Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 37 of 297
Found at i:13088295 original size:46 final size:46
Alignment explanation
Indices: 13088236--13088420 Score: 210
Period size: 46 Copynumber: 4.0 Consensus size: 46
13088226 TCACTGGGAT
*
13088236 ATTTGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
* *** *
13088282 ATTTGAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGT
1 ATTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGG
** *
13088329 AACT-AGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATTTGA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
** * ** *
13088375 ATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13088421 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
46 79 0.68
47 37 0.32
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
ATTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
Found at i:13088360 original size:47 final size:45
Alignment explanation
Indices: 13088241--13088368 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 45
13088231 GGGATATTTG
** * * *
13088241 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGAACTA
* *
13088286 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 G-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACAGATG-AACTA
*
13088334 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
13088369 TTATGGATGC
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 32 0.46
47 34 0.49
48 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGAACTA
Found at i:13088400 original size:93 final size:93
Alignment explanation
Indices: 13088241--13088412 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
13088231 GGGATATTTG
** * *
13088241 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTTGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13088306 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
13088334 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13088399 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13088413 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:13091409 original size:14 final size:15
Alignment explanation
Indices: 13091360--13091409 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
13091350 GTATCTCGGG
13091360 TTTCTTTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
13091375 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
13091390 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
13091404 TTTCTT
1 TTTCTT
13091410 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.26
15 21 0.68
16 2 0.06
ACGTcount: A:0.10, C:0.16, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:13093849 original size:46 final size:45
Alignment explanation
Indices: 13093796--13093971 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
13093786 TATTTGGGCA
13093796 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
13093842 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
13093889 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
13093935 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13093972 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:13093951 original size:93 final size:93
Alignment explanation
Indices: 13093792--13093963 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13093782 AGGATATTTG
* *
13093792 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13093857 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
13093885 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13093950 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13093964 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:13096449 original size:17 final size:17
Alignment explanation
Indices: 13096427--13096463 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13096417 CTTAGGCGGA
13096427 TTCCAACCCAGAACAGC
1 TTCCAACCCAGAACAGC
13096444 TTCCAACCCAGAACAGC
1 TTCCAACCCAGAACAGC
13096461 TTC
1 TTC
13096464 AATTTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.41, G:0.11, T:0.16
Consensus pattern (17 bp):
TTCCAACCCAGAACAGC
Found at i:13100266 original size:262 final size:258
Alignment explanation
Indices: 13099801--13100321 Score: 873
Period size: 262 Copynumber: 2.0 Consensus size: 258
13099791 TGCATAGAAA
* * *
13099801 ATAGAAGGGTGAGTTTGTGAAAACTCAGTGTGTAATCCCTTAACAACAATCAGTCATATAGTAGG
1 ATAGAAGGGTGAGTTTGCGAAAACTCAATGTGTAATCCCTTAACAACAATCAGTCATACAGTAGG
* *
13099866 CATTTATAGTCTAGGCCTAAGCCCGCTTCAGTATCAGTTTAATTTCAGTTAGGGCCTTAGCCCAT
66 CATTTATAGTCTAGGCCTAAGCCCACTTCAGTAACAGTTTAATTTCAGTTAGGGCCTTAGCCCAT
* *
13099931 TACAGTAGCAGACACAGTACATATATGTAATCGAAAATCCTACCCAAGCAGCCTCTACACACAAC
131 TACAGTAGCAGACACAGTACATATATGTAATCAAAAATCCTACCCAACCAGCCTCTACACACAAC
13099996 TCTGTCCAGCCCTACACACCATGTGGGGATAAAATCAACCCA-CCTATCCCTACACACTAGAAAT
196 TCTGTCCAGCCCT--ACA-CA-GTGGGGATAAAATCAACCCATCC-ATCCCTACACACTAGAAAT
13100060 AGC
256 AGC
*
13100063 ATAGAAGGGTGAGTTTGCGAAAACTCAATGTGTAATCCTTTAACAACAATCAGTCATACAGTAGG
1 ATAGAAGGGTGAGTTTGCGAAAACTCAATGTGTAATCCCTTAACAACAATCAGTCATACAGTAGG
* * *
13100128 CATTTATAGTCTAGGCCTAAGCCTACTTCAGTAACAGTTTAATTTTAGTTAGGGCCTTAGCTCAT
66 CATTTATAGTCTAGGCCTAAGCCCACTTCAGTAACAGTTTAATTTCAGTTAGGGCCTTAGCCCAT
* *
13100193 TACAGTAGCAGATAGAGTACATATATGTAATCAAAAATCCTACCCAACCAGCCTCTACACACAAC
131 TACAGTAGCAGACACAGTACATATATGTAATCAAAAATCCTACCCAACCAGCCTCTACACACAAC
13100258 TCTGTCCAGCCCTACACAGTGGGGATAAAATCAACCCATCCATCCCTACACACTAGAAATAGC
196 TCTGTCCAGCCCTACACAGTGGGGATAAAATCAACCCATCCATCCCTACACACTAGAAATAGC
13100321 A
1 A
13100322 CCGGTTGTGG
Statistics
Matches: 245, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
258 43 0.18
259 4 0.02
260 3 0.01
262 195 0.80
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (258 bp):
ATAGAAGGGTGAGTTTGCGAAAACTCAATGTGTAATCCCTTAACAACAATCAGTCATACAGTAGG
CATTTATAGTCTAGGCCTAAGCCCACTTCAGTAACAGTTTAATTTCAGTTAGGGCCTTAGCCCAT
TACAGTAGCAGACACAGTACATATATGTAATCAAAAATCCTACCCAACCAGCCTCTACACACAAC
TCTGTCCAGCCCTACACAGTGGGGATAAAATCAACCCATCCATCCCTACACACTAGAAATAGC
Found at i:13102529 original size:38 final size:38
Alignment explanation
Indices: 13102435--13102529 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 38
13102425 AAGTTGTTTT
*
13102435 TAATA-TTTTAATAAAATAAACGTTCTTTTAAATTAGC
1 TAATATTTTTAATAAAATAAACGTTATTTTAAATTAGC
* * * * *
13102472 CAATATTTTTTATTAAAATAAATGTTATTTTGAA-TACGG
1 TAATA-TTTTTAATAAAATAAACGTTATTTTAAATTA-GC
13102511 TAATATTTTTAATAAAATA
1 TAATATTTTTAATAAAATA
13102530 TAAATAATGC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
37 4 0.09
38 15 0.32
39 28 0.60
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.45
Consensus pattern (38 bp):
TAATATTTTTAATAAAATAAACGTTATTTTAAATTAGC
Found at i:13105797 original size:127 final size:125
Alignment explanation
Indices: 13105572--13105823 Score: 364
Period size: 127 Copynumber: 2.0 Consensus size: 125
13105562 GTAACTATTA
* **
13105572 TAGCAAAAGAGCGTCCATGTGGGAGTTTTTTCCATAATTTTGCTGACAATGCATCCTCCTTGAAG
1 TAGCAAAAGAGCGTCCACGTAAGAGTTTTTTCCATAATTTTGCTGACAATGCATCCTCCTTGAAG
* *
13105637 CGTTTTGGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT-T-TAGATACTACTG
66 CGTTTTGGACACTATTTATTCAGAAACACCTTCTCAAAATTATTTTCTCTA-ATACTACTG
* * *
13105696 TAGCAAAAGAGCGTCCACGTAAGAGTTTTTTTTTCCGTAATTTTGCTGTCAATGCATCCTGCTTG
1 TAGCAAAAGAGCGTCCACGTAAGAG---TTTTTTCCATAATTTTGCTGACAATGCATCCTCCTTG
* *
13105761 AAGCGTTTTTGACACTATTTATTCAGAAACGCCTTCTCAAAATTATTTTCTCTAATACTACTG
63 AAGCGTTTTGGACACTATTTATTCAGAAACACCTTCTCAAAATTATTTTCTCTAATACTACTG
13105824 CAGTAAAAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
124 22 0.19
127 79 0.70
128 10 0.09
129 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (125 bp):
TAGCAAAAGAGCGTCCACGTAAGAGTTTTTTCCATAATTTTGCTGACAATGCATCCTCCTTGAAG
CGTTTTGGACACTATTTATTCAGAAACACCTTCTCAAAATTATTTTCTCTAATACTACTG
Found at i:13105965 original size:65 final size:65
Alignment explanation
Indices: 13105843--13106016 Score: 235
Period size: 65 Copynumber: 2.7 Consensus size: 65
13105833 AAATTTATAT
** **
13105843 ATTAATTTTTTTAAAATTAATAGTTAATTTAATTAATTAACATTAATTACCCAAAACCCTAATTT
1 ATTAA-TTTTTTAAAATTAATAGTTAATTTAATTAATTAACCCTAAAAACCCAAAACCCTAATTT
13105908 A
65 A
* * * *
13105909 ATTAATTCTTTT-AAATTAATAATTAATTTAATTAATAAACCCTAAAAATCCTAAACCCTAATTT
1 ATTAATT-TTTTAAAATTAATAGTTAATTTAATTAATTAACCCTAAAAACCCAAAACCCTAATTT
13105973 A
65 A
13105974 ATT-ATTTTTTAAAAATTAATAGTTAATTTAATTAATTAACCCT
1 ATTAATTTTTT-AAAATTAATAGTTAATTTAATTAATTAACCCT
13106017 CAACCCTAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
63 4 0.04
64 3 0.03
65 79 0.83
66 9 0.09
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.44
Consensus pattern (65 bp):
ATTAATTTTTTAAAATTAATAGTTAATTTAATTAATTAACCCTAAAAACCCAAAACCCTAATTTA
Found at i:13106073 original size:16 final size:15
Alignment explanation
Indices: 13106052--13106092 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
13106042 CTTAAAAATA
13106052 TTAAAACCCTAAACTC
1 TTAAAACCCTAAAC-C
13106068 TTAAAACCCTAAACC
1 TTAAAACCCTAAACC
13106083 -T-AAACCCTAA
1 TTAAAACCCTAA
13106093 TCCTAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.36
14 1 0.04
15 1 0.04
16 14 0.56
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (15 bp):
TTAAAACCCTAAACC
Found at i:13106089 original size:13 final size:13
Alignment explanation
Indices: 13106055--13106101 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
13106045 AAAAATATTA
13106055 AAACCCTAAACTCTT
1 AAACCCTAAAC-C-T
13106070 AAAACCCTAAACCT
1 -AAACCCTAAACCT
*
13106084 AAACCCTAATCCT
1 AAACCCTAAACCT
13106097 AAACC
1 AAACC
13106102 AATCAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 17 0.57
14 1 0.03
15 1 0.03
16 11 0.37
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:13109269 original size:48 final size:47
Alignment explanation
Indices: 13109198--13109358 Score: 161
Period size: 44 Copynumber: 3.5 Consensus size: 47
13109188 AGCTAACGCT
* *
13109198 ATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTG-ATATCACGAGGCCGATGC
* * *
13109246 ATGTCCCAGACATGTTTTACACTAGCTTG-TCTCA--ATGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTGATATCACGAGGCCGATGC
* * * * * *
13109290 ATGTCCCAGGCATGTCTAACAATGGCTCTCATA--ACGTGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCT-TGATATCACGAGGCCGATGC
*
13109336 ATGTCCCAGACATGTATTACACT
1 ATGTCCCAGACATGTCTTACACT
13109359 GGCTCACATA
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
44 32 0.35
45 1 0.01
46 31 0.34
48 27 0.30
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCTTGATATCACGAGGCCGATGC
Found at i:13116921 original size:49 final size:48
Alignment explanation
Indices: 13116860--13117023 Score: 144
Period size: 49 Copynumber: 3.5 Consensus size: 48
13116850 GTTGATGCCC
13116860 TGTCCCAAACAGGTCTTACACTGACTTTCATATATCAAGGCTAATTCCA
1 TGTCCCAAACAGGTCTTACACTGAC-TTCATATATCAAGGCTAATTCCA
* * * * *
13116909 TGTCCCAGACAGGTCTTACAATGTCTCTCATGTATC-AGTG-TCGATGT-CA
1 TGTCCCAAACAGGTCTTACACTGACT-TCATATATCAAG-GCT-AAT-TCCA
* * *
13116958 TGTCCCAAACAGGTCTTACACTGAC-ACACA-A-CAA-GCTAATGCCA
1 TGTCCCAAACAGGTCTTACACTGACTTCATATATCAAGGCTAATTCCA
* *
13117002 TGTCCCAGACAGGTTTTACACT
1 TGTCCCAAACAGGTCTTACACT
13117024 AGCTTGTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
44 25 0.27
45 2 0.02
46 2 0.02
47 2 0.02
48 4 0.04
49 57 0.61
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (48 bp):
TGTCCCAAACAGGTCTTACACTGACTTCATATATCAAGGCTAATTCCA
Found at i:13118906 original size:36 final size:36
Alignment explanation
Indices: 13118857--13118929 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
13118847 TCAGAGTCTA
13118857 TATATATACACCTGATGATCTCTAACTGATTAGACC
1 TATATATACACCTGATGATCTCTAACTGATTAGACC
*
13118893 TATATATATACCTGATGATCTCTAACTGATTAGACC
1 TATATATACACCTGATGATCTCTAACTGATTAGACC
13118929 T
1 T
13118930 CTGATATGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (36 bp):
TATATATACACCTGATGATCTCTAACTGATTAGACC
Found at i:13131038 original size:25 final size:25
Alignment explanation
Indices: 13131009--13131059 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
13130999 TTTATGGTAG
13131009 AAAATGAAAGTTTATTCATAGATAA
1 AAAATGAAAGTTTATTCATAGATAA
13131034 AAAATGAAAGTTTATTCATAGATAA
1 AAAATGAAAGTTTATTCATAGATAA
13131059 A
1 A
13131060 TAACTTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (25 bp):
AAAATGAAAGTTTATTCATAGATAA
Found at i:13134446 original size:54 final size:54
Alignment explanation
Indices: 13134374--13134663 Score: 355
Period size: 54 Copynumber: 5.4 Consensus size: 54
13134364 TACTAAAATG
* * *** * *
13134374 CCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA
* * *
13134428 CCCTCGATTGATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA
** ***
13134482 CCCTTTATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA
* *
13134536 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA
* * * ** *
13134590 CCCTCGATTTACAAAATTATCGTTTTACCCTTAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA
**
13134644 CCCTCGATTTCCAAAATTAC
1 CCCTCGATTTATAAAATTAC
13134664 TAAAATACCA
Statistics
Matches: 203, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 203 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (54 bp):
CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA
Found at i:13134663 original size:27 final size:27
Alignment explanation
Indices: 13134399--13134653 Score: 339
Period size: 27 Copynumber: 9.4 Consensus size: 27
13134389 ATTACCAAAG
*
13134399 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
13134426 TACCCTCGATTGATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
13134453 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
** *
13134480 TACCCTTTATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
**
13134507 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTT
13134534 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
13134561 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
13134588 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
** * *
13134615 TACCCTTAATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
13134642 TACCCTCGATTT
1 TACCCTCGATTT
13134654 CCAAAATTAC
Statistics
Matches: 203, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 203 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:13134672 original size:27 final size:27
Alignment explanation
Indices: 13134354--13134755 Score: 142
Period size: 27 Copynumber: 14.9 Consensus size: 27
13134344 AATACTTTAG
* * * *
13134354 TTTACCAAATTACTAAAATGCCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
13134381 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
13134408 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * ***
13134435 TTGATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* **** **
13134462 TTTATAAAATTACCGTTTTACCCTTTA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
13134489 TTTATAAAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ** ***
13134516 TTTATAGAATTATTATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ***
13134543 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * ****
13134570 TTTATAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* **** **
13134597 TTTACAAAATTATCGTTTTACCCTTAA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
13134624 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * * *
13134651 TTTCCAAAATTACTAAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTCGA
13134678 TTTACAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ** *
13134705 -TCAGTTAAATTACCAAAATACCCT-TA
1 TTTA-CAAAATTACCAAAATACCCTCGA
**
13134731 GTTTGTAAAATTACCAAAATACCCT
1 -TTTACAAAATTACCAAAATACCCT
13134756 TTGCTAGTTA
Statistics
Matches: 312, Mismatches: 60, Indels: 6
0.83 0.16 0.02
Matches are distributed among these distances:
26 3 0.01
27 308 0.99
28 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:13135981 original size:42 final size:42
Alignment explanation
Indices: 13135875--13135988 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
13135865 AGTACTGTAT
* ** ** * *
13135875 CAATGCCATATCCCGGATATGGAATTATATGAAATATTATAT
1 CAATGCCATATCCCAGATATGGTCTTATACAAAATATCATAC
* * * *
13135917 CAACGCCATCTCCCTGACATGGTCTTATACAAAATCA-CATAC
1 CAATGCCATATCCCAGATATGGTCTTATACAAAAT-ATCATAC
13135959 CAATGCCATATCCCAGATATGGTCTTATAC
1 CAATGCCATATCCCAGATATGGTCTTATAC
13135989 GGAATCTCGG
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTATACAAAATATCATAC
Found at i:13139530 original size:36 final size:37
Alignment explanation
Indices: 13139490--13139573 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
13139480 CAAAATCCAA
13139490 CTATGGTCTTAC-TCAT-ATCACAATGCCATAGCCCAG
1 CTATGGTCTTACAT-ATCATCACAATGCCATAGCCCAG
* * * *
13139526 CTATGGTCTTACATGTCGTCACGATGTCATAGCCCAG
1 CTATGGTCTTACATATCATCACAATGCCATAGCCCAG
13139563 CTATGGTCTTA
1 CTATGGTCTTA
13139574 GACGAAGTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.31
37 29 0.69
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (37 bp):
CTATGGTCTTACATATCATCACAATGCCATAGCCCAG
Found at i:13139637 original size:42 final size:42
Alignment explanation
Indices: 13139547--13139680 Score: 108
Period size: 42 Copynumber: 3.2 Consensus size: 42
13139537 CATGTCGTCA
* * * * * * *
13139547 CGATGTCATAGCCCAG-CTATGGTCTTAGACGAAGTCTCATAT
1 CGATGCCATATCCCAGAC-ATGGTCTTACACAAAATCACATAC
* * * *
13139589 CAATGCCATGTCCTAGACATGGTCTTACACAAAATCACATGC
1 CGATGCCATATCCCAGACATGGTCTTACACAAAATCACATAC
* * * * *
13139631 CGATGCCATATCCCAGATATGGTCTTATACGAGATCACATAT
1 CGATGCCATATCCCAGACATGGTCTTACACAAAATCACATAC
13139673 CGATGCCA
1 CGATGCCA
13139681 ATGCCATGTC
Statistics
Matches: 71, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
42 70 0.99
43 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
CGATGCCATATCCCAGACATGGTCTTACACAAAATCACATAC
Found at i:13139685 original size:48 final size:48
Alignment explanation
Indices: 13139627--13139814 Score: 261
Period size: 48 Copynumber: 3.9 Consensus size: 48
13139617 ACAAAATCAC
* * * *
13139627 ATGCCGATGCCATATCCCAGATATGGTCTTATACGAGATCACATATCG
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
* * *
13139675 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATTC-
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATA-TCG
* * *
13139723 ATGCCAATGCCATATCCTAGATATGGTCTCACATGGGATCACATATTG
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
*
13139771 ATGCCAATGCCATATCCTAGATATGGTCTTACATGGGATCACAT
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAT
13139815 CTATTGCCAT
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 121 0.98
49 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
Found at i:13139717 original size:90 final size:90
Alignment explanation
Indices: 13139589--13139814 Score: 263
Period size: 96 Copynumber: 2.4 Consensus size: 90
13139579 AGTCTCATAT
**** *
13139589 CAATGCCATGTCCTAGACATGGTCTTACACAAAATCACATGCCGATGCCATATCCCAGATATGGT
1 CAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATGCCAATGCCATATCCCAGATATGGT
* *
13139654 CTTATACGAGATCACATATCGATGC
66 CTCACACGAGATCACATATCGATGC
* * *
13139679 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATTCATGCCAATGCCATATCCTAGA
1 CAATGCCATGTCCTAGACATGGTCTTACATGGGAT--C--A--CATGCCAATGCCATATCCCAGA
* * *
13139744 TATGGTCTCACATGGGATCACATATTGATGC
60 TATGGTCTCACACGAGATCACATATCGATGC
* *
13139775 CAATGCCATATCCTAGATATGGTCTTACATGGGATCACAT
1 CAATGCCATGTCCTAGACATGGTCTTACATGGGATCACAT
13139815 CTATTGCCAT
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
90 32 0.28
92 2 0.02
94 2 0.02
96 77 0.68
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (90 bp):
CAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATGCCAATGCCATATCCCAGATATGGT
CTCACACGAGATCACATATCGATGC
Found at i:13148041 original size:13 final size:13
Alignment explanation
Indices: 13148023--13148056 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13148013 TAATTTGGGG
13148023 ACATAACTCTAAT
1 ACATAACTCTAAT
13148036 ACATAACTCTAAT
1 ACATAACTCTAAT
*
13148049 ATATAACT
1 ACATAACT
13148057 TTGGCACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (13 bp):
ACATAACTCTAAT
Found at i:13148587 original size:18 final size:17
Alignment explanation
Indices: 13148564--13148602 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13148554 TAAAACATTT
*
13148564 TAAAATAATTTAATTTAA
1 TAAAATAA-TAAATTTAA
*
13148582 TAAAATCATAAATTTAA
1 TAAAATAATAAATTTAA
13148599 TAAA
1 TAAA
13148603 TTTTAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATAATAAATTTAA
Found at i:13148884 original size:21 final size:21
Alignment explanation
Indices: 13148849--13148889 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13148839 TATTATAATT
* *
13148849 TTTAATTTTATTGCTACAATG
1 TTTAATTTCACTGCTACAATG
*
13148870 TTTAATTTCACTGCTGCAAT
1 TTTAATTTCACTGCTACAAT
13148890 AATTAATCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTAATTTCACTGCTACAATG
Found at i:13151020 original size:46 final size:46
Alignment explanation
Indices: 13150876--13151178 Score: 217
Period size: 46 Copynumber: 6.5 Consensus size: 46
13150866 TTTGGGCGCT
* * *
13150876 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * **
13150922 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAAGAGAGAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* *
13150970 AGTGTAAGAAATGTTTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* *
13151016 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * * *
13151060 AGTGTAAGGCCATGTTTGGGACATGGCATCGACAT--A-AAGAGAGCC
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* * ** * ** * *
13151105 AGTGTAAGGCCATGTCTAGGACATGGTGTTGGCCTCGATTTCGACAGTC
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCCTCGAGAT-GAGAGCC
13151154 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
13151179 GGATCGACTT
Statistics
Matches: 204, Mismatches: 37, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 47 0.23
46 65 0.32
47 29 0.14
48 26 0.13
49 26 0.13
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:13151157 original size:138 final size:140
Alignment explanation
Indices: 13150876--13151229 Score: 341
Period size: 138 Copynumber: 2.5 Consensus size: 140
13150866 TTTGGGCGCT
*
13150876 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
* * * *
13150941 GACATGGCATCGGCATTGAGAAGAGAGATAGTGTAAGAAATGTTTGGGACATGCATCGGCCTCGA
66 GACATGGCATCGACATTGAGAAGAGAGACAGTGTAAGAAATGTCTAGGACATGCATCGGCCTCGA
13151006 GATGTAAGCC
131 GATGTAAGCC
* * * * *
13151016 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTG-TC-AGTGTAAGGCCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCTAGTGTAAGACCATGTCTG
* ** ** *
13151078 GGACATGGCATCGACA-T-A-AAGAGAGCCAGTGTAAGGCCATGTCTAGGACATGGTGTTGGCCT
65 GGACATGGCATCGACATTGAGAAGAGAGACAGTGTAA-GAAATGTCTAGGACAT-GCATCGGCCT
** *
13151140 CGATTTCG-ACAGTC
128 CGAGAT-GTA-AGCC
* * * * *
13151154 AGTGTAAGACCATGTCTGGGACATGGGATC-G--ACTTGATGGACGAGCCAGTGTAGGACCTTGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATGAT-GA-GAGCTAGTGTAAGACCATGT
13151216 CTGGGACATGGCAT
62 CTGGGACATGGCAT
13151230 TGGCATTACA
Statistics
Matches: 175, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
135 14 0.08
136 13 0.07
137 18 0.10
138 45 0.26
139 17 0.10
140 42 0.24
141 26 0.15
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGAAGAGAGACAGTGTAAGAAATGTCTAGGACATGCATCGGCCTCGA
GATGTAAGCC
Found at i:13158391 original size:40 final size:40
Alignment explanation
Indices: 13158347--13158570 Score: 239
Period size: 40 Copynumber: 5.7 Consensus size: 40
13158337 GCTCCTCGTT
* *
13158347 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* * *
13158387 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
13158427 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
*
13158466 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
* * * * *
13158505 CAAATGCCTTC-GGATCTTGGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AATTCGCA
13158546 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13158571 CATCATTCAA
Statistics
Matches: 159, Mismatches: 16, Indels: 18
0.82 0.08 0.09
Matches are distributed among these distances:
38 5 0.03
39 66 0.42
40 73 0.46
41 14 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
Found at i:13158449 original size:79 final size:78
Alignment explanation
Indices: 13158347--13158570 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
13158337 GCTCCTCGTT
* *
13158347 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
13158412 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
13158427 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
13158490 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
13158505 CAAATGCCTTCGGATCTTGGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
13158569 GA
63 GA
13158571 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 37 0.30
79 52 0.42
80 33 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:13158464 original size:39 final size:40
Alignment explanation
Indices: 13158347--13158570 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
13158337 GCTCCTCGTT
* *
13158347 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
13158387 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13158427 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
13158466 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
13158505 CAAATGCCTTC-GGATCTTGGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
13158546 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13158571 CATCATTCAA
Statistics
Matches: 163, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 72 0.44
41 17 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:13163532 original size:27 final size:27
Alignment explanation
Indices: 13163501--13163678 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13163491 TAAATTGTAC
13163501 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13163528 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13163554 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13163582 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13163610 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13163637 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13163664 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13163679 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13163615 original size:82 final size:81
Alignment explanation
Indices: 13163502--13163657 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13163492 AAATTGTACA
* *
13163502 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13163566 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13163583 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13163648 TGCGAGTTGA
65 TGCGAATTGA
13163658 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13163669 original size:82 final size:81
Alignment explanation
Indices: 13163498--13163678 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13163488 GATTAAATTG
* *
13163498 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13163563 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13163579 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13163643 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13163661 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13163679 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13171722 original size:27 final size:27
Alignment explanation
Indices: 13171691--13171868 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13171681 TAAATTGTAC
13171691 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13171718 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13171744 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13171772 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13171800 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13171827 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13171854 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13171869 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13171805 original size:82 final size:81
Alignment explanation
Indices: 13171692--13171847 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13171682 AAATTGTACA
* *
13171692 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13171756 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13171773 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13171838 TGCGAGTTGA
65 TGCGAATTGA
13171848 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13171859 original size:82 final size:81
Alignment explanation
Indices: 13171688--13171868 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13171678 GATTAAATTG
* *
13171688 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13171753 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13171769 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13171833 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13171851 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13171869 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13175865 original size:79 final size:78
Alignment explanation
Indices: 13175763--13175986 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
13175753 GCTCCTCGTT
* *
13175763 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
13175828 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
13175843 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
13175906 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
13175921 CAAATGCCTTCGGATCTTGGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
13175985 GA
63 GA
13175987 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 38 0.30
79 52 0.42
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:13175880 original size:39 final size:40
Alignment explanation
Indices: 13175763--13175986 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
13175753 GCTCCTCGTT
* *
13175763 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
13175803 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13175843 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13175882 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
13175921 CAAATGCCTTC-GGATCTTGGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
13175962 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13175987 CATCATTCAA
Statistics
Matches: 165, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
38 2 0.01
39 73 0.44
40 73 0.44
41 17 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:13175986 original size:40 final size:40
Alignment explanation
Indices: 13175763--13175986 Score: 259
Period size: 40 Copynumber: 5.7 Consensus size: 40
13175753 GCTCCTCGTT
* *
13175763 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ATTCGCA
* *
13175803 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ATTCGCA
13175843 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAT-TCGCA
13175882 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAT-TCGCA
* * *
13175921 CAAATGCCTTC-GGATCTTGGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGT-A-TTCGCA
13175962 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13175987 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 3 0.02
39 70 0.43
40 75 0.46
41 15 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTATTCGCA
Found at i:13179104 original size:23 final size:25
Alignment explanation
Indices: 13179054--13179118 Score: 89
Period size: 23 Copynumber: 2.7 Consensus size: 25
13179044 CGGTTAATAA
**
13179054 ATTCGCACACATAGTGCATATATTC
1 ATTCGCACACATAGTGCATATACCC
*
13179079 ATTCGCACACATAGTGC-TA-CCCC
1 ATTCGCACACATAGTGCATATACCC
13179102 ATTCGCACACATAGTGC
1 ATTCGCACACATAGTGC
13179119 CCTTTTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 18 0.49
24 2 0.05
25 17 0.46
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (25 bp):
ATTCGCACACATAGTGCATATACCC
Found at i:13183469 original size:133 final size:133
Alignment explanation
Indices: 13183226--13183491 Score: 487
Period size: 133 Copynumber: 2.0 Consensus size: 133
13183216 TGAACTCATA
* *
13183226 GTGTTCGTATCTCGTTCTGAAAGGAGTCTTAGGCACATCTGAGTCTCTAACTCTCAACTGATAAT
1 GTGTCCGTATCTCGTTCTAAAAGGAGTCTTAGGCACATCTGAGTCTCTAACTCTCAACTGATAAT
*
13183291 AGCTAGATCGCAGATCGATCTTTGAAAACACTGAAGCTCTCTTTAGCTGATCAAATAAATCATCG
66 AGCCAGATCGCAGATCGATCTTTGAAAACACTGAAGCTCTCTTTAGCTGATCAAATAAATCATCG
13183356 ATT
131 ATT
*
13183359 GTGTCCGTATCTCGTTCTAAAAGGAGTCTTAGGCACATCTGAGTCTCTGACTCTCAACTGATAAT
1 GTGTCCGTATCTCGTTCTAAAAGGAGTCTTAGGCACATCTGAGTCTCTAACTCTCAACTGATAAT
*
13183424 AGCCAGATCGCAGATTGATCTTTGAAAACACTGAAGCTCTCTTTAGCTGATCAAATAAATCATCG
66 AGCCAGATCGCAGATCGATCTTTGAAAACACTGAAGCTCTCTTTAGCTGATCAAATAAATCATCG
13183489 ATT
131 ATT
13183492 CACGGCAACG
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 128 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (133 bp):
GTGTCCGTATCTCGTTCTAAAAGGAGTCTTAGGCACATCTGAGTCTCTAACTCTCAACTGATAAT
AGCCAGATCGCAGATCGATCTTTGAAAACACTGAAGCTCTCTTTAGCTGATCAAATAAATCATCG
ATT
Found at i:13187662 original size:146 final size:147
Alignment explanation
Indices: 13187488--13187784 Score: 578
Period size: 146 Copynumber: 2.0 Consensus size: 147
13187478 AACCTCCCAA
*
13187488 TTCAAGTCCACATTCGGCATCCATAAAAAAAACACTTACTAGCAATTAAATTATTAATTTCCAAA
1 TTCAAGTCCACATTCGGCATCCATAAAAAAAACACTTACTAGCAATTAAATTATAAATTTCCAAA
13187553 ATTAAGCATAATTTCACCTTACTCCATAATAGCCGATTGAGATTTTTGTCCATATTAACCATTCA
66 ATTAAGCATAATTTCACCTTACTCCATAATAGCCGATTGAGATTTTTGTCCATATTAACCATTCA
13187618 TAGAAATTTTTACTTAG
131 TAGAAATTTTTACTTAG
13187635 TTCAA-TCCACATTCGGCATCCATAAAAAAAACACTTACTAGCAATTAAATTATAAATTTCCAAA
1 TTCAAGTCCACATTCGGCATCCATAAAAAAAACACTTACTAGCAATTAAATTATAAATTTCCAAA
13187699 ATTAAGCATAATTTCACCTTACTCCATAATAGCCGATTGAGATTTTTGTCCATATTAACCATTCA
66 ATTAAGCATAATTTCACCTTACTCCATAATAGCCGATTGAGATTTTTGTCCATATTAACCATTCA
13187764 TAGAAATTTTTACTTAG
131 TAGAAATTTTTACTTAG
13187781 TTCA
1 TTCA
13187785 CACTCACCTA
Statistics
Matches: 149, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
146 144 0.97
147 5 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.35
Consensus pattern (147 bp):
TTCAAGTCCACATTCGGCATCCATAAAAAAAACACTTACTAGCAATTAAATTATAAATTTCCAAA
ATTAAGCATAATTTCACCTTACTCCATAATAGCCGATTGAGATTTTTGTCCATATTAACCATTCA
TAGAAATTTTTACTTAG
Found at i:13193453 original size:36 final size:38
Alignment explanation
Indices: 13193360--13193459 Score: 132
Period size: 40 Copynumber: 2.6 Consensus size: 38
13193350 TACTTGCTCA
* *
13193360 AATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCG-AC
*
13193399 AAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTCG-C
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGAC
*
13193437 -ATGCCTTTGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
13193460 ATTAGCGGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 21 0.38
38 1 0.02
40 33 0.60
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGAC
Found at i:13193520 original size:40 final size:40
Alignment explanation
Indices: 13193465--13193599 Score: 270
Period size: 40 Copynumber: 3.4 Consensus size: 40
13193455 CCGGAATTAG
13193465 CGGGACTTAGCCCGGGTATAGTAACTCGTACAAATGCCTT
1 CGGGACTTAGCCCGGGTATAGTAACTCGTACAAATGCCTT
13193505 CGGGACTTAGCCCGGGTATAGTAACTCGTACAAATGCCTT
1 CGGGACTTAGCCCGGGTATAGTAACTCGTACAAATGCCTT
13193545 CGGGACTTAGCCCGGGTATAGTAACTCGTACAAATGCCTT
1 CGGGACTTAGCCCGGGTATAGTAACTCGTACAAATGCCTT
13193585 CGGGACTTAGCCCGG
1 CGGGACTTAGCCCGG
13193600 TTATCATCCG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.24
Consensus pattern (40 bp):
CGGGACTTAGCCCGGGTATAGTAACTCGTACAAATGCCTT
Found at i:13200704 original size:40 final size:40
Alignment explanation
Indices: 13200660--13200808 Score: 230
Period size: 40 Copynumber: 3.7 Consensus size: 40
13200650 GCTACTTGCT
13200660 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
13200700 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
13200740 CAAATGCCTTC-GGAGCTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTA-TAGTAACTCGCA
13200780 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
13200809 CATCCAAATA
Statistics
Matches: 100, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
39 4 0.04
40 92 0.92
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:13200759 original size:80 final size:80
Alignment explanation
Indices: 13200627--13200804 Score: 238
Period size: 80 Copynumber: 2.2 Consensus size: 80
13200617 AAACCAAGTA
* * * * *
13200627 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
*
13200690 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
13200706 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTC-GGAGCTTAGCCCGGAATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAATT
*
13200769 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
13200786 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13200805 TTATCATCCA
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
79 16 0.18
80 71 0.81
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:13205662 original size:13 final size:13
Alignment explanation
Indices: 13205644--13205676 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
13205634 CTTGGCAGGG
*
13205644 ACACGCCCGTGGC
1 ACACGCCCATGGC
13205657 ACACGCCCATGGC
1 ACACGCCCATGGC
13205670 ACACGCC
1 ACACGCC
13205677 TGTGTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.48, G:0.24, T:0.06
Consensus pattern (13 bp):
ACACGCCCATGGC
Found at i:13208195 original size:18 final size:17
Alignment explanation
Indices: 13208168--13208202 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13208158 TCTGGTGCTG
13208168 AATAGCAAGGGCGATGA
1 AATAGCAAGGGCGATGA
*
13208185 AATAGGCAAGGTCGATGA
1 AATA-GCAAGGGCGATGA
13208203 CGTGCCCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.11, G:0.34, T:0.14
Consensus pattern (17 bp):
AATAGCAAGGGCGATGA
Found at i:13213480 original size:27 final size:27
Alignment explanation
Indices: 13213442--13213495 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
13213432 AAATGCTTCT
13213442 GAAAAGACGAAACGATGGCATGACAAG
1 GAAAAGACGAAACGATGGCATGACAAG
*
13213469 GAAAAGACGAAATGATGGCATGACAAG
1 GAAAAGACGAAACGATGGCATGACAAG
13213496 ATTATTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.30, T:0.09
Consensus pattern (27 bp):
GAAAAGACGAAACGATGGCATGACAAG
Found at i:13221601 original size:100 final size:100
Alignment explanation
Indices: 13221428--13221629 Score: 386
Period size: 100 Copynumber: 2.0 Consensus size: 100
13221418 GTTGAAACTG
13221428 TCATTCGAGGGTTTGTCTCTTTGGACCTCTTTGATTGAGACTGAAATGGCTTGCTTATCGGCCTT
1 TCATTCGAGGGTTTGTCTCTTTGGACCTCTTTGATTGAGACTGAAATGGCTTGCTTATCGGCCTT
*
13221493 TTTCTGGCATCTCGAGCCTCAATAGTAGCTTTTCT
66 TTTCTGGCATCTCGAGCCTCAATAGCAGCTTTTCT
*
13221528 TCATTCGAGGGTTTGTCTCTTTGGACCTCTTTGATTGAGATTGAAATGGCTTGCTTATCGGCCTT
1 TCATTCGAGGGTTTGTCTCTTTGGACCTCTTTGATTGAGACTGAAATGGCTTGCTTATCGGCCTT
13221593 TTTCTGGCATCTCGAGCCTCAATAGCAGCTTTTCT
66 TTTCTGGCATCTCGAGCCTCAATAGCAGCTTTTCT
13221628 TC
1 TC
13221630 TTTCTTTGTT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (100 bp):
TCATTCGAGGGTTTGTCTCTTTGGACCTCTTTGATTGAGACTGAAATGGCTTGCTTATCGGCCTT
TTTCTGGCATCTCGAGCCTCAATAGCAGCTTTTCT
Found at i:13228000 original size:57 final size:57
Alignment explanation
Indices: 13227928--13228041 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
13227918 ATGCTGCCTA
* *
13227928 AGAATTAATTTCTTCTGAGTGATGAAGTACTTGAGCTCTTATGATCAATGTAGATAG
1 AGAATTAATTCCTTCTGAGTGATGAAGTACTTAAGCTCTTATGATCAATGTAGATAG
*
13227985 AGAATTAATTCCTTCTGAGTGATGAGGTACTTAAGCTCTTATGATCAATGTAGATAG
1 AGAATTAATTCCTTCTGAGTGATGAAGTACTTAAGCTCTTATGATCAATGTAGATAG
13228042 TACACTTCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (57 bp):
AGAATTAATTCCTTCTGAGTGATGAAGTACTTAAGCTCTTATGATCAATGTAGATAG
Found at i:13231044 original size:17 final size:18
Alignment explanation
Indices: 13231019--13231065 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
13231009 TCATAAATCG
*
13231019 CAGTGTCACTACAG-TTT
1 CAGTTTCACTACAGTTTT
*
13231036 CAGTTTCACTACCGTTTT
1 CAGTTTCACTACAGTTTT
13231054 CAGTTTACACTA
1 CAGTTT-CACTA
13231066 ACTAAAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 12 0.46
18 9 0.35
19 5 0.19
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (18 bp):
CAGTTTCACTACAGTTTT
Found at i:13266861 original size:14 final size:15
Alignment explanation
Indices: 13266842--13266871 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13266832 TTAAAAACTC
13266842 TTTA-TTTTTTATTT
1 TTTATTTTTTTATTT
13266856 TTTATTTTTTTATTT
1 TTTATTTTTTTATTT
13266871 T
1 T
13266872 CACTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTATTTTTTTATTT
Found at i:13266884 original size:7 final size:7
Alignment explanation
Indices: 13266842--13266871 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
13266832 TTAAAAACTC
13266842 TTTATTT
1 TTTATTT
13266849 TTTATTT
1 TTTATTT
13266856 TTTATTTT
1 TTTA-TTT
13266864 TTTATTT
1 TTTATTT
13266871 T
1 T
13266872 CACTTTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:13267371 original size:16 final size:16
Alignment explanation
Indices: 13267350--13267388 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
13267340 TATCTATCTT
*
13267350 TGTACATTGAGGGTAA
1 TGTACATTGAGGGCAA
13267366 TGTACATTGAGGGCAA
1 TGTACATTGAGGGCAA
13267382 TGTACAT
1 TGTACAT
13267389 CTTAAGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (16 bp):
TGTACATTGAGGGCAA
Found at i:13271395 original size:40 final size:40
Alignment explanation
Indices: 13271242--13271426 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
13271232 TTGAATGATG
* * * * *
13271242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGC-GAGTTACTAAA
* * * *
13271282 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGTTACTAAA
*
13271322 TCCGGGCTAAG-CCCAAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
* * *
13271361 TCCGGGTTAAGTCCCAAAGGCAATTGTCCGAGTTACTATAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-AA
* *
13271402 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCAAAGGCATTTG
13271427 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
Found at i:13271398 original size:79 final size:81
Alignment explanation
Indices: 13271242--13271426 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
13271232 TTGAATGATG
* * *
13271242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAAT
*
13271306 TGTGCGAGATACTA-A
66 TGTCCGAGATACTATA
* * * **
13271321 TTCCGGGCTAAG-CCCAAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCA
*
13271383 ATTGTCCGAGTTACTATA
64 ATTGTCCGAGATACTATA
* *
13271401 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13271427 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAAT
TGTCCGAGATACTATA
Found at i:13279234 original size:39 final size:40
Alignment explanation
Indices: 13279133--13279356 Score: 275
Period size: 40 Copynumber: 5.7 Consensus size: 40
13279123 TTGAATGATG
*
13279133 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
13279172 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
13279213 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
13279252 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
13279291 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
13279330 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
13279357 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
39 75 0.45
40 76 0.46
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:13279320 original size:79 final size:81
Alignment explanation
Indices: 13279133--13279356 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 81
13279123 TTGAATGATG
* * *
13279133 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
13279196 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
13279213 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
13279274 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
13279291 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
13279355 TG
66 TG
13279357 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
78 37 0.29
79 54 0.42
80 37 0.29
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:13279378 original size:79 final size:79
Alignment explanation
Indices: 13279133--13279389 Score: 226
Period size: 79 Copynumber: 3.3 Consensus size: 79
13279123 TTGAATGATG
* * * *
13279133 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
13279195 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
13279213 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
13279277 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
13279291 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
13279354 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
13279371 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
13279390 TACGTGATTT
Statistics
Matches: 154, Mismatches: 14, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
77 1 0.01
78 37 0.24
79 67 0.44
80 48 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:13281165 original size:29 final size:29
Alignment explanation
Indices: 13281041--13281162 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
13281031 CACTTGGTCC
*
13281041 AATCTCATTTATATGGCCCATCAGGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
* * * *
13281070 ATTCACATTCATATGGCCTATCAAGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
* * *
13281099 ATTCATATTCT-TATGGCCCATTAGGCCCA
1 AATCACATT-TATATGGCCCATCAGGCCCA
* * *
13281128 AATCACCTTTATATGGCCCGTTAGGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
13281157 AATCAC
1 AATCAC
13281163 CTTATGTTCA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 1 0.01
29 76 0.99
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATCAGGCCCA
Found at i:13283998 original size:29 final size:29
Alignment explanation
Indices: 13283961--13284017 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
13283951 GCATGAACAT
13283961 AAGGTGATTTGGGCCTAACGGGCCATATA
1 AAGGTGATTTGGGCCTAACGGGCCATATA
*
13283990 AAGGTGATTTGGGCCTAATGGGCCATAT
1 AAGGTGATTTGGGCCTAACGGGCCATAT
13284018 GAATATGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
AAGGTGATTTGGGCCTAACGGGCCATATA
Found at i:13284039 original size:29 final size:29
Alignment explanation
Indices: 13283969--13284074 Score: 104
Period size: 29 Copynumber: 3.7 Consensus size: 29
13283959 ATAAGGTGAT
* * ** * *
13283969 TTGGGCCTAACGGGCCATATAAAGGTGAT
1 TTGGGCCTGATGGGCCATATAAATATAAA
* * *
13283998 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTGATGGGCCATATAAATATAAA
* * *
13284027 TTTGGCTTGATGGGCCATATAAATGTAAA
1 TTGGGCCTGATGGGCCATATAAATATAAA
13284056 TTGGGCCTGATGGGCCATA
1 TTGGGCCTGATGGGCCATA
13284075 CAAGTGAGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATAAATATAAA
Found at i:13284435 original size:29 final size:28
Alignment explanation
Indices: 13284393--13284469 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 28
13284383 TGCCCCTAAT
* *
13284393 TTGGGCCTCATGGGCCATATAAATGTGAA
1 TTGGGCCTAATGGGCCATATAAATGAG-A
*
13284422 TTGGGCCTGATGGGCCATATAAATGAGA
1 TTGGGCCTAATGGGCCATATAAATGAGA
13284450 TTGGGCC-AAGTGGGCCATAT
1 TTGGGCCTAA-TGGGCCATAT
13284470 GCATGTATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.02
28 18 0.41
29 25 0.57
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAATGAGA
Found at i:13284712 original size:366 final size:366
Alignment explanation
Indices: 13284036--13284757 Score: 1273
Period size: 366 Copynumber: 2.0 Consensus size: 366
13284026 ATTTGGCTTG
*
13284036 ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAGTGAGATTGGGCCAAGTGGGCCA
1 ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAATGAGATTGGGCCAAGTGGGCCA
*
13284101 TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAACTTAATTAATATATT
66 TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
** * * * * *
13284166 GCGACTGTGGACAAGTCATAGGGTTAAGGTGTGGCGATGGGTGTATGCATGGCTAGGATTGGATC
131 GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGGCTAGGATTGGATC
13284231 TAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
196 TAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
*
13284296 TGCATAGTATTCATTCATCTTAGCTCATGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
261 TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
* **
13284361 TTAAAGAGAAAATTTACCGGCATGCCCCTAATTTGGGCCTC
326 TTAAAGAGAAAAATTACCGAAATGCCCCTAATTTGGGCCTC
* *
13284402 ATGGGCCATATAAATGTGAATTGGGCCTGATGGGCCATATAAATGAGATTGGGCCAAGTGGGCCA
1 ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAATGAGATTGGGCCAAGTGGGCCA
*
13284467 TATGCATGTATGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
66 TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
*
13284532 GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGTCTAGGATTGGATC
131 GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGGCTAGGATTGGATC
13284597 TAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
196 TAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
* *
13284662 TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGTCCGAGGTAAGTGGAAACTGTA
261 TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
13284727 TTAAAGAGAAAAATTACCGAAATGCCCCTAA
326 TTAAAGAGAAAAATTACCGAAATGCCCCTAA
13284758 GGGCGAAAAT
Statistics
Matches: 337, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
366 337 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (366 bp):
ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAATGAGATTGGGCCAAGTGGGCCA
TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGGCTAGGATTGGATC
TAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
TTAAAGAGAAAAATTACCGAAATGCCCCTAATTTGGGCCTC
Found at i:13289492 original size:27 final size:27
Alignment explanation
Indices: 13289462--13289526 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
13289452 ATTACCAAAG
* *
13289462 TACCCTCGATTTATAGAATTACAATTT
1 TACCCTCGATTTACAAAATTACAATTT
* *
13289489 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACAATTT
*
13289516 TACCCTTGATT
1 TACCCTCGATT
13289527 GTGAAATTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACAATTT
Found at i:13289900 original size:67 final size:67
Alignment explanation
Indices: 13289817--13289970 Score: 263
Period size: 67 Copynumber: 2.3 Consensus size: 67
13289807 GGGGAAGCGT
**
13289817 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCACGA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCAAAA
13289882 TA
66 TA
* * *
13289884 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCAAAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCAAAA
13289949 TA
66 TA
13289951 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
13289971 TTTTGTGGTG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 82 1.00
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCAAAA
TA
Found at i:13290108 original size:31 final size:31
Alignment explanation
Indices: 13290073--13290151 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
13290063 TTGCATTCAC
* *
13290073 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* * *
13290104 ATTCTGATTCTAATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
13290135 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
13290152 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:13290112 original size:6 final size:6
Alignment explanation
Indices: 13290073--13290160 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
13290063 TTGCATTCAC
* * * *
13290073 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
13290122 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
13290161 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:13298032 original size:52 final size:52
Alignment explanation
Indices: 13297960--13298238 Score: 434
Period size: 52 Copynumber: 5.4 Consensus size: 52
13297950 TATCTAGGAT
* *
13297960 ATGGCATTGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
*
13298012 ATGGCAATATGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
13298064 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
* * *
13298116 ATGGCAATGTGCTAAGTGAAATAGGACCATTGCATTTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
* * * * * *
13298168 ATGGCAATGTGCTTAGTGAAACAAGCCCATGGCATCTAAATGAAACAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
13298220 ATGGC-ATGGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
13298239 GAAATTTCTC
Statistics
Matches: 209, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
51 2 0.01
52 207 0.99
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
Found at i:13298322 original size:51 final size:51
Alignment explanation
Indices: 13298262--13298409 Score: 192
Period size: 51 Copynumber: 2.9 Consensus size: 51
13298252 TGAACCTTAG
*
13298262 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * * *
13298313 GAATAAAATAGATTTGAAAACAAGTGTGGTACTATGTGAATGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * *
13298364 GAATAAAATAGCTCTAG-CTACAAG-GATGGAACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTG-TGGTACTATGTGAAGGCCAC
13298410 CGTGTATCTG
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 82 0.99
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
Found at i:13303774 original size:27 final size:27
Alignment explanation
Indices: 13303733--13303787 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13303723 CAAATGCATT
13303733 TACTACTTGGCGTAACCAGGTAGACTA
1 TACTACTTGGCGTAACCAGGTAGACTA
* *
13303760 TACTACTTGGTGTAACCAGTTAGACTA
1 TACTACTTGGCGTAACCAGGTAGACTA
13303787 T
1 T
13303788 CCTGGATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (27 bp):
TACTACTTGGCGTAACCAGGTAGACTA
Found at i:13317999 original size:110 final size:110
Alignment explanation
Indices: 13317797--13318016 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
13317787 CGTACTAGTC
13317797 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
1 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
*
13317862 AGCTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTCG
66 AGCTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTCG
13317907 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
1 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
13317972 AGACTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTC
66 AG-CTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTC
13318017 AGGCCAATTA
Statistics
Matches: 108, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 67 0.62
111 41 0.38
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (110 bp):
GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
AGCTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTCG
Found at i:13331720 original size:50 final size:50
Alignment explanation
Indices: 13331666--13331805 Score: 120
Period size: 50 Copynumber: 2.8 Consensus size: 50
13331656 GCTCACATCG
* * *
13331666 TGTAAAACCGTAGATGGTGGGCTATGGCATCATATGGAAAGATCATATCA
1 TGTAAAACCCTAGATGGTGGGCTATGGCATCATATGGAAACACCATATCA
* * * * * * * *
13331716 TGTAAGACCCTAGCTAGTGGGCTATGGCGTTATATAGAAACCCCATATCG
1 TGTAAAACCCTAGATGGTGGGCTATGGCATCATATGGAAACACCATATCA
* * * * *
13331766 TATAAAACCTTA-ATTGATGGGTTATGGTATCATATGGAAA
1 TGTAAAACCCTAGA-TGGTGGGCTATGGCATCATATGGAAA
13331806 TAATTAAATG
Statistics
Matches: 67, Mismatches: 22, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
TGTAAAACCCTAGATGGTGGGCTATGGCATCATATGGAAACACCATATCA
Found at i:13332992 original size:11 final size:11
Alignment explanation
Indices: 13332976--13333003 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13332966 TTGGATAAGT
13332976 ATAAGTTTGTA
1 ATAAGTTTGTA
13332987 ATAAGTTTGTA
1 ATAAGTTTGTA
13332998 ATAAGT
1 ATAAGT
13333004 ATAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (11 bp):
ATAAGTTTGTA
Found at i:13340167 original size:10 final size:10
Alignment explanation
Indices: 13340152--13340182 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13340142 TCAACTAACA
13340152 CATCTCTAGC
1 CATCTCTAGC
13340162 CATCTCTAGC
1 CATCTCTAGC
*
13340172 CATCTTTAGC
1 CATCTCTAGC
13340182 C
1 C
13340183 TCAACTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.10, T:0.32
Consensus pattern (10 bp):
CATCTCTAGC
Found at i:13340190 original size:20 final size:21
Alignment explanation
Indices: 13340139--13340190 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
13340129 TTAAAAATTT
*
13340139 GCCTCAACTAACACATCTCTA
1 GCCTCAACTAGCACATCTCTA
* *
13340160 GCCATC-TCTAGC-CATCTTTA
1 GCC-TCAACTAGCACATCTCTA
13340180 GCCTCAACTAG
1 GCCTCAACTAG
13340191 ATATTTATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 2 0.08
20 14 0.56
21 7 0.28
22 2 0.08
ACGTcount: A:0.27, C:0.37, G:0.10, T:0.27
Consensus pattern (21 bp):
GCCTCAACTAGCACATCTCTA
Found at i:13342551 original size:40 final size:40
Alignment explanation
Indices: 13342491--13342567 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
13342481 TTAACAATTA
*
13342491 TAATAATTCAAATATGGTTTAAAGTAACTAAGAATCTATT
1 TAATAATTCAAATATGGTTTAAAGCAACTAAGAATCTATT
* *
13342531 TAATAATTCAAATATTGTTTATAGCAACTAAGAATCT
1 TAATAATTCAAATATGGTTTAAAGCAACTAAGAATCT
13342568 GTAAAGCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (40 bp):
TAATAATTCAAATATGGTTTAAAGCAACTAAGAATCTATT
Found at i:13343376 original size:18 final size:18
Alignment explanation
Indices: 13343340--13343386 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
13343330 AGGTTTTTCT
13343340 ATTAAATT-ATTTATATA
1 ATTAAATTAATTTATATA
*
13343357 ATATAAGTTAATTT-TATA
1 AT-TAAATTAATTTATATA
13343375 ATTAAATTAATT
1 ATTAAATTAATT
13343387 ATTAAGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 11 0.42
18 11 0.42
19 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTAAATTAATTTATATA
Found at i:13343750 original size:13 final size:12
Alignment explanation
Indices: 13343712--13343755 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
13343702 GAAATTTTAT
13343712 TTAATTGGAAAA
1 TTAATTGGAAAA
13343724 TTAATT-GATTAAA
1 TTAATTGGA--AAA
13343737 TTTAATTGGAAAA
1 -TTAATTGGAAAA
13343750 TTAATT
1 TTAATT
13343756 TAATAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 2 0.07
12 12 0.43
13 6 0.21
14 6 0.21
15 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (12 bp):
TTAATTGGAAAA
Found at i:13343762 original size:26 final size:26
Alignment explanation
Indices: 13343710--13343763 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
13343700 TTGAAATTTT
*
13343710 ATTTAATTGGAAAATTAATTGATTAA
1 ATTTAATTGGAAAATTAATTGAATAA
*
13343736 ATTTAATTGGAAAATTAATTTAATAA
1 ATTTAATTGGAAAATTAATTGAATAA
13343762 AT
1 AT
13343764 AGTATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTTAATTGGAAAATTAATTGAATAA
Found at i:13346019 original size:164 final size:164
Alignment explanation
Indices: 13345790--13346119 Score: 518
Period size: 164 Copynumber: 2.0 Consensus size: 164
13345780 GTTATAAATT
* *
13345790 ATATACAAACAAAATGAGTAAAAATTTGGTTTGAGTTGAACCGTTAAGTCTTGGGTGCTTCTGAC
1 ATATACAAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
* * * * *
13345855 TTGATCTATTAAATCTATATGAGACCTGCACATGGAAACAAACAAACCATACACTGAGCATTAAA
66 TCGATCTACTAAATCTATATAAGACCTACACATGGAAACAAACAAACCATAAACTGAGCATTAAA
** *
13345920 TACTGGGAGATACATTAATAAAAAAATTATCCTTA
131 TACTGAAAAATACATTAAT-AAAAAATTATCCTTA
13345955 ATATA-AAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
1 ATATACAAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
* * *
13346019 TCGATCTACTAAATTTATATAAGACCTACACATGGAAACAAATAAACCATAAACTGAGCATTGAA
66 TCGATCTACTAAATCTATATAAGACCTACACATGGAAACAAACAAACCATAAACTGAGCATTAAA
*
13346084 TACTGAAAAATATATTAATAAAAAATTATCCTTA
131 TACTGAAAAATACATTAATAAAAAATTATCCTTA
13346118 AT
1 AT
13346120 GACAATGATA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
163 17 0.11
164 129 0.85
165 5 0.03
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (164 bp):
ATATACAAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
TCGATCTACTAAATCTATATAAGACCTACACATGGAAACAAACAAACCATAAACTGAGCATTAAA
TACTGAAAAATACATTAATAAAAAATTATCCTTA
Found at i:13347232 original size:19 final size:20
Alignment explanation
Indices: 13347197--13347244 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13347187 AGAAATAATT
* *
13347197 TTAAAATTTAAACATAAATA
1 TTAAAATGTAAACATAAAAA
13347217 TTAAAATGTAAA-ATAAAAA
1 TTAAAATGTAAACATAAAAA
*
13347236 TAAAAATGT
1 TTAAAATGT
13347245 TACCAAGACG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
TTAAAATGTAAACATAAAAA
Found at i:13349623 original size:12 final size:13
Alignment explanation
Indices: 13349606--13349634 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13349596 AAAGTGAAAA
13349606 TTTTTTG-AAATT
1 TTTTTTGAAAATT
13349618 TTTTTTGAAAATT
1 TTTTTTGAAAATT
13349631 TTTT
1 TTTT
13349635 GTATAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTTGAAAATT
Found at i:13349642 original size:13 final size:11
Alignment explanation
Indices: 13349600--13349635 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13349590 TTGGAGAAAG
13349600 TGAAAATTTTT
1 TGAAAATTTTT
*
13349611 TGAAATTTTTTT
1 TGAAA-ATTTTT
13349623 TGAAAATTTTT
1 TGAAAATTTTT
13349634 TG
1 TG
13349636 TATAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (11 bp):
TGAAAATTTTT
Found at i:13357569 original size:47 final size:47
Alignment explanation
Indices: 13357503--13357882 Score: 688
Period size: 47 Copynumber: 8.1 Consensus size: 47
13357493 GAAATGATAG
13357503 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13357550 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13357597 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13357644 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13357691 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13357738 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13357785 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
13357832 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13357879 TAAG
1 TAAG
13357883 TCCCGAAGGG
Statistics
Matches: 323, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 323 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:13362787 original size:19 final size:20
Alignment explanation
Indices: 13362763--13362800 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13362753 GGTACCACCA
13362763 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13362782 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13362801 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13363140 original size:93 final size:93
Alignment explanation
Indices: 13363030--13363200 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
13363020 GCCCCTAAGT
* *
13363030 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
13363095 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
13363123 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
13363188 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13363201 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13363197 original size:46 final size:46
Alignment explanation
Indices: 13363025--13363197 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
13363015 AACCCGCCCC
* * * *
13363025 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
13363071 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
13363119 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
13363164 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13363198 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:13363654 original size:30 final size:30
Alignment explanation
Indices: 13363620--13363679 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13363610 ATTTAATACG
13363620 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
13363650 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
13363680 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:13375862 original size:32 final size:32
Alignment explanation
Indices: 13375821--13375884 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
13375811 TTGACGCGAT
*
13375821 AGTTTATGAATTTTATACCACTTTGAAAGATC
1 AGTTTATGAATTCTATACCACTTTGAAAGATC
*
13375853 AGTTTATGAATTCTATGCCACTTTGAAAGATC
1 AGTTTATGAATTCTATACCACTTTGAAAGATC
13375885 GGGAAAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (32 bp):
AGTTTATGAATTCTATACCACTTTGAAAGATC
Found at i:13380179 original size:28 final size:27
Alignment explanation
Indices: 13380110--13380253 Score: 158
Period size: 28 Copynumber: 5.4 Consensus size: 27
13380100 GATATGACAT
* *
13380110 TGTGCTAAGTAAAATAA-TACCATGACA
1 TGTGCTAAGTGAAATAAGT-CCATGGCA
13380137 T-T--TAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
13380162 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
13380189 --T-CTAAGTGTAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
13380214 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
13380241 TGGTGTTAAGTGA
1 T-GTGCTAAGTGA
13380254 GAAATTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
24 37 0.37
25 5 0.05
26 2 0.02
27 5 0.05
28 51 0.51
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:13380238 original size:52 final size:52
Alignment explanation
Indices: 13380110--13380241 Score: 203
Period size: 52 Copynumber: 2.5 Consensus size: 52
13380100 GATATGACAT
* * *
13380110 TGTGCTAAGTAAAATAA-TACCATGACATTTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGT-CCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
13380162 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGTAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAA
13380214 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAT
13380242 GGTGTTAAGT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:13380332 original size:51 final size:51
Alignment explanation
Indices: 13380277--13380576 Score: 439
Period size: 51 Copynumber: 5.9 Consensus size: 51
13380267 TGAACCTTAG
*
13380277 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAAGCCACTTTGT
1 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
13380328 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
13380379 GAATAAAATAGCTTTGGACACAAGTGCGGTACTATGTAAAGGCCACTTTGT
1 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
13380430 GAATAAAATAG-TTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
13380480 GAATAAAATAGC-TTTGGCTACAAAG-GTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTTGAC-A-AAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
13380531 GAATAAAATAGC-TTTGGCTACAAAG-GTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTTGAC-A-AAAGTGTGGTACTATGTGAAGGCCAC
13380577 CGTGTATCCG
Statistics
Matches: 236, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
50 52 0.22
51 181 0.77
52 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:13380454 original size:152 final size:153
Alignment explanation
Indices: 13380277--13380576 Score: 493
Period size: 152 Copynumber: 2.0 Consensus size: 153
13380267 TGAACCTTAG
13380277 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAAGCCACTTTGTGAATAAAATAGCTT
1 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAAGCCACTTTGTGAATAAAATAGCTT
13380342 TGG--ACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGG--ACACAAG
66 TGGCTACA-AAG-GTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGCTACA-AAG
13380403 TGCGGTACTATGTAAAGGCCACTTTGT
128 -GCGGTACTATGTAAAGGCCACTTTGT
* *
13380430 GAATAAAATAG-TTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
1 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAAGCCACTTTGTGAATAAAATAGCTT
*
13380494 TGGCTACAAAGGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGCTACAAAGGTG
66 TGGCTACAAAGGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGCTACAAAGGCG
*
13380559 GTACTATGTGAAGGCCAC
131 GTACTATGTAAAGGCCAC
13380577 CGTGTATCCG
Statistics
Matches: 139, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
152 116 0.83
153 17 0.12
154 6 0.04
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (153 bp):
GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAAGCCACTTTGTGAATAAAATAGCTT
TGGCTACAAAGGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGGCTACAAAGGCG
GTACTATGTAAAGGCCACTTTGT
Found at i:13380495 original size:101 final size:101
Alignment explanation
Indices: 13380277--13380576 Score: 455
Period size: 101 Copynumber: 3.0 Consensus size: 101
13380267 TGAACCTTAG
* *
13380277 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAA-GCCACTTTGTGAATAAAATAGCT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGT-AAAGGCCACTTTGTGAATAAAATAG-T
*
13380341 TTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
64 TTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
13380379 GAATAAAATAGCTTTGGACACAAGTGCGGTACTATGTAAAGGCCACTTTGTGAATAAAATAGTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTAAAGGCCACTTTGTGAATAAAATAGTTT
13380444 TGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
66 TGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
13380480 GAATAAAATAGCTTTGG-CTACAAAG-GTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGC
1 GAATAAAATAGCTTTGGAC-AC-AAGTGTGGTACTATGTAAAGGCCACTTTGTGAATAAAATAGT
*
13380543 TTTGGCTACAAAG-GTGGTACTATGTGAAGGCCAC
64 TTTGAC-AC-AAGTGTGGTACTATGTGAAGGCCAC
13380577 CGTGTATCCG
Statistics
Matches: 185, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
100 1 0.01
101 100 0.54
102 81 0.44
103 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (101 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTAAAGGCCACTTTGTGAATAAAATAGTTT
TGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:13381950 original size:104 final size:104
Alignment explanation
Indices: 13381770--13381977 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
13381760 ATATCTATGT
13381770 TTGACGTAAATTTTTACACAACAAGAAGTCAGATTAGTGCACGGACTAGGGACATGGCCATGTGA
1 TTGACGTAAATTTTTACACAACAAGAAGTCAGATTAGTGCACGGACTAGGGACATGGCCATGTGA
13381835 GCCACACGGCTGTGTCCTAATATCAAACAGGAGTGTGCC
66 GCCACACGGCTGTGTCCTAATATCAAACAGGAGTGTGCC
13381874 TTGACGTAAATTTTTACACAACAAGAAGTCAGATTAGTGCACGGACTAGGGACATGGCCATGTGA
1 TTGACGTAAATTTTTACACAACAAGAAGTCAGATTAGTGCACGGACTAGGGACATGGCCATGTGA
13381939 GCCACACGGCTGTGTCCTAATATCAAACAGGAGTGTGCC
66 GCCACACGGCTGTGTCCTAATATCAAACAGGAGTGTGCC
13381978 CCTATTTTTC
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (104 bp):
TTGACGTAAATTTTTACACAACAAGAAGTCAGATTAGTGCACGGACTAGGGACATGGCCATGTGA
GCCACACGGCTGTGTCCTAATATCAAACAGGAGTGTGCC
Found at i:13384883 original size:24 final size:24
Alignment explanation
Indices: 13384842--13384899 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
13384832 AAGCTCCTCC
* *
13384842 TGAGTTGATAAACAGTAAGCTTTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
*
13384867 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
13384891 TGAGCTGAA
1 TGAGCTGAA
13384900 TAGTAAGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:13384908 original size:22 final size:22
Alignment explanation
Indices: 13384855--13384910 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
13384845 GTTGATAAAC
*
13384855 AGTAAGCTTTATTGAGCTGAAA
1 AGTAAGCTCTATTGAGCTGAAA
*
13384877 ACGGTAAGCTCTATTGAGCTGAAT
1 A--GTAAGCTCTATTGAGCTGAAA
13384901 AGTAAGCTCT
1 AGTAAGCTCT
13384911 TTCGAGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.33
24 20 0.67
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
AGTAAGCTCTATTGAGCTGAAA
Found at i:13386667 original size:15 final size:17
Alignment explanation
Indices: 13386633--13386669 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
13386623 TCAAATCATA
13386633 ATAATTAACCAAATATT
1 ATAATTAACCAAATATT
*
13386650 ATAATT-ACCATA-ATT
1 ATAATTAACCAAATATT
13386665 ATAAT
1 ATAAT
13386670 AATATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTAACCAAATATT
Found at i:13386741 original size:38 final size:38
Alignment explanation
Indices: 13386643--13386747 Score: 108
Period size: 38 Copynumber: 2.8 Consensus size: 38
13386633 ATAATTAACC
*
13386643 AAAT-ATTATAATTACCATAATTATAATAATATTTGAA
1 AAATAATTATAATTACAATAATTATAATAATATTTGAA
* *
13386680 AAATAATTAAAATTATAGA-AATTATAATAATATTTG-A
1 AAATAATTATAATTACA-ATAATTATAATAATATTTGAA
*** *
13386717 TCCTAAATTATTATTACAATAATTATAATAA
1 AAAT-AATTATAATTACAATAATTATAATAA
13386748 AGATTTCGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
37 7 0.13
38 47 0.85
39 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (38 bp):
AAATAATTATAATTACAATAATTATAATAATATTTGAA
Found at i:13386807 original size:27 final size:27
Alignment explanation
Indices: 13386742--13386796 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13386732 ACAATAATTA
13386742 TAATAAAGATTTCGGTAAATTATTTTT
1 TAATAAAGATTTCGGTAAATTATTTTT
13386769 TAATAAAGATTTCGGTAAATTATTTTT
1 TAATAAAGATTTCGGTAAATTATTTTT
13386796 T
1 T
13386797 TAGTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (27 bp):
TAATAAAGATTTCGGTAAATTATTTTT
Found at i:13390430 original size:33 final size:33
Alignment explanation
Indices: 13390388--13390460 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
13390378 CTTGATCTAT
* * *
13390388 ATATATTATCAAATTTAGTACATTCAGTATTCA
1 ATATATTATCAAATTCAATACATTCAGCATTCA
13390421 ATATATTATCAAATTCAATACATTCAGCATTCA
1 ATATATTATCAAATTCAATACATTCAGCATTCA
*
13390454 ATCTATT
1 ATATATT
13390461 CAATTTAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (33 bp):
ATATATTATCAAATTCAATACATTCAGCATTCA
Found at i:13391104 original size:20 final size:19
Alignment explanation
Indices: 13391079--13391122 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
13391069 GTTTTATGTC
* *
13391079 CATAATTGTCCACTTACCAA
1 CATAATGGTCCAATTA-CAA
*
13391099 CATAATGGTCTAATTACAA
1 CATAATGGTCCAATTACAA
13391118 CATAA
1 CATAA
13391123 GAACCTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (19 bp):
CATAATGGTCCAATTACAA
Found at i:13398289 original size:28 final size:28
Alignment explanation
Indices: 13398231--13398298 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
13398221 GTTCTTAGAA
* * * * *
13398231 ACTCTTTCCTGAAGAATAGTCCTTGCGG
1 ACTCTTGCTTGAAGAATAGTCCCTACAG
*
13398259 ACTCTTGCTTGAAGTATAGTCCCTACAG
1 ACTCTTGCTTGAAGAATAGTCCCTACAG
*
13398287 ACTTTTGCTTGA
1 ACTCTTGCTTGA
13398299 GAGATGGTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (28 bp):
ACTCTTGCTTGAAGAATAGTCCCTACAG
Found at i:13398317 original size:28 final size:28
Alignment explanation
Indices: 13398246--13398376 Score: 113
Period size: 28 Copynumber: 4.7 Consensus size: 28
13398236 TTCCTGAAGA
*
13398246 ATAGTCCT-TGCGGACTCTTGCTTG-AAG
1 ATAGT-CTATGCGGACTCTTACTTGAAAG
** * * * * *
13398273 TATAGTCCCTACAGACTTTTGCTTGAGAG
1 -ATAGTCTATGCGGACTCTTACTTGAAAG
*
13398302 ATGGTCTATGCGGACTCTTACTTGAAAG
1 ATAGTCTATGCGGACTCTTACTTGAAAG
*
13398330 ATAGTCTATGGGGACTCTTACTTGAAAG
1 ATAGTCTATGCGGACTCTTACTTGAAAG
* * *
13398358 ATAGCCCATGGGGACTCTT
1 ATAGTCTATGCGGACTCTT
13398377 GCTTAAATAT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.01
28 81 0.96
29 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (28 bp):
ATAGTCTATGCGGACTCTTACTTGAAAG
Found at i:13402048 original size:43 final size:43
Alignment explanation
Indices: 13401923--13402111 Score: 245
Period size: 43 Copynumber: 4.4 Consensus size: 43
13401913 ATATATATGG
* * *
13401923 TCTTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGATCATG-
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
* * * * * * *
13401965 TCTTCAGTGGCATTTTTGGGAAAAGCACCGTTAAATGTCATGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
* * *
13402008 GCTTTAACGGCGTTTTTGGGGAAAGTGCCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
13402051 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
*
13402094 CCTTTAGCGGCGTTTTTG
1 TCTTTAGCGGCGTTTTTG
13402112 AGAAAAAAAC
Statistics
Matches: 124, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 34 0.27
43 90 0.73
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.32
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
Found at i:13403200 original size:182 final size:182
Alignment explanation
Indices: 13402851--13403214 Score: 635
Period size: 182 Copynumber: 2.0 Consensus size: 182
13402841 AGTAATATGC
13402851 AAATTATGTTTACAACTTGGTAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCATGGAA
1 AAATTATGTTTACAACTTGGTAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCATGGAA
13402916 GACGGCAAATGTGAGATCGAGGGAAAAATCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGT
66 GACGGCAAATGTGAGATCGAGGGAAAAATCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGT
* * * *
13402981 GACATGTCACTAGGATGGTTGACCATCCGAACTCGTTGAGTTGAGTCCGAGT
131 GACATGGCACTAGGATGGTCGAACATCCCAACTCGTTGAGTTGAGTCCGAGT
13403033 AAATTATGTTTACAACTTGGTAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCATGGAA
1 AAATTATGTTTACAACTTGGTAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCATGGAA
13403098 GACGGCAAATGTGAGATCGAGGGAAAAATCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGT
66 GACGGCAAATGTGAGATCGAGGGAAAAATCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGT
*
13403163 GACATGGCATTTATGGAT-G-CGAACA-CCCAAGCTCGTTGAGTTGAGTCCGAGT
131 GACATGGCA-CTA-GGATGGTCGAACATCCCAA-CTCGTTGAGTTGAGTCCGAGT
13403215 TCACTTAGGG
Statistics
Matches: 174, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
181 4 0.02
182 163 0.94
183 3 0.02
184 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (182 bp):
AAATTATGTTTACAACTTGGTAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCATGGAA
GACGGCAAATGTGAGATCGAGGGAAAAATCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGT
GACATGGCACTAGGATGGTCGAACATCCCAACTCGTTGAGTTGAGTCCGAGT
Found at i:13420432 original size:27 final size:27
Alignment explanation
Indices: 13420402--13420579 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
13420392 ATATCGAGCC
* * *
13420402 CGCACACTCAGTGCTATAAAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
13420429 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
13420456 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
13420484 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
13420511 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
13420538 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
13420565 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13420580 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:13420515 original size:82 final size:81
Alignment explanation
Indices: 13420423--13420578 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
13420413 TGCTATAAAA
*
13420423 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
13420487 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
13420505 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
13420570 ACTTAGTGC
66 ACTTAGTGC
13420579 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.25
82 51 0.75
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13423091 original size:26 final size:26
Alignment explanation
Indices: 13423062--13423169 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
13423052 TGGTAAAAAT
*
13423062 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
13423088 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
13423114 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13423140 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13423166 TGAT
1 TGAT
13423170 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13426423 original size:53 final size:53
Alignment explanation
Indices: 13426341--13426547 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 53
13426331 TTTTCCTTTT
* * * * * *
13426341 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGCATCGTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
*
13426394 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTA-CCTTTGCCTTATA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TA
* * * * *
13426449 TTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * *
13426502 TAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
1 T-GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
13426548 CTATCTTACC
Statistics
Matches: 131, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.34
54 41 0.31
55 43 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:13426478 original size:55 final size:54
Alignment explanation
Indices: 13426353--13426541 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 54
13426343 AACTTACCAT
* * * * *
13426353 TGCCATGTCTTGACATGGTCTTACGTGGCATCGTTGCC-T-TATGAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATATGAACTCATCAA
* *
13426406 TGCCATGCCTTGGCATGGTCTTACATGGTACCTTTGCCTTATATTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATATGAACTCATCAA
* * * *
13426461 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA-GAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATATGAACTCATCAA
*
13426515 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
13426542 ATATCCCTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 31 0.26
54 35 0.30
55 47 0.40
56 3 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATATGAACTCATCAA
Found at i:13439151 original size:24 final size:24
Alignment explanation
Indices: 13439102--13439152 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
13439092 TTCGTAGGTC
* *
13439102 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
13439126 AAATATATTATACTAATAAGTACT
1 AAATAAATTATACTAATAAATACT
13439150 AAA
1 AAA
13439153 CCCTCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:13440471 original size:46 final size:46
Alignment explanation
Indices: 13440397--13440573 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 46
13440387 AGGTTATTTG
* * *
13440397 TGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
1 TGTGCCAGTGTAAGACCATGTCTGAGACATGGCATCGACCTCGAGA
*
13440441 TGTAAGCCAGTGTAAGA-CATGTCTGAGACAT-GCATCTA-CTACGAGA
1 TGT--GCCAGTGTAAGACCATGTCTGAGACATGGCATCGACCT-CGAGA
* **
13440487 TGTGTCAGTGTAAGACCATGTCT-AGGACATGGCATCGACACGTATAGA
1 TGTGCCAGTGTAAGACCATGTCTGA-GACATGGCATCGAC-C-TCGAGA
* *
13440535 GGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGTGCCAGTGTAAGACCATGTCTGAGACATGGCATCGAC
13440574 ATAGATATGT
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
44 15 0.13
45 14 0.12
46 43 0.38
48 39 0.35
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTGCCAGTGTAAGACCATGTCTGAGACATGGCATCGACCTCGAGA
Found at i:13440738 original size:49 final size:48
Alignment explanation
Indices: 13440599--13440797 Score: 199
Period size: 49 Copynumber: 4.1 Consensus size: 48
13440589 CTAGTGTAAG
*
13440599 TCGGCCTCGATTTTGATAGT-AGTGTAAGACCATGTCTAGGACATGGCA
1 TCGGCCTCGA-TTTGATAGTCAGTGTAAGACCATGTCTGGGACATGGCA
* * * * *
13440647 TCGGCATAGATATGTGAGAG-CTAGTGTAAGACCATGTTTGGGACATGGCG
1 TCGGCCTCGAT-T-TGATAGTC-AGTGTAAGACCATGTCTGGGACATGGCA
*
13440697 TCTGCCTCGATTTCGATAGTCAGTGTAAGACCATGTCTGGGACATGGCA
1 TCGGCCTCGATTT-GATAGTCAGTGTAAGACCATGTCTGGGACATGGCA
* * ** * *
13440746 TCGACCT-GA-TGGATGAACCAGTGTAAGACTATGTCTGGGATATGGCA
1 TCGGCCTCGATTTGAT-AGTCAGTGTAAGACCATGTCTGGGACATGGCA
13440793 TCGGC
1 TCGGC
13440798 ATTATACCCT
Statistics
Matches: 124, Mismatches: 20, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
46 3 0.02
47 34 0.27
48 12 0.10
49 41 0.33
50 34 0.27
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (48 bp):
TCGGCCTCGATTTGATAGTCAGTGTAAGACCATGTCTGGGACATGGCA
Found at i:13443786 original size:40 final size:40
Alignment explanation
Indices: 13443688--13443990 Score: 389
Period size: 40 Copynumber: 7.6 Consensus size: 40
13443678 TCCTCGTTCA
* * * ** *
13443688 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
13443727 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
13443767 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
13443807 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
13443847 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
13443887 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
13443927 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
13443967 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13443991 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Done.