Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 248 of 259
Found at i:77738246 original size:31 final size:31
Alignment explanation
Indices: 77738186--77738246 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
77738176 TATTATTTTT
* *
77738186 AGTTAAATTTAATTTTCAATATTTTAAAAAG
1 AGTTAAATTTAATATTCAATATTTCAAAAAG
77738217 AGTTAAATTTAATCATT-AAT-TATTCAAAAA
1 AGTTAAATTTAAT-ATTCAATAT-TTCAAAAA
77738247 ATTGAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 1 0.04
31 23 0.88
32 2 0.08
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (31 bp):
AGTTAAATTTAATATTCAATATTTCAAAAAG
Found at i:77738388 original size:23 final size:22
Alignment explanation
Indices: 77738361--77738413 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
77738351 ATTTATAAAC
77738361 TTTTTAAATTTTTTCAAAT-TT
1 TTTTTAAATTTTTTCAAATATT
* *
77738382 TTATTT-TAGTTTTTCAAATATT
1 TT-TTTAAATTTTTTCAAATATT
*
77738404 TTTATAAATT
1 TTTTTAAATT
77738414 GTAAAACATT
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTAAATTTTTTCAAATATT
Found at i:77743923 original size:10 final size:10
Alignment explanation
Indices: 77743889--77743923 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
77743879 ATTTTCTTAT
77743889 AAAAATATTTA
1 AAAAATA-TTA
77743900 AAAAATATTA
1 AAAAATATTA
77743910 AAAAATCATTA
1 AAAAAT-ATTA
77743921 AAA
1 AAA
77743924 GTAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATATTA
Found at i:77748107 original size:13 final size:14
Alignment explanation
Indices: 77748090--77748127 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
77748080 TTATTCTTAA
77748090 AAAATATTTAA-AT
1 AAAATATTTAATAT
*
77748103 TAAATATTTAATAT
1 AAAATATTTAATAT
77748117 AAAAT-TTTAAT
1 AAAATATTTAAT
77748128 TGATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAATATTTAATAT
Found at i:77749797 original size:22 final size:22
Alignment explanation
Indices: 77749771--77749816 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
77749761 ATTCATTTCA
77749771 TCCAAATGTAAATATTTAAATG
1 TCCAAATGTAAATATTTAAATG
77749793 TCCAAATGTAAATATTTAAATG
1 TCCAAATGTAAATATTTAAATG
77749815 TC
1 TC
77749817 AAAAGTACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (22 bp):
TCCAAATGTAAATATTTAAATG
Found at i:77752342 original size:46 final size:46
Alignment explanation
Indices: 77752277--77752520 Score: 247
Period size: 46 Copynumber: 5.0 Consensus size: 46
77752267 CTATCTTTAA
* * * ** * *
77752277 CATGATGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
* *
77752323 CATGTTGCCATGGTATCTTTCAATCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
77752369 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* *
77752415 CACGTTGCCATGGTATCTTTCAACCATGGTCTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGG--T----C-T--TATT---CATTTCATAT
* *
77752473 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
77752519 CA
1 CA
77752521 GAGAGCACAC
Statistics
Matches: 171, Mismatches: 14, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
45 4 0.02
46 118 0.69
48 1 0.01
49 2 0.01
51 1 0.01
52 2 0.01
53 1 0.01
55 3 0.02
56 1 0.01
58 38 0.22
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
Found at i:77752443 original size:92 final size:96
Alignment explanation
Indices: 77752277--77752520 Score: 273
Period size: 92 Copynumber: 2.5 Consensus size: 96
77752267 CTATCTTTAA
* * * ** * * *
77752277 CATGATGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATGGTATCT
*
77752341 TTCAATCATGGTCT-T-G-TT-CATTTCATAT
65 TTCAACCATGGTCTATGGCTTACATTTCATAT
77752369 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTT
77752434 TCAACCATGGTCTCAACCATGGTCTTACACATTTCATAT
66 TCAACCATGGTCT-----ATGG-CTT--ACATTTCATAT
* *
77752473 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
77752521 GAGAGCACAC
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
91 4 0.03
92 64 0.50
98 1 0.01
99 1 0.01
101 2 0.02
104 56 0.44
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (96 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTT
TCAACCATGGTCTATGGCTTACATTTCATAT
Found at i:77752451 original size:12 final size:12
Alignment explanation
Indices: 77752434--77752458 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77752424 ATGGTATCTT
77752434 TCAACCATGGTC
1 TCAACCATGGTC
77752446 TCAACCATGGTC
1 TCAACCATGGTC
77752458 T
1 T
77752459 TACACATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCAACCATGGTC
Found at i:77752459 original size:58 final size:58
Alignment explanation
Indices: 77752388--77752504 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
77752378 ATGGTATCTT
**
77752388 TCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 TCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
*
77752446 TCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
77752504 T
1 T
77752505 TATACATTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (58 bp):
TCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
Found at i:77755992 original size:3 final size:3
Alignment explanation
Indices: 77755984--77756020 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
77755974 GGCATAGTTA
77755984 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
77756021 CTTCTTCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:77757416 original size:28 final size:28
Alignment explanation
Indices: 77757350--77757416 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 28
77757340 TTCATATTAT
* * *
77757350 TTTATGTAAATATTTTCTTTTAAATTTA
1 TTTATGTATATATTCTCTTTAAAATTTA
*
77757378 TTATATATATATATTCTCTTTAAAATTTA
1 TT-TATGTATATATTCTCTTTAAAATTTA
77757407 TTTATGTATA
1 TTTATGTATA
77757417 ATTTGAGCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTCTCTTTAAAATTTA
Found at i:77758188 original size:127 final size:129
Alignment explanation
Indices: 77758037--77758271 Score: 393
Period size: 131 Copynumber: 1.8 Consensus size: 129
77758027 TTTCGTCTCG
*
77758037 TGTTTTGGAAATCATGAGGTGATCTC-A-GTTTTTGGAGGCTTAAAATATCGTGTCCTAACGTGC
1 TGTTTTGGAAATCATGAGGTGATCTCAATGTTTTTGGAAGCTTAAAATATCGTGTCCTAACGTGC
* *
77758100 TGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCGCA
66 TGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCGCA
* *
77758164 TGTTTTGGAAATCATGAGGTGATCTCAATTTTTTTTTGGAAGTTTAAAATATCGTGTCCTAACGT
1 TGTTTTGGAAATCATGAGGTGATCTCAA--TGTTTTTGGAAGCTTAAAATATCGTGTCCTAACGT
77758229 GCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
64 GCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
77758272 CAAACTCGAA
Statistics
Matches: 99, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
127 26 0.26
128 1 0.01
131 72 0.73
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (129 bp):
TGTTTTGGAAATCATGAGGTGATCTCAATGTTTTTGGAAGCTTAAAATATCGTGTCCTAACGTGC
TGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCGCA
Found at i:77763119 original size:27 final size:27
Alignment explanation
Indices: 77763089--77763146 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
77763079 CATTGTCGAT
* *
77763089 ATTCCCTTTGTTTACTTGTTGTTTTGA
1 ATTCCCTCTGTTTACTTCTTGTTTTGA
77763116 ATTCCCTCTGTTTACTTCTTGTTTTGA
1 ATTCCCTCTGTTTACTTCTTGTTTTGA
77763143 ATTC
1 ATTC
77763147 TTTAATAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.57
Consensus pattern (27 bp):
ATTCCCTCTGTTTACTTCTTGTTTTGA
Found at i:77764945 original size:33 final size:34
Alignment explanation
Indices: 77764882--77764947 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
77764872 TTTCCAATTC
*
77764882 TTAAAAATAGAAAATGAAAATTGTTTTCTGAAAA
1 TTAAAAATAGAAAATGAAAATTGTTCTCTGAAAA
77764916 TTAAAAATA-AAAATAGAAAA-TGTTCTCTGAAA
1 TTAAAAATAGAAAAT-GAAAATTGTTCTCTGAAA
77764948 CTAAACTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 16 0.53
34 14 0.47
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (34 bp):
TTAAAAATAGAAAATGAAAATTGTTCTCTGAAAA
Found at i:77765440 original size:28 final size:29
Alignment explanation
Indices: 77765388--77765443 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
77765378 GTGCCACATT
*
77765388 TTGAAATAAAAAATAGAGGGACTAAATTG
1 TTGAAATAAAAAATAGAAGGACTAAATTG
77765417 TTGAAAT-AAAAATAAGAAGG-CTAAATT
1 TTGAAATAAAAAAT-AGAAGGACTAAATT
77765444 TCAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.25
Consensus pattern (29 bp):
TTGAAATAAAAAATAGAAGGACTAAATTG
Found at i:77768338 original size:43 final size:44
Alignment explanation
Indices: 77768291--77768379 Score: 135
Period size: 43 Copynumber: 2.0 Consensus size: 44
77768281 GTTGAAATAA
** *
77768291 AATAGAAGTTTTGATAATTATGCATTT-AAAATAATAATAATTT
1 AATAGAAGTTTTGATAATTACACATTTAAAAATAATAAGAATTT
*
77768334 AATAGAAGTTTTGATAATTACACATTTAAAAATAATTAGAATTT
1 AATAGAAGTTTTGATAATTACACATTTAAAAATAATAAGAATTT
77768378 AA
1 AA
77768380 ATTACAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 25 0.61
44 16 0.39
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (44 bp):
AATAGAAGTTTTGATAATTACACATTTAAAAATAATAAGAATTT
Found at i:77768379 original size:17 final size:18
Alignment explanation
Indices: 77768347--77768380 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77768337 AGAAGTTTTG
77768347 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
77768365 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
77768381 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:77770022 original size:13 final size:13
Alignment explanation
Indices: 77769985--77770024 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
77769975 TTAATCAAAA
77769985 TATATATTTTT-T
1 TATATATTTTTAT
*
77769997 ATAAATATTTTTAT
1 -TATATATTTTTAT
77770011 TATATATTTTTAT
1 TATATATTTTTAT
77770024 T
1 T
77770025 TTTATTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATATTTTTAT
Found at i:77770370 original size:21 final size:21
Alignment explanation
Indices: 77770325--77770383 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
77770315 AGAATTAATT
* *
77770325 TATAATTAATTTTTATAAAAAA
1 TATAATTAAATTAT-TAAAAAA
*
77770347 TATAATTAAATTATTAAAATA
1 TATAATTAAATTATTAAAAAA
*
77770368 TATTATTAAATTATTA
1 TATAATTAAATTATTA
77770384 GATTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATTAAATTATTAAAAAA
Found at i:77770393 original size:21 final size:22
Alignment explanation
Indices: 77770327--77770398 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 22
77770317 AATTAATTTA
*
77770327 TAATT-AATTTTTATAAA-AAAT
1 TAATTAAATTATTA-AAATAAAT
*
77770348 ATAATTAAATTATTAAAATATAT
1 -TAATTAAATTATTAAAATAAAT
* *
77770371 T-ATTAAATTATTAGATTAAAT
1 TAATTAAATTATTAAAATAAAT
77770392 TAATTAA
1 TAATTAA
77770399 TAAAATTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
21 18 0.43
22 14 0.33
23 10 0.24
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATTAAATTATTAAAATAAAT
Found at i:77775231 original size:48 final size:48
Alignment explanation
Indices: 77775172--77775267 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
77775162 ATTGAGCTAC
*
77775172 GGCCTAAAGATACTGGTAGCTAGGTAGATTCTGGATTTGAGTTTGGTA
1 GGCCTAAAGATACTGGTAGCTAGGTAGATTCTGGATTGGAGTTTGGTA
77775220 GGCCTAAAGATACTGGTAGCTAGGTAGATTCTGGATTGGAGTTTGGTA
1 GGCCTAAAGATACTGGTAGCTAGGTAGATTCTGGATTGGAGTTTGGTA
77775268 AGCTCAGCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.32
Consensus pattern (48 bp):
GGCCTAAAGATACTGGTAGCTAGGTAGATTCTGGATTGGAGTTTGGTA
Found at i:77777138 original size:22 final size:21
Alignment explanation
Indices: 77777090--77777140 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
77777080 ATTTTGTTTC
* * *
77777090 TAAAATTTTGAAATAATTTAT
1 TAAATTTTTGAAATAATTAAA
77777111 TGAAATTTTTGAAATAAATTAAA
1 T-AAATTTTTGAAAT-AATTAAA
77777134 TAAATTT
1 TAAATTT
77777141 AATTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (21 bp):
TAAATTTTTGAAATAATTAAA
Found at i:77778894 original size:33 final size:34
Alignment explanation
Indices: 77778849--77778962 Score: 155
Period size: 33 Copynumber: 3.5 Consensus size: 34
77778839 TATCTTCAGC
* *
77778849 CCACCATC-GTACTCCGCTCCTTCCGGCTCGTAT
1 CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
*
77778882 CCACCA-CAGTACTCTGCTCCTTCCAGCTCGTAT
1 CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
* *
77778915 CCACCACCA-TACTCCGCTCCTTCTAGCTAGTAT
1 CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
77778948 CCACCACC-GTACTCC
1 CCACCACCAGTACTCC
77778963 TCGTATCCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
32 1 0.01
33 70 0.96
34 2 0.03
ACGTcount: A:0.18, C:0.46, G:0.11, T:0.25
Consensus pattern (34 bp):
CCACCACCAGTACTCCGCTCCTTCCAGCTCGTAT
Found at i:77778970 original size:21 final size:21
Alignment explanation
Indices: 77778944--77778983 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
77778934 CTTCTAGCTA
77778944 GTATCCACCACCGTACTCCTC
1 GTATCCACCACCGTACTCCTC
*
77778965 GTATCCACCACTGTACTCC
1 GTATCCACCACCGTACTCC
77778984 GCTCCTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.45, G:0.10, T:0.25
Consensus pattern (21 bp):
GTATCCACCACCGTACTCCTC
Found at i:77779035 original size:87 final size:87
Alignment explanation
Indices: 77778875--77779048 Score: 224
Period size: 87 Copynumber: 2.0 Consensus size: 87
77778865 CTCCTTCCGG
* * * * *
77778875 CTCGTATCCACCACAGTACTCTGCTCCTTCCAGCTCGTATCCACCACCATACTCCGCTCCTTCTA
1 CTCGTATCCACCACAGTACTCCGCTCCTTCCAGCTCGTATCCACCACCATACTCCACTCATCCCA
*
77778940 GCTAGTATCCACCACCGTACTC
66 GCTAGTATCCACCACCATACTC
* * * *
77778962 CTCGTATCCACCACTGTACTCCGCTCCTTCCAGCTCGTATCCATCGA-CATTCTCTACTCATCCC
1 CTCGTATCCACCACAGTACTCCGCTCCTTCCAGCTCGTATCCA-CCACCATACTCCACTCATCCC
* *
77779026 GGCTTGTATCCACCACCATACTC
65 AGCTAGTATCCACCACCATACTC
77779049 TACTCCTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
87 72 0.97
88 2 0.03
ACGTcount: A:0.19, C:0.43, G:0.10, T:0.28
Consensus pattern (87 bp):
CTCGTATCCACCACAGTACTCCGCTCCTTCCAGCTCGTATCCACCACCATACTCCACTCATCCCA
GCTAGTATCCACCACCATACTC
Found at i:77779286 original size:23 final size:23
Alignment explanation
Indices: 77779242--77779286 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77779232 ACCAATTTAA
*
77779242 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
77779265 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
77779287 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:77780004 original size:59 final size:56
Alignment explanation
Indices: 77779870--77780004 Score: 164
Period size: 56 Copynumber: 2.4 Consensus size: 56
77779860 TTGCAGCGGG
* * * * *
77779870 ATTACCAGTCCAGGCTAAATCCCTTGCAACGACAATTACTGTAGAGTATTATCGGG
1 ATTACCAGTCCAGGCTAAATCCCCTACAACGACAATTACTCTAGAGTATGATCGGA
* *
77779926 ATTACCAGTCCAGGCTAAATCCCCTACAACGACAATTATTCTAATGAGCT-TGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTACAACGACAATTACTCT-A-GAG-TAT-GATCGGA
77779985 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
77780005 TCAGACCCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 38 0.56
57 1 0.01
58 4 0.06
59 25 0.37
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
ATTACCAGTCCAGGCTAAATCCCCTACAACGACAATTACTCTAGAGTATGATCGGA
Found at i:77783873 original size:14 final size:15
Alignment explanation
Indices: 77783825--77783879 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
77783815 AAATACCTTA
77783825 TTTTTC-TTCTTCTTC
1 TTTTTCTTTCTTC-TC
* *
77783840 TTTTCCTTTCTTCCC
1 TTTTTCTTTCTTCTC
77783855 TTTTTCTTTC-TCTC
1 TTTTTCTTTCTTCTC
77783869 TTTTTCTTTCT
1 TTTTTCTTTCT
77783880 GCTAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 13 0.38
15 15 0.44
16 6 0.18
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCTTTCTTCTC
Found at i:77784496 original size:14 final size:13
Alignment explanation
Indices: 77784470--77784525 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 13
77784460 AAATTATTTA
77784470 TAACAAAAT-ATT
1 TAACAAAATAATT
77784482 TAACAAAATAAATT
1 TAACAAAAT-AATT
* *
77784496 TAACATTATTAAATT
1 TAACA-AAAT-AATT
*
77784511 AAACAAAATAATT
1 TAACAAAATAATT
77784524 TA
1 TA
77784526 GAATATATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 9 0.26
13 5 0.14
14 10 0.29
15 11 0.31
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (13 bp):
TAACAAAATAATT
Found at i:77784571 original size:60 final size:58
Alignment explanation
Indices: 77784507--77784640 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 58
77784497 AACATTATTA
*
77784507 AATTAAACAAAATAATTTAGAATATATAA-TCTTAAATTACTAATAAATTAATTTTAAAAT
1 AATTAAACAAAATAATTTAGAA-A-ATAATTC-TAAATTACTAACAAATTAATTTTAAAAT
** *
77784567 AATTACAAACACAAA-AATTTATCAAATAATTCTAAATTACTAACAATTTAATTTTAAAAT
1 AATT--AAACA-AAATAATTTAGAAAATAATTCTAAATTACTAACAAATTAATTTTAAAAT
*
77784627 AATTATAAAAAAAT
1 AATTA-AACAAAAT
77784641 TACTAATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
58 4 0.06
59 3 0.05
60 38 0.60
61 3 0.05
62 12 0.19
63 3 0.05
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.36
Consensus pattern (58 bp):
AATTAAACAAAATAATTTAGAAAATAATTCTAAATTACTAACAAATTAATTTTAAAAT
Found at i:77784670 original size:11 final size:11
Alignment explanation
Indices: 77784650--77784682 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
77784640 TTACTAATTT
77784650 TTTC-TTCTTC
1 TTTCTTTCTTC
77784660 TTTCTTTCTTC
1 TTTCTTTCTTC
77784671 TTTCTTT-TTC
1 TTTCTTTCTTC
77784681 TT
1 TT
77784683 CTTCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTCTTC
Found at i:77784813 original size:14 final size:15
Alignment explanation
Indices: 77784785--77784819 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
77784775 ATAATATTAT
77784785 TATTATTATTTAAAA
1 TATTATTATTTAAAA
77784800 TATTATTA-TTAAAA
1 TATTATTATTTAAAA
77784814 TATTAT
1 TATTAT
77784820 GTCGCGCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATTATTTAAAA
Found at i:77785949 original size:36 final size:37
Alignment explanation
Indices: 77785896--77785965 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
77785886 GGCTAATTCA
77785896 TGATAAAATTTTATTGATATTTAAAC-GCTTAATTTCG
1 TGATAAAATTTTATTGATATTT-AACTGCTTAATTTCG
*
77785933 TGATAAAA-TTTGTTGATATTTAACTGCTTAATT
1 TGATAAAATTTTATTGATATTTAACTGCTTAATT
77785966 AGGCTATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 3 0.10
36 20 0.65
37 8 0.26
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.47
Consensus pattern (37 bp):
TGATAAAATTTTATTGATATTTAACTGCTTAATTTCG
Found at i:77790548 original size:20 final size:18
Alignment explanation
Indices: 77790496--77790548 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
77790486 GACGTTTACA
*
77790496 ATATAT-ATGTACATAAT
1 ATATATAATGTACATGAT
* *
77790513 ATATATGATGTGCATGAT
1 ATATATAATGTACATGAT
77790531 ATAATATTAATGTACATG
1 AT-ATA-TAATGTACATG
77790549 TGCATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 6 0.21
18 11 0.38
19 3 0.10
20 9 0.31
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.40
Consensus pattern (18 bp):
ATATATAATGTACATGAT
Found at i:77790971 original size:24 final size:24
Alignment explanation
Indices: 77790915--77790971 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
77790905 TAACAATGAG
* *
77790915 AATAATAAATAAAATGGTAAATAAT
1 AATAA-AAATAAAAAGGCAAATAAT
*
77790940 ATTAAAAATAAAAAGGCAAA-AAT
1 AATAAAAATAAAAAGGCAAATAAT
77790963 AATACAAAA
1 AATA-AAAA
77790972 AACGTATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 6 0.22
24 17 0.63
25 4 0.15
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (24 bp):
AATAAAAATAAAAAGGCAAATAAT
Found at i:77793074 original size:43 final size:44
Alignment explanation
Indices: 77793007--77793094 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
77792997 AGAGACAAGA
* *
77793007 TCTGTAATTTTTAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAATATTTAACCTATTACCCTACTGCTTAGGGGGTTAAGG
* *
77793051 TCTGTAA-ATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCTGTAATATTTAACCTATTACCCTACTGCTTAGGGGGTTAAGG
77793094 T
1 T
77793095 TTGGTGAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 33 0.82
44 7 0.17
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (44 bp):
TCTGTAATATTTAACCTATTACCCTACTGCTTAGGGGGTTAAGG
Found at i:77802147 original size:13 final size:13
Alignment explanation
Indices: 77802129--77802153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77802119 CTTTTTTAAA
77802129 ATTTAAAAAAATT
1 ATTTAAAAAAATT
77802142 ATTTAAAAAAAT
1 ATTTAAAAAAAT
77802154 AAAGCTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTTAAAAAAATT
Found at i:77803506 original size:5 final size:5
Alignment explanation
Indices: 77803498--77803536 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
77803488 ATTCGTTAAC
* * *
77803498 TCGAC TCGAT TTGAC TCGAT TCGAT TCGAT TCGAT TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
77803537 AAAAAATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (5 bp):
TCGAT
Found at i:77816041 original size:13 final size:13
Alignment explanation
Indices: 77816023--77816086 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
77816013 AGTTCTTCAT
*
77816023 TGTTTTTAAAAAG
1 TGTTTTTGAAAAG
77816036 TGTTTTTGAAAAG
1 TGTTTTTGAAAAG
* *
77816049 TGTTGTGGAAAAG
1 TGTTTTTGAAAAG
*
77816062 TGTTTTTGAGAAG
1 TGTTTTTGAAAAG
* *
77816075 TGCTTTGGAAAA
1 TGTTTTTGAAAA
77816087 ATTTAAGTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.31, C:0.02, G:0.27, T:0.41
Consensus pattern (13 bp):
TGTTTTTGAAAAG
Found at i:77816052 original size:26 final size:26
Alignment explanation
Indices: 77816030--77816130 Score: 80
Period size: 26 Copynumber: 3.8 Consensus size: 26
77816020 CATTGTTTTT
77816030 AAAAAGTGTTTTTGAAAAGTGTTGTG
1 AAAAAGTGTTTTTGAAAAGTGTTGTG
* *
77816056 GAAAAGTGTTTTTGAGAAGTGCTT-TGG
1 AAAAAGTGTTTTTGAAAAGTG-TTGT-G
* * * * *
77816083 AAAAATTTAAGTGTTTG-ATATTGTTGTC
1 AAAAA-GT--GTTTTTGAAAAGTGTTGTG
77816111 AAAAAGTGTTTTTGAAAAGT
1 AAAAAGTGTTTTTGAAAAGT
77816131 AAAATGTCTA
Statistics
Matches: 55, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
25 6 0.11
26 23 0.42
27 8 0.15
28 8 0.15
29 4 0.07
30 6 0.11
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.40
Consensus pattern (26 bp):
AAAAAGTGTTTTTGAAAAGTGTTGTG
Found at i:77816292 original size:24 final size:24
Alignment explanation
Indices: 77816265--77816320 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
77816255 AATATTTTGA
*
77816265 TATATAAT-ATTAATTTTAAATATT
1 TATA-AATAATTAATATTAAATATT
* *
77816289 TATAAGTAATTAATATTAATTATT
1 TATAAATAATTAATATTAAATATT
77816313 TATTAAAT
1 TA-TAAAT
77816321 TTAATTAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 20 0.77
25 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TATAAATAATTAATATTAAATATT
Found at i:77816354 original size:8 final size:8
Alignment explanation
Indices: 77816341--77816383 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
77816331 TATATAAACT
77816341 ATATTTAA
1 ATATTTAA
77816349 ATATTTAA
1 ATATTTAA
77816357 ATATTT-A
1 ATATTTAA
77816364 A-ATTT-A
1 ATATTTAA
*
77816370 ATAATTAA
1 ATATTTAA
77816378 ATATTT
1 ATATTT
77816384 GTAATTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 5 0.16
8 20 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATATTTAA
Found at i:77820965 original size:21 final size:22
Alignment explanation
Indices: 77820920--77820967 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
77820910 TTGGCCCAGG
77820920 CAAATAAACAAAAAATAAAACC
1 CAAATAAACAAAAAATAAAACC
* * *
77820942 CAAATAACCAAATAA-AAAATC
1 CAAATAAACAAAAAATAAAACC
77820963 CAAAT
1 CAAAT
77820968 TTTAAGTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (22 bp):
CAAATAAACAAAAAATAAAACC
Found at i:77822426 original size:27 final size:28
Alignment explanation
Indices: 77822396--77822452 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
77822386 ATTATATATT
* *
77822396 TTAAACTTCTA-ATT-TATTATTTTTAAA
1 TTAAACTTATATATTAT-TTATTTTGAAA
77822423 TT-AACTTATATATTATTTATTTTGAAA
1 TTAAACTTATATATTATTTATTTTGAAA
77822450 TTA
1 TTA
77822453 TTTTCTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
26 7 0.28
27 17 0.68
28 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
TTAAACTTATATATTATTTATTTTGAAA
Found at i:77822502 original size:34 final size:30
Alignment explanation
Indices: 77822464--77822537 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 30
77822454 TTTCTATACC
*
77822464 TTATTTTAAACCTGTTCTAGTTATTCCATATTAT
1 TTATTTTAAA-CT-TT-TAGTTA-TACATATTAT
* *
77822498 TTATTTTACACTTTTATTTATACATATTAT
1 TTATTTTAAACTTTTAGTTATACATATTAT
*
77822528 CTATTTTAAA
1 TTATTTTAAA
77822538 ATATTCATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 17 0.49
31 5 0.14
32 2 0.06
33 2 0.06
34 9 0.26
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTATTTTAAACTTTTAGTTATACATATTAT
Found at i:77825723 original size:19 final size:20
Alignment explanation
Indices: 77825696--77825738 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
77825686 AATTTTTGCA
* *
77825696 TTCATTCATTTACATTACAT
1 TTCATTCATATACATTAAAT
*
77825716 TTCA-TCATATGCATTAAAT
1 TTCATTCATATACATTAAAT
77825735 TTCA
1 TTCA
77825739 CAAAAAGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATTCATATACATTAAAT
Found at i:77826753 original size:36 final size:36
Alignment explanation
Indices: 77826704--77826776 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
77826694 TTCAGGTTGT
77826704 ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
1 ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
*
77826740 ATGCCCAATGATGGAGGGAAATAGCGATGCAAGTCC
1 ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
77826776 A
1 A
77826777 ACCACCTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.30, T:0.15
Consensus pattern (36 bp):
ATGCCCAACGATGGAGGGAAATAGCGATGCAAGTCC
Found at i:77828275 original size:54 final size:54
Alignment explanation
Indices: 77828208--77828311 Score: 190
Period size: 54 Copynumber: 1.9 Consensus size: 54
77828198 ATATGTAGCG
*
77828208 GATGATATCTCTGTCAACAAGCTCGATCGTCTAATCAATAACATCAGCGCAGCA
1 GATGACATCTCTGTCAACAAGCTCGATCGTCTAATCAATAACATCAGCGCAGCA
*
77828262 GATGACATCTCTGTCAACAAGCTCGATCGTCTAGTCAATAACATCAGCGC
1 GATGACATCTCTGTCAACAAGCTCGATCGTCTAATCAATAACATCAGCGC
77828312 GGATAATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (54 bp):
GATGACATCTCTGTCAACAAGCTCGATCGTCTAATCAATAACATCAGCGCAGCA
Found at i:77835892 original size:44 final size:44
Alignment explanation
Indices: 77835826--77835912 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
77835816 AATTACCATG
** *
77835826 GCGAATCTTGTCTCCCTAAAGTTAAAGTGGAGCAGATTGAAGTC
1 GCGAATCTCATCTCCCTAAAGTTAAAGAGGAGCAGATTGAAGTC
* * * *
77835870 GCGAATCTCATCTCCTTGAAGTTACAGAGGAGTAGATTGAAGT
1 GCGAATCTCATCTCCCTAAAGTTAAAGAGGAGCAGATTGAAGT
77835913 TACAGGTCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
GCGAATCTCATCTCCCTAAAGTTAAAGAGGAGCAGATTGAAGTC
Found at i:77840298 original size:15 final size:14
Alignment explanation
Indices: 77840274--77840304 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
77840264 CTTCTTAATT
77840274 TTTATAAAATAAAA
1 TTTATAAAATAAAA
77840288 TTTATTAAAATAAAA
1 TTTA-TAAAATAAAA
77840303 TT
1 TT
77840305 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTATAAAATAAAA
Found at i:77841001 original size:26 final size:24
Alignment explanation
Indices: 77840972--77841020 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
77840962 CCATTTATAC
*
77840972 AATATATTTAATGAATTTATCATTTT
1 AATATATTGAAT-AATTTAT-ATTTT
77840998 AATATATTGAATAATTTATATTT
1 AATATATTGAATAATTTATATTT
77841021 GCATAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AATATATTGAATAATTTATATTTT
Found at i:77843407 original size:24 final size:26
Alignment explanation
Indices: 77843379--77843437 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
77843369 ATTTAGGTGT
*
77843379 TCATTTTTAAA-TTAA-AAAAAATTGA
1 TCATTTTTAAACATAAGAAAAAATT-A
77843404 -CATTTTTAAACATAAGAAAAAATTA
1 TCATTTTTAAACATAAGAAAAAATTA
77843429 TCATTTTTA
1 TCATTTTTA
77843438 TTTCATAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 10 0.33
25 4 0.13
26 16 0.53
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (26 bp):
TCATTTTTAAACATAAGAAAAAATTA
Found at i:77844846 original size:10 final size:10
Alignment explanation
Indices: 77844801--77844851 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
77844791 TATTAAATAT
*
77844801 TAAAAATAT-
1 TAAAATTATA
77844810 TAAAATTGATA
1 TAAAATT-ATA
**
77844821 TAAGCTTATA
1 TAAAATTATA
77844831 -AAAATTATA
1 TAAAATTATA
77844840 TAAAATTATA
1 TAAAATTATA
77844850 TA
1 TA
77844852 TTTTAATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 13 0.38
10 16 0.47
11 5 0.15
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
TAAAATTATA
Found at i:77844968 original size:19 final size:18
Alignment explanation
Indices: 77844911--77844968 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 18
77844901 TCTAATACGC
* *
77844911 TTTTATAAAAATTTAAAA
1 TTTTATAAAATTTTATAA
* *
77844929 ATTTAAAAAAGTTTTATTAA
1 TTTTATAAAA-TTTTA-TAA
77844949 TTTTATAAAATTTTTATAA
1 TTTTATAAAA-TTTTATAA
77844968 T
1 T
77844969 GTATTTGATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 15 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTTATAAAATTTTATAA
Found at i:77845901 original size:5 final size:5
Alignment explanation
Indices: 77845893--77845931 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
77845883 TCTACCTCAA
* *
77845893 AAACC AAACC AAACC AAACC AAACC CAACC CAACC AAAC
1 AAACC AAACC AAACC AAACC AAACC AAACC AAACC AAAC
77845932 ACTTTTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:77846708 original size:5 final size:5
Alignment explanation
Indices: 77846693--77846726 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
77846683 CTGCAGTCGA
77846693 CACGCC CACGC CACGC CACGC CACGC CACGC CAC
1 CACG-C CACGC CACGC CACGC CACGC CACGC CAC
77846727 AGCTCCGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.21, C:0.62, G:0.18, T:0.00
Consensus pattern (5 bp):
CACGC
Found at i:77846819 original size:3 final size:3
Alignment explanation
Indices: 77846811--77846841 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
77846801 TTTACGCTGC
77846811 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
77846842 TCATGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:77849001 original size:22 final size:22
Alignment explanation
Indices: 77848976--77849044 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
77848966 AAGAATTTTC
77848976 AAGTTATCATTTAGATTTAATA
1 AAGTTATCATTTAGATTTAATA
* * * *
77848998 AAGTGAT--TTTCG-TTT-TTC
1 AAGTTATCATTTAGATTTAATA
*
77849016 AAGGTATCATTTAGATTTAATA
1 AAGTTATCATTTAGATTTAATA
77849038 AAGTTAT
1 AAGTTAT
77849045 TTTCATTTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
18 6 0.18
19 3 0.09
20 8 0.24
21 3 0.09
22 13 0.39
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (22 bp):
AAGTTATCATTTAGATTTAATA
Found at i:77849026 original size:40 final size:40
Alignment explanation
Indices: 77848971--77849053 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
77848961 TTTAAAAGAA
* *
77848971 TTTTCAAGTTATCATTTAGATTTAATAAAGTGATTTTCGT
1 TTTTCAAGGTATCATTTAGATTTAATAAAGTGATTTTCAT
*
77849011 TTTTCAAGGTATCATTTAGATTTAATAAAGTTATTTTCAT
1 TTTTCAAGGTATCATTTAGATTTAATAAAGTGATTTTCAT
77849051 TTT
1 TTT
77849054 CTCTTTCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (40 bp):
TTTTCAAGGTATCATTTAGATTTAATAAAGTGATTTTCAT
Found at i:77862549 original size:14 final size:14
Alignment explanation
Indices: 77862523--77862557 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
77862513 AATAATTTTT
77862523 AATT-ATTTAAAAA
1 AATTAATTTAAAAA
*
77862536 AATTAATTTTAAAA
1 AATTAATTTAAAAA
77862550 AATTAATT
1 AATTAATT
77862558 AATTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAATTTAAAAA
Found at i:77867151 original size:3 final size:3
Alignment explanation
Indices: 77867143--77867174 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
77867133 CCAACTTTTC
*
77867143 TCA TCA TCA TCA TCA TCA TCA TCG TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
77867175 TTCTTCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.03, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:77867850 original size:24 final size:24
Alignment explanation
Indices: 77867823--77867875 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
77867813 GATTTTGTTT
77867823 TCAATTATTGAGGTTAATCAGTAA
1 TCAATTATTGAGGTTAATCAGTAA
77867847 TCAATTATTGAGGTTAATCAGTAA
1 TCAATTATTGAGGTTAATCAGTAA
77867871 TCAAT
1 TCAAT
77867876 CTGTCCCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
TCAATTATTGAGGTTAATCAGTAA
Found at i:77875770 original size:10 final size:10
Alignment explanation
Indices: 77875735--77875782 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
77875725 ATTAGAAGTG
77875735 AGAAAAATAA
1 AGAAAAATAA
77875745 AGGAGAAAAT-A
1 A-GA-AAAATAA
77875756 AGAAAAATAA
1 AGAAAAATAA
77875766 AGAAATAA-AA
1 AGAAA-AATAA
77875776 AGAAAAA
1 AGAAAAA
77875783 AATTAAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 7 0.21
10 16 0.47
11 6 0.18
12 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (10 bp):
AGAAAAATAA
Found at i:77875783 original size:21 final size:21
Alignment explanation
Indices: 77875735--77875782 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
77875725 ATTAGAAGTG
*
77875735 AGAAAAATAAAGGAGAAAATA
1 AGAAAAATAAAGGAGAAAAAA
77875756 AGAAAAATAAA-GA-AATAAAA
1 AGAAAAATAAAGGAGAA-AAAA
77875776 AGAAAAA
1 AGAAAAA
77875783 AATTAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.48
21 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (21 bp):
AGAAAAATAAAGGAGAAAAAA
Found at i:77875981 original size:29 final size:29
Alignment explanation
Indices: 77875938--77876017 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
77875928 AAAACGATAA
*
77875938 CGTAAGTGACTAAAATATAATATTTCAAAT
1 CGTAAGTGACTAAAATATAACATTTC-AAT
* *
77875968 -GTAAGTGACCAAAAACATAACATTTCAAT
1 CGTAAGTGA-CTAAAATATAACATTTCAAT
* *
77875997 CATAAGTGACTAAAATGTAAC
1 CGTAAGTGACTAAAATATAAC
77876018 TTGAAGCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
29 20 0.49
30 21 0.51
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (29 bp):
CGTAAGTGACTAAAATATAACATTTCAAT
Found at i:77883265 original size:16 final size:16
Alignment explanation
Indices: 77883235--77883264 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77883225 TAAATAGCAC
77883235 ATTTAACTTTAAAAAT
1 ATTTAACTTTAAAAAT
77883251 ATTT-ACTTTAAAAA
1 ATTTAACTTTAAAAA
77883265 AAAAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTAACTTTAAAAAT
Found at i:77886594 original size:19 final size:20
Alignment explanation
Indices: 77886557--77886594 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77886547 TTAGATGATA
*
77886557 TTTAAATTAATTCTCAAAAT
1 TTTAAATTAATTCTAAAAAT
*
77886577 TTTAAATTTA-TCTAAAAA
1 TTTAAATTAATTCTAAAAA
77886595 AAATAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAATTAATTCTAAAAAT
Found at i:77896448 original size:37 final size:37
Alignment explanation
Indices: 77896407--77896488 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
77896397 AAATATTTAT
* * *
77896407 TAATCAATGTTCAAACTTTGAACATGCTTTATTAAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
*
77896444 TAATCAATGCTAAAACTTTGAACATGCTTTAATGAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
77896481 TAATCAAT
1 TAATCAAT
77896489 ACTTAACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (37 bp):
TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
Found at i:77896560 original size:33 final size:33
Alignment explanation
Indices: 77896523--77896631 Score: 209
Period size: 33 Copynumber: 3.3 Consensus size: 33
77896513 TTAAAACTTG
*
77896523 AATTATACATATACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
77896556 AATTATACATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
77896589 AATTATACATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
77896622 AATTATACAT
1 AATTATACAT
77896632 GCTTTATAAT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (33 bp):
AATTATACATACACCAACAATTAATTTTAGGTC
Found at i:77901171 original size:47 final size:47
Alignment explanation
Indices: 77901041--77901211 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
77901031 ATAGTAAAAC
* * * *
77901041 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAACCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
77901090 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAAA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
77901136 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
77901183 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
77901212 TTTGTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.25
47 55 0.54
48 10 0.10
49 12 0.12
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:77901242 original size:52 final size:48
Alignment explanation
Indices: 77901059--77901265 Score: 177
Period size: 47 Copynumber: 4.2 Consensus size: 48
77901049 TGCACATAGT
* * ** * *
77901059 CACATATCACATACCGAGGCCATAACCCAGCCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * * * *
77901107 CACATATCACA-CTGATGCCATATCCCAAATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
77901154 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
77901201 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAG
*
77901254 CACATTTCACAT
1 CACATATCACAT
77901266 GCTGTCATGG
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
46 25 0.19
47 54 0.41
48 11 0.08
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:77903803 original size:15 final size:15
Alignment explanation
Indices: 77903780--77903821 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
77903770 AAGAAAACAG
77903780 AATAAAGAAATCCAA
1 AATAAAGAAATCCAA
* * *
77903795 AATAGAGAAACCCAG
1 AATAAAGAAATCCAA
77903810 AATAAAGAAATC
1 AATAAAGAAATC
77903822 GAAATCCAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.14, G:0.12, T:0.12
Consensus pattern (15 bp):
AATAAAGAAATCCAA
Found at i:77903826 original size:36 final size:36
Alignment explanation
Indices: 77903786--77903855 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
77903776 ACAGAATAAA
*
77903786 GAAATCCAAAATAGAGAAACCCAGAATAAAGAAATC
1 GAAATCCAAAATAAAGAAACCCAGAATAAAGAAATC
* * * *
77903822 GAAATCCAGAATAAAGAGATCCAGGATAAAGAAA
1 GAAATCCAAAATAAAGAAACCCAGAATAAAGAAA
77903856 CCCAAGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.11
Consensus pattern (36 bp):
GAAATCCAAAATAAAGAAACCCAGAATAAAGAAATC
Found at i:77906389 original size:47 final size:47
Alignment explanation
Indices: 77906259--77906429 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
77906249 ATAGTAAAAC
* * * *
77906259 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAACCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
77906308 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAAA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
77906354 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
77906401 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
77906430 TTTGTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.25
47 55 0.54
48 10 0.10
49 12 0.12
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:77906460 original size:52 final size:48
Alignment explanation
Indices: 77906277--77906483 Score: 177
Period size: 47 Copynumber: 4.2 Consensus size: 48
77906267 TGCACATAGT
* * ** * *
77906277 CACATATCACATACCGAGGCCATAACCCAGCCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * * * *
77906325 CACATATCACA-CTGATGCCATATCCCAAATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
77906372 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
77906419 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAG
*
77906472 CACATTTCACAT
1 CACATATCACAT
77906484 GCTGTCATGG
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
46 25 0.19
47 54 0.41
48 11 0.08
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:77908566 original size:120 final size:120
Alignment explanation
Indices: 77908365--77909108 Score: 1339
Period size: 120 Copynumber: 6.2 Consensus size: 120
77908355 TTTTCAAGTT
77908365 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
77908430 TAATATAAGAATATTAATTATTAAAAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
77908485 ATACATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
77908550 TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAA-TTTTATTAAATTATATAGTTTAATTAAA
77908606 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
77908671 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
77908726 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
77908791 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
77908846 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
77908911 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
77908967 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
77909032 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT-AA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
77909086 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
77909109 TAAATATGAT
Statistics
Matches: 608, Mismatches: 12, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
119 27 0.04
120 346 0.57
121 233 0.38
122 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:77908788 original size:241 final size:240
Alignment explanation
Indices: 77908365--77909108 Score: 1348
Period size: 241 Copynumber: 3.1 Consensus size: 240
77908355 TTTTCAAGTT
77908365 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
77908430 TAATATAAGAATATTAATTATTAAAAATTTTTTTAAATTATATAGTTTAATTAAAATACATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
77908495 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
* * *
77908560 ACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAA-TTTTATTAAATTATATATTTTAATTAAA
77908606 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
77908671 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
77908736 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
77908801 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
196 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
77908846 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
77908911 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTT
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTT
*
77908975 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
129 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAA
77909040 GAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT-AA
194 GAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
77909086 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
77909109 TAAATATGAT
Statistics
Matches: 490, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
239 2 0.00
240 130 0.27
241 358 0.73
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (240 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:77908845 original size:18 final size:17
Alignment explanation
Indices: 77908817--77908851 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77908807 ATTATTAAGA
*
77908817 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
77908834 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
77908852 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:77909031 original size:361 final size:360
Alignment explanation
Indices: 77908365--77909108 Score: 1339
Period size: 361 Copynumber: 2.1 Consensus size: 360
77908355 TTTTCAAGTT
77908365 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
77908430 TAATATAAGAATATTAATTATTAAAAATTTTTTTAAATTATATAGTTTAATTAAAATACATTTAA
66 TAATATAAGAATATTAATTATTAAAAATTTTATTAAATTATATAGTTTAATTAAAATACATTTAA
*
77908495 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
* **
77908560 ACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTA
196 ACATTAATAATTAAGAATTTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTA
*
77908625 TGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATT
261 TGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATT
77908690 ATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
326 ATTAAGAATTTTATTAAATTATATAGTTTAATT-AA
77908726 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
77908791 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAAAATTTTATTAAATTATATAGTTTAATTAAAATACATTTAA
77908856 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
* *
77908921 ATATT-ATCCAATTAAGAA-TTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
196 ACATTAAT--AATTAAGAATTTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAATAAT
77908984 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
259 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
*
77909049 TTATTAAGAATTTTATTAAATTATATATTTTAATTAA
324 TTATTAAGAATTTTATTAAATTATATAGTTTAATTAA
77909086 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
77909109 TAAATATGAT
Statistics
Matches: 369, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
360 27 0.07
361 334 0.91
362 8 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (360 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAAAATTTTATTAAATTATATAGTTTAATTAAAATACATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
ACATTAATAATTAAGAATTTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTA
TGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATT
ATTAAGAATTTTATTAAATTATATAGTTTAATTAA
Found at i:77909078 original size:17 final size:17
Alignment explanation
Indices: 77909058--77909091 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
77909048 ATTATTAAGA
77909058 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
77909075 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
77909092 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:77909305 original size:44 final size:45
Alignment explanation
Indices: 77909256--77909346 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
77909246 ACCTCTATTC
* * *
77909256 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
77909300 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
77909345 CA
1 CA
77909347 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:77909361 original size:17 final size:16
Alignment explanation
Indices: 77909327--77909395 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
77909317 GATTAGCTAT
77909327 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
77909343 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
77909360 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
77909376 TACGCCTCTAATACAA
1 TACACCTCTAATCCAA
77909392 TACA
1 TACA
77909396 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:77909369 original size:33 final size:32
Alignment explanation
Indices: 77909327--77909395 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
77909317 GATTAGCTAT
*
77909327 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-ACAA
*
77909360 TACACCTCTAATCCAATACGCCTCTAATACAA
1 TACACCTCTAATCCAATACACCTCTAATACAA
77909392 TACA
1 TACA
77909396 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATACAA
Found at i:77911870 original size:27 final size:27
Alignment explanation
Indices: 77911831--77911929 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
77911821 ATTAAATATG
* *
77911831 ATTATTTTTTTAAAATTATATTTAATA
1 ATTATTATATTAAAATTATATTTAATA
*
77911858 ATTATTATATTAAAA-GATGA-TTAATTA
1 ATTATTATATTAAAATTAT-ATTTAA-TA
*
77911885 ATTAATTATTATT-AAATTATTTTTAATA
1 ATT-ATTA-TATTAAAATTATATTTAATA
* *
77911913 ATAATTCTATTAAAATT
1 ATTATTATATTAAAATT
77911930 TAATAACAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
26 10 0.17
27 27 0.47
28 11 0.19
29 10 0.17
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTATTATATTAAAATTATATTTAATA
Found at i:77914306 original size:25 final size:25
Alignment explanation
Indices: 77914261--77914310 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
77914251 GGGCAGAGTG
77914261 GAAAAGTGAAAGAATAGAAAGAAAA
1 GAAAAGTGAAAGAATAGAAAGAAAA
77914286 GAAAAGTAGAAA-AAT-GAAAAGAAAA
1 GAAAAGT-GAAAGAATAG-AAAGAAAA
77914311 TTAATTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.04
25 18 0.78
26 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (25 bp):
GAAAAGTGAAAGAATAGAAAGAAAA
Found at i:77914491 original size:7 final size:7
Alignment explanation
Indices: 77914479--77914503 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
77914469 ATATATATTT
77914479 TTTTAAA
1 TTTTAAA
77914486 TTTTAAA
1 TTTTAAA
77914493 TTTTAAA
1 TTTTAAA
77914500 TTTT
1 TTTT
77914504 TTCTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:77922136 original size:23 final size:24
Alignment explanation
Indices: 77922088--77922138 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
77922078 TTAAATAATT
* *
77922088 TTTTATATAAAAATAAATATGCAA
1 TTTTAAATAAAAACAAATATGCAA
77922112 TTTTAAATAAAAACATAATA-G-AA
1 TTTTAAATAAAAACA-AATATGCAA
77922135 TTTT
1 TTTT
77922139 GATGTCTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 14 0.58
25 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
TTTTAAATAAAAACAAATATGCAA
Found at i:77947514 original size:12 final size:12
Alignment explanation
Indices: 77947497--77947521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77947487 TTCAAGGGGG
77947497 AATGTATTAGAA
1 AATGTATTAGAA
77947509 AATGTATTAGAA
1 AATGTATTAGAA
77947521 A
1 A
77947522 CAATGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AATGTATTAGAA
Found at i:77948366 original size:20 final size:20
Alignment explanation
Indices: 77948328--77948379 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
77948318 AGACACATGA
77948328 AAAAAAATACAATATAATACT
1 AAAAAAATA-AATATAATACT
77948349 AAAAAAAT-AATATGAATA-T
1 AAAAAAATAAATAT-AATACT
*
77948368 AATACAAATAAA
1 AA-AAAAATAAA
77948380 CCAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.30
20 9 0.33
21 10 0.37
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAAAATAAATATAATACT
Found at i:77948385 original size:25 final size:25
Alignment explanation
Indices: 77948338--77948386 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
77948328 AAAAAAATAC
*
77948338 AATATAATACTAAAAAAATAATATG
1 AATATAATACTAAAAAAACAATATG
*
77948363 AATATAATAC-AAATAAACCAATAT
1 AATATAATACTAAA-AAAACAATAT
77948387 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (25 bp):
AATATAATACTAAAAAAACAATATG
Found at i:77949908 original size:31 final size:31
Alignment explanation
Indices: 77949873--77949933 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
77949863 TTGATTATTA
* *
77949873 AATTATTT-AAAAATTTTCATTTAATTCACTG
1 AATTATTTAAAAAAATTT-ATTTAATCCACTG
77949904 AATTATTTAAAAAAATTTATTTAATCCACT
1 AATTATTTAAAAAAATTTATTTAATCCACT
77949934 AGGTCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.46
Consensus pattern (31 bp):
AATTATTTAAAAAAATTTATTTAATCCACTG
Found at i:77951981 original size:26 final size:27
Alignment explanation
Indices: 77951932--77951982 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
77951922 TTGGTCCTTA
** *
77951932 TTTTTAACAAAATTTGATTGTTTATCT
1 TTTTTAACAAAATTAAATTATTTATCT
77951959 TTTTTAA-AAAATTAAATTATTTAT
1 TTTTTAACAAAATTAAATTATTTAT
77951983 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (27 bp):
TTTTTAACAAAATTAAATTATTTATCT
Found at i:77967111 original size:17 final size:18
Alignment explanation
Indices: 77967089--77967124 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
77967079 TTTTTTTATT
*
77967089 AGCCTTTCAAAA-TTTTA
1 AGCCTTCCAAAAGTTTTA
77967106 AGCCTTCCAAAAGTTTTA
1 AGCCTTCCAAAAGTTTTA
77967124 A
1 A
77967125 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (18 bp):
AGCCTTCCAAAAGTTTTA
Found at i:77968056 original size:17 final size:18
Alignment explanation
Indices: 77968015--77968069 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 18
77968005 GAAAGTAAAT
*
77968015 AAAATTATAGAAA-AAGA
1 AAAATTATAGAAAGAACA
** *
77968032 AATTTTATTGAAAGAA-A
1 AAAATTATAGAAAGAACA
*
77968049 AAAATTATGGAAAGAACA
1 AAAATTATAGAAAGAACA
77968067 AAA
1 AAA
77968070 GACTTTTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.64, C:0.02, G:0.13, T:0.22
Consensus pattern (18 bp):
AAAATTATAGAAAGAACA
Found at i:77968211 original size:20 final size:20
Alignment explanation
Indices: 77968173--77968220 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
77968163 TTAAATTCTA
* **
77968173 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
77968193 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
77968213 AAA-ATAAA
1 AAAGATAAA
77968221 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:77971540 original size:30 final size:29
Alignment explanation
Indices: 77971502--77971564 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
77971492 CTTTTTTTAC
77971502 TTTT-TAATAATTTTAATG-ATTTTTAAAAA
1 TTTTATAAT-ATTTTAATGAATTTTT-AAAA
**
77971531 TTTTATAATATTTTTTTGAATTTTTAAAA
1 TTTTATAATATTTTAATGAATTTTTAAAA
77971560 TTTTA
1 TTTTA
77971565 AAAAAGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTTATAATATTTTAATGAATTTTTAAAA
Found at i:77971544 original size:19 final size:19
Alignment explanation
Indices: 77971502--77971544 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
77971492 CTTTTTTTAC
* *
77971502 TTTTTAATAATTTTAATGA
1 TTTTTAAAAATTTTAATAA
77971521 TTTTTAAAAATTTT-ATAA
1 TTTTTAAAAATTTTAATAA
77971539 TATTTT
1 T-TTTT
77971545 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTAAAAATTTTAATAA
Found at i:77976626 original size:17 final size:18
Alignment explanation
Indices: 77976590--77976627 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
77976580 TTCTAGAAAC
* *
77976590 TATGTATTTAGAACATAA
1 TATGCATTTAGAAAATAA
77976608 TATGCATTTA-AAAATAA
1 TATGCATTTAGAAAATAA
77976625 TAT
1 TAT
77976628 ACAATAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (18 bp):
TATGCATTTAGAAAATAA
Found at i:77980572 original size:18 final size:19
Alignment explanation
Indices: 77980549--77980585 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
77980539 TGCCAAGGTC
77980549 TCTCTTCCCTTTTT-TTTT
1 TCTCTTCCCTTTTTATTTT
*
77980567 TCTCTTTCCTTTTTATTTT
1 TCTCTTCCCTTTTTATTTT
77980586 GTCATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTCTTCCCTTTTTATTTT
Found at i:78001515 original size:20 final size:21
Alignment explanation
Indices: 78001464--78001517 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
78001454 CTATTGAATT
*
78001464 TTTTTAATATTATTAAATAATA
1 TTTTTAATA-TATCAAATAATA
78001486 TTTATTAATATATCAAATAA-A
1 TTT-TTAATATATCAAATAATA
78001507 TTTTTAATATA
1 TTTTTAATATA
78001518 ACTTTAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 8 0.27
21 4 0.13
22 12 0.40
23 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTAATATATCAAATAATA
Found at i:78004187 original size:29 final size:29
Alignment explanation
Indices: 78004145--78004203 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
78004135 ATCAAGGATA
78004145 TAATGTTATTATGATTACGTGTGAAATGT
1 TAATGTTATTATGATTACGTGTGAAATGT
78004174 TAATGTTATTATGATTACGTGTGAAATGT
1 TAATGTTATTATGATTACGTGTGAAATGT
78004203 T
1 T
78004204 TTTCAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (29 bp):
TAATGTTATTATGATTACGTGTGAAATGT
Found at i:78006786 original size:3 final size:3
Alignment explanation
Indices: 78006772--78006808 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
78006762 TTGGTACATC
78006772 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
78006809 AAAAGAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:78007888 original size:22 final size:24
Alignment explanation
Indices: 78007853--78007898 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
78007843 TTTATATTTG
*
78007853 TATAATATTCTACAT-AAATTTTA
1 TATAATATTATACATAAAATTTTA
78007876 TATAAT-TTATACATAAAATTTTA
1 TATAATATTATACATAAAATTTTA
78007899 ATTTCATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (24 bp):
TATAATATTATACATAAAATTTTA
Found at i:78019793 original size:27 final size:26
Alignment explanation
Indices: 78019762--78019823 Score: 101
Period size: 25 Copynumber: 2.4 Consensus size: 26
78019752 CGCCATTAAT
78019762 GTGTGGTGCCAATTAAACGGGATGAGA
1 GTGTGG-GCCAATTAAACGGGATGAGA
78019789 GTGT-GGCCAATTAAACGGGATGAGA
1 GTGTGGGCCAATTAAACGGGATGAGA
78019814 GTGT-GGCCAA
1 GTGTGGGCCAA
78019824 GGTACTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 30 0.86
26 1 0.03
27 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.37, T:0.21
Consensus pattern (26 bp):
GTGTGGGCCAATTAAACGGGATGAGA
Found at i:78019799 original size:25 final size:25
Alignment explanation
Indices: 78019769--78019823 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
78019759 AATGTGTGGT
78019769 GCCAATTAAACGGGATGAGAGTGTG
1 GCCAATTAAACGGGATGAGAGTGTG
78019794 GCCAATTAAACGGGATGAGAGTGTG
1 GCCAATTAAACGGGATGAGAGTGTG
78019819 GCCAA
1 GCCAA
78019824 GGTACTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.18
Consensus pattern (25 bp):
GCCAATTAAACGGGATGAGAGTGTG
Found at i:78029702 original size:29 final size:30
Alignment explanation
Indices: 78029670--78029732 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
78029660 TTAAATTTTA
78029670 ATAAAAAC-TATAAAAATAGTA-AAAAAATT
1 ATAAAAACATATAAAAATA-TAGAAAAAATT
**
78029699 AT-AAAACATATAGTAATATAGAAAAAATT
1 ATAAAAACATATAAAAATATAGAAAAAATT
78029728 ATAAA
1 ATAAA
78029733 CTTTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 7 0.24
29 20 0.69
30 2 0.07
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (30 bp):
ATAAAAACATATAAAAATATAGAAAAAATT
Found at i:78029798 original size:22 final size:22
Alignment explanation
Indices: 78029770--78029818 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
78029760 AAAAAAATAT
78029770 AAATTTCGTAAAAGATTTATAA
1 AAATTTCGTAAAAGATTTATAA
78029792 AAATTTCGTAAAAGATTTATAA
1 AAATTTCGTAAAAGATTTATAA
78029814 AAATT
1 AAATT
78029819 ATCATACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
AAATTTCGTAAAAGATTTATAA
Found at i:78029853 original size:11 final size:12
Alignment explanation
Indices: 78029837--78029865 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
78029827 AAAAGAAGTG
78029837 TTTTATAAT-TT
1 TTTTATAATATT
78029848 TTTTATAATATT
1 TTTTATAATATT
78029860 TTTTAT
1 TTTTAT
78029866 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTATAATATT
Found at i:78034720 original size:95 final size:95
Alignment explanation
Indices: 78034581--78034840 Score: 454
Period size: 95 Copynumber: 2.8 Consensus size: 95
78034571 AGATAATTTC
*
78034581 AAGAAATGCTCTTTTGATCAACAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
78034646 CAAGCTAACAATTCCCCGAATAGGAAGATA
66 CAAGCTAACAATTCCCCGAATAGGAAGATA
78034676 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
78034741 CAAGCTAACAATTCCCCGAATAGGAAGATA
66 CAAGCTAACAATTCCCCGAATAGGAAGATA
* * *
78034771 ACG-AAT-CTCTTTTGATCAATAATTCTAGCTCAGAAACTTAGGG-AACCTACTGTTTTCTTATT
1 AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTT-GGGAAACCTACTGCTTTCTTATG
78034833 CCAAGCTA
65 CCAAGCTA
78034841 CTTCAACAAT
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
93 58 0.36
94 6 0.04
95 96 0.60
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (95 bp):
AAGAAATGCTCTTTTGATCAATAATTCTAGCTCAGAAACTTGGGAAACCTACTGCTTTCTTATGC
CAAGCTAACAATTCCCCGAATAGGAAGATA
Found at i:78039234 original size:14 final size:14
Alignment explanation
Indices: 78039208--78039249 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
78039198 AACATAACCC
78039208 ATTA-AATATTATTA
1 ATTATAATA-TATTA
*
78039222 ATTATAATATATTT
1 ATTATAATATATTA
*
78039236 ATGATAATATATTA
1 ATTATAATATATTA
78039250 TACACATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
ATTATAATATATTA
Found at i:78045022 original size:141 final size:141
Alignment explanation
Indices: 78044768--78045025 Score: 507
Period size: 141 Copynumber: 1.8 Consensus size: 141
78044758 TGAAGATGAG
78044768 ACTTATGCTTATGATTTTATGTTTATGTTGTCTTTCTCCTTTATTATAGTCTCCTCCTGGTTGAA
1 ACTTATGCTTATGATTTTATGTTTATGTTGTCTTTCTCCTTTATTATAGTCTCCTCCTGGTTGAA
*
78044833 TTTTCAATTGTAACTTTATTTGTAATAATGACTATATAAAGAGAATTAATATTATTATGCTGCAG
66 TTTTCAATTGTAACTTTATTTGTAATAATAACTATATAAAGAGAATTAATATTATTATGCTGCAG
78044898 TGCAGTGTTCC
131 TGCAGTGTTCC
78044909 ACTTATGCTTATGATTTTATGTTTATGTTGTCTTTCTCCTTTATTATAGTCTCCTCCTGGTTGAA
1 ACTTATGCTTATGATTTTATGTTTATGTTGTCTTTCTCCTTTATTATAGTCTCCTCCTGGTTGAA
78044974 TTTTCAATTGTAACTTTATTTGTAATAATAACTATATAAAGAGAATTAATAT
66 TTTTCAATTGTAACTTTATTTGTAATAATAACTATATAAAGAGAATTAATAT
78045026 CTTCAGATAG
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 116 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (141 bp):
ACTTATGCTTATGATTTTATGTTTATGTTGTCTTTCTCCTTTATTATAGTCTCCTCCTGGTTGAA
TTTTCAATTGTAACTTTATTTGTAATAATAACTATATAAAGAGAATTAATATTATTATGCTGCAG
TGCAGTGTTCC
Found at i:78045550 original size:39 final size:39
Alignment explanation
Indices: 78045442--78045552 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
78045432 AATTTATCTG
* * * * * *
78045442 ACGCATTTTGTAATAATTGTTGGATGATAAATCCACTTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
* *
78045481 ACGCGTTTCGTAATGATTATTAGATGATAAGTTCACCTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
78045520 ACGCGTTTCGTAATAATTATTAGATGATAAGTC
1 ACGCGTTTCGTAATAATTATTAGATGATAAGTC
78045553 TAACATATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (39 bp):
ACGCGTTTCGTAATAATTATTAGATGATAAGTCCACCTC
Found at i:78059065 original size:13 final size:13
Alignment explanation
Indices: 78059047--78059095 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
78059037 GTGATTGAGT
78059047 TACTAAATTATAG
1 TACTAAATTATAG
* *
78059060 TACTAAATTAAAA
1 TACTAAATTATAG
*
78059073 T-CTAAAATATAG
1 TACTAAATTATAG
78059085 TACTAAATTAT
1 TACTAAATTAT
78059096 TACACATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (13 bp):
TACTAAATTATAG
Found at i:78060313 original size:49 final size:49
Alignment explanation
Indices: 78060241--78060339 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
78060231 CTCGAATTAA
*
78060241 CATGTCATTTCACTTATAAAACACTTTCGAGGAATTAGTTTAATACAAT
1 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
78060290 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
1 CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
78060339 C
1 C
78060340 GAAGTTCGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (49 bp):
CATGTCATTTCACTTATAAAACACCTTCGAGGAATTAGTTTAATACAAT
Found at i:78060953 original size:13 final size:13
Alignment explanation
Indices: 78060935--78060975 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
78060925 AAATGACTTA
78060935 TTTTTCTTTTAAT
1 TTTTTCTTTTAAT
*
78060948 TTTTTCTTAT-AT
1 TTTTTCTTTTAAT
*
78060960 TTTTT-GTTTAAT
1 TTTTTCTTTTAAT
78060972 TTTT
1 TTTT
78060976 AATTAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.08
12 13 0.54
13 9 0.38
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTAAT
Found at i:78061428 original size:10 final size:10
Alignment explanation
Indices: 78061415--78061447 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
78061405 TATATTTATA
78061415 TATATCATAT
1 TATATCATAT
78061425 TATATCATAT
1 TATATCATAT
78061435 TATAT-ATAT
1 TATATCATAT
78061444 TATA
1 TATA
78061448 ATTTATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATCATAT
Found at i:78063114 original size:20 final size:22
Alignment explanation
Indices: 78063089--78063128 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
78063079 CATGGATATA
*
78063089 GAGATATAAT-CTTA-ATCTAG
1 GAGATAAAATGCTTATATCTAG
78063109 GAGATAAAATGCTTATATCT
1 GAGATAAAATGCTTATATCT
78063129 GTTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (22 bp):
GAGATAAAATGCTTATATCTAG
Found at i:78067457 original size:3 final size:3
Alignment explanation
Indices: 78067449--78067473 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
78067439 ATTTAAAAAT
78067449 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
78067474 CAAATTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:78075563 original size:16 final size:17
Alignment explanation
Indices: 78075533--78075565 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
78075523 ACTAAAGCCA
78075533 TTTTTTTAATTATATTTG
1 TTTTTTTAA-TATATTTG
78075551 TTTTTTTAA-ATATTT
1 TTTTTTTAATATATTT
78075566 TATTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTTTAATATATTTG
Found at i:78080685 original size:15 final size:16
Alignment explanation
Indices: 78080652--78080693 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
78080642 TAGCCTATTG
**
78080652 TTTAATTTTTGTCTCT
1 TTTAATTTTTGAATCT
78080668 TTTAATTTTTGAAT-T
1 TTTAATTTTTGAATCT
*
78080683 TTTATTTTTTG
1 TTTAATTTTTG
78080694 TCAAATCACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (16 bp):
TTTAATTTTTGAATCT
Done.