Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 95 of 325
Found at i:30534630 original size:40 final size:39
Alignment explanation
Indices: 30534570--30534647 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
30534560 TATATATAGC
*
30534570 CGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTTAGT
1 CGAAGCTATCTCAAACTGCACACCAAGTGCCA-TTTTAGT
* * *
30534610 CGAAGCTATTTCGAACTGCACACTAAGTGCCATTTTAG
1 CGAAGCTATCTCAAACTGCACACCAAGTGCCATTTTAG
30534648 CCGATAAGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 6 0.18
40 28 0.82
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (39 bp):
CGAAGCTATCTCAAACTGCACACCAAGTGCCATTTTAGT
Found at i:30547698 original size:37 final size:37
Alignment explanation
Indices: 30547639--30547784 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
30547629 AGCTCAGACG
* *
30547639 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
30547676 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30547713 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30547750 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30547785 ATATATTTCC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30548043 original size:47 final size:47
Alignment explanation
Indices: 30547991--30548184 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
30547981 CATACATATT
* * * *
30547991 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
30548038 TCACATTGACCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
30548085 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
30548132 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
30548179 TCACAT
1 TCACAT
30548185 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:30551748 original size:58 final size:58
Alignment explanation
Indices: 30551652--30551774 Score: 212
Period size: 58 Copynumber: 2.1 Consensus size: 58
30551642 GAGTGGCTCA
*
30551652 ATGAGCAAATGTTACATGATAACTATGGGGTAGAGGTCCTGACTTGATAGAAAGGCCC
1 ATGAGTAAATGTTACATGATAACTATGGGGTAGAGGTCCTGACTTGATAGAAAGGCCC
*
30551710 ATGAGTAAATGTTACATGATAACTATGGGGTATG-GGTCCTGACTTGATAGAAAGTCCC
1 ATGAGTAAATGTTACATGATAACTATGGGGTA-GAGGTCCTGACTTGATAGAAAGGCCC
30551768 ATGAGTA
1 ATGAGTA
30551775 GCTCAATTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (58 bp):
ATGAGTAAATGTTACATGATAACTATGGGGTAGAGGTCCTGACTTGATAGAAAGGCCC
Found at i:30555216 original size:46 final size:45
Alignment explanation
Indices: 30555166--30555434 Score: 289
Period size: 46 Copynumber: 5.8 Consensus size: 45
30555156 TGGTTGAGCA
30555166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
30555212 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
30555257 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
30555305 TCCGAACTCGTTGAGTTGAGTCTGAGTTCA-TGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
30555350 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
30555398 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30555435 GCGGGTTACA
Statistics
Matches: 189, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 92 0.49
47 58 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:30555322 original size:93 final size:93
Alignment explanation
Indices: 30555163--30555427 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
30555153 GGATGGTTGA
30555163 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30555228 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30555256 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
* *
30555321 TGAGTCTGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
30555349 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30555414 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30555428 CTTATGGGCG
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30558620 original size:13 final size:13
Alignment explanation
Indices: 30558599--30558628 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30558589 CTTCGAAGGG
30558599 CACAAGGGCTAGA
1 CACAAGGGCTAGA
*
30558612 CACATGGGCTAGA
1 CACAAGGGCTAGA
30558625 CACA
1 CACA
30558629 CAGGCGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.27, T:0.10
Consensus pattern (13 bp):
CACAAGGGCTAGA
Found at i:30573475 original size:27 final size:28
Alignment explanation
Indices: 30573423--30573486 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
30573413 TCTACTGGAT
*
30573423 AGTAAACACAGGGTATTCTATCGAGA-A
1 AGTAAACACAGGGTATCCTATCGAGACA
*
30573450 AGTAAACACAGGGTAGTCCT-TTGAGACA
1 AGTAAACACAGGGTA-TCCTATCGAGACA
30573478 A-TAAACACA
1 AGTAAACACA
30573487 AGGCAGTCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (28 bp):
AGTAAACACAGGGTATCCTATCGAGACA
Found at i:30574128 original size:22 final size:22
Alignment explanation
Indices: 30574088--30574129 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30574078 AGAACTCCAA
*
30574088 GGTAGTGATTATCTTGGGTAAT
1 GGTAGTGATTATCTAGGGTAAT
* *
30574110 GGTAGTGGTTTTCTAGGGTA
1 GGTAGTGATTATCTAGGGTA
30574130 GTTGCCAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.05, G:0.36, T:0.40
Consensus pattern (22 bp):
GGTAGTGATTATCTAGGGTAAT
Found at i:30577677 original size:42 final size:42
Alignment explanation
Indices: 30577565--30577718 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
30577555 TACCATACCA
*
30577565 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AAGTCTCATATCG
* * * *
30577607 ATGCCAATAGCCCAGTTATGGTATTACATGAAGTCTCATGTCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
* * **
30577650 ATTCCATATCCTAGATATGGTCTTACATGAAGTCTCATATAA
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
30577692 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
30577719 CATAGTCTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 62 0.65
43 33 0.35
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
Found at i:30585903 original size:49 final size:49
Alignment explanation
Indices: 30585831--30586020 Score: 177
Period size: 49 Copynumber: 3.8 Consensus size: 49
30585821 AGCCGAAGCT
*
30585831 GTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAAC-CAATA
1 GTCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG-AACACAATA
* * * **
30585880 GTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA
1 GTCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGAACACAATA
** * * * * *
30585931 -TCTAATACACGTAGTAGCCTACACTTAGTACTACACACATGATCACAGTT
1 GTCTGGTACACATAGTAGCCTGCACTTAGTACT--ACACATGAACACAATA
* * *
30585981 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATG
1 GTCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
30586021 CGACCTCACA
Statistics
Matches: 116, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
49 43 0.37
50 37 0.32
51 31 0.27
52 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
GTCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAACACAATA
Found at i:30588211 original size:42 final size:42
Alignment explanation
Indices: 30588157--30588260 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
30588147 ATAGCCTGGC
* * *
30588157 TATGGTCTTACACGAAGTCTCATCTCA-ATGCCATA-TCTTAGA
1 TATGGTCTTACACGAAGTCTCATAT-AGATGCCATATTC-CAAA
* *
30588199 TATGGTCTTACACAAAGTTTCATATAGATGCCATATTCCAAA
1 TATGGTCTTACACGAAGTCTCATATAGATGCCATATTCCAAA
*
30588241 TATGGTCTTACACGTAGTCT
1 TATGGTCTTACACGAAGTCT
30588261 TAGTAACCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 49 0.94
43 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (42 bp):
TATGGTCTTACACGAAGTCTCATATAGATGCCATATTCCAAA
Found at i:30606496 original size:23 final size:24
Alignment explanation
Indices: 30606460--30606504 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
30606450 TAAAGAAATG
30606460 GAAAAAAAAGAGAA-AGAAAATGAT
1 GAAAAAAAAGAGAATA-AAAATGAT
*
30606484 GAAAACAAA-AGAATAAAAATG
1 GAAAAAAAAGAGAATAAAAATG
30606505 TGTCCATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (24 bp):
GAAAAAAAAGAGAATAAAAATGAT
Found at i:30608133 original size:79 final size:81
Alignment explanation
Indices: 30607997--30608179 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
30607987 TCGAATGATG
* *
30607997 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
30608061 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
30608076 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
30608138 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
30608156 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
30608180 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:30608195 original size:40 final size:40
Alignment explanation
Indices: 30607998--30608181 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
30607988 CGAATGATGT
* * * *
30607998 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
30608038 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
30608078 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30608116 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30608157 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30608182 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30608203 original size:79 final size:79
Alignment explanation
Indices: 30608050--30608214 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
30608040 GGACTAAGAT
* **
30608050 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
30608115 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
30608129 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
30608192 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
30608208 CCGAAGG
1 CCGAAGG
30608215 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30611761 original size:13 final size:13
Alignment explanation
Indices: 30611743--30611781 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
30611733 ATATTATAAT
*
30611743 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
30611756 TATTTTATGCTAA
1 TATTTTATGTTAA
30611769 TAATTTTATGTTA
1 T-ATTTTATGTTA
30611782 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:30613305 original size:39 final size:39
Alignment explanation
Indices: 30613194--30613369 Score: 230
Period size: 40 Copynumber: 4.5 Consensus size: 39
30613184 CGGATGATAA
* * * *
30613194 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTGACTATAT
1 CCGGGCTAAG-TCCGAAGGCAATTGTGCGAGTTACTATAT
30613234 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGT-CCGAAGGCAATT-GTGCGAGTTACTATAT
*
30613274 CCGGGCTAAGTCCGAAGGCAATTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACTATAT
* *
30613313 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACTATAT
*
30613353 CC-GGCTAAATCCGAAGG
1 CCGGGCTAAGTCCGAAGG
30613370 TACTTGGGTT
Statistics
Matches: 123, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
38 7 0.06
39 44 0.36
40 72 0.59
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACTATAT
Found at i:30613341 original size:79 final size:79
Alignment explanation
Indices: 30613194--30613369 Score: 266
Period size: 79 Copynumber: 2.2 Consensus size: 79
30613184 CGGATGATAA
* *
30613194 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAG-TCCGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCG
30613259 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
* *
30613274 CCGGGCTAAGTCCGAAGGCAATTGTG-TGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCAATTGTGCT-AGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCG
*
30613338 TGCGAGTTGCTATAT
65 TGCGAGTTACTATAT
*
30613353 CC-GGCTAAATCCGAAGG
1 CCGGGCTAAGTCCGAAGG
30613370 TACTTGGGTT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 15 0.17
79 65 0.73
80 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCGT
GCGAGTTACTATAT
Found at i:30619800 original size:13 final size:13
Alignment explanation
Indices: 30619782--30619820 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
30619772 ATATTATAAT
*
30619782 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
30619795 TATTTTATGCTAA
1 TATTTTATGTTAA
30619808 TAATTTTATGTTA
1 T-ATTTTATGTTA
30619821 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:30621300 original size:40 final size:40
Alignment explanation
Indices: 30621252--30621417 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
30621242 GGACTAAGAT
*
30621252 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* * *
30621292 CCAAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* * *
30621332 CCGAAGGCAATTGTGTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
30621372 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
*
30621411 CTGAAGG
1 CCGAAGG
30621418 TACTTGGGTT
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 14 0.12
40 97 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:30623934 original size:30 final size:30
Alignment explanation
Indices: 30623856--30623943 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
30623846 CATAGTATAG
* * *
30623856 TATCTTGGGTTTCTTTA-TCCTGGATCTCTG
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
30623886 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
30623916 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
30623944 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.17, T:0.55
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:30623944 original size:14 final size:14
Alignment explanation
Indices: 30623865--30623944 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
30623855 GTATCTTGGG
*
30623865 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
30623880 TCTCTGTATTCTGGA
1 TTTCTTTATTC-GGA
*
30623895 TTTCTTTATTCCGGG
1 TTTCTTTATT-CGGA
* *
30623910 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
30623925 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
30623939 TTTCTT
1 TTTCTT
30623945 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 40 0.78
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.15, T:0.56
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:30625918 original size:46 final size:46
Alignment explanation
Indices: 30625868--30626043 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
30625858 TGTTTGGGCA
*
30625868 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *** * * ** *
30625914 TCCGAACTCGTTAAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
30625961 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
30626007 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30626044 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 69 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:30626024 original size:93 final size:93
Alignment explanation
Indices: 30625864--30626035 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
30625854 AGGATGTTTG
* *
30625864 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTAAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTAAG
*
30625929 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
30625957 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTAAG
30626022 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30626036 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTAAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:30628408 original size:13 final size:13
Alignment explanation
Indices: 30628390--30628433 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
30628380 TTTCACACGA
30628390 CCGTGTAACATGC
1 CCGTGTAACATGC
* * *
30628403 CCGTGT-TCAAGG
1 CCGTGTAACATGC
30628415 CCGTGTAACATGC
1 CCGTGTAACATGC
30628428 CCGTGT
1 CCGTGT
30628434 TCAAGGCCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (13 bp):
CCGTGTAACATGC
Found at i:30628418 original size:25 final size:25
Alignment explanation
Indices: 30628390--30628441 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
30628380 TTTCACACGA
30628390 CCGTGTAACATGCCCGTGTTCAAGG
1 CCGTGTAACATGCCCGTGTTCAAGG
30628415 CCGTGTAACATGCCCGTGTTCAAGG
1 CCGTGTAACATGCCCGTGTTCAAGG
30628440 CC
1 CC
30628442 AAATCTGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (25 bp):
CCGTGTAACATGCCCGTGTTCAAGG
Found at i:30635282 original size:27 final size:26
Alignment explanation
Indices: 30635235--30635319 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
30635225 AGGAAGCGTC
*
30635235 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
30635262 CTGGTGGCTCTGGCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * *
30635290 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
30635316 CTGG
1 CTGG
30635320 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.10
27 28 0.57
28 16 0.33
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:30635300 original size:28 final size:26
Alignment explanation
Indices: 30635252--30635319 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 26
30635242 CTATGCCACA
*
30635252 ATTATCTGATCTGGTGGCTCTGGCAC
1 ATTATCTGATCTGGTGACTCTGGCAC
* *
30635278 GATTATCTATATCTGGTGACTCTGTCAC
1 -ATTATCT-GATCTGGTGACTCTGGCAC
*
30635306 ATTATCTGTTCTGG
1 ATTATCTGATCTGG
30635320 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.14
27 14 0.40
28 16 0.46
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (26 bp):
ATTATCTGATCTGGTGACTCTGGCAC
Found at i:30636319 original size:15 final size:16
Alignment explanation
Indices: 30636290--30636320 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30636280 AATGGGTTTA
30636290 CAAAAACAAAGATTTT
1 CAAAAACAAAGATTTT
30636306 CAAAAACAAA-ATTTT
1 CAAAAACAAAGATTTT
30636321 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAAACAAAGATTTT
Found at i:30641900 original size:16 final size:16
Alignment explanation
Indices: 30641879--30641911 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30641869 AACCGAATTC
30641879 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
30641895 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
30641911 T
1 T
30641912 TGTCTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.36, G:0.06, T:0.52
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:30644239 original size:22 final size:22
Alignment explanation
Indices: 30644211--30644333 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
30644201 TTCCACATCC
30644211 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
30644233 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
30644257 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
30644280 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
30644304 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
30644327 ATCACAT
1 ATCACAT
30644334 ATATATACAC
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 27 0.38
23 12 0.17
24 12 0.17
25 20 0.28
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:30644357 original size:49 final size:47
Alignment explanation
Indices: 30644183--30644544 Score: 573
Period size: 47 Copynumber: 7.6 Consensus size: 47
30644173 CCCTTCGGGA
* * *
30644183 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
30644230 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
30644277 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
30644324 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
30644373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
30644420 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
30644469 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
30644518 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
30644545 TATTCAAATA
Statistics
Matches: 299, Mismatches: 10, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
46 1 0.00
47 158 0.53
49 139 0.46
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:30644376 original size:96 final size:94
Alignment explanation
Indices: 30644183--30644544 Score: 573
Period size: 96 Copynumber: 3.8 Consensus size: 94
30644173 CCCTTCGGGA
* * * *
30644183 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
30644248 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
* * *
30644277 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATA
30644341 CACTTTCACATTCATCACATTGGCCATTCGGC
63 CACTTTCACATTCATCACATTGGCCATTCGGC
*
30644373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
*
30644438 ACTTTCACATTCATCACATTGGCCATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
30644469 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
30644534 ACTTTCACATT
64 ACTTTCACATT
30644545 TATTCAAATA
Statistics
Matches: 251, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
93 1 0.00
94 48 0.19
96 155 0.62
97 1 0.00
98 46 0.18
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:30644447 original size:40 final size:42
Alignment explanation
Indices: 30644402--30644543 Score: 130
Period size: 49 Copynumber: 3.1 Consensus size: 42
30644392 TTCACATTCA
30644402 TCACAT-C-GGCCATTAGGCCTTATCACATATATATACACTT
1 TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
30644442 TCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTT
1 T--CA--CAT-AC--TGGCCATTAGGCCTTATCACATATATATACACTT
30644491 TCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTT
1 T--CA--CAT-AC--TGGCCATTAGGCCTTATCACATATATATACACTT
30644538 TCACAT
1 TCACAT
30644544 TTATTCAAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 15
0.86 0.00 0.14
Matches are distributed among these distances:
40 1 0.01
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 1 0.01
47 13 0.14
49 68 0.73
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (42 bp):
TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
Found at i:30646067 original size:56 final size:56
Alignment explanation
Indices: 30646000--30646119 Score: 206
Period size: 56 Copynumber: 2.1 Consensus size: 56
30645990 TATTAGTTTA
*
30646000 TTGCCCATGCTTCTGATTTTATTCTT-CCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTGATTTTATT-TTCCCATTAACACAACATGGTTCATGACATGTT
*
30646056 TTGCCCATGCTTCTTATTTTATTTTCCCATTAACACAACATGGTTCATGACATGTT
1 TTGCCCATGCTTCTGATTTTATTTTCCCATTAACACAACATGGTTCATGACATGTT
30646112 TTGCCCAT
1 TTGCCCAT
30646120 CATCCCTTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
55 2 0.03
56 59 0.97
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (56 bp):
TTGCCCATGCTTCTGATTTTATTTTCCCATTAACACAACATGGTTCATGACATGTT
Found at i:30647230 original size:27 final size:26
Alignment explanation
Indices: 30647192--30647273 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
30647182 AAGCGTCCTA
* *
30647192 GTGGCTATGCCACAATTACCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
30647219 GTGGCTCTGCCACGATTATCTATATCTG
1 GTGGCTCTGCCAC-ATTATCT-GATCTG
* * *
30647247 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
30647273 G
1 G
30647274 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.11
27 25 0.54
28 16 0.35
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:30647254 original size:28 final size:27
Alignment explanation
Indices: 30647214--30647266 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
30647204 CAATTACCTG
*
30647214 ATCTGGTGGCTCTGCCACGATTATCTAT
1 ATCTGGTGACTCTGCCAC-ATTATCTAT
*
30647242 ATCTGGTGACTCTGTCACATTATCT
1 ATCTGGTGACTCTGCCACATTATCT
30647267 GTTCTGGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (27 bp):
ATCTGGTGACTCTGCCACATTATCTAT
Found at i:30658969 original size:40 final size:40
Alignment explanation
Indices: 30658803--30658962 Score: 284
Period size: 40 Copynumber: 4.0 Consensus size: 40
30658793 GCCGGATATA
* *
30658803 GACTTAGCCCGGACATAGTCACTAGCACAAATGCCTTCGG
1 GACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
* *
30658843 GACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTTGG
1 GACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
30658883 GACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 GACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
30658923 GACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 GACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
30658963 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
Found at i:30667809 original size:106 final size:106
Alignment explanation
Indices: 30667624--30667838 Score: 378
Period size: 106 Copynumber: 2.0 Consensus size: 106
30667614 GTCAAAATGA
30667624 GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCTAGGGTCAACTAAATCTTAT
1 GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCTAGGGTCAACTAAATCTTAT
* * *
30667689 TTTTGCACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
66 ATCTACACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
*
30667730 GTAAATTTTCTTTCCTTGGAAATAATATTTATGTGTTAAATTATCT-GAGGTCAACTAAATCTTA
1 GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCTAG-GGTCAACTAAATCTTA
30667794 TATCTACACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
65 TATCTACACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
30667836 GTA
1 GTA
30667839 TTTTGAAACA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
105 1 0.01
106 103 0.99
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (106 bp):
GTAAATTTTCTTTCCTTGGAAACAATATTTATGTGTTAAATTATCTAGGGTCAACTAAATCTTAT
ATCTACACTAAAGTCGTCGAGGGTTTAAGTCTTGAGGTTGT
Found at i:30668026 original size:34 final size:34
Alignment explanation
Indices: 30667988--30668053 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
30667978 GCTATTATGG
*
30667988 GGTTAGATTGATTTATGAGACATAATATTGTTGT
1 GGTTAGATTGATTTACGAGACATAATATTGTTGT
* *
30668022 GGTTAGATTGATTTACGAGACGTAATGTTGTT
1 GGTTAGATTGATTTACGAGACATAATATTGTT
30668054 TTGGATTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.42
Consensus pattern (34 bp):
GGTTAGATTGATTTACGAGACATAATATTGTTGT
Found at i:30668432 original size:25 final size:25
Alignment explanation
Indices: 30668398--30668449 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
30668388 TCTTTAGCAT
*
30668398 ATATTTTGGCATTTTTAGTTCAATA
1 ATATTTTGGCATTTTCAGTTCAATA
30668423 ATATTTTGGCATTTTCAGTTCAATA
1 ATATTTTGGCATTTTCAGTTCAATA
30668448 AT
1 AT
30668450 TTACATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (25 bp):
ATATTTTGGCATTTTCAGTTCAATA
Found at i:30669744 original size:19 final size:19
Alignment explanation
Indices: 30669722--30669765 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
30669712 AATAATGTAC
*
30669722 ATATGTATA-AAATAC-TA
1 ATATATATATAAATACTTA
30669739 ATATATATATAAATACTTA
1 ATATATATATAAATACTTA
30669758 ATA-ATATA
1 ATATATATA
30669766 ATATATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 11 0.46
19 5 0.21
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATATATATAAATACTTA
Found at i:30669754 original size:18 final size:18
Alignment explanation
Indices: 30669722--30669779 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
30669712 AATAATGTAC
*
30669722 ATATGTATAAAATAC-TA
1 ATATATATAAAATACTTA
30669739 ATATATATATAAATACTTA
1 ATATATATA-AAATACTTA
*
30669758 ATA-ATATAATATA-TTA
1 ATATATATAAAATACTTA
*
30669774 TTATAT
1 ATATAT
30669780 TATTATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 5 0.14
17 14 0.40
18 11 0.31
19 5 0.14
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (18 bp):
ATATATATAAAATACTTA
Found at i:30676303 original size:15 final size:14
Alignment explanation
Indices: 30676285--30676380 Score: 51
Period size: 15 Copynumber: 6.6 Consensus size: 14
30676275 TGTACATATG
30676285 TATAAAATACTAATA
1 TATAAAATA-TAATA
30676300 TAT-AAATACTTAATA
1 TATAAAATA--TAATA
30676315 CT-TAATAATAT-A-A
1 -TATAA-AATATAATA
30676328 TAT--AATATAATA
1 TATAAAATATAATA
*
30676340 TGATATAATATAATA
1 T-ATAAAATATAATA
*
30676355 TAATATAATATAATAA
1 T-ATAAAATATAAT-A
30676371 TATTAAAATA
1 TA-TAAAATA
30676381 ATTAAAGTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 23
0.72 0.03 0.25
Matches are distributed among these distances:
10 5 0.08
11 1 0.02
12 3 0.05
13 4 0.06
14 6 0.09
15 33 0.50
16 10 0.15
17 4 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (14 bp):
TATAAAATATAATA
Found at i:30676329 original size:5 final size:5
Alignment explanation
Indices: 30676319--30676369 Score: 93
Period size: 5 Copynumber: 10.2 Consensus size: 5
30676309 TTAATACTTA
*
30676319 ATAAT ATAAT ATAAT ATAAT ATGAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
30676369 A
1 A
30676370 ATATTAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:30679045 original size:6 final size:6
Alignment explanation
Indices: 30679027--30679171 Score: 104
Period size: 6 Copynumber: 23.3 Consensus size: 6
30679017 AAGAAACATT
30679027 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- ATGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
30679076 ATCAGT ATCAGGTA A-CAGA ATCA-A TATCAGA ATCAGT ATCAGGTA AT-AGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA -ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
30679126 ATCAAA ATCAGA ATCAGT ATCAAGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATC-AGA ATCAGA AT
30679172 GTGAATGCAA
Statistics
Matches: 112, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
5 11 0.10
6 77 0.69
7 18 0.16
8 6 0.05
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:30679072 original size:25 final size:25
Alignment explanation
Indices: 30679041--30679137 Score: 101
Period size: 25 Copynumber: 3.9 Consensus size: 25
30679031 GAACTAGAAT
*
30679041 CAGAATCAGAATCAGAATCAGATGA
1 CAGAATCAGAATCAGAATCAGATAA
* *
30679066 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGATAA
*
30679091 CAGAATCA-ATATCAGAATCAG-TAT
1 CAGAATCAGA-ATCAGAATCAGATAA
*
30679115 CAGGTAAT-AGAATCAAAATCAGA
1 CA-G-AATCAGAATCAGAATCAGA
30679138 ATCAGTATCA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
24 5 0.08
25 52 0.85
26 4 0.07
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGATAA
Found at i:30679074 original size:31 final size:31
Alignment explanation
Indices: 30679038--30679171 Score: 148
Period size: 31 Copynumber: 4.3 Consensus size: 31
30679028 TCAGAACTAG
* * *
30679038 AATCAGAATCAGAATCAGA-ATCAG-ATGACAG
1 AATCAGAATCAGTATCAGATAACAGAAT--CAA
*
30679069 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGATAACAGAATCAA
* * *
30679100 TATCAGAATCAGTATCAGGTAATAGAATCAA
1 AATCAGAATCAGTATCAGATAACAGAATCAA
30679131 AATCAGAATCAGTATCA-AGTAACAGAATCAAA
1 AATCAGAATCAGTATCAGA-TAACAGAATC-AA
30679163 AATCAGAAT
1 AATCAGAAT
30679172 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
31 73 0.81
32 15 0.17
33 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGATAACAGAATCAA
Found at i:30679350 original size:27 final size:26
Alignment explanation
Indices: 30679308--30679409 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
30679298 GCTCAGTTAT
* *
30679308 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
30679335 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
30679361 CAGATAGTTGTGGCATAGCCACCAAAAA
1 CAGATA-TTGTGGCAGAGCCACC-AGAA
* *
30679389 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
30679410 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 51 0.76
28 9 0.13
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:30679596 original size:22 final size:23
Alignment explanation
Indices: 30679568--30679629 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
30679558 GCAAATACGT
*
30679568 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAGCCATAATGTAGG
*
30679590 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGTAGG
* *
30679612 TTGACACAAAACCATAAT
1 TTGGCACAAAGCCATAAT
30679630 CAGAAGGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGTAGG
Found at i:30680116 original size:27 final size:27
Alignment explanation
Indices: 30680059--30680307 Score: 347
Period size: 27 Copynumber: 9.3 Consensus size: 27
30680049 GGGGCAAAAT
* * * *
30680059 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30680085 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30680112 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30680139 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30680166 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
30680193 GGTAATTCTACCTTACAGGGATATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
30680220 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30680247 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30680274 GGTAATTCTAACCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
30680301 GGTAATT
1 GGTAATT
30680308 TTTTAAATCG
Statistics
Matches: 195, Mismatches: 27, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
26 14 0.07
27 181 0.93
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:30680386 original size:27 final size:27
Alignment explanation
Indices: 30680356--30680420 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
30680346 GGTACTATGG
30680356 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
30680383 TAATTTTACAGGTCGAGGGTATTTTAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
30680410 TAATTTCACAA
1 TAATTTTACAA
30680421 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:30680467 original size:81 final size:80
Alignment explanation
Indices: 30680353--30680658 Score: 301
Period size: 81 Copynumber: 3.8 Consensus size: 80
30680343 CAAGGTACTA
** ** ** * * *
30680353 TGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTAGTAATTTC
1 TGGTAATTTTACAAACCAG-GGGTATTTTGATAATTTTACA-AACAAGGGTATTTTGGTAATTTA
**
30680417 ACAAATTAGGGGTATTT
64 ACAAACAAGGGGTATTT
* *
30680434 TGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGATATTTTGGTAATTTAA
1 TGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACAAGGG-TATTTTGGTAATTTAA
* * *
30680499 TAAACAAAGGGTATTC
65 CAAACAAGGGGTATTT
* * ** * *
30680515 TAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGGAATTTTA
1 TGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAA-CAAGGGTATTTTGGTAATTTAA
*
30680580 CAAACCAGGGGTATTT
65 CAAACAAGGGGTATTT
* * * *
30680596 TGGTGATTTTATAAACCAAGGGTATTTT-AGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 TGGTAATTTTACAAACCAGGGGTATTTTGA-TAATTTTACAAA-CAAGGGTATTTTGGTAATTT
30680659 GGTAAACTAA
Statistics
Matches: 185, Mismatches: 36, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
80 5 0.03
81 174 0.94
82 6 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
TGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACAAGGGTATTTTGGTAATTTAAC
AAACAAGGGGTATTT
Found at i:30680665 original size:27 final size:27
Alignment explanation
Indices: 30680399--30680658 Score: 331
Period size: 27 Copynumber: 9.6 Consensus size: 27
30680389 TACAGGTCGA
* * **
30680399 GGGTATTTTAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
30680426 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
30680453 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
30680480 GGATATTTTGGTAATTTAATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
30680507 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
30680534 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
30680561 GGGTATTTTGGGAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
30680588 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
30680615 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
30680642 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
30680659 GGTAAACTAA
Statistics
Matches: 197, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:30680665 original size:54 final size:54
Alignment explanation
Indices: 30680398--30680658 Score: 380
Period size: 54 Copynumber: 4.8 Consensus size: 54
30680388 TTACAGGTCG
* ** * *
30680398 AGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * * *
30680452 GGGGTATTTT-GATAATTTTACAAACCAGGGATATTTTGGTAATTTAATAAACAA
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
30680506 AGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * *
30680560 AGGGTATTTTGGGAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
30680614 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
30680659 GGTAAACTAA
Statistics
Matches: 183, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 181 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:30685121 original size:46 final size:46
Alignment explanation
Indices: 30685071--30685243 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
30685061 TGGTTGAGCA
30685071 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30685117 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30685162 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30685210 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30685244 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30685227 original size:93 final size:93
Alignment explanation
Indices: 30685068--30685238 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
30685058 GGATGGTTGA
* *
30685068 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30685133 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
30685161 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30685226 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30685239 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:30688218 original size:15 final size:15
Alignment explanation
Indices: 30688198--30688253 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
30688188 GTATCTTGGG
30688198 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
30688213 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
30688228 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
30688243 TTTCTTTATTC
1 TTTCTTTATTC
30688254 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:30690699 original size:46 final size:46
Alignment explanation
Indices: 30690649--30690821 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
30690639 TGGTTGAGCA
30690649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30690695 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30690740 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30690788 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30690822 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30690805 original size:93 final size:93
Alignment explanation
Indices: 30690646--30690816 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
30690636 GGATGGTTGA
* *
30690646 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30690711 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
30690739 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30690804 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30690817 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:30693005 original size:21 final size:21
Alignment explanation
Indices: 30692981--30693053 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
30692971 TGTCATAGGG
30692981 TCACACAGGCGTGTCCCTTGA
1 TCACACAGGCGTGTCCCTTGA
* *
30693002 TCACACGGGCATGTCCCTTGA
1 TCACACAGGCGTGTCCCTTGA
**
30693023 -CTACATGGGCGTGTCCCTTGA
1 TC-ACACAGGCGTGTCCCTTGA
*
30693044 CCACACAGGC
1 TCACACAGGC
30693054 ATGTGTGCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 42 0.95
22 1 0.02
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.22
Consensus pattern (21 bp):
TCACACAGGCGTGTCCCTTGA
Found at i:30700433 original size:16 final size:16
Alignment explanation
Indices: 30700412--30700467 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
30700402 CGTTTGGTTT
*
30700412 ACTGTAATAGAATAAA
1 ACTGTAATAAAATAAA
*
30700428 ACTGTAATAAAATATA
1 ACTGTAATAAAATAAA
** *
30700444 GTTGTAATATAATAAA
1 ACTGTAATAAAATAAA
*
30700460 GCTGTAAT
1 ACTGTAAT
30700468 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (16 bp):
ACTGTAATAAAATAAA
Found at i:30700758 original size:16 final size:16
Alignment explanation
Indices: 30700739--30700785 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
30700729 TAAAAATATA
30700739 TAATTTAATATATTTT
1 TAATTTAATATATTTT
*
30700755 TAATATAAT-TATTTT
1 TAATTTAATATATTTT
*
30700770 TATATTAAATTATATT
1 TA-ATTTAA-TATATT
30700786 AAAATATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 8 0.32
16 12 0.48
17 1 0.04
18 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATTTAATATATTTT
Found at i:30700769 original size:15 final size:16
Alignment explanation
Indices: 30700739--30700771 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30700729 TAAAAATATA
*
30700739 TAATTTAATATATTTT
1 TAATATAATATATTTT
30700755 TAATATAAT-TATTTT
1 TAATATAATATATTTT
30700770 TA
1 TA
30700772 TATTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TAATATAATATATTTT
Found at i:30716254 original size:49 final size:49
Alignment explanation
Indices: 30716175--30716418 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
30716165 GCTATCGTGA
* *
30716175 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
30716224 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
* * * **
30716275 GATCACGTGTGTAGTACTAAGTG-AGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
30716323 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** * *
30716373 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
30716419 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.01
49 103 0.62
50 38 0.23
51 22 0.13
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:30716350 original size:100 final size:99
Alignment explanation
Indices: 30716177--30716405 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 99
30716167 TATCGTGAGG
*
30716177 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATTGGTCACATGTGTAGTACT
* * *
30716242 AAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TTGGA
* ** *
30716277 TCACGTGTGTAGTACTAAGTG-AGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATT-GGTCACATGTGTAGTAC
* *
30716341 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGT
65 TAAGTGCAGGCTACTACGCGTACCGGATAATTGGA
30716376 TGCA--TGTGTAGTACTAAGTGCAGGCTACTA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTA
30716406 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
98 16 0.14
99 35 0.30
100 65 0.56
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGGA
Found at i:30718473 original size:43 final size:45
Alignment explanation
Indices: 30718426--30718560 Score: 141
Period size: 51 Copynumber: 2.9 Consensus size: 45
30718416 GTGGCATCTG
* *
30718426 AGCTCATTGAGAGGTCCGAGTTCATTATGGAT-GTG-AGCATCCA
1 AGCTCATTGAGAGGTCCGAGTTCATTATGGATCATGTAACATCCA
* * *
30718469 AGCTCGTTGAGAGGCCCGAGTTCATAATGGATGCGACTCATGTAACATCCG
1 AGCTCATTGAGAGGTCCGAGTTCAT--T--ATG-GA-TCATGTAACATCCA
*
30718520 AGCTCATTGAGAGGTCCGAGTTCATTATGGAT-ATGTTACAT
1 AGCTCATTGAGAGGTCCGAGTTCATTATGGATCATGTAACAT
30718561 GTTATGTGGT
Statistics
Matches: 76, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
43 23 0.30
44 8 0.11
45 2 0.03
46 2 0.03
47 6 0.08
48 2 0.03
49 2 0.03
50 2 0.03
51 29 0.38
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (45 bp):
AGCTCATTGAGAGGTCCGAGTTCATTATGGATCATGTAACATCCA
Found at i:30740297 original size:34 final size:33
Alignment explanation
Indices: 30740254--30740319 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
30740244 TGGCATTATC
*
30740254 AGTGTGGGCCTTAGTCC-ATTACAGTAACAGTATT
1 AGTGTGGGCCTTAGCCCAATT-CAGT-ACAGTATT
30740288 AGTGTGGGCCTTAGCCCAATTCAGTACAGTAT
1 AGTGTGGGCCTTAGCCCAATTCAGTACAGTAT
30740320 CAGAAATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 7 0.23
34 20 0.67
35 3 0.10
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (33 bp):
AGTGTGGGCCTTAGCCCAATTCAGTACAGTATT
Found at i:30752695 original size:37 final size:36
Alignment explanation
Indices: 30752591--30752697 Score: 115
Period size: 37 Copynumber: 2.9 Consensus size: 36
30752581 ACTATTAATG
* *
30752591 AAAGCATGATTAAGAATGCCATTAAGATTGTTAAACCA
1 AAAGCATGA-TAAGCATGCCATTAA-ATTGTTAAACAA
* * * *
30752629 GAAGCATGACAAACATGCCACTGAAATTGTTAAACAA
1 AAAGCATGATAAGCATGCCA-TTAAATTGTTAAACAA
*
30752666 AAATCATGATAAGCATGCCATTAATATTGTTA
1 AAAGCATGATAAGCATGCCATTAA-ATTGTTA
30752698 CTGCTATCGA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
36 3 0.05
37 42 0.75
38 11 0.20
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (36 bp):
AAAGCATGATAAGCATGCCATTAAATTGTTAAACAA
Found at i:30755097 original size:40 final size:40
Alignment explanation
Indices: 30755015--30755196 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
30755005 AACCCAAGTT
* * *
30755015 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCA-AAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAA-G
* * *
30755054 CCTTCTGGTCTTAGCTCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
30755094 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
30755134 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
30755174 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30755197 CATTCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 11 0.09
40 108 0.86
41 7 0.06
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:30755147 original size:80 final size:80
Alignment explanation
Indices: 30755015--30755196 Score: 253
Period size: 80 Copynumber: 2.3 Consensus size: 80
30755005 AACCCAAGTT
* * * * *
30755015 CCTTCAGGATTTAG-CCGGATATAGCAACTCGCAAAAATGCCTTCTGGTCTTAGCTCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCAAAAATGCCTTCTGGACTTAGCCCGGATATAG
30755079 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
*
30755094 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTT-TGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCAAAAATGCCTTCT-GGACTTAGCCCGGATAT
*
30755157 AGTCAATAGCACAAATG
64 AGTCAATAGCACAAAAG
*
30755174 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30755197 CATTCGAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
79 13 0.14
80 78 0.85
81 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCAAAAATGCCTTCTGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:30763276 original size:40 final size:40
Alignment explanation
Indices: 30763200--30763423 Score: 344
Period size: 40 Copynumber: 5.6 Consensus size: 40
30763190 CAAACCCAAG
* *
30763200 TGCCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAA
* *
30763239 TGCCTTCGGGTCTTAGCCCAGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
* *
30763279 AGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
* *
30763319 TGCCTTCGGGACTTAGCCTGGATATAGGCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
30763359 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
*
30763399 TGCCTTTGGGACTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
30763424 CATTCGAATA
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 151 0.90
41 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
Found at i:30765153 original size:28 final size:29
Alignment explanation
Indices: 30765088--30765186 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
30765078 CATGAGATTG
* *
30765088 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
30765117 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
30765145 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
30765173 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30765187 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:30773104 original size:29 final size:28
Alignment explanation
Indices: 30773062--30773130 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
30773052 CATGAGATTG
*
30773062 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTT--AATTATATA
*
30773091 GCACTAAGTGTGCGAGGTTGATTATATA
1 GCACTAAGTGTGCGAGGTTAATTATATA
30773119 GCACTAAGTGTG
1 GCACTAAGTGTG
30773131 AGTTCGACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 19 0.51
29 14 0.38
30 4 0.11
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGGTTAATTATATA
Found at i:30773127 original size:28 final size:29
Alignment explanation
Indices: 30773062--30773158 Score: 107
Period size: 26 Copynumber: 3.5 Consensus size: 29
30773052 CATGAGATTG
* *
30773062 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
30773091 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
30773119 GCACTAAGTGT--GA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
30773145 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30773159 GGCTTATTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.07
26 19 0.32
28 19 0.32
29 14 0.23
30 4 0.07
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:30776684 original size:34 final size:34
Alignment explanation
Indices: 30776641--30776710 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
30776631 TGATTTATGT
30776641 TATTATCCCTTTCGAGACTAAAAACAACTAACTC
1 TATTATCCCTTTCGAGACTAAAAACAACTAACTC
*
30776675 TATTATCCCTTTCGAGACTAAAAACAACTGACTC
1 TATTATCCCTTTCGAGACTAAAAACAACTAACTC
30776709 TA
1 TA
30776711 GGTTGATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (34 bp):
TATTATCCCTTTCGAGACTAAAAACAACTAACTC
Found at i:30778407 original size:64 final size:65
Alignment explanation
Indices: 30778322--30778451 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 65
30778312 ATTAAATGAT
*
30778322 TCGAATGAAAGACATAGTTAGGCAATTAACCAATGCAAATCTTGACAAAAAATGAGTCAACAAAA
1 TCGAATGAAAGAAATAGTTAGGCAATTAACCAATGCAAATCTTGACAAAAAATGAGTCAACAAAA
30778387 TCGAATG-AAGAAATAGTTAGGCAATTAACCAATGCAAATCTTGACAAAAAATGAGTCAACAAAA
1 TCGAATGAAAGAAATAGTTAGGCAATTAACCAATGCAAATCTTGACAAAAAATGAGTCAACAAAA
30778451 T
1 T
30778452 GGAAAAAATT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 57 0.89
65 7 0.11
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (65 bp):
TCGAATGAAAGAAATAGTTAGGCAATTAACCAATGCAAATCTTGACAAAAAATGAGTCAACAAAA
Found at i:30779363 original size:22 final size:22
Alignment explanation
Indices: 30779322--30779378 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
30779312 CATAAGTCTT
*
30779322 TAAAAATAAA-GAAGAG-AAAA
1 TAAAAATAAATAAAGAGAAAAA
* *
30779342 TAAAATTTAAATAAAGATAAAAA
1 TAAAA-ATAAATAAAGAGAAAAA
30779365 TAAAAATAAATAAA
1 TAAAAATAAATAAA
30779379 TAAATAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.17
21 4 0.13
22 12 0.40
23 9 0.30
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (22 bp):
TAAAAATAAATAAAGAGAAAAA
Found at i:30779593 original size:13 final size:13
Alignment explanation
Indices: 30779550--30779594 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
30779540 TCGCTGGTGG
30779550 AAGGG-AGAAAGA
1 AAGGGAAGAAAGA
30779562 AAGGGAAGAAATG-
1 AAGGGAAGAAA-GA
*
30779575 AGGGGAAGAAAGA
1 AAGGGAAGAAAGA
30779588 AAGGGAA
1 AAGGGAA
30779595 AGGGAGAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 6 0.21
13 21 0.75
14 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (13 bp):
AAGGGAAGAAAGA
Found at i:30783568 original size:79 final size:80
Alignment explanation
Indices: 30783453--30783638 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 80
30783443 AGCTACTCGT
* *
30783453 ACAAAGGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
1 ACAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACC
* *
30783516 CGGATTTAGTAAC-TCGC
63 CGGATATAGTAACTTAGC
* * * * **
30783533 ACCAATGCCTTCGGG-CTTAGCTCGGAATTAGTAACTTGCACAACTGCCTTCGGATCTTAGTCCG
1 A-CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
30783597 GATATAGTCACTTAGC
65 GATATAGTAACTTAGC
30783613 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAGCCCGGA
30783639 CATCATTCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGC
Found at i:30783581 original size:39 final size:39
Alignment explanation
Indices: 30783459--30783638 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 39
30783449 TCGTACAAAG
* *
30783459 GCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAC-AAT
* *
30783499 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA-CAAT
* *
30783539 GCCTTCGGG-CTTAGCTCGGAATTAGTAACTTGCACAACT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAA-T
* * * *
30783578 GCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACAAT
30783618 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
30783639 CATCATTCGA
Statistics
Matches: 119, Mismatches: 12, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
38 5 0.04
39 30 0.25
40 71 0.60
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAT
Found at i:30791644 original size:79 final size:81
Alignment explanation
Indices: 30791535--30791717 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
30791525 TACTCGTTCA
* *
30791535 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
30791598 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
30791615 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
30791678 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
30791694 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30791718 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:30791717 original size:40 final size:40
Alignment explanation
Indices: 30791514--30791717 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
30791504 CGGAATTTAA
** *
30791514 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30791554 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30791594 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
30791633 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
30791673 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30791713 CCGGA
1 CCGGA
30791718 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30796248 original size:16 final size:15
Alignment explanation
Indices: 30796218--30796256 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30796208 CAGTTTTAGG
*
30796218 TTTTCTTTAGATTAT
1 TTTTATTTAGATTAT
*
30796233 TTTGTATTTAGGTTAT
1 TTT-TATTTAGATTAT
30796249 TTTTATTT
1 TTTTATTT
30796257 CTAATTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (15 bp):
TTTTATTTAGATTAT
Found at i:30798863 original size:6 final size:6
Alignment explanation
Indices: 30798833--30798957 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
30798823 AAGAAACATT
* * * *
30798833 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA AACAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
30798882 ATCAGA ATCAAA ATCAGA ATCAGA ATCA-A GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
30798931 ATCAGGTA A-CAAA ATCAGA ATTAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
30798958 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
5 5 0.05
6 73 0.80
7 9 0.10
8 4 0.04
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:30798883 original size:19 final size:18
Alignment explanation
Indices: 30798859--30798930 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
30798849 AAATGAGAAT
*
30798859 CAGAATCAGAAACAGGTGA
1 CAGAATCAGAATCA-GTGA
**
30798878 CAGAATCAGAATCA-AAA
1 CAGAATCAGAATCAGTGA
30798895 TCAGAATCAGAATCAAGTGA
1 -CAGAATCAGAATC-AGTGA
30798915 CAGAATCAGAATCAGT
1 CAGAATCAGAATCAGT
30798931 ATCAGGTAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.02
18 16 0.36
19 27 0.60
20 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (18 bp):
CAGAATCAGAATCAGTGA
Found at i:30798925 original size:25 final size:25
Alignment explanation
Indices: 30798878--30798957 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
30798868 AAACAGGTGA
30798878 CAGAATC-AG-AATCAAAATCAGAAT
1 CAGAATCAAGTAA-CAAAATCAGAAT
* *
30798902 CAGAATCAAGTGACAGAATCAGAAT
1 CAGAATCAAGTAACAAAATCAGAAT
* *
30798927 CAGTATCAGGTAACAAAATCAGAAT
1 CAGAATCAAGTAACAAAATCAGAAT
*
30798952 TAGAAT
1 CAGAAT
30798958 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 7 0.15
25 38 0.83
26 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (25 bp):
CAGAATCAAGTAACAAAATCAGAAT
Found at i:30798925 original size:43 final size:41
Alignment explanation
Indices: 30798817--30798934 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 41
30798807 TAGCCCATTA
* * *
30798817 CAGAATAAGAAACATTATCAGAA-CTAGAATCAAAATGAGAAT
1 CAGAATCAGAAACA-GATCAGAATC-AGAATCAAAATCAGAAT
*
30798859 CAGAATCAGAAACAGGTGACAGAATCAGAATCAAAATCAGAAT
1 CAGAATCAGAAACAGAT--CAGAATCAGAATCAAAATCAGAAT
** *
30798902 CAGAATCAAGTGACAGAATCAGAATCAGTATCA
1 CAGAATC-AGAAACAG-ATCAGAATCAGAATCA
30798935 GGTAACAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.02
42 13 0.21
43 41 0.65
44 7 0.11
45 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (41 bp):
CAGAATCAGAAACAGATCAGAATCAGAATCAAAATCAGAAT
Found at i:30798935 original size:37 final size:37
Alignment explanation
Indices: 30798842--30798935 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
30798832 TATCAGAACT
* * *
30798842 AGAATCAAAATGAGAATCAGAATCAGAAACAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAAACAAGTGAC
* *
30798879 AGAATCAGAATCAAAATCAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAAACAAGTGAC
*
30798916 AGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
30798936 GTAACAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.16
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAAACAAGTGAC
Found at i:30799180 original size:71 final size:69
Alignment explanation
Indices: 30799103--30799275 Score: 199
Period size: 67 Copynumber: 2.5 Consensus size: 69
30799093 TCACCAGATA
* * *
30799103 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGTGGCGAAGCCAGCAGAATACAGCGA
1 CAGATATTGTGGCTAAGTCACCAGAACAGATATATA--TGTGGCGAAGCCACCAGAATACAGCGA
*
30799168 GGCTTC
64 GGCTGC
* * * * *
30799174 CAGATATTCT-GATGAAGTCACCAGAACAG--ATATATGTGGCGAGGCCACCAGATTGCAGCGAG
1 CAGATATTGTGGCT-AAGTCACCAGAACAGATATATATGTGGCGAAGCCACCAGAATACAGCGAG
30799236 GCTGC
65 GCTGC
* *
30799241 CAGATATTGTGACGAAGTCACCAGAACAGATATAT
1 CAGATATTGTGGCTAAGTCACCAGAACAGATATAT
30799276 GTGTTAAGGC
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
67 52 0.61
69 9 0.11
70 2 0.02
71 22 0.26
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (69 bp):
CAGATATTGTGGCTAAGTCACCAGAACAGATATATATGTGGCGAAGCCACCAGAATACAGCGAGG
CTGC
Found at i:30799246 original size:67 final size:67
Alignment explanation
Indices: 30799121--30799311 Score: 247
Period size: 67 Copynumber: 2.8 Consensus size: 67
30799111 GTGGCTAGGC
* * * * *
30799121 CACCAGAACAGATATATATGTGTGGCGAAGCCAGCAGAATACAGCGAGGCTTCCAGATATTCTGA
1 CACCAGAACAG--ATATA--TGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTCTGA
*
30799186 TGAAGT
62 CGAAGT
*
30799192 CACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAA
1 CACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTCTGACGAA
30799257 GT
66 GT
*** *
30799259 CACCAGAACAGATATATGTGTTAAGGCCACCAAATTGCAGCGAGGCTGCCAGA
1 CACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
30799312 ACGCTTCCTC
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
67 93 0.85
69 5 0.05
71 11 0.10
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (67 bp):
CACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTCTGACGAA
GT
Found at i:30799903 original size:26 final size:27
Alignment explanation
Indices: 30799874--30799927 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
30799864 TCACACAAGT
* *
30799874 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACCAGGGGCAAAA
*
30799900 TAGTCATTTAACACCCCAGGGGCAAAA
1 TAGTCATTTAACACACCAGGGGCAAAA
30799927 T
1 T
30799928 GGTATTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
TAGTCATTTAACACACCAGGGGCAAAA
Found at i:30799999 original size:54 final size:54
Alignment explanation
Indices: 30799935--30800056 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
30799925 AATGGTATTT
* ** *
30799935 TACCCCACAAGGGTATCTTGGTAATTCTA-CGTTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATCTTAATAATTCTATC-CTACAGGGGTATTTCAGTAATTC
*
30799989 TACCCTACAAGGGTATTTTAATAATTCTATCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATCTTAATAATTCTATCCTACAGGGGTATTTCAGTAATTC
*
30800043 TACCCTATAAGGGT
1 TACCCTACAAGGGT
30800057 GTTTCGGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 60 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (54 bp):
TACCCTACAAGGGTATCTTAATAATTCTATCCTACAGGGGTATTTCAGTAATTC
Found at i:30800049 original size:27 final size:27
Alignment explanation
Indices: 30799935--30800068 Score: 144
Period size: 27 Copynumber: 5.0 Consensus size: 27
30799925 AATGGTATTT
* *
30799935 TACCCCACAAGGGTATCTT-GGTAATTC
1 TACCCTACAAGGGTAT-TTCAGTAATTC
** *
30799962 TACGTTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* *
30799989 TACCCTACAAGGGTATTTTAATAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* *
30800016 TATCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCAGTAATTC
* * *
30800043 TACCCTATAAGGGTGTTTCGGTAATT
1 TACCCTACAAGGGTATTTCAGTAATT
30800069 TTGTAAATCG
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
26 2 0.02
27 85 0.98
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCAGTAATTC
Found at i:30800119 original size:27 final size:27
Alignment explanation
Indices: 30800089--30800311 Score: 205
Period size: 27 Copynumber: 8.3 Consensus size: 27
30800079 AGGGTAAAAC
* ** *
30800089 GGTAATTTTGTAAATTAGGGGTACTTT
1 GGTAATTTTATAAACCAGGGGTATTTT
* * ** **
30800116 GGTAATTGTACAAGTCAAAGGTATTTT
1 GGTAATTTTATAAACCAGGGGTATTTT
* * * *
30800143 AGTAATTTTACAAATCA-GGGTATTTC
1 GGTAATTTTATAAACCAGGGGTATTTT
* * *
30800169 AGTAATTTTACAAATCAGGGGTATTTT
1 GGTAATTTTATAAACCAGGGGTATTTT
* * * *
30800196 CGTAATTTTACAAACTAGTGGTATTTT
1 GGTAATTTTATAAACCAGGGGTATTTT
*
30800223 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTATAAACCAGGGGTATTTT
*
30800250 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTATAAACCAGGGGTATTTT
* *
30800277 GGTAATTTTATAAACTAAGGGTATTTT
1 GGTAATTTTATAAACCAGGGGTATTTT
*
30800304 GATAATTT
1 GGTAATTT
30800312 GGTAAACTAA
Statistics
Matches: 170, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.14
27 146 0.86
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTAATTTTATAAACCAGGGGTATTTT
Found at i:30800201 original size:80 final size:81
Alignment explanation
Indices: 30800090--30800311 Score: 243
Period size: 81 Copynumber: 2.8 Consensus size: 81
30800080 GGGTAAAACG
* * * *
30800090 GTAATTTTGTAAATTAGGGGTACTTTGGTAATTGTAC-AAGTCAAAGGTATTTTAGTAATTTTAC
1 GTAATTTTATAAATCAGGGGTATTTTGGTAATTGTACAAACT-AAAGGTATTTTAGTAATTTTAC
*
30800154 AAATCA-GGGTATTTCA
65 AAACCAGGGGTATTTCA
* * * ** *
30800170 GTAATTTTACAAATCAGGGGTATTTTCGTAATTTTACAAACTAGTGGTATTTTGGTAATTTTACA
1 GTAATTTTATAAATCAGGGGTATTTTGGTAATTGTACAAACTAAAGGTATTTTAGTAATTTTACA
**
30800235 AACCAGGGGTATTTTG
66 AACCAGGGGTATTTCA
* * * * *
30800251 GTAATTTTATAAACCAAGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTT-GATAATTT
1 GTAATTTTATAAATCAGGGGTATTTTGGTAATTGTACAAACTAAAGGTATTTTAG-TAATTT
30800312 GGTAAACTAA
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
80 56 0.47
81 63 0.53
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
GTAATTTTATAAATCAGGGGTATTTTGGTAATTGTACAAACTAAAGGTATTTTAGTAATTTTACA
AACCAGGGGTATTTCA
Found at i:30802290 original size:6 final size:6
Alignment explanation
Indices: 30802260--30802384 Score: 71
Period size: 6 Copynumber: 20.3 Consensus size: 6
30802250 AAGAAACATT
* * *
30802260 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGAA AT-AG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA AT--CAGA
* * * *
30802309 ATCAGA ATCAAA ATCAGA ATCAGA ATTA-A GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
30802358 ATCAGGTA A-CAGA ATCAGA ATTAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
30802385 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 15, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.01
5 5 0.05
6 71 0.78
7 10 0.11
8 4 0.04
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:30802347 original size:19 final size:19
Alignment explanation
Indices: 30802286--30802353 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
30802276 AAATGAGAAT
* *
30802286 CAGAATCAGAAATAGGTGA
1 CAGAATCAGAATTAAGTGA
* *
30802305 CAGAATCAGAATCAA--AA
1 CAGAATCAGAATTAAGTGA
30802322 TCAGAATCAGAATTAAGTGA
1 -CAGAATCAGAATTAAGTGA
30802342 CAGAATCAGAAT
1 CAGAATCAGAAT
30802354 CAGTATCAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
17 1 0.03
18 14 0.35
19 24 0.60
20 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATTAAGTGA
Found at i:30802350 original size:25 final size:25
Alignment explanation
Indices: 30802320--30802384 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
30802310 TCAGAATCAA
* *
30802320 AATCAGAATCAGAATTAAGTGACAG
1 AATCAGAATCAGAATCAAGTAACAG
* *
30802345 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAAGTAACAG
*
30802370 AATCAGAATTAGAAT
1 AATCAGAATCAGAAT
30802385 GTGAATGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (25 bp):
AATCAGAATCAGAATCAAGTAACAG
Found at i:30802362 original size:37 final size:37
Alignment explanation
Indices: 30802269--30802362 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
30802259 TATCAGAACT
* * *
30802269 AGAATCAAAATGAGAATCAGAATCAGAAATAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAAATAAGTGAC
* *
30802306 AGAATCAGAATCAAAATCAGAATCAGAATTAAGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAAATAAGTGAC
*
30802343 AGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
30802363 GTAACAGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAAATAAGTGAC
Found at i:30802377 original size:31 final size:31
Alignment explanation
Indices: 30802281--30802384 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
30802271 AATCAAAATG
*
30802281 AGAATCAGAATCAGAAAT-AGGTGACAGAATC
1 AGAATCAGAATCAG-AATCAGGTAACAGAATC
* * * *
30802312 AGAATCAAAATCAGAATCAGAATTA-AGTGA-C
1 AGAATCAGAATCAGAATCAG-GTAACAG-AATC
*
30802343 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
30802374 AGAATTAGAAT
1 AGAATCAGAAT
30802385 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
30 6 0.10
31 49 0.84
32 3 0.05
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:30803311 original size:27 final size:27
Alignment explanation
Indices: 30803277--30803414 Score: 145
Period size: 27 Copynumber: 5.1 Consensus size: 27
30803267 CAAAATGGTA
* *
30803277 AATT-TACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAAGGGTATTTCGAT
* * * *
30803303 AATTCTACCCTAGAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGAT
*
30803330 ATTTCTACCCTACAAGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGAT
* *
30803357 AATTCTATCCTACAGGGGTATTTC-AGT
1 AATTCTACCCTACAAGGGTATTTCGA-T
* * *
30803384 AATTCTACCCTATAAGGGTGTTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGAT
30803411 AATT
1 AATT
30803415 TTGTAAATCG
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
26 5 0.06
27 85 0.94
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGAT
Found at i:30803408 original size:54 final size:54
Alignment explanation
Indices: 30803277--30803414 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 54
30803267 CAAAATGGTA
* * * **
30803277 AATT-TACCCCACAAGGGTATCTCGATAATTCTACCCTAGAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGT
* *
30803330 ATTTCTACCCTACAAGGGTATTTCGATAATTCTATCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGT
* * *
30803384 AATTCTACCCTATAAGGGTGTTTCGGTAATT
1 AATTCTACCCTACAAGGGTATTTCGATAATT
30803415 TTGTAAATCG
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.04
54 70 0.96
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
AATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGT
Found at i:30803547 original size:27 final size:27
Alignment explanation
Indices: 30803453--30803657 Score: 202
Period size: 27 Copynumber: 7.6 Consensus size: 27
30803443 TGTAAATTGG
* * *
30803453 GGGTACTTTGGTAATTGTACAAGTCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
30803480 AGGTATTTTAGTAATTTTACAAATC-G
1 GGGTATTTTGGTAATTTTACAAATCAA
***
30803506 GGGTATTTCAATAATTTTACAAATC-A
1 GGGTATTTTGGTAATTTTACAAATCAA
* *
30803532 GGGATATTTTGGTAATTTTATAAA-CTAG
1 GGG-TATTTTGGTAATTTTACAAATC-AA
*
30803560 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AA
* *
30803587 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
30803614 TGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
30803641 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
30803658 GGTAAACTAA
Statistics
Matches: 151, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 26 0.17
27 121 0.80
28 4 0.03
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:30803580 original size:54 final size:54
Alignment explanation
Indices: 30803452--30803666 Score: 229
Period size: 54 Copynumber: 4.0 Consensus size: 54
30803442 CTGTAAATTG
* * * * * * * *
30803452 GGGGTACTTTGGTAATTGTACAAGTCAAAGGTATTTTAGTAATTTTACAAA-TC
1 GGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTA
* *
30803505 GGGGTATTTCAATAATTTTACAAATC-AGGGATATTTTGGTAATTTTATAAACTA
1 GGGGTATTTTAGTAATTTTACAAATCAAGGG-TATTTTGGTAATTTTATAAACTA
* * *
30803559 GGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTATAAACCA
1 GGGGTATTTTAGTAATTTTACAAATC-AAGGGTATTTTGGTAATTTTATAAACTA
** * **
30803613 ATGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTGGTAAACTA
1 GGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTA
30803667 AAGTATTCTA
Statistics
Matches: 135, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
52 3 0.02
53 39 0.29
54 89 0.66
55 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAACTA
Found at i:30811450 original size:31 final size:31
Alignment explanation
Indices: 30811412--30811474 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30811402 GATTTCACTT
30811412 AATCAAGCATTTTACCGAGGCCTATAACAGC
1 AATCAAGCATTTTACCGAGGCCTATAACAGC
30811443 AATCAAGCATTTTACCGAGGCCTATAACAGC
1 AATCAAGCATTTTACCGAGGCCTATAACAGC
30811474 A
1 A
30811475 TAAACATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (31 bp):
AATCAAGCATTTTACCGAGGCCTATAACAGC
Found at i:30832923 original size:30 final size:30
Alignment explanation
Indices: 30832884--30832941 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30832874 TAGGCACTTC
* * *
30832884 CACATGGGTAATCCACACACCCGTGTGTGA
1 CACACGGGTAAACCACACACCCATGTGTGA
30832914 CACACGGGTAAACCACACACCCATGTGT
1 CACACGGGTAAACCACACACCCATGTGT
30832942 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (30 bp):
CACACGGGTAAACCACACACCCATGTGTGA
Found at i:30835496 original size:15 final size:14
Alignment explanation
Indices: 30835476--30835505 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
30835466 TTTTTAGTTT
30835476 AATTTTTCTTTCTTA
1 AATTTTTCTTT-TTA
30835491 AATTTTTCTTTTTA
1 AATTTTTCTTTTTA
30835505 A
1 A
30835506 TTGCTTCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTTTCTTTTTA
Found at i:30838716 original size:19 final size:18
Alignment explanation
Indices: 30838680--30838726 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
30838670 CTTCTTTCAT
30838680 CTTTT-TTTCTTCCCTTCC
1 CTTTTCTTTCTTCCCTT-C
* *
30838698 CTTTTCTTTCTTTCTTTC
1 CTTTTCTTTCTTCCCTTC
30838716 CTATTTCTTTC
1 CT-TTTCTTTC
30838727 CCTTGCTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (18 bp):
CTTTTCTTTCTTCCCTTC
Found at i:30839041 original size:3 final size:3
Alignment explanation
Indices: 30839033--30839128 Score: 77
Period size: 3 Copynumber: 31.0 Consensus size: 3
30839023 TTTATTTTTA
* * *
30839033 ATT ATT ATT CTT CATT ATT ATT ATT ACT GTT ATT ATT CATT A-T ATTT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT A-TT
* * * * *
30839080 GTT ATT AAGT ATT ATT ATT ATT ACT ATT ATT ATA ATT ATG ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30839126 ATT
1 ATT
30839129 CCTTTATTAC
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
2 2 0.03
3 62 0.86
4 8 0.11
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:30839137 original size:44 final size:43
Alignment explanation
Indices: 30839033--30839142 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 43
30839023 TTTATTTTTA
* * *
30839033 ATTATTATTCTTCATTATTATTATTACTGTTATTATTCATTAT
1 ATTATTATTCTTTATTATTATTATTACTATTATTATTAATTAT
* ***
30839076 ATTTGTTATTAAGTATTATTATTATTACTATTATTA-TAATTAT
1 A-TTATTATTCTTTATTATTATTATTACTATTATTATTAATTAT
*
30839119 GATTATTATTCCTTTATTACTATT
1 -ATTATTATT-CTTTATTATTATT
30839143 TTGTTGGTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
43 14 0.27
44 38 0.73
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (43 bp):
ATTATTATTCTTTATTATTATTATTACTATTATTATTAATTAT
Found at i:30840780 original size:15 final size:15
Alignment explanation
Indices: 30840724--30840785 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
30840714 CTTTGAGTCC
*
30840724 TTTTATTTTATTGTTA
1 TTTTA-TTTATTTTTA
*
30840740 TTACTATTT-TTTTTA
1 TT-TTATTTATTTTTA
*
30840755 TTTTAATTTTATTTTTC
1 TTTT-A-TTTATTTTTA
30840772 TTTTATTTATTTTT
1 TTTTATTTATTTTT
30840786 GAAGACTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
14 1 0.03
15 17 0.45
16 9 0.24
17 11 0.29
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:30846199 original size:14 final size:14
Alignment explanation
Indices: 30846180--30846219 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30846170 GACTATTTTT
30846180 TCATAATTAATTAA
1 TCATAATTAATTAA
*
30846194 TCATAATTTATTAA
1 TCATAATTAATTAA
* *
30846208 CCAAAATTAATT
1 TCATAATTAATT
30846220 TGGATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (14 bp):
TCATAATTAATTAA
Found at i:30846999 original size:18 final size:18
Alignment explanation
Indices: 30846976--30847012 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
30846966 TTGCATCAAC
30846976 ACACATCCCAAACTATTT
1 ACACATCCCAAACTATTT
30846994 ACACATCCCAAACTATTT
1 ACACATCCCAAACTATTT
30847012 A
1 A
30847013 ATAAAGCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (18 bp):
ACACATCCCAAACTATTT
Found at i:30854804 original size:27 final size:26
Alignment explanation
Indices: 30854747--30854805 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
30854737 AGCATGGCTG
*
30854747 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
30854773 CCAGATACAGATATTGTTG-CAGAGCCA
1 CCAGA-ACAGATATTG-TGACAGAGCCA
*
30854800 TCAGAA
1 CCAGAA
30854806 TGCTTCCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 21 0.72
28 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:30854954 original size:26 final size:26
Alignment explanation
Indices: 30854906--30854955 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30854896 GTCAAAATCA
*
30854906 ACCTAGGGGTATAACAGTCATTTTAC
1 ACCTAGGGGTATAACAGTAATTTTAC
**
30854932 ACCTAGGGGTATAATGGTAATTTT
1 ACCTAGGGGTATAACAGTAATTTT
30854956 CATACTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (26 bp):
ACCTAGGGGTATAACAGTAATTTTAC
Found at i:30856672 original size:27 final size:27
Alignment explanation
Indices: 30856642--30856700 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
30856632 ATATACAATC
* * *
30856642 AAAAT-ACAAAAATTCTAAAATTCATCA
1 AAAATCACAAAAATCCCAAAAATC-TCA
30856669 AAAATCACAAAAATCCCAAAAATCTCA
1 AAAATCACAAAAATCCCAAAAATCTCA
30856696 AAAAT
1 AAAAT
30856701 TGGGGCGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.20
Consensus pattern (27 bp):
AAAATCACAAAAATCCCAAAAATCTCA
Found at i:30856679 original size:9 final size:9
Alignment explanation
Indices: 30856667--30856700 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
30856657 TAAAATTCAT
30856667 CAAAAATCA
1 CAAAAATCA
*
30856676 CAAAAATCC
1 CAAAAATCA
*
30856685 CAAAAATCT
1 CAAAAATCA
30856694 CAAAAAT
1 CAAAAAT
30856701 TGGGGCGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (9 bp):
CAAAAATCA
Found at i:30862485 original size:27 final size:26
Alignment explanation
Indices: 30862448--30862562 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 26
30862438 AGCATGGCTG
* *
30862448 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGGTAGAGCCA
30862474 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGTAGAGCCA
* *
30862501 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGTAGAGCCA
*
30862528 CCAGAAACAGATATTTATGGTATG-GCCA
1 CCAG-AACAGATA-TTGTGGTA-GAGCCA
30862556 CCAGAAC
1 CCAGAAC
30862563 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.15
27 43 0.55
28 23 0.29
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGTAGAGCCA
Done.