Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 109 of 318
Found at i:33380061 original size:46 final size:46
Alignment explanation
Indices: 33379898--33380068 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
33379888 AACCCGCCCC
* *
33379898 TAAGTGAACTCGGACTCAACT-AACGAGCTT-GGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* * *
33379943 TAAATG-ACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
33379990 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
33380035 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33380069 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
43 6 0.06
44 18 0.17
45 16 0.15
46 30 0.29
47 29 0.28
48 2 0.02
49 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:33380087 original size:46 final size:46
Alignment explanation
Indices: 33379897--33380080 Score: 129
Period size: 47 Copynumber: 4.0 Consensus size: 46
33379887 TAACCCGCCC
* * *
33379897 CTAAGTGAACTCGGACTCAACT-AACGAGCTT-GGACGTTC--GCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCTCAACCAT
*
33379940 CCATAAATG-ACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CAT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCAT
* * * *
33379989 CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCAT
33380035 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
33380080 C
1 C
33380081 CTAGTGACAT
Statistics
Matches: 110, Mismatches: 11, Indels: 36
0.70 0.07 0.23
Matches are distributed among these distances:
44 25 0.23
45 18 0.16
46 29 0.26
47 30 0.27
48 1 0.01
49 6 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:33382342 original size:44 final size:43
Alignment explanation
Indices: 33382263--33382363 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 43
33382253 GATACCACTG
* *
33382263 GGTCTTACAC-GAAATCAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACATAAATCAAATACGATGCCAACGTCCCAGACAT
*
33382305 GGTCTTACACATAAATCATAAGT-CGATGCCAACGTCCCAGACGT
1 GGTCTTACACATAAATCA-AA-TACGATGCCAACGTCCCAGACAT
33382349 GGTCTTACACGATAA
1 GGTCTTACAC-ATAA
33382364 CACATATCAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 10 0.19
43 6 0.12
44 31 0.60
45 5 0.10
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
GGTCTTACACATAAATCAAATACGATGCCAACGTCCCAGACAT
Found at i:33397815 original size:42 final size:44
Alignment explanation
Indices: 33397769--33397862 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
33397759 CCAAAATAGA
33397769 GTCTTACAC-GAAATC-CAA-TACGATGCCAAAGTCCCAGACATG
1 GTCTTACACAGAAATCACAAGT-CGATGCCAAAGTCCCAGACATG
* * * * *
33397811 GTCTTACACATAAATCACAAGTTGATGCCAACGTCCCAGGCGTG
1 GTCTTACACAGAAATCACAAGTCGATGCCAAAGTCCCAGACATG
33397855 GTCTTACA
1 GTCTTACA
33397863 TGATAACACA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 9 0.20
43 5 0.11
44 29 0.66
45 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (44 bp):
GTCTTACACAGAAATCACAAGTCGATGCCAAAGTCCCAGACATG
Found at i:33401458 original size:17 final size:16
Alignment explanation
Indices: 33401431--33401464 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33401421 TCACAATAAA
*
33401431 TAATTAAATATCTATT
1 TAATTAAATATCAATT
33401447 TAATTCAAATATCAATT
1 TAATT-AAATATCAATT
33401464 T
1 T
33401465 TCAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTAAATATCAATT
Found at i:33408658 original size:2 final size:2
Alignment explanation
Indices: 33408651--33408683 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
33408641 GAGACTAGTC
33408651 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33408684 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33411185 original size:26 final size:26
Alignment explanation
Indices: 33411156--33411215 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
33411146 TCCCTTTGAA
* * *
33411156 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
33411182 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
33411210 TCATTC
1 TCATTC
33411216 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:33411201 original size:28 final size:28
Alignment explanation
Indices: 33411170--33411232 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
33411160 TCGATATTTT
33411170 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
33411198 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
33411226 GTACACT
1 GCACACT
33411233 GAGTACCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:33418304 original size:40 final size:40
Alignment explanation
Indices: 33418260--33418369 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
33418250 TTCACAATTT
* *
33418260 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
33418300 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
33418340 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
33418370 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:33422783 original size:37 final size:37
Alignment explanation
Indices: 33422742--33422818 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
33422732 ACTCAGGCGA
33422742 CAAAACCTCTATCCACCAATTCTTGCAACTGAGCTTT
1 CAAAACCTCTATCCACCAATTCTTGCAACTGAGCTTT
33422779 CAAAACCTCTATCCACCAATTCTTGCAACTGAGCTTT
1 CAAAACCTCTATCCACCAATTCTTGCAACTGAGCTTT
33422816 CAA
1 CAA
33422819 CTCCTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (37 bp):
CAAAACCTCTATCCACCAATTCTTGCAACTGAGCTTT
Found at i:33427902 original size:30 final size:30
Alignment explanation
Indices: 33427866--33428025 Score: 186
Period size: 29 Copynumber: 5.5 Consensus size: 30
33427856 GACAAGATTG
* * * * *
33427866 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
33427896 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
33427924 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
33427953 GCACTAAGTGTGCGAGCTAAAAATTTTATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
33427983 GCATTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
33428012 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33428026 GATTCACTAT
Statistics
Matches: 114, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.20
29 45 0.39
30 42 0.37
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:33427932 original size:28 final size:28
Alignment explanation
Indices: 33427866--33427968 Score: 109
Period size: 28 Copynumber: 3.6 Consensus size: 28
33427856 GACAAGATTG
* * *
33427866 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATACA
33427896 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTGATTATACA
* * *
33427924 GCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGTTTG--ATTATACA
33427953 GCACTAAGTGTGCGAG
1 GCACTAAGTGTGCGAG
33427969 CTAAAAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.35
29 22 0.34
30 18 0.28
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATACA
Found at i:33430285 original size:27 final size:27
Alignment explanation
Indices: 33430247--33430304 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
33430237 TTCTACCATT
33430247 ATTTCGAGTTAGGGTTTATGTTTAAAA
1 ATTTCGAGTTAGGGTTTATGTTTAAAA
33430274 ATTTCGAGTTAGGGTTTATGTTTAAAA
1 ATTTCGAGTTAGGGTTTATGTTTAAAA
33430301 ATTT
1 ATTT
33430305 ACCCATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (27 bp):
ATTTCGAGTTAGGGTTTATGTTTAAAA
Found at i:33431828 original size:79 final size:81
Alignment explanation
Indices: 33431727--33431911 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33431717 ACGACTCGCT
** * *
33431727 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
33431790 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
33431807 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
33431871 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
33431887 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33431912 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:33431911 original size:40 final size:39
Alignment explanation
Indices: 33431720--33431911 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
33431710 GGATATAACG
* ** * *
33431720 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
33431760 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
33431800 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
33431839 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
33431879 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
33431912 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:33439858 original size:79 final size:81
Alignment explanation
Indices: 33439757--33439941 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33439747 ACGACTCGCT
** * *
33439757 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
33439820 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
33439837 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
33439901 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
33439917 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33439942 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:33439941 original size:40 final size:39
Alignment explanation
Indices: 33439750--33439941 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
33439740 GGATATAACG
* ** * *
33439750 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
33439790 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
33439830 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
33439869 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
33439909 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
33439942 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:33446789 original size:28 final size:28
Alignment explanation
Indices: 33446743--33446811 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33446733 TTTAAAACCC
*
33446743 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33446770 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33446798 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
33446812 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:33448462 original size:20 final size:20
Alignment explanation
Indices: 33448439--33448476 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33448429 CACATCCAAA
*
33448439 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
33448459 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
33448477 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:33454784 original size:28 final size:28
Alignment explanation
Indices: 33454738--33454806 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33454728 TTTAAAACCC
*
33454738 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33454765 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33454793 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
33454807 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:33456450 original size:20 final size:20
Alignment explanation
Indices: 33456427--33456464 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33456417 CACATCCAAA
*
33456427 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
33456447 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
33456465 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:33460643 original size:22 final size:23
Alignment explanation
Indices: 33460618--33460663 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
33460608 CAACCAAACC
33460618 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
33460640 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
33460663 A
1 A
33460664 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:33460669 original size:23 final size:23
Alignment explanation
Indices: 33460625--33460669 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33460615 ACCAATTCAA
*
33460625 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
33460648 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
33460670 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:33479364 original size:27 final size:28
Alignment explanation
Indices: 33479334--33479403 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
33479324 ATAGTGAGTC
*
33479334 CGCACACTTGGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
33479361 CGCACACTTAGTGCTCTATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33479389 CTCACACTTAGTGCT
1 CGCACACTTAGTGCT
33479404 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33483129 original size:43 final size:42
Alignment explanation
Indices: 33483044--33483206 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 42
33483034 GTGATATTCA
* * *
33483044 GGCTTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAACATTATCG
1 GGCTTCGGGCCTAGCAGGCTATAATGCAGGTGAAT-A-A-TATCG
*
33483087 GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATATCG
1 GGCTTCGGGCCTAGCAGGCTATAATGCAGGTGA-ATAATATCG
* * *
33483130 GGCTTCGGGCCTAGCAGGCTATAATTCAGGCGCAATGATATCG
1 GGCTTCGGGCCTAGCAGGCTATAATGCAGGTG-AATAATATCG
**
33483173 GGCTTCAAGCCTAGCAGG-TGA-AATGCAGGTGAAT
1 GGCTTCGGGCCTAGCAGGCT-ATAATGCAGGTGAAT
33483207 GAGTTCAGAC
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 65 0.62
44 17 0.16
45 8 0.08
46 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (42 bp):
GGCTTCGGGCCTAGCAGGCTATAATGCAGGTGAATAATATCG
Found at i:33488617 original size:49 final size:49
Alignment explanation
Indices: 33488564--33489068 Score: 790
Period size: 49 Copynumber: 10.4 Consensus size: 49
33488554 GATTTTACGC
* * *
33488564 GATGAATGTGAATGTGTATATATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
33488613 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
33488662 GATGAATGTGAGAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
33488711 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
33488760 GATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
33488809 GATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAATGGCCGAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
*
33488858 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* *
33488907 GATGAATGTGAACGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
* * *
33488956 GATGAATGTG-AAG-GTGTATATATGTGACAAGGCCGAATGGCC-AATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAA-GT
* *
33489003 GATGAATGTGAAAGTG--TATATATGTGAT-AGGCCCAGTGGCC-AACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAA-GT
*
33489049 GATGGATGTGAAAGTGTATA
1 GATGAATGTGAAAGTGTATA
33489069 AAGGTGATAA
Statistics
Matches: 428, Mismatches: 23, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
46 31 0.07
47 49 0.11
48 7 0.02
49 341 0.80
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAAGT
Found at i:33492461 original size:15 final size:15
Alignment explanation
Indices: 33492441--33492470 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33492431 TATGATATGG
33492441 AAATATGACATGAAA
1 AAATATGACATGAAA
*
33492456 AAATATTACATGAAA
1 AAATATGACATGAAA
33492471 TGCAAGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (15 bp):
AAATATGACATGAAA
Found at i:33493396 original size:14 final size:14
Alignment explanation
Indices: 33493377--33493403 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33493367 TATCAAAGCA
33493377 ATAATTAAGAACAC
1 ATAATTAAGAACAC
33493391 ATAATTAAGAACA
1 ATAATTAAGAACA
33493404 AGTAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:33493979 original size:20 final size:21
Alignment explanation
Indices: 33493947--33493989 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
33493937 TTCTTCTCGA
33493947 TTTGGTCTATTTTGTC-CCTT
1 TTTGGTCTATTTTGTCTCCTT
33493967 TTTGGCTCT-TTTTGTCTCCTT
1 TTTGG-TCTATTTTGTCTCCTT
33493988 TT
1 TT
33493990 GACTCTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.02, C:0.21, G:0.14, T:0.63
Consensus pattern (21 bp):
TTTGGTCTATTTTGTCTCCTT
Found at i:33493995 original size:20 final size:20
Alignment explanation
Indices: 33493956--33493996 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33493946 ATTTGGTCTA
*
33493956 TTTTGTCCCTTTTTGGCTCT
1 TTTTGTCCCTTTTTGACTCT
33493976 TTTTGTCTCC-TTTTGACTCT
1 TTTTGTC-CCTTTTTGACTCT
33493996 T
1 T
33493997 GGTGCTCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.02, C:0.24, G:0.12, T:0.61
Consensus pattern (20 bp):
TTTTGTCCCTTTTTGACTCT
Found at i:33502951 original size:40 final size:40
Alignment explanation
Indices: 33502873--33503096 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
33502863 ACCCAAGTAT
* *
33502873 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
33502912 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33502952 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33502992 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
33503035 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33503075 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33503097 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33503069 original size:83 final size:80
Alignment explanation
Indices: 33502873--33503096 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
33502863 ACCCAAGTAT
* * * *
33502873 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
33502937 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
33502952 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
33503016 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
33503035 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33503097 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:33511597 original size:47 final size:49
Alignment explanation
Indices: 33511216--33511585 Score: 554
Period size: 49 Copynumber: 7.7 Consensus size: 49
33511206 GATTCTACGC
* * *
33511216 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
33511265 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
33511314 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
* *
33511363 GATGAATGTGAAAGCGTATACATATGTGATGAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
* *
33511412 GATGAATGTGAAAGCGTATACATATGTGATGAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
33511461 GATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
33511508 GGTGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
33511555 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATACATATGTGATAAG
33511586 TCCCGAAGGC
Statistics
Matches: 303, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 94 0.31
48 1 0.00
49 208 0.69
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGT
Found at i:33515893 original size:40 final size:40
Alignment explanation
Indices: 33515815--33516038 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
33515805 ACCCAAGTAT
* *
33515815 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
33515854 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33515894 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33515934 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
33515977 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33516017 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
33516039 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33516011 original size:83 final size:80
Alignment explanation
Indices: 33515815--33516038 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
33515805 ACCCAAGTAT
* * * *
33515815 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
33515879 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
33515894 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
33515958 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
33515977 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33516039 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:33519198 original size:27 final size:27
Alignment explanation
Indices: 33519168--33519315 Score: 190
Period size: 27 Copynumber: 5.5 Consensus size: 27
33519158 AGTGACTGTC
33519168 TTGCCCTTATGTGGTAAAATGATTGTT
1 TTGCCCTTATGTGGTAAAATGATTGTT
* * *
33519195 TTGCCTTTATGTGGTAAAATGACTATT
1 TTGCCCTTATGTGGTAAAATGATTGTT
33519222 TTGCCCTTATGTGGTAAAATGATTGTTT
1 TTGCCCTTATGTGGTAAAATGATTG-TT
* * *
33519250 TTG-CCTTATGTGGTAAAATTACTATT
1 TTGCCCTTATGTGGTAAAATGATTGTT
* * *
33519276 TTGCCCTTATATGGTAAGAGGATTGTT
1 TTGCCCTTATGTGGTAAAATGATTGTT
*
33519303 TTGCCCCTATGTG
1 TTGCCCTTATGTG
33519316 ATGTGTATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.05
27 92 0.90
28 5 0.05
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (27 bp):
TTGCCCTTATGTGGTAAAATGATTGTT
Found at i:33519314 original size:54 final size:54
Alignment explanation
Indices: 33519168--33519315 Score: 226
Period size: 54 Copynumber: 2.7 Consensus size: 54
33519158 AGTGACTGTC
*
33519168 TTGCCCTTATGTGGTAAAATGATTGTTTTGCCTTTATGTGGTAAAATGACTATT
1 TTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATT
*
33519222 TTGCCCTTATGTGGTAAAATGATTGTTTTTG-CCTTATGTGGTAAAATTACTATT
1 TTGCCCTTATGTGGTAAAATGATTG-TTTTGCCCTTATGTGGTAAAATGACTATT
* * * *
33519276 TTGCCCTTATATGGTAAGAGGATTGTTTTGCCCCTATGTG
1 TTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTG
33519316 ATGTGTATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 5 0.06
54 76 0.88
55 5 0.06
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (54 bp):
TTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATT
Found at i:33531791 original size:41 final size:44
Alignment explanation
Indices: 33531686--33531808 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 44
33531676 ATATGTGTTC
* *
33531686 TCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATATATGGT
1 TCGTGTAAGACC-CTGTCTGGGACATTGGCATCGATATATATGAT
* *
33531730 TACGTGTAAGATCATGTCTGGGACATTGGCATCG-TAT-T-TGAT
1 T-CGTGTAAGACCCTGTCTGGGACATTGGCATCGATATATATGAT
* * *
33531772 TCGTGTAAGACCCTATCTGGGACAATGGCATTGATAT
1 TCGTGTAAGACCCTGTCTGGGACATTGGCATCGATAT
33531809 GTGATTACAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
41 27 0.40
42 7 0.10
43 1 0.01
44 4 0.06
45 28 0.42
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
TCGTGTAAGACCCTGTCTGGGACATTGGCATCGATATATATGAT
Found at i:33531791 original size:86 final size:84
Alignment explanation
Indices: 33531686--33531845 Score: 196
Period size: 84 Copynumber: 1.9 Consensus size: 84
33531676 ATATGTGTTC
* ** * * * *
33531686 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATGGTTACGTGTAAGATCATGTCTGG
1 TCGTGTAAGACCACATCTGGGACAATGGCATCG--ATATATGATTACATGTAAGAACACGTCTGG
33531751 GACATTGGCATCGTATTTGAT
64 GACATTGGCATCGTATTTGAT
* *
33531772 TCGTGTAAGACC-CTATCTGGGACAATGGCATTGATATGTGATTACATGTAAGAACACGTCTGGG
1 TCGTGTAAGACCAC-ATCTGGGACAATGGCATCGATATATGATTACATGTAAGAACACGTCTGGG
*
33531836 ACGTTGGCAT
65 ACATTGGCAT
33531846 TGTACGATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 35 0.56
85 1 0.02
86 27 0.43
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (84 bp):
TCGTGTAAGACCACATCTGGGACAATGGCATCGATATATGATTACATGTAAGAACACGTCTGGGA
CATTGGCATCGTATTTGAT
Found at i:33551025 original size:18 final size:16
Alignment explanation
Indices: 33551002--33551039 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
33550992 ATCCTTATTG
33551002 AAATAAAATACAATGGTA
1 AAATAAAATA-AAT-GTA
33551020 AAATAAAATAAATGTA
1 AAATAAAATAAATGTA
33551036 AAAT
1 AAAT
33551040 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 10 0.50
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (16 bp):
AAATAAAATAAATGTA
Found at i:33555721 original size:5 final size:5
Alignment explanation
Indices: 33555711--33555743 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
33555701 CTGTGCGTTA
*
33555711 TTTAT TTTAT TTTAC TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
33555744 TCATAGTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:33558567 original size:91 final size:92
Alignment explanation
Indices: 33558410--33558854 Score: 311
Period size: 91 Copynumber: 4.8 Consensus size: 92
33558400 ACTGATGCCA
* * * * * *
33558410 TGTCCCAGACATGGTCTTACACTGGCTCTCATATATG-C-ATGCTGATGCATGTTCCAGACATGT
1 TGTCCCAGACA-CGTCTTACACTGG--CT-ATATCTGTCGAGGCCGATGCATGTCCCAAACATGT
33558473 CTTACACTAGCACAACTCTTAGCCGAT-ACG
62 CTTACACTAGCACAACTCTTAGCCGATGACG
* * *
33558503 TGTCCCAGACACATCTTACACTGGCTATATCTGTCGAGGCCGATACATGTCCCAGACATGTCTTA
1 TGTCCCAGACACGTCTTACACTGGCTATATCTGTCGAGGCCGATGCATGTCCCAAACATGTCTTA
* * * * *
33558568 CTCTGGCAC-TCATCTCTATGCCGATGCCA
66 CACTAGCACAAC-TCT-TA-GCCGATGACG
* * * * * *
33558597 TGTCTCAGACATGGTCTTACACTGGCTCTCAT-AGAT-GCATGCTGATGCATGTCCCAAACATGT
1 TGTCCCAGACA-CGTCTTACACTGGCTAT-ATCTG-TCG-AGGCCGATGCATGTCCCAAACATGT
* * * *
33558660 CTTTCATTAACACAACTCTTAACCGATGA-G
62 CTTACACTAGCACAACTCTTAGCCGATGACG
* * *
33558690 TGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCGAGGCATGTTCCAAACATGTCTTA
1 TGTCCCAGACACGTCTTACACTGGCTATATCTGTCGAGGCCGATGCATGTCCCAAACATGTCTTA
* * * * *
33558755 CTCT-GC-CACTCATCTTTGTGCCGATGCCA
66 CACTAGCACA-AC-TC-TT-AGCCGATGACG
* * * * *
33558784 TGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT--A-GCTGAAGCATGTCCCAAACATGTC
1 TGTCCCAGACA-CGTCTTACACTGGCTAT-AT-CTGTCGAGGCCGATGCATGTCCCAAACATGTC
33558846 TTACACTAG
63 TTACACTAG
33558855 TGCACAAATC
Statistics
Matches: 274, Mismatches: 56, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
89 8 0.03
90 6 0.02
91 65 0.24
92 32 0.12
93 33 0.12
94 55 0.20
95 35 0.13
96 36 0.13
97 4 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
TGTCCCAGACACGTCTTACACTGGCTATATCTGTCGAGGCCGATGCATGTCCCAAACATGTCTTA
CACTAGCACAACTCTTAGCCGATGACG
Found at i:33558599 original size:47 final size:46
Alignment explanation
Indices: 33558403--33558852 Score: 249
Period size: 47 Copynumber: 9.6 Consensus size: 46
33558393 ATATATTACT
* * * *
33558403 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCT--ATGCC
* * *
33558453 GATGCATGTTCCAGACATGTCTTACACTAGCA--CAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAT-GCC
* * ** * *
33558497 GATACGTGTCCCAGACACATCTTACACTGGCTA-T-ATCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC--TCTATGCC
* *
33558544 GATACATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCC
* * * *
33558590 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAGATGC-ATGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT--CT-CTATGCC
* * ** * * *
33558640 GATGCATGTCCCAAACATGTCTTTCA-T-TAACACAACTCT-TAACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAT-GCC
* * * *
33558684 GATG-AGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGTCGAGGCC
1 GATGCA-TGTCCCAGACATGTCTTACACTGGC-A-CTCATCTCTATGCC
* * * * * * *
33558731 GAGGCATGTTCCAAACATGTCTTACTCTGCCACTCATCTTTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCC
* * * *
33558777 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTA-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCTATGCC
* *
33558825 GAAGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
33558853 AGTGCACAAA
Statistics
Matches: 301, Mismatches: 73, Indels: 56
0.70 0.17 0.13
Matches are distributed among these distances:
43 4 0.01
44 50 0.17
45 7 0.02
46 36 0.12
47 100 0.33
48 63 0.21
49 27 0.09
50 13 0.04
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCC
Found at i:33558725 original size:187 final size:186
Alignment explanation
Indices: 33558403--33558853 Score: 699
Period size: 187 Copynumber: 2.4 Consensus size: 186
33558393 ATATATTACT
* *
33558403 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCTGATGCATGTTCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGCATGCTGATGCATGTCCCAAA
* *
33558468 CATGTCTTACACTAGCACAACTCTTAGCCGATACGTGTCCCAGACACATCTTACACTGGCTATAT
65 CATGTCTTACACTAACACAACTCTTAACCGATACGTGTCCCAGACACATCTTACACTGGCTATAT
* * *
33558533 CTGTCGAGGCCGATACATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTATGCC
130 CTGTCGAGGCCGAGACATGTCCCAAACATGTCTTACTCTGCCACTCATCTCTATGCC
*
33558590 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAGATGCATGCTGATGCATGTCCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGCATGCTGATGCATGTCCCAAA
* * * *
33558655 CATGTCTTTCATTAACACAACTCTTAACCGATGA-GTGTCCCAGACACGTCTTACACTGGCTATC
65 CATGTCTTACACTAACACAACTCTTAACCGAT-ACGTGTCCCAGACACATCTTACACTGGCTATA
* * * *
33558719 TCTGTCGAGGCCGAGGCATGTTCCAAACATGTCTTACTCTGCCACTCATCTTTGTGCC
129 TCTGTCGAGGCCGAGACATGTCCCAAACATGTCTTACTCTGCCACTCATCTCTATGCC
* *
33558777 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTA-GCTGAAGCATGTCCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGCATGCTGATGCATGTCCCAAAC
33558841 ATGTCTTACACTA
66 ATGTCTTACACTA
33558854 GTGCACAAAT
Statistics
Matches: 241, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
185 29 0.12
186 4 0.02
187 207 0.86
188 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (186 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGCATGCTGATGCATGTCCCAAAC
ATGTCTTACACTAACACAACTCTTAACCGATACGTGTCCCAGACACATCTTACACTGGCTATATC
TGTCGAGGCCGAGACATGTCCCAAACATGTCTTACTCTGCCACTCATCTCTATGCC
Found at i:33563425 original size:27 final size:27
Alignment explanation
Indices: 33563395--33563448 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
33563385 AATTCCAAAA
*
33563395 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGTAAAA-GACTGATTT
*
33563422 TACCCCTCGAGGGTAAAAGACTGATTT
1 TACCCCTAGAGGGTAAAAGACTGATTT
33563449 GTGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAAAGACTGATTT
Found at i:33566758 original size:16 final size:17
Alignment explanation
Indices: 33566727--33566759 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33566717 AGTTTAGGGG
33566727 CAAAATTATAATTTTGC
1 CAAAATTATAATTTTGC
*
33566744 CAAAA-TATGATTTTGC
1 CAAAATTATAATTTTGC
33566760 GTCAATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (17 bp):
CAAAATTATAATTTTGC
Found at i:33570287 original size:14 final size:15
Alignment explanation
Indices: 33570238--33570287 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
33570228 GTATCTTAGG
*
33570238 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
33570253 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
33570268 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
33570282 TTTCTT
1 TTTCTT
33570288 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.32
15 19 0.61
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:33570629 original size:31 final size:31
Alignment explanation
Indices: 33570594--33570657 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
33570584 GATAAAAGAG
*
33570594 TAAATAGTTTGAACGAGAAGTGTATATTTAT
1 TAAATAGTCTGAACGAGAAGTGTATATTTAT
33570625 TAAATAGTCTGAACGAGAAGTGTATATTTAT
1 TAAATAGTCTGAACGAGAAGTGTATATTTAT
33570656 TA
1 TA
33570658 GAAAGAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.38
Consensus pattern (31 bp):
TAAATAGTCTGAACGAGAAGTGTATATTTAT
Found at i:33572873 original size:46 final size:46
Alignment explanation
Indices: 33572700--33572874 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
33572690 ATTTGGCCAT
* * *
33572700 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGC
* * *
33572746 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTA-ACTAGGCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AGA--ATG--C
*
33572793 CCGAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGAGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGC
* *
33572839 CCGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33572875 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 62 0.57
47 27 0.25
48 4 0.04
49 1 0.01
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGC
Found at i:33577577 original size:6 final size:6
Alignment explanation
Indices: 33577547--33577671 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
33577537 AAGAAATATT
* * * *
33577547 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGT GTCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-GA ATCAGA
* * * *
33577596 ATCAGA ATCAGA ATTAGA ATTAGA ATTAG- GTGACAGA ATCAGA ATCA-A
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
33577644 TATCAAGTA A-CAGA ATCAGA ATCAGA AT
1 -ATC-AG-A ATCAGA ATCAGA ATCAGA AT
33577672 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.05
6 79 0.82
7 9 0.09
8 2 0.02
9 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:33577596 original size:19 final size:19
Alignment explanation
Indices: 33577572--33577642 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
33577562 AAAATGAGAA
33577572 TCAGAATCAGAATCAGGTG
1 TCAGAATCAGAATCAGGTG
*
33577591 TCAGAATCAGAATCAGAAT-
1 TCAGAATCAGAATCAG-GTG
* *
33577610 T-AGAATTAGAATTAGGTG
1 TCAGAATCAGAATCAGGTG
*
33577628 ACAGAATCAGAATCA
1 TCAGAATCAGAATCA
33577643 ATATCAAGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 28 0.67
20 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (19 bp):
TCAGAATCAGAATCAGGTG
Found at i:33577597 original size:37 final size:37
Alignment explanation
Indices: 33577556--33577642 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 37
33577546 TATCAGAACT
* *
33577556 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGTC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * * *
33577593 AGAATCAGAATCAGAATTAGAATTAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
33577630 AGAATCAGAATCA
1 AGAATCAAAATCA
33577643 ATATCAAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:33577827 original size:27 final size:27
Alignment explanation
Indices: 33577789--33577923 Score: 141
Period size: 27 Copynumber: 5.0 Consensus size: 27
33577779 AGCATGGCCT
* * *
33577789 CCAGAATAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
33577815 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
* *
33577842 CCAGAACAGGTATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* *
33577869 CTAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* * *
33577896 CCAGAAATAGATA-ATGTGGCAAAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
33577923 C
1 C
33577924 TTAACCGAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
26 11 0.12
27 77 0.81
28 7 0.07
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:33577914 original size:54 final size:53
Alignment explanation
Indices: 33577780--33577924 Score: 157
Period size: 54 Copynumber: 2.7 Consensus size: 53
33577770 AGAATTTGCA
* * * * * *
33577780 GCATGGCCTCCAGAATAGATATTGTGACAGAGTCACCAGATACAGATATTGTG
1 GCATAGCCACCAGAATAGATATTGTGGCAAAGCCACTAGATACAGATATTGTG
* * * *
33577833 GCAGAGCCACCAGAACAGGTATTTGTGGCATAGCCACTAGA-ACAGATATTTGTG
1 GCATAGCCACCAGAATAGATA-TTGTGGCAAAGCCACTAGATACAGATA-TTGTG
*
33577887 GCATAGCCACCAGAAATAGATAATGTGGCAAAGCCACT
1 GCATAGCCACCAG-AATAGATATTGTGGCAAAGCCACT
33577925 TAACCGAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
53 23 0.31
54 46 0.61
55 6 0.08
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (53 bp):
GCATAGCCACCAGAATAGATATTGTGGCAAAGCCACTAGATACAGATATTGTG
Found at i:33578723 original size:27 final size:27
Alignment explanation
Indices: 33578533--33578721 Score: 261
Period size: 27 Copynumber: 7.0 Consensus size: 27
33578523 GGGCAAAATG
* * * *
33578533 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
33578560 GTAATTCTACCTTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33578587 GTAATTCTACCCTACGGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33578614 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33578641 ATAATTATACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33578668 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33578695 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
33578722 ATCATTTTGT
Statistics
Matches: 141, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:33580582 original size:6 final size:6
Alignment explanation
Indices: 33580552--33580676 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
33580542 AAGAAACATT
* * * *
33580552 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * **
33580601 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCACT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
33580650 ATCAAGTA A-CAGA ATTAGA ATCAGA AT
1 ATC-AG-A ATCAGA ATCAGA ATCAGA AT
33580677 ATGAATAATC
Statistics
Matches: 89, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 6 0.07
6 72 0.81
7 7 0.08
8 4 0.04
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:33580601 original size:37 final size:37
Alignment explanation
Indices: 33580560--33580647 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
33580550 TTATCAGAAC
*
33580560 TAGAATCAAAATGAGAATTAGAATCAGAATCAGGTGA
1 TAGAATCAAAATCAGAATTAGAATCAGAATCAGGTGA
* *
33580597 TAGAATCAGAATCAGAATTAGAATCAGAATTAGGTGA
1 TAGAATCAAAATCAGAATTAGAATCAGAATCAGGTGA
* *
33580634 CAGAATCAGAATCA
1 TAGAATCAAAATCA
33580648 CTATCAAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.22
Consensus pattern (37 bp):
TAGAATCAAAATCAGAATTAGAATCAGAATCAGGTGA
Found at i:33580602 original size:19 final size:19
Alignment explanation
Indices: 33580578--33580647 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
33580568 AAATGAGAAT
33580578 TAGAATCAGAATCAGGTGA
1 TAGAATCAGAATCAGGTGA
*
33580597 TAGAATCAGAATCA-G-AA
1 TAGAATCAGAATCAGGTGA
*
33580614 TTAGAATCAGAATTAGGTGA
1 -TAGAATCAGAATCAGGTGA
*
33580634 CAGAATCAGAATCA
1 TAGAATCAGAATCA
33580648 CTATCAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.02
18 14 0.33
19 27 0.63
20 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (19 bp):
TAGAATCAGAATCAGGTGA
Found at i:33580637 original size:25 final size:25
Alignment explanation
Indices: 33580609--33580676 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
33580599 GAATCAGAAT
* * *
33580609 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATTAGAATCAGAATCAAGTAA
* **
33580634 CAGAATCAGAATCACTATCAAGTAA
1 CAGAATTAGAATCAGAATCAAGTAA
33580659 CAGAATTAGAATCAGAAT
1 CAGAATTAGAATCAGAAT
33580677 ATGAATAATC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (25 bp):
CAGAATTAGAATCAGAATCAAGTAA
Found at i:33580861 original size:27 final size:26
Alignment explanation
Indices: 33580792--33580904 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
33580782 AGCATGGCTG
* * *
33580792 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTGTGGCATAGCCA
* *
33580818 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCATAGCCA
*
33580845 CCAGAACAGGTATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCATAGCCA
*
33580872 CCAGAACAGATATTTGTGGAATAGCCA
1 CCAGAACAGATA-TTGTGGCATAGCCA
33580899 CCAGAA
1 CCAGAA
33580905 ATAGATAATG
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 10 0.13
27 66 0.87
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCATAGCCA
Found at i:33580924 original size:27 final size:27
Alignment explanation
Indices: 33580792--33580926 Score: 134
Period size: 27 Copynumber: 5.0 Consensus size: 27
33580782 AGCATGGCTG
* *
33580792 CCAGAACAGATA-TTGTGACAAAGTCA
1 CCAGAACAGATATTTGTGGCAAAGCCA
* *
33580818 CCAGATATAGATA-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAAAGCCA
* *
33580845 CCAGAACAGGTATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAAAGCCA
33580872 CCAGAACAGATATTTGTGG-AATAGCCA
1 CCAGAACAGATATTTGTGGCAA-AGCCA
* * *
33580899 CCAGAAATAGATA-ATGTGGTAAAGCCA
1 CCAG-AACAGATATTTGTGGCAAAGCCA
33580926 C
1 C
33580927 TTAACAGAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
26 11 0.12
27 73 0.78
28 9 0.10
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAAAGCCA
Found at i:33581119 original size:22 final size:22
Alignment explanation
Indices: 33581085--33581149 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
33581075 GCAAATACGT
*
33581085 TTGGCACACAGCTATAATCAGG
1 TTGGCACAAAGCTATAATCAGG
* * *
33581107 TTGGCATAAAGCTATATTTAGG
1 TTGGCACAAAGCTATAATCAGG
* *
33581129 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCTATAATCAG
33581150 AATAATTAGC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (22 bp):
TTGGCACAAAGCTATAATCAGG
Found at i:33581971 original size:27 final size:27
Alignment explanation
Indices: 33581537--33581968 Score: 522
Period size: 27 Copynumber: 16.0 Consensus size: 27
33581527 GGGGCAAAAT
* * * *
33581537 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33581564 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33581591 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33581618 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * * * * * *
33581645 AATAGTTATACCCTATAGAGGCATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
33581672 AGTAATTTTACCCTATAGGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33581699 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33581726 GGTAATTCTACCCTATAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
33581753 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33581780 GATAATTCTAACCTACAGGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33581807 GGTAATTCTACCCTAAAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33581834 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
33581861 GGTAATTCTATCGTACATGAGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33581888 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
33581915 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
33581942 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33581969 AATCATTTTG
Statistics
Matches: 349, Mismatches: 56, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 349 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33584064 original size:6 final size:6
Alignment explanation
Indices: 33584029--33584153 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
33584019 AAGAAACATT
* * * *
33584029 ATCAGA A-CTAGA ATCAAA ATGAGT ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
33584078 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
33584127 ATCAAGTA A-CAGA ATCAAA ATCAGA AT
1 ATC-AG-A ATCAGA ATCAGA ATCAGA AT
33584154 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 73 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:33584079 original size:19 final size:19
Alignment explanation
Indices: 33584055--33584125 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
33584045 AAATGAGTAT
33584055 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
*
33584074 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTGA
* *
33584091 TTAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
33584111 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
33584126 TATCAAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.30
19 28 0.65
20 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:33584079 original size:37 final size:37
Alignment explanation
Indices: 33584038--33584143 Score: 142
Period size: 37 Copynumber: 2.8 Consensus size: 37
33584028 TATCAGAACT
* *
33584038 AGAATCAAAATGAGTATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGTATCAGAATCAGAATCAGGTGAC
* * *
33584075 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGAATCAGAATCAGGTGAC
33584112 AGAATCAGAATCAGTATCAAGTAA-CAGAATCA
1 AGAATCAGAATCAGTATC-AG-AATCAGAATCA
33584144 AAATCAGAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
37 48 0.81
38 9 0.15
39 2 0.03
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGTATCAGAATCAGAATCAGGTGAC
Found at i:33584090 original size:31 final size:31
Alignment explanation
Indices: 33584053--33584153 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
33584043 CAAAATGAGT
*
33584053 ATCAGAATCAGAATCAGGTGACAGAATCAGA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
* * *
33584084 ATCAGAATTAGAATCA-G-AATTAG-GTGACAGA
1 ATCAGAATCAGAATCAGGTAA-CAGAAT--CAGA
* * *
33584115 ATCAGAATCAGTATCAAGTAACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
33584146 ATCAGAAT
1 ATCAGAAT
33584154 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 2 0.04
30 3 0.05
31 44 0.80
32 3 0.05
33 3 0.05
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGGTAACAGAATCAGA
Found at i:33584121 original size:25 final size:25
Alignment explanation
Indices: 33584074--33584153 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
33584064 AATCAGGTGA
*
33584074 CAGAATC-AG-AATCAGAATTAGAAT
1 CAGAATCAAGTAA-CAGAATCAGAAT
* * *
33584098 CAGAATTAGGTGACAGAATCAGAAT
1 CAGAATCAAGTAACAGAATCAGAAT
* *
33584123 CAGTATCAAGTAACAGAATCAAAAT
1 CAGAATCAAGTAACAGAATCAGAAT
33584148 CAGAAT
1 CAGAAT
33584154 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
24 6 0.14
25 37 0.84
26 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAAGTAACAGAATCAGAAT
Found at i:33584351 original size:27 final size:27
Alignment explanation
Indices: 33584275--33584405 Score: 99
Period size: 27 Copynumber: 4.9 Consensus size: 27
33584265 TGGCTGCCAG
* * *
33584275 AACAGATA-TTGTGACAGAGTCACCAGA
1 AACAGATATTTGTGGCATAGCCACCA-A
* * * * *
33584302 TACAGATA-TTGTGGTAGAACCACTAA
1 AACAGATATTTGTGGCATAGCCACCAA
*
33584328 AACA-AGTATTTGTGGCATAGCCACCAG
1 AACAGA-TATTTGTGGCATAGCCACCAA
33584355 AACAGATATTTGTGGCATAGCCACCAGA
1 AACAGATATTTGTGGCATAGCCACCA-A
* * *
33584383 AATAGATA-ATGTGGCAAAGCCAC
1 AACAGATATTTGTGGCATAGCCAC
33584406 TTAACAGAAT
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
25 1 0.01
26 6 0.07
27 69 0.82
28 8 0.10
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (27 bp):
AACAGATATTTGTGGCATAGCCACCAA
Found at i:33584592 original size:22 final size:21
Alignment explanation
Indices: 33584564--33584625 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
33584554 GAAAATACGT
33584564 TTGGCACACAACCATAATTAGG
1 TTGGCACA-AACCATAATTAGG
* *
33584586 TTGGCACAGAGCCATATTTAGG
1 TTGGCACA-AACCATAATTAGG
*
33584608 TTGGCGCAAAGCCATAAT
1 TTGGCACAAA-CCATAAT
33584626 CAGAATAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (21 bp):
TTGGCACAAACCATAATTAGG
Found at i:33585063 original size:54 final size:54
Alignment explanation
Indices: 33585005--33585117 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
33584995 TTAACACCCT
*
33585005 AGGGGCAAAATGGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
1 AGGGGCAAAATGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
* *** * ** * *
33585059 AGGGGTATTTTGGTAATTCTACCCTACGGGGGTATTTCAGTAATTCTACCTTAC
1 AGGGGCAAAATGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
33585113 AGGGG
1 AGGGG
33585118 TATTTCAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (54 bp):
AGGGGCAAAATGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
Found at i:33585156 original size:81 final size:81
Alignment explanation
Indices: 33585051--33585207 Score: 269
Period size: 81 Copynumber: 1.9 Consensus size: 81
33585041 TCAGTAATTC
* * * *
33585051 TACCCTACAGGGGTATTTTGGTAATTCTACCCTACGGGGGTATTTCAGTAATTCTACCTTACAGG
1 TACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCGTACAGG
33585116 GGTATTTCAATAAATA
66 GGTATTTCAATAAATA
*
33585132 TACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCAATAATTCTACCGTACAGG
1 TACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCGTACAGG
33585197 GGTATTTCAAT
66 GGTATTTCAAT
33585208 CATTTTGTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (81 bp):
TACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCGTACAGG
GGTATTTCAATAAATA
Found at i:33585207 original size:27 final size:27
Alignment explanation
Indices: 33585017--33585205 Score: 243
Period size: 27 Copynumber: 7.0 Consensus size: 27
33585007 GGGCAAAATG
* * * *
33585017 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
**
33585044 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33585071 GTAATTCTACCCTACGGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33585098 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
33585125 ATAAATATACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33585152 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33585179 ATAATTCTACCGTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
33585206 ATCATTTTGT
Statistics
Matches: 138, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:33587165 original size:45 final size:44
Alignment explanation
Indices: 33587114--33587201 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 44
33587104 AATACGTTGT
* *
33587114 CATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGG
1 CATCGATATGTGATTCCGATATATG-TGTGCGAGTAAGACCATGG
* * *
33587159 CATCGATGTGTGATTCCGATATATGTGTGTGAGTAAGTCCATG
1 CATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCATG
33587202 TTTTATACGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (44 bp):
CATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCATGG
Found at i:33587210 original size:101 final size:101
Alignment explanation
Indices: 33587010--33587250 Score: 337
Period size: 101 Copynumber: 2.4 Consensus size: 101
33587000 ATGTATATGA
* * *
33587010 GGCATTGACATGTGAATTCTGATATGTAATGTGCGAGTAAGACCATGGCATCGATGTGTGATTCA
1 GGCATCGAAATGTG-ATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATGTGTGATTCA
33587075 TATATATGTGCTCAAGTAAGACCATTTTTAATACGTT
65 TATATATGTGCTCAAGTAAGACCATTTTTAATACGTT
* *
33587112 GTCATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATGTGTGATTCCG
1 GGCATCGAAATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATGTGTGATT-C-
* * *
33587177 ATATATGTGTG-T-GAGTAAGTCCATGTTTT-ATACGTT
64 ATATATATGTGCTCAAGTAAGACCAT-TTTTAATACGTT
*
33587213 GGCATCGAAATGTGATTCTGATATATG-TGTGCGAGTAA
1 GGCATCGAAATGTGATTCTGATATGTGATGTGCGAGTAA
33587251 AACCCTGTCT
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
100 11 0.09
101 88 0.70
102 17 0.13
103 10 0.08
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (101 bp):
GGCATCGAAATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATGTGTGATTCAT
ATATATGTGCTCAAGTAAGACCATTTTTAATACGTT
Found at i:33594287 original size:196 final size:197
Alignment explanation
Indices: 33593947--33594332 Score: 594
Period size: 196 Copynumber: 2.0 Consensus size: 197
33593937 TCATTCACAG
* * * * *
33593947 ACATATATGCAATCATAATCAAAATCCATTCATATCAAACACATTATCCCTCATAAGGTCCTACG
1 ACATATATGCAATCATAATCAAAATACATTCATATCAAACAAATTATCCCTCAAAAGATCCTACA
* * *** *
33594012 AGACCTTAAAACATGCTTAGAAGTGATTCGGGACTAAATTGATAACATTCACAAACTTTGAGAAA
66 AGACCTTAAAACATGCTTAGAAGTGATTCAGCACTAAACCAATAACATTCAAAAACTTTGAGAAA
* *
33594077 CTTATAAAATTTTCAAACTTTTAAAGGTCACACGCCCGTGTGAACAGGCCTTGTGCCTCATTCGA
131 CTTATAAAATTTTCAAACTTTTAAAGGTCACACGCCCATGTGAACAGGCCATGTGCCTCATTCGA
33594142 AT
196 AT
* *
33594144 ACATATATGCAATCATAATCAAAATACATTCATATCAAACAAATTGTCCCTTAAAAGAT-CTACA
1 ACATATATGCAATCATAATCAAAATACATTCATATCAAACAAATTATCCCTCAAAAGATCCTACA
* * *
33594208 AGACCTTAAAACATGCTTAGAAGTGGTTCAGCACTAAACCAATAACGTTCAAAAACTTTGATAAA
66 AGACCTTAAAACATGCTTAGAAGTGATTCAGCACTAAACCAATAACATTCAAAAACTTTGAGAAA
*
33594273 CTTATAACATTTTCAAACTTTTAAAGGTCACACGCCCATGTGAACAGGCCATGTGCCTCA
131 CTTATAAAATTTTCAAACTTTTAAAGGTCACACGCCCATGTGAACAGGCCATGTGCCTCA
33594333 CACGGTTACC
Statistics
Matches: 170, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
196 117 0.69
197 53 0.31
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (197 bp):
ACATATATGCAATCATAATCAAAATACATTCATATCAAACAAATTATCCCTCAAAAGATCCTACA
AGACCTTAAAACATGCTTAGAAGTGATTCAGCACTAAACCAATAACATTCAAAAACTTTGAGAAA
CTTATAAAATTTTCAAACTTTTAAAGGTCACACGCCCATGTGAACAGGCCATGTGCCTCATTCGA
AT
Found at i:33596508 original size:22 final size:22
Alignment explanation
Indices: 33596483--33596527 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
33596473 CGCCGTAGAT
33596483 AGGACAACACATAACCGTAAAC
1 AGGACAACACATAACCGTAAAC
* * * *
33596505 AGGATAGCACATAGCTGTAAAC
1 AGGACAACACATAACCGTAAAC
33596527 A
1 A
33596528 TCGCAGCAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (22 bp):
AGGACAACACATAACCGTAAAC
Found at i:33596959 original size:41 final size:41
Alignment explanation
Indices: 33596902--33596981 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
33596892 AAAGCCACCA
33596902 GTGGATCCATGATCGTCAAGCAACCATGAGATCCACAATCG
1 GTGGATCCATGATCGTCAAGCAACCATGAGATCCACAATCG
* * *
33596943 GTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
1 GTGGATCCATGATCGTCAAGCAACCATGAGATCCACAAT
33596982 TTCTTCCTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
GTGGATCCATGATCGTCAAGCAACCATGAGATCCACAATCG
Found at i:33597271 original size:27 final size:27
Alignment explanation
Indices: 33597219--33597561 Score: 223
Period size: 27 Copynumber: 12.7 Consensus size: 27
33597209 TTTCACCCTA
* * * * *
33597219 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * *
33597246 CAAGGGTATTTCGATAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* *
33597273 CAATGGTATTTCT-ATAATTTTTG-AAAGT
1 CAAGGGTATTT-TGGTAA-TTTTGCAAA-T
* *
33597301 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* *
33597328 TAAGAGTATTTCT-GTAATTTT-CTAAAT
1 CAAGGGTATTT-TGGTAATTTTGC-AAAT
* * *
33597355 TAAGGGTATTTTGATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* *
33597382 TAAGGGCATTTTGGTAATTTTAG-AAAT
1 CAAGGGTATTTTGGTAATTTT-GCAAAT
* * ** **
33597409 CGAGGGTATTTTGGCAATTTCACAGGT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * **
33597436 CGAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
*
33597463 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* ** *
33597489 CTAGGGGTATTTTGGTAATTTTTTAAAC
1 C-AAGGGTATTTTGGTAATTTTGCAAAT
** * *
33597517 CAAGGGTA-TTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
*
33597543 CAAGGGTATTTTAGTAATT
1 CAAGGGTATTTTGGTAATT
33597562 CTACCCTACA
Statistics
Matches: 260, Mismatches: 42, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
26 25 0.10
27 211 0.81
28 24 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGCAAAT
Found at i:33601004 original size:38 final size:38
Alignment explanation
Indices: 33600934--33601128 Score: 261
Period size: 38 Copynumber: 5.1 Consensus size: 38
33600924 ATTTGATGTG
*
33600934 TATCCGGGCTTAAAGAT-CCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TT-AA-ATCCCGCAGGCT-TCATGCTGGTATTA
*
33600974 TATCCGGGTTAAATCCCGCAAGCTTCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
* * **
33601012 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGAAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
*
33601050 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
33601088 TATCCGGGTTAAATCCCGCAGGCTT-AGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATTA
33601126 TAT
1 TAT
33601129 TTGAGCTTAA
Statistics
Matches: 141, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
37 3 0.02
38 128 0.91
39 2 0.01
40 8 0.06
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
Found at i:33608946 original size:44 final size:43
Alignment explanation
Indices: 33608868--33608962 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 43
33608858 CAAAACAATG
* * * *
33608868 GTCACATGTATTATGAACTCAGACCTCAAATCATGAGTTCAGA
1 GTCACATATATCATGAACTCAGACATCAAATCATGAGATCAGA
*
33608911 TGTCACATATATCATGAACTCAGAACAT-AACTCATGAGATCAGA
1 -GTCACATATATCATGAACTCAG-ACATCAAATCATGAGATCAGA
33608955 -TCACATAT
1 GTCACATAT
33608963 TTCCTGGTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 8 0.18
44 34 0.76
45 3 0.07
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (43 bp):
GTCACATATATCATGAACTCAGACATCAAATCATGAGATCAGA
Found at i:33611256 original size:48 final size:48
Alignment explanation
Indices: 33611185--33611417 Score: 186
Period size: 48 Copynumber: 4.9 Consensus size: 48
33611175 ACATATCATA
* * * *
33611185 CGATGCCAATGCCTTATCCCAGATATGGTCTTACATAGGATCTTAACT
1 CGATGCCGATGCCATATCCCAGATATGGTCTTATACAGGATCTTAACT
* * *
33611233 CGATGCCGATGCCATATCCCAGATATGGTCTTATACGGGA-CCTCA-T
1 CGATGCCGATGCCATATCCCAGATATGGTCTTATACAGGATCTTAACT
* * ** * * * ** * *
33611279 ACGACGCCGATGCTAGGTCCAAAATGTGGTCTTATATGGGTTCTTATAAT
1 -CGATGCCGATGCCATATCCCAGATATGGTCTTATACAGGATCTTA-ACT
* * * *
33611329 -GATGCTGATGCCATGTCCCAGACATGGTCTTATACAGGATC-TCACAT
1 CGATGCCGATGCCATATCCCAGATATGGTCTTATACAGGATCTTAAC-T
* * *
33611376 CGATGCCGATGTCATATCCCGGATATGGTCTTATACGGGATC
1 CGATGCCGATGCCATATCCCAGATATGGTCTTATACAGGATC
33611418 GTAATAACCC
Statistics
Matches: 142, Mismatches: 37, Indels: 12
0.74 0.19 0.06
Matches are distributed among these distances:
46 2 0.01
47 36 0.25
48 102 0.72
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (48 bp):
CGATGCCGATGCCATATCCCAGATATGGTCTTATACAGGATCTTAACT
Found at i:33614498 original size:19 final size:21
Alignment explanation
Indices: 33614476--33614520 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
33614466 AGAAATTAAT
*
33614476 TAAAAACCA-TAAA-ATTTTA
1 TAAAAACAATTAAATATTTTA
*
33614495 TAAAAATAATTAAATATTTTA
1 TAAAAACAATTAAATATTTTA
33614516 TAAAA
1 TAAAA
33614521 TTTTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAACAATTAAATATTTTA
Found at i:33614798 original size:31 final size:31
Alignment explanation
Indices: 33614741--33614800 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
33614731 TTTTAGAAAC
*
33614741 TTTTATAAATTATTTTTTCTAAATTTTATGGT
1 TTTTATAAATTA-TTTTTATAAATTTTATGGT
33614773 TTTTAATAAATTA-TTTTATAAATTTTAT
1 TTTT-ATAAATTATTTTTATAAATTTTAT
33614801 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 4 0.15
33 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTTATAAATTATTTTTATAAATTTTATGGT
Found at i:33614872 original size:9 final size:10
Alignment explanation
Indices: 33614809--33614880 Score: 60
Period size: 10 Copynumber: 7.3 Consensus size: 10
33614799 ATAAAATTTT
33614809 ATTTTTT-TA
1 ATTTTTTATA
33614818 ATTTATTTATA
1 ATTT-TTTATA
33614829 AGTTTTTTATA
1 A-TTTTTTATA
* * *
33614840 AATTTTAATG
1 ATTTTTTATA
**
33614850 ATTTTAAATA
1 ATTTTTTATA
33614860 ATTTTTTAT-
1 ATTTTTTATA
33614869 A-TTTTTATA
1 ATTTTTTATA
33614878 ATT
1 ATT
33614881 CCAAAATGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
8 7 0.14
9 6 0.12
10 24 0.48
11 10 0.20
12 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:33614874 original size:38 final size:36
Alignment explanation
Indices: 33614750--33614878 Score: 96
Period size: 38 Copynumber: 3.4 Consensus size: 36
33614740 CTTTTATAAA
* * *
33614750 TTATTTTTTCTAAATTTTATGGTTTTTAATAAATTATT
1 TTATTTTTTATAAATTTTATGATTTTAAAT-AATT-TT
* ** * * *
33614788 TTATAAATTTTATAAAATTTTATTTTTTTAATTTATTTA
1 TTAT--TTTTTAT-AAATTTTATGATTTTAAATAATTTT
*
33614827 TAAGTTTTTTATAAATTTTAATGATTTTAAATAATTTT
1 TTA-TTTTTTATAAATTTT-ATGATTTTAAATAATTTT
33614865 TTATATTTTTATAA
1 TTAT-TTTTTATAA
33614879 TTCCAAAATG
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
37 8 0.12
38 34 0.49
39 3 0.04
40 9 0.13
41 15 0.22
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (36 bp):
TTATTTTTTATAAATTTTATGATTTTAAATAATTTT
Found at i:33625475 original size:2 final size:2
Alignment explanation
Indices: 33625468--33625499 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
33625458 AAAATTTAAA
33625468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33625500 TCATTTAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33625808 original size:2 final size:2
Alignment explanation
Indices: 33625797--33625835 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
33625787 ACCATTGTCT
33625797 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33625836 AGACAATGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33633982 original size:15 final size:16
Alignment explanation
Indices: 33633945--33633989 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
33633935 CACCAAATAT
*
33633945 ATTAATTAAGTTTAAG
1 ATTAATTAAGTTAAAG
*
33633961 TTTAATTAA-TTAAAG
1 ATTAATTAAGTTAAAG
*
33633976 ATTAATTGAGTTAA
1 ATTAATTAAGTTAA
33633990 TTATAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (16 bp):
ATTAATTAAGTTAAAG
Found at i:33633999 original size:30 final size:31
Alignment explanation
Indices: 33633959--33634017 Score: 59
Period size: 30 Copynumber: 1.9 Consensus size: 31
33633949 ATTAAGTTTA
*
33633959 AGTTTAATTAATTAAAGATTAATTGAG-TTA
1 AGTTTAATTAATTAAAGATTAATTAAGTTTA
* *
33633989 A-TTATAATTAATTACTAGACTAATTAAGT
1 AGTT-TAATTAATTA-AAGATTAATTAAGT
33634018 ATATCAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
29 2 0.09
30 11 0.48
31 10 0.43
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTAATTAATTAAAGATTAATTAAGTTTA
Found at i:33638792 original size:50 final size:50
Alignment explanation
Indices: 33638733--33638941 Score: 249
Period size: 50 Copynumber: 4.2 Consensus size: 50
33638723 ACCGAAGCTC
33638733 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * *
33638783 TCTGGTACACATAATAGTCTGCACTTAGTACTACACATGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * ** *
33638833 TCTGATACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * * *
33638885 -CGGGTACGCATAGTAGCTTGCACTTAGTACAACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
33638934 TCTGGTAC
1 TCTGGTAC
33638942 CTGCACTTAG
Statistics
Matches: 129, Mismatches: 27, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
49 3 0.02
50 90 0.70
51 35 0.27
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:33639075 original size:142 final size:141
Alignment explanation
Indices: 33638801--33639083 Score: 494
Period size: 142 Copynumber: 2.0 Consensus size: 141
33638791 ACATAATAGT
* *
33638801 CTGCACTTAGTACTACACATGTGACTTAACCATCTGATACACTTAGTAGCCTGCACTTAGTACTA
1 CTGCACTTAGTACTACACATGTGACATAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
33638866 CACACGTGATCGAAGTTAACGGGTACGCATAGTAGCTTGCACTTAGTACAACACATGCGACCTAT
66 CACACGTGATCGAAGTTAACGGGTACGCATAGTAGCTTGCACTTAGTACAACACATGCGACCTAT
*
33638931 CAATCTGGTAC
131 CAATCTAGTAC
* *
33638942 CTGCACTTAGTACTACAATATGTGACATAACCATCTGATACACGTAGTAGCCTGCACTTAGTATT
1 CTGCACTTAGTACTAC-ACATGTGACATAACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
* *
33639007 ACACACGTGATCGAAGTTAACGGGTACGCATAGTAGCTTGCACTTCGTACTACACATGCGACCTA
65 ACACACGTGATCGAAGTTAACGGGTACGCATAGTAGCTTGCACTTAGTACAACACATGCGACCTA
33639072 TCAATCTAGTAC
130 TCAATCTAGTAC
33639084 ACGTAGTAGC
Statistics
Matches: 134, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
141 16 0.12
142 118 0.88
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (141 bp):
CTGCACTTAGTACTACACATGTGACATAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAGTTAACGGGTACGCATAGTAGCTTGCACTTAGTACAACACATGCGACCTAT
CAATCTAGTAC
Found at i:33639509 original size:18 final size:19
Alignment explanation
Indices: 33639472--33639510 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33639462 AGGTTATATC
33639472 ATCAAAATAATCACATAAT
1 ATCAAAATAATCACATAAT
* *
33639491 ATCAAATTATTCACA-AAT
1 ATCAAAATAATCACATAAT
33639509 AT
1 AT
33639511 ATACTTACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ATCAAAATAATCACATAAT
Found at i:33643020 original size:27 final size:27
Alignment explanation
Indices: 33642990--33643045 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
33642980 ACATGTTATC
33642990 ACATACATATCATGAACTTTTATTCAT
1 ACATACATATCATGAACTTTTATTCAT
33643017 ACATACATATCATGAACTTTTATTCAT
1 ACATACATATCATGAACTTTTATTCAT
33643044 AC
1 AC
33643046 TTTTTTGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.39
Consensus pattern (27 bp):
ACATACATATCATGAACTTTTATTCAT
Found at i:33644941 original size:16 final size:16
Alignment explanation
Indices: 33644922--33644953 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33644912 AATTGTTTTA
33644922 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
33644938 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
33644954 ACTGCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:33645228 original size:50 final size:50
Alignment explanation
Indices: 33645153--33645492 Score: 326
Period size: 50 Copynumber: 6.8 Consensus size: 50
33645143 ACCGAAGCTC
* *
33645153 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * *
33645203 TCTGGTACACATAGTGGCCTGCACTTAGTACTACACACATGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * ** *
33645253 TCTGATACACGTAGTATCCTGCACTTAGTACTACACACATGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * ** * *
33645305 -CAGGCATGCATAGTAGCATGCACTTAGTACTACACACGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
33645354 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGA-TTGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--A-TCAA
* ** * * *
33645406 -CGGGTATGCATAGTAGCCTGCACATAGTACTATACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
33645455 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACAC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC
33645493 AATAGATCAT
Statistics
Matches: 225, Mismatches: 57, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
49 7 0.03
50 146 0.65
51 67 0.30
52 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:33645341 original size:101 final size:101
Alignment explanation
Indices: 33645212--33645493 Score: 420
Period size: 101 Copynumber: 2.8 Consensus size: 101
33645202 ATCTGGTACA
* * * * * * *
33645212 CATAGTGGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTATCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGTAGTAGCCTGCAC
33645277 TTAGTACTACACACATGATCGAAGTTAACAGGCATG
66 TTAGTACTACACACATGATCGAAGTTAACAGGCATG
* *
33645313 CATAGTAGCATGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGTAGTAGCCTGCAC
* * *
33645378 TTAGTACTACACACATGATTGAAGTTAACGGGTATG
66 TTAGTACTACACACATGATCGAAGTTAACAGGCATG
* * * *
33645414 CATAGTAGCCTGCACATAGTACTATACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGTAGTAGCCTGCAC
33645479 TTAGTACTACACACA
66 TTAGTACTACACACA
33645494 ATAGATCATT
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 163 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACATGATCGAAGTTAACAGGCATG
Found at i:33645470 original size:151 final size:152
Alignment explanation
Indices: 33645153--33645492 Score: 391
Period size: 151 Copynumber: 2.2 Consensus size: 152
33645143 ACCGAAGCTC
* *
33645153 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACATAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACATAGT
* * * * * *
33645218 GGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTATCCTGCACTTAGTA
66 AGCCTGCACTTAGTACTACACACATGACTTAACCAACGGATACACATAGTAGCCTGCACATAGTA
* *
33645283 CTACACACATGATCGAAGTTAA
131 CTACACACATGATCCAAGTCAA
* * * * *
33645305 -CAGGCATGCATAGTAGCATGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACATAGT
** * **
33645369 AGCCTGCACTTAGTACTACACACATGA-TTGAAGTTAACGGGTATGCATAGTAGCCTGCACATAG
66 AGCCTGCACTTAGTACTACACACATGACTT-AA-CCAACGGATACACATAGTAGCCTGCACATAG
* ** *
33645433 TACTATACATGTGA-CCTA-TCAA
129 TACTACACACATGATCCAAGTCAA
* * *
33645455 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACAC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACAC
33645493 AATAGATCAT
Statistics
Matches: 154, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
150 5 0.03
151 117 0.76
152 32 0.21
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (152 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACATAGT
AGCCTGCACTTAGTACTACACACATGACTTAACCAACGGATACACATAGTAGCCTGCACATAGTA
CTACACACATGATCCAAGTCAA
Found at i:33646149 original size:11 final size:11
Alignment explanation
Indices: 33646130--33646159 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33646120 AAAGATTGGC
33646130 TTTTAATTTTA
1 TTTTAATTTTA
*
33646141 TTTTTATTTTA
1 TTTTAATTTTA
33646152 TTTTAATT
1 TTTTAATT
33646160 ACTAGATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTAATTTTA
Found at i:33646988 original size:43 final size:42
Alignment explanation
Indices: 33646940--33647038 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 42
33646930 TCCTAGGCAT
*
33646940 GGTCTTACATGTAATCAAATATCGATG-CCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATA-CAATGTCCA-TGTCCCAGACAG
* * *
33646983 GGTCTTACATGAAATCAAATACAATGTCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACAATGTCCATGTCCCAGACAG
*
33647025 GGTCTTACACGTAA
1 GGTCTTACATGTAA
33647039 ATCTCATATC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 27 0.55
43 22 0.45
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACAATGTCCATGTCCCAGACAG
Found at i:33647041 original size:43 final size:42
Alignment explanation
Indices: 33646917--33647041 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 42
33646907 GAAAAGCTCG
* * *
33646917 TACAATGCCGACGTCCTAGGCATGGTCTTACATGT-AATCAAA
1 TACAATG-CGATGTCCCAGACATGGTCTTACATGTAAATCAAA
* * *
33646959 TATCGATGCCACTGTCCCAGACAGGGTCTTACATG-AAATCAAA
1 TA-CAATGCGA-TGTCCCAGACATGGTCTTACATGTAAATCAAA
*
33647002 TACAATGTCGATGTCCCAGACATGGTCTTACACGTAAATC
1 TACAATG-CGATGTCCCAGACATGGTCTTACATGTAAATC
33647042 TCATATCGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
42 29 0.43
43 39 0.57
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
TACAATGCGATGTCCCAGACATGGTCTTACATGTAAATCAAA
Found at i:33648741 original size:13 final size:13
Alignment explanation
Indices: 33648725--33648757 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33648715 CATTATAAAG
*
33648725 TAAATAACTAATA
1 TAAATAAATAATA
33648738 TAAATAAATAATA
1 TAAATAAATAATA
33648751 -AAATAAA
1 TAAATAAA
33648758 CAAATGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATAAATAATA
Found at i:33648747 original size:17 final size:17
Alignment explanation
Indices: 33648704--33648762 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
33648694 ACGGATCATA
*
33648704 AAATAAATGAAC-ATTAT
1 AAATAAAT-AACTAATAT
33648721 AAAGTAAATAACTAATAT
1 AAA-TAAATAACTAATAT
*
33648739 AAATAAATAA-TAAAAT
1 AAATAAATAACTAATAT
*
33648755 AAACAAAT
1 AAATAAAT
33648763 GGTTAAATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.32
17 13 0.35
18 12 0.32
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAAATAACTAATAT
Found at i:33651189 original size:48 final size:47
Alignment explanation
Indices: 33651134--33651265 Score: 183
Period size: 48 Copynumber: 2.7 Consensus size: 47
33651124 ATATGTGTAA
* *
33651134 CAGTGTAAGACCATGTCTAGGACATGGCATCGGTATTGTTACGTGAGC
1 CAGTGTAAGACCATGTCT-GGACATGGCATCGGCATCGTTACGTGAGC
* * *
33651182 CAGTGTAAGACCATGTCTGAGACATGACATCAGCATCGTTATGTGAGC
1 CAGTGTAAGACCATGTCTG-GACATGGCATCGGCATCGTTACGTGAGC
*
33651230 CAGTGTAAGACCATATCTGGGACATGGCATCGGCAT
1 CAGTGTAAGACCATGTCT-GGACATGGCATCGGCAT
33651266 GAGCCATCGT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 1 0.01
48 72 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGACATGGCATCGGCATCGTTACGTGAGC
Found at i:33657635 original size:40 final size:40
Alignment explanation
Indices: 33657561--33657779 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
33657551 AACCCAAGTA
* *
33657561 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
33657600 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
33657640 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
33657680 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
33657720 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
33657759 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
33657780 GTCATCCGAA
Statistics
Matches: 171, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 36 0.21
40 134 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:33659925 original size:27 final size:26
Alignment explanation
Indices: 33659895--33659946 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
33659885 GTACAGTCTG
* *
33659895 GGCCTTAGCCCTATACAGTAATAGTAT
1 GGCCTAAGCCCAATACAGT-ATAGTAT
33659922 GGCCTAAGCCCAATACAGTATAGTA
1 GGCCTAAGCCCAATACAGTATAGTA
33659947 CAGTGTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (26 bp):
GGCCTAAGCCCAATACAGTATAGTAT
Found at i:33660387 original size:26 final size:27
Alignment explanation
Indices: 33660283--33660384 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
33660273 CTAAACATAA
* * *
33660283 GGGCATAATCGTCATTTTACCATACAG
1 GGGCATTATGGTCATTTTACCCTACAG
* *
33660310 AGGCATTATGGTCATTTTACCCTACAA
1 GGGCATTATGGTCATTTTACCCTACAG
*
33660337 GGGCATTATGGTCATTTTACCCTATAG
1 GGGCATTATGGTCATTTTACCCTACAG
*
33660364 GGGCATTATGGTTATTTTACC
1 GGGCATTATGGTCATTTTACC
33660385 TATTTTGGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGCATTATGGTCATTTTACCCTACAG
Found at i:33663436 original size:23 final size:24
Alignment explanation
Indices: 33663385--33663548 Score: 221
Period size: 23 Copynumber: 7.0 Consensus size: 24
33663375 GCTTTATCAT
*
33663385 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
33663410 ATAACTGGGG-AAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
33663433 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
33663456 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33663480 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
33663504 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33663526 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33663549 GCACTTCCTC
Statistics
Matches: 125, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
22 9 0.07
23 60 0.48
24 48 0.38
25 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33663484 original size:70 final size:70
Alignment explanation
Indices: 33663385--33663549 Score: 244
Period size: 70 Copynumber: 2.3 Consensus size: 70
33663375 GCTTTATCAT
* * *
33663385 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGG-AAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACT-GGGCATAA
33663448 GCCCTTTA
63 GCCCTTTA
* *
33663456 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGCATAAGCC
33663521 CTTTA
66 CTTTA
33663526 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
33663550 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 58 0.67
71 29 0.33
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGCATAAGCC
CTTTA
Found at i:33663630 original size:19 final size:20
Alignment explanation
Indices: 33663594--33663643 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
33663584 GCATTTATGA
*
33663594 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
33663614 ACATGTCATGT-CATATCAT
1 ACATATCATGTGCATATCAT
33663633 ACATATCATGT
1 ACATATCATGT
33663644 TTATCAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:33663721 original size:25 final size:24
Alignment explanation
Indices: 33663679--33663726 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
33663669 ATATATAAAC
* * *
33663679 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
33663704 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33663727 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:33664981 original size:27 final size:27
Alignment explanation
Indices: 33664961--33665271 Score: 373
Period size: 27 Copynumber: 11.6 Consensus size: 27
33664951 AGGGTAGTTT
*
33664961 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33664988 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33665015 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33665042 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
33665069 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
33665095 GGTAATTATGTAAAT--TGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
33665120 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
33665147 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
33665174 GGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
33665201 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
33665228 AGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
33665255 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
33665272 GGAGTACTTT
Statistics
Matches: 248, Mismatches: 27, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.09
26 26 0.10
27 196 0.79
28 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:33668452 original size:47 final size:48
Alignment explanation
Indices: 33668375--33668540 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
33668365 TGCTTTATCA
* *
33668375 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
33668424 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
33668471 GATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
33668517 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
33668541 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
46 26 0.24
47 55 0.51
48 14 0.13
49 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:33668455 original size:23 final size:24
Alignment explanation
Indices: 33668376--33668540 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
33668366 GCTTTATCAT
*
33668376 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
33668401 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
33668425 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
33668448 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33668472 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
33668496 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33668518 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33668541 GCACTTCCTC
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
22 9 0.07
23 45 0.35
24 61 0.48
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33668614 original size:20 final size:20
Alignment explanation
Indices: 33668586--33668656 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
33668576 GCATTTATGA
*
33668586 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33668606 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
33668626 ACATGTCATGTACATATCAT
1 ACATATCATGTGCATATCAT
33668646 ACATATCATGT
1 ACATATCATGT
33668657 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:33668639 original size:11 final size:11
Alignment explanation
Indices: 33668586--33668656 Score: 64
Period size: 9 Copynumber: 7.0 Consensus size: 11
33668576 GCATTTATGA
*
33668586 ACATCTCATGT
1 ACATATCATGT
*
33668597 GCATATCA--T
1 ACATATCATGT
33668606 ACATATCATGT
1 ACATATCATGT
*
33668617 GCATATCA--T
1 ACATATCATGT
*
33668626 ACATGTCATGT
1 ACATATCATGT
33668637 ACATATCA--T
1 ACATATCATGT
33668646 ACATATCATGT
1 ACATATCATGT
33668657 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
9 24 0.51
11 23 0.49
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (11 bp):
ACATATCATGT
Found at i:33668735 original size:25 final size:24
Alignment explanation
Indices: 33668693--33668740 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
33668683 ATATATAAAC
* * *
33668693 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
33668718 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33668741 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:33669998 original size:27 final size:27
Alignment explanation
Indices: 33669978--33670291 Score: 366
Period size: 27 Copynumber: 11.6 Consensus size: 27
33669968 AGGGTAGTTT
*
33669978 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33670005 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33670032 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33670059 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
33670086 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
33670113 GGTAATTATGTAAATTG-GGGTTAAAAC
1 AGTAATTCTGTAAATCGAGGG-TAAAAC
* *
33670140 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
33670167 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
33670194 GGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
33670221 GGTAATTTTACAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
33670248 AGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
33670275 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
33670292 GGAGTACTTT
Statistics
Matches: 248, Mismatches: 31, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.03
27 232 0.94
28 8 0.03
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:33670064 original size:81 final size:82
Alignment explanation
Indices: 33669979--33670291 Score: 413
Period size: 81 Copynumber: 3.9 Consensus size: 82
33669969 GGGTAGTTTA
* * * *
33669979 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGGTAAAACAGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGT
33670043 AAATCGAGGGTAAAACG
66 AAATCGAGGGTAAAACG
* * * *
33670060 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATC-GGGGGTAAAATGGTAATTATG
1 GTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTG
*
33670123 TAAATTG-GGGTTAAAACG
65 TAAATCGAGGG-TAAAACG
*
33670141 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGT
*
33670205 AAATCAAGGGTAAAACG
66 AAATCGAGGGTAAAACG
* ** * * *
33670222 GTAATTTTACAAATCGAGGGTAAAATAGTAATTCTAT-AACCTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGT
33670286 AAATCG
66 AAATCG
33670292 GGAGTACTTT
Statistics
Matches: 205, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
80 7 0.03
81 194 0.95
82 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (82 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGT
AAATCGAGGGTAAAACG
Found at i:33679457 original size:43 final size:42
Alignment explanation
Indices: 33679409--33679542 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 42
33679399 ATTTCATGTT
33679409 AGACCATGTCTGGGACATTGGCATCGATATGAGATTACGTGTA
1 AGACCATGTCTGGGACATTGGCAT-GATATGAGATTACGTGTA
* *
33679452 AGACCATGTCTAGGACATTGGCATTG-TAT-ATGATT-CGTGTT
1 AGACCATGTCTGGGACATTGGCA-TGATATGA-GATTACGTGTA
* * * *
33679493 AGACCCTGTCTGGGACAGTGGCAATGATATGTGA-TAGCATGTA
1 AGACCATGTCTGGGACATTGGC-ATGATATGAGATTA-CGTGTA
33679536 AGACCAT
1 AGACCAT
33679543 ATCCAGGATA
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
41 28 0.37
42 13 0.17
43 33 0.44
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
AGACCATGTCTGGGACATTGGCATGATATGAGATTACGTGTA
Done.