTCATCC-A
1 TTGACTCATATGGTTTCATC-CGGT-TAACCCCTTTAACTTGTTGGTT-GTATGGTTTCATCCTA
* * * * * **
1074417 GTTAACTCTTTTTTTACTTAGATTTTGCCCTAATCACCCTTCA
63 GCTAACT-TTTTTTAACTTAGGTTTTACCCTAGTCACTTTTCA
** ** * * * *
1074460 TTGACTCATATGGTTTTGTCCACATCAACCCCTCTAACTTATTGGTTTTGTATGGTTTCGTCCTA
1 TTGACTCATATGGTTTCATCC-GGTTAACCCCTTTAACTTGTTGG--TTGTATGGTTTCATCCTA
*
1074525 ACTAAC
63 GCTAAC
1074531 CCTTTTTTGA
Statistics
Matches: 375, Mismatches: 91, Indels: 55
0.72 0.17 0.11
Matches are distributed among these distances:
103 7 0.02
104 59 0.16
105 13 0.03
106 143 0.38
107 141 0.38
108 12 0.03
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (104 bp):
TTGACTCATATGGTTTCATCCGGTTAACCCCTTTAACTTGTTGGTTGTATGGTTTCATCCTAGCT
AACTTTTTTTAACTTAGGTTTTACCCTAGTCACTTTTCA
Found at i:1074674 original size:41 final size:42
Alignment explanation
Indices: 1074563--1074707 Score: 116
Period size: 41 Copynumber: 3.5 Consensus size: 42
1074553 CCCTCACCTT
** * * * * * *
1074563 GTTGACTTATATGGTTTCATCGCA-ATCAACCCCTATAACTT
1 GTTGACTCGTATGGTTTTATCCCAGATCAACTCTTCTAACTC
* * **
1074604 GTTGACTCGAATAGTTTTAT-CTTGATCAACTCTTCTAACTC
1 GTTGACTCGTATGGTTTTATCCCAGATCAACTCTTCTAACTC
*
1074645 GTTGACTCGTATGGTTTTATCCCAG-TCAACTTTTCTAACTC
1 GTTGACTCGTATGGTTTTATCCCAGATCAACTCTTCTAACTC
** * *
1074686 GTTGGTTCATATGGTTTCATCC
1 GTTGACTCGTATGGTTTTATCC
1074708 TCACTAACCC
Statistics
Matches: 81, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 79 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (42 bp):
GTTGACTCGTATGGTTTTATCCCAGATCAACTCTTCTAACTC
Found at i:1076228 original size:6 final size:6
Alignment explanation
Indices: 1076212--1076267 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
1076202 TAATTAATTT
1076212 AAATC- AAATCA AAATCA AAATC- AAATCA AAATC- AAATCAA AAATCATA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATC-A AAATC--A
1076260 AAATCA AA
1 AAATCA AA
1076268 TAATAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
5 15 0.33
6 19 0.42
7 5 0.11
8 6 0.13
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:1076228 original size:11 final size:11
Alignment explanation
Indices: 1076212--1076253 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
1076202 TAATTAATTT
1076212 AAATC-AAATC
1 AAATCAAAATC
1076222 AAAATCAAAATC
1 -AAATCAAAATC
1076234 AAATCAAAATC
1 AAATCAAAATC
1076245 AAATCAAAA
1 AAATCAAAA
1076254 ATCATAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 25 0.83
12 5 0.17
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (11 bp):
AAATCAAAATC
Found at i:1076268 original size:5 final size:5
Alignment explanation
Indices: 1076212--1076252 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
1076202 TAATTAATTT
1076212 AAATC AAATC AAAATC AAAATC AAATC AAAATC AAATC AAA
1 AAATC AAATC -AAATC -AAATC AAATC -AAATC AAATC AAA
1076253 AATCATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 18 0.53
6 16 0.47
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (5 bp):
AAATC
Found at i:1076942 original size:21 final size:20
Alignment explanation
Indices: 1076918--1076959 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1076908 TGGCCGAGAG
*
1076918 TGTTTCATGCATTTTTACACA
1 TGTTTCAGGCATTTTTA-ACA
*
1076939 TGTTTTAGGCATTTTTAACA
1 TGTTTCAGGCATTTTTAACA
1076959 T
1 T
1076960 TTTGGGACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (20 bp):
TGTTTCAGGCATTTTTAACA
Found at i:1080665 original size:20 final size:19
Alignment explanation
Indices: 1080642--1080745 Score: 55
Period size: 20 Copynumber: 5.2 Consensus size: 19
1080632 GATGTATTGG
1080642 TACATTAAAAAATGTATCGA
1 TACATT-AAAAATGTATCGA
**** *
1080662 TACAATTTCTTATGCATCGA
1 TAC-ATTAAAAATGTATCGA
* *
1080682 TACAATGAGAAATGTATCGA
1 TAC-ATTAAAAATGTATCGA
****
1080702 TACAATTTCTTATGTATCGA
1 TAC-ATTAAAAATGTATCGA
*
1080722 TACACTAAAAAATGTATCGA
1 TACA-TTAAAAATGTATCGA
1080742 TACA
1 TACA
1080746 ATTTCCTTCT
Statistics
Matches: 61, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
19 1 0.02
20 57 0.93
21 3 0.05
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
TACATTAAAAATGTATCGA
Found at i:1080695 original size:40 final size:40
Alignment explanation
Indices: 1080642--1080750 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
1080632 GATGTATTGG
*
1080642 TACATTAAAAAATGTATCGATACAATTTCTTATGCATCGA
1 TACAATAAAAAATGTATCGATACAATTTCTTATGCATCGA
* * *
1080682 TACAATGAGAAATGTATCGATACAATTTCTTATGTATCGA
1 TACAATAAAAAATGTATCGATACAATTTCTTATGCATCGA
*
1080722 TACACTAAAAAATGTATCGATACAATTTC
1 TACAATAAAAAATGTATCGATACAATTTC
1080751 CTTCTAGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (40 bp):
TACAATAAAAAATGTATCGATACAATTTCTTATGCATCGA
Found at i:1081620 original size:61 final size:60
Alignment explanation
Indices: 1081555--1081840 Score: 183
Period size: 52 Copynumber: 5.0 Consensus size: 60
1081545 AACAATATCG
* *
1081555 GGCTTGAAGATAAGAAGAATGATAAAAGTGCCAATATACTAATTCAAGGCTAGCGATATTT
1 GGCTTGAAGAT-AGAAGAATGATAAAGGTGCCAATATACTAATTCAAGGCTAGCGATATTA
* * *
1081616 GGC-T-----TA-AAG-ATGACAAAGGAGCCAATATACTAATTCAAGGCTAGCGACATTA
1 GGCTTGAAGATAGAAGAATGATAAAGGTGCCAATATACTAATTCAAGGCTAGCGATATTA
* * * ** * * * *
1081668 GACTTGAAGATGAGAAAAATGATAAAGGTACTGATATGCTGATTCAAGGCCAGCGATATTG
1 GGCTTGAAGAT-AGAAGAATGATAAAGGTGCCAATATACTAATTCAAGGCTAGCGATATTA
* * * * * * * * *
1081729 GGC-T-----TA-AAG-ATGACAAAGGTGCCAATGTGCTGATTTAAGGCCAACAACATT-
1 GGCTTGAAGATAGAAGAATGATAAAGGTGCCAATATACTAATTCAAGGCTAGCGATATTA
* * *
1081780 GGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATT
1 GG-CTTGAAGAT-AGAAGAATGATAAAGGTGCCAATATACTAATTCAAGGCTAGCGATATT
1081841 GGACATAAAG
Statistics
Matches: 172, Mismatches: 34, Indels: 38
0.70 0.14 0.16
Matches are distributed among these distances:
51 2 0.01
52 74 0.43
53 7 0.04
54 2 0.01
55 2 0.01
58 2 0.01
59 2 0.01
60 7 0.04
61 74 0.43
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (60 bp):
GGCTTGAAGATAGAAGAATGATAAAGGTGCCAATATACTAATTCAAGGCTAGCGATATTA
Found at i:1081733 original size:113 final size:113
Alignment explanation
Indices: 1081557--1082063 Score: 559
Period size: 113 Copynumber: 4.6 Consensus size: 113
1081547 CAATATCGGG
* * * * *
1081557 CTTGAAGATAAGAAGAATGATAAAAGTGCCAATATACTAATTCAAGGCTAGCGATATTTGGCTTA
1 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
* * * * *
1081622 AAGATGACAAAGGAGCCAATATACTAATTCAAGGCTAGCGACATTAGA
66 AAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAACGACATTGGA
* * ** *
1081670 CTTGAAGATGAGAAAAATGATAAAGGTACTGATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
* * * *
1081735 AAGATGACAAAGGTGCCAATGTGCTGATTTAAGGCCAACAACATTGGA
66 AAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAACGACATTGGA
* * *
1081783 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGACATA
1 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
* * *
1081848 AAGATGACAAA-GATGCCAGTATGCTGATTCAAGGCCAATGATATTGGA
66 AAGATGACAAAGGA-GCCAATATGCTGATTCAAGGCCAACGACATTGGA
* * * * ** * * *
1081896 CATAAAGATGCGAAGGATGAT-AAGGTGCTGATATGCTAATTCAAGGCTAGCGATATTAGGTTTA
1 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
* * *
1081960 AAGATGACAAAGGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGA
66 AAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAACGACATTGGA
* * * *
1082008 CTT--A-A-GA-AAG-A-G--AAAGGTGCCAATATGCTGATTTAAGGCCAGCGACATTGGACTTA
1 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
1082064 GAAAGAAATG
Statistics
Matches: 328, Mismatches: 63, Indels: 15
0.81 0.16 0.04
Matches are distributed among these distances:
104 34 0.10
105 1 0.00
106 1 0.00
107 3 0.01
108 1 0.00
109 1 0.00
110 1 0.00
112 78 0.24
113 208 0.63
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (113 bp):
CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
AAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAACGACATTGGA
Found at i:1081769 original size:52 final size:52
Alignment explanation
Indices: 1081701--1082063 Score: 280
Period size: 52 Copynumber: 6.7 Consensus size: 52
1081691 AAAGGTACTG
*
1081701 ATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGACAAAGGTGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCA
* * * * * *
1081753 ATGTGCTGATTTAAGGCCAACAACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-A-AAG-ATGACAAAGGTGCCA
* * * *
1081814 ATATGCTAATTCAAGGCCAGCAATATTGGACATAAAGATGACAAAGATGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCA
* ** * * **
1081866 GTATGCTGATTCAAGGCCAATGATATTGGACATAAAGATGCGAAGGATGATAAGGTGCTG
1 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT------GA-CA-AAGGTGCCA
* * * *
1081926 ATATGCTAATTCAAGGCTAGCGATATTAGG-TTTAAAGATGACAAAGGTGCTA
1 ATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGACAAAGGTGCCA
* * * * *
1081978 ATGTGCTGATTCAAGGCCAACGACATTGGACTT-AAGAAAGAGAAAGGTGCCA
1 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-ATGACAAAGGTGCCA
* *
1082030 ATATGCTGATTTAAGGCCAGCGACATTGGACTTA
1 ATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1082064 GAAAGAAATG
Statistics
Matches: 245, Mismatches: 45, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
51 5 0.02
52 146 0.60
53 5 0.02
54 3 0.01
55 1 0.00
58 3 0.01
59 2 0.01
60 38 0.16
61 42 0.17
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (52 bp):
ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCA
Found at i:1081816 original size:226 final size:225
Alignment explanation
Indices: 1081543--1082018 Score: 627
Period size: 226 Copynumber: 2.1 Consensus size: 225
1081533 AAATTCACGA
* * * *
1081543 CCAACAATATCGGGCTTGAAGATAAGAAGAATGATAAAAGTGCCAATATACTAATTCAAGGCTAG
1 CCAACAACATTGGACTTGAAGATAAGAAGAATGATAAAAGTGCCAATATACTAATTCAAGGCCAG
* * * *
1081608 CGATATTTGG-CTTAAAGATGACAAAGGA-GCCAATATACTAATTCAAGGCTAGCGACATTAGAC
66 CAATA-TTGGACATAAAGATGACAAA-GATGCCAATATACTAATTCAAGGCCAACGACATTAGAC
* * * *
1081671 TTGAAGATGAGAAAAATGATAAAGGTACTGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
129 ATAAAGATGAGAAAAATGAT-AAGGTACTGATATGCTAATTCAAGGCCAGCGATATTAGGCTTAA
*
1081736 AGATGACAAAGGTGCCAATGTGCTGATTTAAGG
193 AGATGACAAAGGTGCCAATGTGCTGATTCAAGG
* * *
1081769 CCAACAACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAG
1 CCAACAACATTGGACTTGAAGATAAGAAGAATGATAAAAGTGCCAATATACTAATTCAAGGCCAG
* * * * * *
1081834 CAATATTGGACATAAAGATGACAAAGATGCCAGTATGCTGATTCAAGGCCAATGATATTGGACAT
66 CAATATTGGACATAAAGATGACAAAGATGCCAATATACTAATTCAAGGCCAACGACATTAGACAT
* ** * * *
1081899 AAAGATGCGAAGGATGATAAGGTGCTGATATGCTAATTCAAGGCTAGCGATATTAGGTTTAAAGA
131 AAAGATGAGAAAAATGATAAGGTACTGATATGCTAATTCAAGGCCAGCGATATTAGGCTTAAAGA
*
1081964 TGACAAAGGTGCTAATGTGCTGATTCAAGG
196 TGACAAAGGTGCCAATGTGCTGATTCAAGG
*
1081994 CCAACGACATTGGACTT-AAGA-AAGA
1 CCAACAACATTGGACTTGAAGATAAGA
1082019 GAAAGGTGCC
Statistics
Matches: 217, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
223 3 0.01
224 4 0.02
225 92 0.42
226 118 0.54
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (225 bp):
CCAACAACATTGGACTTGAAGATAAGAAGAATGATAAAAGTGCCAATATACTAATTCAAGGCCAG
CAATATTGGACATAAAGATGACAAAGATGCCAATATACTAATTCAAGGCCAACGACATTAGACAT
AAAGATGAGAAAAATGATAAGGTACTGATATGCTAATTCAAGGCCAGCGATATTAGGCTTAAAGA
TGACAAAGGTGCCAATGTGCTGATTCAAGG
Done.