Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 15 of 186
Found at i:4645855 original size:17 final size:18
Alignment explanation
Indices: 4645833--4645868 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4645823 GAAAATTATT
*
4645833 AAAATATAT-AATTTTAA
1 AAAATAAATAAATTTTAA
4645850 AAAATAAATAAATTTTAA
1 AAAATAAATAAATTTTAA
4645868 A
1 A
4645869 TTATACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATAAATAAATTTTAA
Found at i:4653941 original size:22 final size:22
Alignment explanation
Indices: 4653899--4653941 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4653889 AAAACTTTAG
* *
4653899 ATCATTATTATTATTACTATTA
1 ATCATCATTATTATTAATATTA
4653921 ATCATCATTAATT-TTAATATT
1 ATCATCATT-ATTATTAATATT
4653942 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
ATCATCATTATTATTAATATTA
Found at i:4654058 original size:33 final size:33
Alignment explanation
Indices: 4653993--4654058 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
4653983 TAACTTCAAA
*
4653993 TTTAGTTTATTATTTCATCATTTGTCTTTTTATT
1 TTTAGTTTATTATTTCAT-ATTTGGCTTTTTATT
4654027 TTTA-TTTATTATTATCAT-TTTGGCTTGTTTAT
1 TTTAGTTTATTATT-TCATATTTGGCTT-TTTAT
4654059 CGTATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.24
33 14 0.48
34 8 0.28
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (33 bp):
TTTAGTTTATTATTTCATATTTGGCTTTTTATT
Found at i:4656113 original size:15 final size:15
Alignment explanation
Indices: 4656078--4656116 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
4656068 TTTAACAATT
4656078 TTCATTTTTTATATA
1 TTCATTTTTTATATA
*
4656093 -TC-TTTTTTATTTA
1 TTCATTTTTTATATA
4656106 TTCATTTTTTA
1 TTCATTTTTTA
4656117 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 10 0.48
14 4 0.19
15 7 0.33
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCATTTTTTATATA
Found at i:4660119 original size:13 final size:13
Alignment explanation
Indices: 4660101--4660131 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4660091 ACTTCACTTG
*
4660101 AAAAAGAAACGAA
1 AAAAAGAAAAGAA
4660114 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
4660127 AAAAA
1 AAAAA
4660132 AAATAGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:4665440 original size:12 final size:12
Alignment explanation
Indices: 4665423--4665452 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
4665413 AAGAGGAAAG
4665423 CTTGATTTATGA
1 CTTGATTTATGA
4665435 CTTGATTTATGA
1 CTTGATTTATGA
4665447 CTTGAT
1 CTTGAT
4665453 GAATAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (12 bp):
CTTGATTTATGA
Found at i:4672431 original size:25 final size:24
Alignment explanation
Indices: 4672375--4672441 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
4672365 AAAAAAACAT
* *
4672375 TTTAATTTTCCTATTATTATTATTA
1 TTTATTTTTACTATT-TTATTATTA
4672400 TTTATTTTTACTATTTTATT-TTA
1 TTTATTTTTACTATTTTATTATTA
4672423 TTTTCATTTTTA-T-TTTTAT
1 -TTT-ATTTTTACTATTTTAT
4672442 AGGAAACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.24
24 9 0.24
25 20 0.53
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATTTTTACTATTTTATTATTA
Found at i:4672437 original size:6 final size:6
Alignment explanation
Indices: 4672388--4672441 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
4672378 AATTTTCCTA
* *
4672388 TTATTA TTATTAT TTATTT TTACTATT TTA-TT TTATTT TCATTT TTATTT
1 TTATTT TTATT-T TTATTT TTA-T-TT TTATTT TTATTT TTATTT TTATTT
4672438 TTAT
1 TTAT
4672442 AGGAAACATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
5 5 0.12
6 25 0.61
7 6 0.15
8 5 0.12
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:4672439 original size:18 final size:20
Alignment explanation
Indices: 4672389--4672441 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
4672379 ATTTTCCTAT
*
4672389 TATTATTATTATTTATTTTTAC
1 TATT-TTATT-TTTATTTTCAC
4672411 TATTTTA-TTTTATTTTCA-
1 TATTTTATTTTTATTTTCAC
4672429 T-TTTTATTTTTAT
1 TATTTTATTTTTAT
4672442 AGGAAACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 5 0.17
18 7 0.24
19 9 0.31
20 1 0.03
21 3 0.10
22 4 0.14
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTTATTTTTATTTTCAC
Found at i:4675232 original size:17 final size:16
Alignment explanation
Indices: 4675207--4675242 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4675197 AACCCTAGTT
* *
4675207 TTTCCCTTTTCTTTTC
1 TTTCCCCTTTCCTTTC
4675223 TTTCCCCTTTCCTTTC
1 TTTCCCCTTTCCTTTC
4675239 TTTC
1 TTTC
4675243 TTTTTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTCCCCTTTCCTTTC
Found at i:4675400 original size:19 final size:20
Alignment explanation
Indices: 4675357--4675393 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
4675347 ATTAATAACC
4675357 AATACATAT-TTTATTATGA
1 AATACATATGTTTATTATGA
4675376 AATACATATGTTTATTAT
1 AATACATATGTTTATTAT
4675394 TATTACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
AATACATATGTTTATTATGA
Found at i:4675493 original size:17 final size:16
Alignment explanation
Indices: 4675473--4675506 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4675463 ATTTATTCCA
4675473 TAATATAATAATATAAT
1 TAATATAA-AATATAAT
*
4675490 TAATATAAATTATAAT
1 TAATATAAAATATAAT
4675506 T
1 T
4675507 TTGTAACACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATAAAATATAAT
Found at i:4677647 original size:21 final size:21
Alignment explanation
Indices: 4677621--4677660 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4677611 TACCCCCTAA
4677621 ATCCCTTAA-TTAACTCCCCCT
1 ATCCC-TAATTTAACTCCCCCT
*
4677642 ATCCCTAATTTCACTCCCC
1 ATCCCTAATTTAACTCCCC
4677661 AATCGTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCCCTAATTTAACTCCCCCT
Found at i:4679969 original size:85 final size:85
Alignment explanation
Indices: 4679869--4680037 Score: 329
Period size: 85 Copynumber: 2.0 Consensus size: 85
4679859 TATCATTTTG
*
4679869 TCAAAAAATTCGTGAAGGCCACTGCTCACCTTCTTAAGCCTTCTTGTATATCCCTGCAGCGTAAA
1 TCAAAAAATTCGTGAAGGCCACTACTCACCTTCTTAAGCCTTCTTGTATATCCCTGCAGCGTAAA
4679934 GATAGATATGATAGAATCAC
66 GATAGATATGATAGAATCAC
4679954 TCAAAAAATTCGTGAAGGCCACTACTCACCTTCTTAAGCCTTCTTGTATATCCCTGCAGCGTAAA
1 TCAAAAAATTCGTGAAGGCCACTACTCACCTTCTTAAGCCTTCTTGTATATCCCTGCAGCGTAAA
4680019 GATAGATATGATAGAATCA
66 GATAGATATGATAGAATCA
4680038 GTTTTATATT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (85 bp):
TCAAAAAATTCGTGAAGGCCACTACTCACCTTCTTAAGCCTTCTTGTATATCCCTGCAGCGTAAA
GATAGATATGATAGAATCAC
Found at i:4683984 original size:15 final size:15
Alignment explanation
Indices: 4683964--4683993 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4683954 ATAATTTAAA
4683964 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
4683979 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
4683994 TACATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CTATCTCCTAAACCC
Found at i:4684088 original size:20 final size:22
Alignment explanation
Indices: 4684065--4684111 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
4684055 ACTAACTCTT
4684065 AACCTCTAACT-CTAACCCC-A
1 AACCTCTAACTACTAACCCCTA
*
4684085 AACCCCTAACTACTAACCCCTA
1 AACCTCTAACTACTAACCCCTA
4684107 AACCT
1 AACCT
4684112 TATTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 8 0.35
22 5 0.22
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCTCTAACTACTAACCCCTA
Found at i:4684688 original size:41 final size:40
Alignment explanation
Indices: 4684631--4684789 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 40
4684621 CAGATAAAAT
4684631 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CTGA
*
4684672 GCATTAGCGGCGCTTTTT-TAAAACGCCGCTAAAAGCATGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGC-TGA
* * * *
4684712 GCATTAGCAGTGCTTTCTAAAAAACGCCGCTAAAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CTGA
* * *
4684753 GCATTAGTGGCACTTCTTCAAAAACGCCGCTAAAAGC
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGC
4684790 CCCGAAAGGT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 35 0.34
41 66 0.64
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCTGA
Found at i:4686009 original size:15 final size:15
Alignment explanation
Indices: 4685989--4686018 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4685979 ATAATTTAAA
4685989 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
4686004 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
4686019 TACATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CTATCTCCTAAACCC
Found at i:4686113 original size:20 final size:22
Alignment explanation
Indices: 4686090--4686136 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
4686080 ACTAACTCTT
4686090 AACCTCTAACT-CTAACCCC-A
1 AACCTCTAACTACTAACCCCTA
*
4686110 AACCCCTAACTACTAACCCCTA
1 AACCTCTAACTACTAACCCCTA
4686132 AACCT
1 AACCT
4686137 TATTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 8 0.35
22 5 0.22
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCTCTAACTACTAACCCCTA
Found at i:4686713 original size:41 final size:40
Alignment explanation
Indices: 4686656--4686814 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 40
4686646 CAGATAAAAT
4686656 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CTGA
*
4686697 GCATTAGCGGCGCTTTTT-TAAAACGCCGCTAAAAGCATGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGC-TGA
* * * *
4686737 GCATTAGCAGTGCTTTCTAAAAAACGCCGCTAAAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CTGA
* * *
4686778 GCATTAGTGGCACTTCTTCAAAAACGCCGCTAAAAGC
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGC
4686815 CCCGAAAGGT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 35 0.34
41 66 0.64
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCTGA
Found at i:4697198 original size:3 final size:3
Alignment explanation
Indices: 4697190--4697214 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4697180 GATAAATGAG
4697190 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
4697215 GAAGTAAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4697226 original size:21 final size:21
Alignment explanation
Indices: 4697202--4697242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4697192 TAATAATAAT
*
4697202 AATA-ATAATAATAGAAGTAAA
1 AATATATAA-AATAAAAGTAAA
4697223 AATATATAAAATAAAAGTAA
1 AATATATAAAATAAAAGTAA
4697243 GTAATAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AATATATAAAATAAAAGTAAA
Found at i:4706171 original size:11 final size:11
Alignment explanation
Indices: 4706148--4706183 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
4706138 AACTAATCCT
4706148 CTCTCATATTTC
1 CTCTCA-ATTTC
4706160 CTCTCAATTTC
1 CTCTCAATTTC
*
4706171 CTCTAAATTTC
1 CTCTCAATTTC
4706182 CT
1 CT
4706184 TCTAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:4706189 original size:12 final size:11
Alignment explanation
Indices: 4706155--4706189 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
4706145 CCTCTCTCAT
*
4706155 ATTTCCTCTCA
1 ATTTCCTCTAA
4706166 ATTTCCTCTAA
1 ATTTCCTCTAA
4706177 ATTTCCTTCTAA
1 ATTTCC-TCTAA
4706189 A
1 A
4706190 ATTCTCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTCCTCTAA
Found at i:4706218 original size:51 final size:51
Alignment explanation
Indices: 4706163--4706286 Score: 203
Period size: 51 Copynumber: 2.4 Consensus size: 51
4706153 ATATTTCCTC
* *
4706163 TCAATTTCCTCTAAATTTCCTTCTAAAATTCTCTCAAAACCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAAACCATATTTAATT
*
4706214 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAAACCATATTTAATT
* *
4706265 TCAATTTGCTTTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
4706287 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.29, C:0.25, G:0.01, T:0.45
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAAACCATATTTAATT
Found at i:4708122 original size:18 final size:18
Alignment explanation
Indices: 4708095--4708134 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4708085 CAGATGCGTT
*
4708095 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
4708113 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
4708131 TCCT
1 TCCT
4708135 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:4708427 original size:21 final size:21
Alignment explanation
Indices: 4708403--4708459 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
4708393 GAACAACCAG
*
4708403 AATCCCCGTCGGAAGAACAAC
1 AATCCCCGCCGGAAGAACAAC
*
4708424 AATCGCCGCCGGAAGAACAAC
1 AATCCCCGCCGGAAGAACAAC
4708445 AA-CCGCCGCCGGAAG
1 AATCC-CCGCCGGAAG
4708460 CTAGAGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.35, C:0.35, G:0.25, T:0.05
Consensus pattern (21 bp):
AATCCCCGCCGGAAGAACAAC
Found at i:4710157 original size:25 final size:24
Alignment explanation
Indices: 4710127--4710252 Score: 104
Period size: 25 Copynumber: 5.3 Consensus size: 24
4710117 TATTTTGATA
4710127 TTATTTGATGTAATAAAATAGAAG
1 TTATTTGATGTAATAAAATAGAAG
* *
4710151 TTCATTTGATGTAATAAAATAAAAAAA
1 TT-ATTTGATGTAATAAAAT--AGAAG
** *
4710178 TT-TTTGA-GT--T-ATTTTGATA-
1 TTATTTGATGTAATAAAATAGA-AG
4710197 TTATTTGATGTAATAAAATAGAAG
1 TTATTTGATGTAATAAAATAGAAG
*
4710221 TTTATTTGATGTAATAAAATAGAAA
1 -TTATTTGATGTAATAAAATAGAAG
4710246 TT-TTTGA
1 TTATTTGA
4710253 ATATTTTGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
19 3 0.04
20 6 0.07
21 4 0.05
22 1 0.01
23 7 0.09
24 10 0.12
25 45 0.56
27 5 0.06
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGAAG
Found at i:4710196 original size:70 final size:67
Alignment explanation
Indices: 4710105--4710261 Score: 251
Period size: 70 Copynumber: 2.3 Consensus size: 67
4710095 TTATTTGTAT
4710105 AAATATTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAA
1 AAAT-TTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAA
4710170 TAAAA
65 T--AA
* *
4710175 AAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAA
1 AAATTTTTGA-ATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAA
*
4710240 TAG
65 TAA
4710243 AAATTTTTGAATATTTTGA
1 AAATTTTTGAATATTTTGA
4710262 AAATTTTAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
67 8 0.10
68 11 0.13
69 6 0.07
70 57 0.70
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.45
Consensus pattern (67 bp):
AAATTTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAAT
AA
Found at i:4710229 original size:35 final size:35
Alignment explanation
Indices: 4710120--4710230 Score: 86
Period size: 35 Copynumber: 3.2 Consensus size: 35
4710110 TTTTGAATAT
*
4710120 TTTGATATTATTTGATGTAATAAAATAGAAGTTCA
1 TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
* * * ** * *
4710155 TTTGAT-GTA-ATAAAATAAAAAAATTTTTG-AG-TTA
1 TTTGATATTATTTGATGTAATAAAA---TAGAAGTTTA
4710189 TTTTGATATTATTTGATGTAATAAAATAGAAGTTTA
1 -TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
4710225 TTTGAT
1 TTTGAT
4710231 GTAATAAAAT
Statistics
Matches: 53, Mismatches: 15, Indels: 16
0.63 0.18 0.19
Matches are distributed among these distances:
33 9 0.17
34 6 0.11
35 22 0.42
36 7 0.13
37 9 0.17
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (35 bp):
TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
Found at i:4710360 original size:47 final size:47
Alignment explanation
Indices: 4710306--4710530 Score: 414
Period size: 47 Copynumber: 4.8 Consensus size: 47
4710296 CCATTAATAA
4710306 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
* *
4710353 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACTCTAAA
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
4710400 CCTAATTAAATTGAAAACCCTAACTCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAAC-CTAATTAAATTGAAAACCCTAAC
*
4710448 CCTAATTAAATTGAAAACCCTAATCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
4710495 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTG
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTG
4710531 CCCTAACCCT
Statistics
Matches: 171, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 127 0.74
48 44 0.26
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (47 bp):
CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
Found at i:4710361 original size:24 final size:23
Alignment explanation
Indices: 4710303--4710530 Score: 393
Period size: 24 Copynumber: 9.7 Consensus size: 23
4710293 TAACCATTAA
4710303 TAACCTAATTAAATTGAAAACCC
1 TAACCTAATTAAATTGAAAACCC
4710326 TAACCTAATTAAATTGAAAACCC
1 TAACCTAATTAAATTGAAAACCC
4710349 TAACCCTAATTAAATTGAAAACCC
1 TAA-CCTAATTAAATTGAAAACCC
*
4710373 TAACCTAATTAAATTGAAAACTC
1 TAACCTAATTAAATTGAAAACCC
4710396 TAAACCTAATTAAATTGAAAACCC
1 T-AACCTAATTAAATTGAAAACCC
4710420 TAACTCTAATTAAATTGAAAACCC
1 TAAC-CTAATTAAATTGAAAACCC
4710444 TAACCCTAATTAAATTGAAAACCC
1 TAA-CCTAATTAAATTGAAAACCC
*
4710468 TAATCTAATTAAATTGAAAACCC
1 TAACCTAATTAAATTGAAAACCC
4710491 TAACCCTAATTAAATTGAAAACCC
1 TAA-CCTAATTAAATTGAAAACCC
4710515 TAACCTAATTAAATTG
1 TAACCTAATTAAATTG
4710531 CCCTAACCCT
Statistics
Matches: 196, Mismatches: 4, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
23 84 0.43
24 111 0.57
25 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (23 bp):
TAACCTAATTAAATTGAAAACCC
Found at i:4710418 original size:71 final size:70
Alignment explanation
Indices: 4710303--4710530 Score: 411
Period size: 71 Copynumber: 3.2 Consensus size: 70
4710293 TAACCATTAA
4710303 TAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGAA
1 TAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGAA
4710368 AACCC
66 AACCC
* *
4710373 TAACCTAATTAAATTGAAAACTCTAAACCTAATTAAATTGAAAACCCTAACTCTAATTAAATTGA
1 TAACCTAATTAAATTGAAAACCCT-AACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
4710438 AAACCC
65 AAACCC
*
4710444 TAACCCTAATTAAATTGAAAACCCTAATCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
1 TAA-CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGA
4710509 AAACCC
65 AAACCC
4710515 TAACCTAATTAAATTG
1 TAACCTAATTAAATTG
4710531 CCCTAACCCT
Statistics
Matches: 151, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
70 36 0.24
71 95 0.63
72 20 0.13
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (70 bp):
TAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGAA
AACCC
Found at i:4710748 original size:116 final size:117
Alignment explanation
Indices: 4710543--4710758 Score: 380
Period size: 116 Copynumber: 1.9 Consensus size: 117
4710533 CTAACCCTTA
**
4710543 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTCATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
*
4710608 TAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
66 TAATTTAATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
* *
4710660 ACATTCACATAATGTTATATTTGGAAAAATG-TTTTGACTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
4710724 TAATTTAATAATTTTACTAACCATTAATACAATTT
66 TAATTTAATAATTTTACTAACCATTAATACAATTT
4710759 ATCAATTACT
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 64 0.68
117 30 0.32
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (117 bp):
ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
TAATTTAATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
Found at i:4713794 original size:12 final size:11
Alignment explanation
Indices: 4713759--4713794 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
4713749 GAATTTTGGA
*
4713759 AGGAAATTTAG
1 AGGAAATTGAG
4713770 AGGAAATTGAG
1 AGGAAATTGAG
4713781 AGGAAATATGAG
1 AGGAAAT-TGAG
4713793 AG
1 AG
4713795 AGGATTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:4716659 original size:24 final size:23
Alignment explanation
Indices: 4716601--4716660 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
4716591 GTAAGAAAAT
*
4716601 ATTATTATAATTTTTATTTTAATG
1 ATTATTAT-ATTTTAATTTTAATG
*
4716625 AATATTA-ATTTTAAGTTGTTAATG
1 ATTATTATATTTTAA-TT-TTAATG
4716649 -TTATTATATTTT
1 ATTATTATATTTT
4716661 TTTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 6 0.20
23 7 0.23
24 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
ATTATTATATTTTAATTTTAATG
Found at i:4718288 original size:13 final size:14
Alignment explanation
Indices: 4718264--4718293 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4718254 TACAAAATAT
4718264 GTACATATATATAA
1 GTACATATATATAA
4718278 GTACA-ATATATAA
1 GTACATATATATAA
4718291 GTA
1 GTA
4718294 AATTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
GTACATATATATAA
Found at i:4718440 original size:24 final size:24
Alignment explanation
Indices: 4718405--4718507 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 24
4718395 TAATAATTTC
4718405 TAAAAAAT--ATGTATATATATTA
1 TAAAAAATAAATGTATATATATTA
*
4718427 TAAAAAATACATGTATATGTGCATGGATTA
1 TAAAAAATAAATGTATA--T--AT--ATTA
* *
4718457 TAAAATAAGGAAAATGTATATGTATTA
1 TAAAA-AA--TAAATGTATATATATTA
*
4718484 TAAAATATAAATGTATATATATTA
1 TAAAAAATAAATGTATATATATTA
4718508 CATATAACGT
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
22 8 0.12
24 22 0.34
26 2 0.03
27 9 0.14
28 2 0.03
29 1 0.02
30 9 0.14
31 3 0.05
33 8 0.12
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (24 bp):
TAAAAAATAAATGTATATATATTA
Found at i:4722905 original size:27 final size:27
Alignment explanation
Indices: 4722807--4722891 Score: 161
Period size: 27 Copynumber: 3.1 Consensus size: 27
4722797 CTAACTGATT
4722807 GGCGACACCGATGGTGCCATTCCCATG
1 GGCGACACCGATGGTGCCATTCCCATG
4722834 GGCGACACCGATGGTGCCATTCCCATG
1 GGCGACACCGATGGTGCCATTCCCATG
*
4722861 GGCGACACCGATGGTGCCATTCCAATG
1 GGCGACACCGATGGTGCCATTCCCATG
4722888 GGCG
1 GGCG
4722892 GCACTAGTGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.18
Consensus pattern (27 bp):
GGCGACACCGATGGTGCCATTCCCATG
Found at i:4725391 original size:92 final size:92
Alignment explanation
Indices: 4725216--4725393 Score: 275
Period size: 92 Copynumber: 1.9 Consensus size: 92
4725206 TTACTACCGG
* *
4725216 TACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTG
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGAAAGACAAGATCTG
* * *
4725281 CTATCTTCGATCTCTTCCGCTGCCAAA
66 CTATCTTCAACCACTTCCGCTGCCAAA
*
4725308 TACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATATAGAAAGACAAGATCTG
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGAAAGACAAGATCTG
* * *
4725373 TTGTCTTCAACCAGTTCCGCT
66 CTATCTTCAACCACTTCCGCT
4725394 ACAACCGAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (92 bp):
TACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGAAAGACAAGATCTG
CTATCTTCAACCACTTCCGCTGCCAAA
Found at i:4725393 original size:46 final size:46
Alignment explanation
Indices: 4725216--4725372 Score: 287
Period size: 46 Copynumber: 3.4 Consensus size: 46
4725206 TTACTACCGG
4725216 TACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAA
4725262 TACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAA
*
4725308 TACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAA
* *
4725354 TATAGAAAGACAAGATCTG
1 TACAGGAAGACAAGATCTG
4725373 TTGTCTTCAA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 108 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (46 bp):
TACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAA
Found at i:4725455 original size:44 final size:43
Alignment explanation
Indices: 4725405--4725543 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 43
4725395 CAACCGAGAG
*
4725405 AGGCAAGGTTTGTGTCTTCGATCTACTTCACTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAA-GCAGGA
* * * * * *
4725449 AGGCAAGATCTGTTGTCTTC-AACTAGCTCCGCT-ACAA-CCGAGA
1 AGGCAAGGTTTG-TGTCTTCGATCTA-CTTCGCTGTCAAGCAG-GA
*
4725492 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAA-GCAGGA
4725537 AGGCAAG
1 AGGCAAG
4725544 ATCTGTTGTC
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
42 2 0.03
43 15 0.21
44 40 0.55
45 14 0.19
46 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (43 bp):
AGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAAGCAGGA
Found at i:4725722 original size:87 final size:86
Alignment explanation
Indices: 4725364--4726441 Score: 1306
Period size: 87 Copynumber: 12.4 Consensus size: 86
4725354 TATAGAAAGA
* * * *
4725364 CAAGATCTGTTGTCTTCAACCAGTTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT-T-TTCGATCT
* * * *
4725429 ACTTCACTGTCAATGCAGGAAGG
64 GCTTCGCTGTTAACGCAGGAAGG
* * * *
4725452 CAAGATCTGTTGTCTTCAACTAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT-T-TTCGATCT
* *
4725517 GCTTCGCTGTCAAGGCAGGAAGG
64 GCTTCGCTGTTAACGCAGGAAGG
* * * * * *
4725540 CAAGATCTGTTGTCTTCAACCAACTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTGGTCTGC
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
*
4725605 TTCACTGTTAACGCAGGAAGG
66 TTCGCTGTTAACGCAGGAAGG
*
4725626 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTTTTCGATCT
* * *
4725690 GCTTCGCTGTTAATGTAGAAAGG
64 GCTTCGCTGTTAACGCAGGAAGG
* * * * *
4725713 CAAAATCTGTTATCTTCAACCAGCTCCACTGCAACTGATG-GAGGCAAGATTTTGTTTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAG-GTTTGTTTTCGATCT
*
4725777 GCTTCGCTGTCAACGCAGGAAGG
64 GCTTCGCTGTTAACGCAGGAAGG
* * * * * * *
4725800 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGACAGAGGCAAGGCTTCGTTTTTGATCAG
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGG-TTTGTTTTCGATCTG
* * *
4725865 CTTCGTTGTCAAAGCAGGAAGG
65 CTTCGCTGTTAACGCAGGAAGG
* * * * * * *
4725887 CAAAATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGACAAGGTTTGTTTTTGGTCTGC
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
4725952 TTCGCTGTTAACGCAGGAAGG
66 TTCGCTGTTAACGCAGGAAGG
* *
4725973 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATG-GAGACAAGGCTTTGTTTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTTTTCGATCT
* * *
4726037 GCTTCACTGTCAAGGCAGGAAGG
64 GCTTCGCTGTTAACGCAGGAAGG
* * * *
4726060 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTT-TAGTCTG
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGA-TCTG
4726124 CTTCGCTGTTAACGCAGGAAGG
65 CTTCGCTGTTAACGCAGGAAGG
* * *
4726146 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTCGTTTTCGATTT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTTTTCGATCT
* *
4726210 GCTTCACTGTTAACGTAGGAAGG
64 GCTTCGCTGTTAACGCAGGAAGG
* * * *
4726233 CAAGATCTGCTATCTTTAACCAGTTCCACTGCAACCGATG-GAGGAAAGGTTTCGTTTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGGTTT-GTTTTCGATCT
*
4726297 GCTTCGCTGTTAATGCAGGAAGG
64 GCTTCGCTGTTAACGCAGGAAGG
* * * *
4726320 CAAGATCTGCTCTCTTTAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGGTTTT-GGTCTG
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTT-GTTTTCGATCTG
4726384 CTTCGCTGTTAACGCAGGAAGG
65 CTTCGCTGTTAACGCAGGAAGG
*
4726406 CAAGATCTGTTATCTTTAACCAGCTCCACTATAACC
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACC
4726442 TCGGGGAGAT
Statistics
Matches: 869, Mismatches: 107, Indels: 30
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.00
86 278 0.32
87 456 0.52
88 134 0.15
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (86 bp):
CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
TTCGCTGTTAACGCAGGAAGG
Found at i:4725742 original size:173 final size:173
Alignment explanation
Indices: 4725364--4726441 Score: 1389
Period size: 173 Copynumber: 6.2 Consensus size: 173
4725354 TATAGAAAGA
* * *
4725364 CAAGATCTGTTGTCTTCAACCAGTTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCT
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGT-T-TTCGATCT
* * * * * * * * *
4725429 ACTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCGCTACAACCGA-GAG
64 GCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATG-G
*
4725493 AGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGG
128 AGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTCAACGCAGGAAGG
* * *
4725540 CAAGATCTGTTGTCTTCAACCAACTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTGGTCTGC
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
*
4725605 TTCACTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
66 TTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
* * * *
4725670 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGAAAGG
131 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAACGCAGGAAGG
* * ** * *
4725713 CAAAATCTGTTATCTTCAACCAGCTCCACTGCAACTGATG-GAGGCAAGATTTTGTTTTCGATCT
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGA-GAGAGGCAAG-GTTTGTTTTCGATCT
* * * **
4725777 GCTTCGCTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGACAGA
64 GCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGA
* * * * *
4725842 GGCAAGGCTTCGTTTTTGATCAGCTTCGTTGTCAAAGCAGGAAGG
129 GGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAACGCAGGAAGG
* * * *
4725887 CAAAATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGACAAGGTTTGTTTTTGGTCTGC
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
*
4725952 TTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGA
66 TTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
* *
4726017 CAAGGCTTTGTTTTCGATCTGCTTCACTGTCAAGGCAGGAAGG
131 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAACGCAGGAAGG
*
4726060 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTT-TAGTCTG
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTCGA-TCTG
4726124 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAG
65 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAG
* * * * *
4726189 GCAAGGCTTCGTTTTCGATTTGCTTCACTGTTAACGTAGGAAGG
130 GCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAACGCAGGAAGG
* * * * ** *
4726233 CAAGATCTGCTATCTTTAACCAGTTCCACTGCAACCGATG-GAGGAAAGGTTTCGTTTTCGATCT
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGA-GAGAGGCAAGGTTT-GTTTTCGATCT
* * * **
4726297 GCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTCTCTTTAACCAGCTCCACTAAAACCGA-GAG
64 GCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATG-G
* *
4726361 AGGCAAGG-TTTGGTTTT-GGTCTGCTTCGCTGTTAACGCAGGAAGG
128 AGGCAAGGCTTT-GTTTTCGATCTGCTTCGCTGTCAACGCAGGAAGG
* * *
4726406 CAAGATCTGTTATCTTTAACCAGCTCCACTATAACC
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACC
4726442 TCGGGGAGAT
Statistics
Matches: 798, Mismatches: 93, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
173 442 0.55
174 298 0.37
175 8 0.01
176 50 0.06
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (173 bp):
CAAGATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
TTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
CAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAACGCAGGAAGG
Found at i:4725829 original size:260 final size:259
Alignment explanation
Indices: 4725364--4726441 Score: 1469
Period size: 260 Copynumber: 4.1 Consensus size: 259
4725354 TATAGAAAGA
* * * *
4725364 CAAGATCTGTTGTCTTCAACCAGTTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT-T-TTCGATCT
* * * * * * *
4725429 ACTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCGCTACAACCGA-GAG
64 GCTTCACTGTTAACGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTGCAACCGATG-G
* *
4725493 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCA
128 AGGCAAGGTTT-TGTTTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGCTGTCTTCA
* *
4725558 ACCAACTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTGGTCTGCTTCACTGTTAACGCAGGA
192 ACCAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTGGTCTGCTTCGCTGTTAACGCAGGA
4725623 AGG
257 AGG
*
4725626 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTCGATCT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTTTTCGATCT
* * * * * *
4725690 GCTTCGCTGTTAATGTAGAAAGGCAAAATCTGTTATCTTCAACCAGCTCCACTGCAACTGATGGA
64 GCTTCACTGTTAACGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTGCAACCGATGGA
* * * *
4725755 GGCAAGATTTTGTTTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAAC
129 GGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGCTGTCTTCAAC
** * * * * * * * *
4725820 CAGCTCCACTGCAATCGACAGAGGCAAGGCTTCGTTTTTGATCAGCTTCGTTGTCAAAGCAGGAA
194 CAGCTCCACTAAAACCGAGAGAGGCAAGG-TTTGTTTTTGGTCTGCTTCGCTGTTAACGCAGGAA
4725885 GG
258 GG
* * * * * * *
4725887 CAAAATCTGTTGTCTTCAACCAGCTCCACTAAAACCGAGAGAGACAAGGTTTGTTTTTGGTCTGC
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
* * *
4725952 TTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGA
66 TTCACTGTTAACGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTGCAACCGATGGAGG
* * *
4726017 CAAGGCTTTGTTTTCGATCTGCTTCACTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCA
131 CAAGGTTTTGTTTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGCTGTCTTCAACCA
*
4726082 GCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTAGTCTGCTTCGCTGTTAACGCAGGAAGG
196 GCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTGGTCTGCTTCGCTGTTAACGCAGGAAGG
* * *
4726146 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTCGTTTTCGATTT
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTTTTCGATCT
* * * *
4726210 GCTTCACTGTTAACGTAGGAAGGCAAGATCTGCTATCTTTAACCAGTTCCACTGCAACCGATGGA
64 GCTTCACTGTTAACGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTGCAACCGATGGA
* * * * * *
4726275 GGAAAGGTTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTCTCTTTAAC
129 GGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGCTGTCTTCAAC
*
4726340 CAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGGTTTTGGTCTGCTTCGCTGTTAACGCAGGAAG
194 CAGCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTGGTCTGCTTCGCTGTTAACGCAGGAAG
4726405 G
259 G
*
4726406 CAAGATCTGTTATCTTTAACCAGCTCCACTATAACC
1 CAAGATCTGTTATCTTTAACCAGCTCCACTACAACC
4726442 TCGGGGAGAT
Statistics
Matches: 714, Mismatches: 95, Indels: 16
0.87 0.12 0.02
Matches are distributed among these distances:
259 71 0.10
260 453 0.63
261 140 0.20
262 44 0.06
263 6 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (259 bp):
CAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGATCTGC
TTCACTGTTAACGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTGCAACCGATGGAGG
CAAGGTTTTGTTTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGCTGTCTTCAACCA
GCTCCACTAAAACCGAGAGAGGCAAGGTTTGTTTTTGGTCTGCTTCGCTGTTAACGCAGGAAGG
Found at i:4726697 original size:218 final size:218
Alignment explanation
Indices: 4726429--4727068 Score: 1100
Period size: 218 Copynumber: 2.9 Consensus size: 218
4726419 CTTTAACCAG
* *
4726429 CTCCACTATAACCTCGGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTATAACCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
* *
4726494 AGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATGAGATACTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCC
* *
4726559 GCTCCACTGTAACTTCAGGGAGACAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTTAGGGAG
131 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
4726624 ATAAGATCTCTGGCTTCAATCTA
196 ATAAGATCTCTGGCTTCAATCTA
* * *
4726647 CTCCACTATAACCTCAGAGAGATAAAATCCGAAATTCTTTGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTATAACCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
*
4726712 AGATAAGACTTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCC
* *
4726777 GCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGAGAG
131 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
* *
4726842 ATAAAATCTCTGGCTTCAATCTG
196 ATAAGATCTCTGGCTTCAATCTA
* * *
4726865 CTCCACTGTAACCTTAGGGAGATAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAG
1 CTCCACTATAACCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
*
4726930 AGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGGGATCCTTTATTTTAATCC
66 AGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCC
* *
4726995 TCTCCACTGTAACTTCAGAGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
131 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
4727060 ATAAGATCT
196 ATAAGATCT
4727069 GATACGATCT
Statistics
Matches: 395, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
218 395 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (218 bp):
CTCCACTATAACCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
AGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCC
GCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTCTGGCTTCAATCTA
Found at i:4726969 original size:41 final size:42
Alignment explanation
Indices: 4726471--4727107 Score: 224
Period size: 44 Copynumber: 14.8 Consensus size: 42
4726461 AATTCTTCGG
* * *
4726471 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGATACGA
1 TCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGATGCGA
* * * * ***
4726512 TCTACTCTACTGTAACTTCAGAGAGATGAGATACTTTATTTTAA
1 TCTACTCCACTGTAACTTCAGAGAGATAAGAT-CCTGA-TGCGA
** * * * ** *
4726556 TCCGCTCCACTGTAACTTCAGGGAGACAGGATAGTGTCTTG-GA
1 TCTACTCCACTGTAACTTCAGAGAGATAAGATCCTG--ATGCGA
* * * * * *
4726599 TCTGCTCCGCTGTAATCTT-AGGGAGATAAGATCTCTGGCTTCAA
1 TCTACTCCACTGTAA-CTTCAGAGAGATAAGATC-CT-GATGCGA
* * * * *
4726643 TCTACTCCACTATAACCTCAGAGAGATAAAATCC-GAAATTCTTTGG
1 TCTACTCCACTGTAACTTCAGAGAGATAAGATCCTG--ATGC---GA
* * *
4726689 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGATGCGA
1 TCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGATGCGA
* * * ***
4726730 TCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAA
1 TCTACTCCACTGTAACTTCAGAGAGATAAGATCC-TGA-TGCGA
** * ** *
4726774 TCCGCTCCACTGTAACTTCA-AGGAGATAGGATAGTGTCTTG-GA
1 TCTACTCCACTGTAACTTCAGA-GAGATAAGATCCTG--ATGCGA
* * * * * *
4726817 TCTGCTCCGCTGTAA-TCTCAGAGAGATAAAATCTCTGGCTTCAA
1 TCTACTCCACTGTAACT-TCAGAGAGATAAGATC-CT-GATGCGA
* * * * *
4726861 TCTGCTCCACTGTAACCTT-AGGGAGATAAAAT-CTGAAATTCTTCGG
1 TCTACTCCACTGTAA-CTTCAGAGAGATAAGATCCTG--A---TGCGA
*
4726907 TCTACTCCACTGTAACCTCAGAGAGATAAGA-CCTGATGCGA
1 TCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGATGCGA
* ** * ***
4726948 TCTACTCTACTGTAACTTCAGAGAGATGGGATCCTTTATTTTAA
1 TCTACTCCACTGTAACTTCAGAGAGATAAGATCC-TGA-TGCGA
* ** *
4726992 TCCT-CTCCACTGTAACTTCAGAGAGATAGGATAGTGTCTTG-GA
1 T-CTACTCCACTGTAACTTCAGAGAGATAAGATCCTG--ATGCGA
* * * *
4727035 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTGATACGA
1 TCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTGATGCGA
* *
4727076 TCTACTCTACTGTAACTTCAGAGATATAAGAT
1 TCTACTCCACTGTAACTTCAGAGAGATAAGAT
4727108 TCTTTATTTT
Statistics
Matches: 437, Mismatches: 113, Indels: 92
0.68 0.18 0.14
Matches are distributed among these distances:
40 1 0.00
41 114 0.26
42 12 0.03
43 94 0.22
44 148 0.34
45 8 0.02
46 60 0.14
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
TCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGATGCGA
Found at i:4727081 original size:128 final size:129
Alignment explanation
Indices: 4726911--4727201 Score: 365
Period size: 128 Copynumber: 2.3 Consensus size: 129
4726901 CTTCGGTCTA
* * * * * *
4726911 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* ** **
4726976 GGATCCTTTATTTTAATCCT-CTCCACTGTAA-CTTCAGAGAGATAGGA-TA-GTGTCTTGGATC
66 AGATCCTTTATTTTAAT-CTACTCCACTGTAATC-TCAGAGAGATAGGATTACCAG-CTTCAATC
4727037 TG
128 TG
*
4727039 CTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAACTTCAGAGATATA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* * * *
4727104 AGATTCTTTATTTTAATCTACTCCATTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATTTG
66 AGATCCTTTATTTTAATCTACTCCACTGTAATCTCAGAGAGATAGGATTACCAGCTTCAATCTG
* *
4727168 CTCCGCTGTAATTTCAAGGAGATAAGATCTGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGATA
4727202 TTCTTCGGTC
Statistics
Matches: 141, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
127 2 0.01
128 96 0.68
129 42 0.30
130 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (129 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCTACTCCACTGTAATCTCAGAGAGATAGGATTACCAGCTTCAATCTG
Found at i:4728420 original size:6 final size:7
Alignment explanation
Indices: 4728406--4728457 Score: 65
Period size: 7 Copynumber: 7.9 Consensus size: 7
4728396 TTAGCCTCTC
4728406 CATTTTT
1 CATTTTT
4728413 CA-TTTT
1 CATTTTT
4728419 CATTTTT
1 CATTTTT
4728426 CATTTTT
1 CATTTTT
4728433 CATTTTT
1 CATTTTT
* *
4728440 C-GTTCT
1 CATTTTT
4728446 CATTTTT
1 CATTTTT
4728453 C-TTTT
1 CATTTT
4728458 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 14 0.36
7 25 0.64
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:4728424 original size:13 final size:13
Alignment explanation
Indices: 4728406--4728463 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
4728396 TTAGCCTCTC
4728406 CATTTTTCATTTT
1 CATTTTTCATTTT
4728419 CATTTTTCATTTTT
1 CATTTTTCA-TTTT
* *
4728433 CATTTTTCGTTCT
1 CATTTTTCATTTT
4728446 CATTTTTC-TTTT
1 CATTTTTCATTTT
4728458 C-TTTTT
1 CATTTTT
4728464 TTTTTGACTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
11 5 0.12
12 4 0.10
13 20 0.49
14 12 0.29
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:4728429 original size:20 final size:19
Alignment explanation
Indices: 4728406--4728463 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
4728396 TTAGCCTCTC
4728406 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTTTC-TTTTT
* *
4728426 CATTTTTCATTTTTCGTTCT
1 CATTTTTCA-TTTTCTTTTT
4728446 CATTTTTC-TTTTCTTTTT
1 CATTTTTCATTTTCTTTTT
4728464 TTTTTGACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.24
20 20 0.61
21 5 0.15
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (19 bp):
CATTTTTCATTTTCTTTTT
Found at i:4729459 original size:6 final size:6
Alignment explanation
Indices: 4729445--4729502 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
4729435 TTTCTTCTTT
* * * * *
4729445 TTTTTA TTTTGA TTTTTGA TTTT-T TTTTCA TTTTCA TTTTGA CTTTGA
1 TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
4729493 TTTTGA TTTT
1 TTTTGA TTTT
4729503 TCTTTTTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
5 4 0.09
6 34 0.77
7 6 0.14
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.72
Consensus pattern (6 bp):
TTTTGA
Found at i:4729478 original size:50 final size:51
Alignment explanation
Indices: 4729355--4729478 Score: 119
Period size: 50 Copynumber: 2.4 Consensus size: 51
4729345 CATTCTAATT
* * *
4729355 TTTTCATCTAGATTTCTCTTTTTTTCATTCTTCTTTCTTTTTCTCATTTTCA
1 TTTTGATCTTGATTT-TCATTTTTTCATTCTTCTTTCTTTTTCTCATTTTCA
* * * *
4729407 TTTTGATCTTGATTTTGATTTTTTC-TTCTT-TCTTCTTTTTTTTATTTTGA
1 TTTTGATCTTGATTTTCATTTTTTCATTCTTCT-TTCTTTTTCTCATTTTCA
**
4729457 TTTTTGAT-TTTTTTTTCATTTT
1 -TTTTGATCTTGATTTTCATTTT
4729479 CATTTTGACT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
49 1 0.02
50 31 0.52
51 15 0.25
52 13 0.22
ACGTcount: A:0.10, C:0.14, G:0.05, T:0.71
Consensus pattern (51 bp):
TTTTGATCTTGATTTTCATTTTTTCATTCTTCTTTCTTTTTCTCATTTTCA
Found at i:4730361 original size:104 final size:105
Alignment explanation
Indices: 4730175--4730380 Score: 405
Period size: 104 Copynumber: 2.0 Consensus size: 105
4730165 ATAATTATTC
4730175 AAAAAGAATGAAAGAATATTGGCTCAAAAAGGAATGCAAAGATGTATTTTATTAGAATAATGACG
1 AAAAAGAATGAAAGAATATTGGCTCAAAAAGGAATGCAAAGATGTATTTTATTAGAATAATGACG
4730240 TTCAGACATTAGCCTATTTCACAAAGGAATTTCTATCTTT
66 TTCAGACATTAGCCTATTTCACAAAGGAATTTCTATCTTT
4730280 AAAAA-AATGAAAGAATATTGGCTCAAAAAGGAATGCAAAGATGTATTTTATTAGAATAATGACG
1 AAAAAGAATGAAAGAATATTGGCTCAAAAAGGAATGCAAAGATGTATTTTATTAGAATAATGACG
4730344 TTCAGACATTAGCCTATTTCACAAAGGAATTTCTATC
66 TTCAGACATTAGCCTATTTCACAAAGGAATTTCTATC
4730381 GCTTTAGGCT
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 96 0.95
105 5 0.05
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (105 bp):
AAAAAGAATGAAAGAATATTGGCTCAAAAAGGAATGCAAAGATGTATTTTATTAGAATAATGACG
TTCAGACATTAGCCTATTTCACAAAGGAATTTCTATCTTT
Found at i:4733050 original size:26 final size:26
Alignment explanation
Indices: 4733021--4733093 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
4733011 CATACATACG
4733021 TTTTATAGTACATATACATTTT-TTTA
1 TTTTATA-TACATATACATTTTCTTTA
*
4733047 TTTTATA-A-TTCATACATTTTCTTTA
1 TTTTATATACAT-ATACATTTTCTTTA
* * *
4733072 TATTATATACATACAGATTTTC
1 TTTTATATACATATACATTTTC
4733094 GCAAACACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
23 1 0.03
24 10 0.26
25 10 0.26
26 16 0.42
27 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (26 bp):
TTTTATATACATATACATTTTCTTTA
Found at i:4733066 original size:24 final size:24
Alignment explanation
Indices: 4733034--4733086 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4733024 TATAGTACAT
* *
4733034 ATACATTTT-TTTATTTTATAATTC
1 ATACATTTTCTTTATATTAT-ATAC
4733058 ATACATTTTCTTTATATTATATAC
1 ATACATTTTCTTTATATTATATAC
4733082 ATACA
1 ATACA
4733087 GATTTTCGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (24 bp):
ATACATTTTCTTTATATTATATAC
Found at i:4737001 original size:20 final size:20
Alignment explanation
Indices: 4736968--4737007 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4736958 TTCACCTCAT
*
4736968 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
*
4736988 GCATCACATTATATGCATTA
1 GCATCACATCATATGCATTA
4737008 AAGACCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:4744672 original size:46 final size:46
Alignment explanation
Indices: 4744614--4744706 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
4744604 TTTCGCAAGC
4744614 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
1 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
4744660 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
1 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
4744706 A
1 A
4744707 GGAAGTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (46 bp):
ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
Found at i:4745406 original size:50 final size:49
Alignment explanation
Indices: 4745165--4745421 Score: 176
Period size: 50 Copynumber: 5.1 Consensus size: 49
4745155 AGCAGAATAG
** * * * *
4745165 ATTGAAGCTACGACAACGGATCTGGTTTCCCTGATATTGCAATTAAAAA
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTGAACAA
* * * * *** * * *
4745214 GATTGAAGCCACAATGGTGGATCTTACTT-CCTTAGCAGTGCAGTGGAACAG
1 -ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGT-GAACAA
* * * * *
4745265 ATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAA
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTGAACAA
* * *** * **
4745314 GATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCGGTGCAGTGGAACAA
1 -ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGT-GAACAA
4745365 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTGAACAA
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAG-TGAACAA
4745415 ATTGAAG
1 ATTGAAG
4745422 ATTACAGATC
Statistics
Matches: 147, Mismatches: 52, Indels: 16
0.68 0.24 0.07
Matches are distributed among these distances:
49 11 0.07
50 120 0.82
51 16 0.11
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (49 bp):
ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTGAACAA
Found at i:4745421 original size:100 final size:100
Alignment explanation
Indices: 4745108--4745405 Score: 488
Period size: 100 Copynumber: 3.0 Consensus size: 100
4745098 GGTTGAAAAG
* * ** *
4745108 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTTTAGCAGTGCAGCAGAATAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
4745173 TACGACAACGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
4745208 TAAAAAGATTGAAGCCACAATGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
4745273 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
4745308 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGTGGAACAAATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
4745373 TACGACGGCGGATCTGGTTTCCCTGACATTGCA
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCA
4745406 GTTGAACAAA
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 184 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:4746585 original size:27 final size:27
Alignment explanation
Indices: 4746555--4746628 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 27
4746545 ACATCATACG
*
4746555 TTTTATAATACATATACATTTTTTTTA
1 TTTTATAATACATATACATTTTCTTTA
*
4746582 TTTTATAATTC--ATACATTTTCTTTA
1 TTTTATAATACATATACATTTTCTTTA
* * *
4746607 TATTAT-ATACATACAGATTTTC
1 TTTTATAATACATATACATTTTC
4746629 ACACACACAC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 3 0.08
25 18 0.46
26 8 0.21
27 10 0.26
ACGTcount: A:0.32, C:0.11, G:0.01, T:0.55
Consensus pattern (27 bp):
TTTTATAATACATATACATTTTCTTTA
Found at i:4746679 original size:13 final size:13
Alignment explanation
Indices: 4746661--4746685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4746651 TCTCATAGTT
4746661 TATTTATATATTA
1 TATTTATATATTA
4746674 TATTTATATATT
1 TATTTATATATT
4746686 TTGTTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTATATATTA
Found at i:4748831 original size:49 final size:49
Alignment explanation
Indices: 4748771--4748886 Score: 124
Period size: 49 Copynumber: 2.4 Consensus size: 49
4748761 ATGAAACTCG
* * * * ** * *
4748771 AACCCGAGACCGTATAATCACTGTCAATTGGGGGCCTGAGTTATATTTG
1 AACCCGTGACCGTATAACCACTGTCAACTGGGAGCCCAAGTTATACTTC
* * * *
4748820 AACCTGTGACCGCATAACCATTGTTAACTGGGAGCCCAAGTTATACTTC
1 AACCCGTGACCGTATAACCACTGTCAACTGGGAGCCCAAGTTATACTTC
4748869 AACCCGTGACCGTATAAC
1 AACCCGTGACCGTATAAC
4748887 TATCGTGAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (49 bp):
AACCCGTGACCGTATAACCACTGTCAACTGGGAGCCCAAGTTATACTTC
Found at i:4748901 original size:49 final size:49
Alignment explanation
Indices: 4748809--4748910 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 49
4748799 TGGGGGCCTG
* * * * * *
4748809 AGTTATATTTGAACCTGTGACCGCATAACCATTGTTAACTGGGAGCCCA
1 AGTTATACTTCAACCCGTGACCGCATAACCATCGTGAAATGGGAGCCCA
* * * *
4748858 AGTTATACTTCAACCCGTGACCGTATAACTATCGTGAAATGGGATCCCG
1 AGTTATACTTCAACCCGTGACCGCATAACCATCGTGAAATGGGAGCCCA
4748907 AGTT
1 AGTT
4748911 GCAATGTGAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (49 bp):
AGTTATACTTCAACCCGTGACCGCATAACCATCGTGAAATGGGAGCCCA
Found at i:4752022 original size:9 final size:9
Alignment explanation
Indices: 4752010--4752049 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
4752000 CTATTTCTCC
4752010 CTTTTCTTT
1 CTTTTCTTT
4752019 CTTTTC-TT
1 CTTTTCTTT
* *
4752027 CTTTCCCTT
1 CTTTTCTTT
4752036 CTTTTCTTT
1 CTTTTCTTT
4752045 CTTTT
1 CTTTT
4752050 TCTCCATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:4753876 original size:23 final size:23
Alignment explanation
Indices: 4753803--4753878 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
4753793 AGTGTTATTG
4753803 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
4753826 TTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4753849 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4753872 CTCAGTG
1 ATCAGTG
4753879 TGGCTTTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4757644 original size:13 final size:13
Alignment explanation
Indices: 4757566--4757642 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
4757556 ACACTCAAAT
4757566 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
4757579 TTCTCAAAAGCAT
1 TTCTCAAAAGCAC
4757592 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
4757605 TTTTGAAAAGCAC
1 TTCTCAAAAGCAC
*
4757618 TTCTCAAAAGCAA
1 TTCTCAAAAGCAC
4757631 TTCTCAAAAGCA
1 TTCTCAAAAGCA
4757643 ATGAAGAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:4774537 original size:11 final size:11
Alignment explanation
Indices: 4774517--4774554 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4774507 GGCCCAGCCC
4774517 ATATTAAATAT
1 ATATTAAATAT
*
4774528 ATATTTAATAT
1 ATATTAAATAT
*
4774539 ATATAAAATAT
1 ATATTAAATAT
4774550 ATATT
1 ATATT
4774555 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:4774856 original size:3 final size:3
Alignment explanation
Indices: 4774848--4774895 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
4774838 TTATAAAATA
* *
4774848 TAT TAT TAT TGT TAT TAT TGT TAT TA- TAT TAT TA- TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4774893 TAT
1 TAT
4774896 AAATTAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 6 0.16
3 32 0.84
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4774932 original size:29 final size:29
Alignment explanation
Indices: 4774870--4774934 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
4774860 TATTATTGTT
* *
4774870 ATTATATT-ATTATATTATTATATTATAA
1 ATTAAATTGATTATATTATTATATTAGAA
4774898 ATTAAATTGATTATATTATTATATTAGGAA
1 ATTAAATTGATTATATTATTATATTA-GAA
4774928 A-TAAATT
1 ATTAAATT
4774935 AAGAAAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 7 0.21
29 23 0.70
30 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.51
Consensus pattern (29 bp):
ATTAAATTGATTATATTATTATATTAGAA
Found at i:4775068 original size:10 final size:10
Alignment explanation
Indices: 4775053--4775097 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
4775043 ATTAATTAGT
4775053 AAACAAAAAG
1 AAACAAAAAG
4775063 AAACAAAAAG
1 AAACAAAAAG
* *
4775073 AAATAGAAAG
1 AAACAAAAAG
*
4775083 AAACAGAATAG
1 AAACA-AAAAG
4775094 AAAC
1 AAAC
4775098 GAAACACGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.73, C:0.09, G:0.13, T:0.04
Consensus pattern (10 bp):
AAACAAAAAG
Found at i:4775090 original size:16 final size:16
Alignment explanation
Indices: 4775053--4775103 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
4775043 ATTAATTAGT
*
4775053 AAACA-AAA-AGAAAC
1 AAACAGAAATAGAAAG
*
4775067 AAAAAGAAATAGAAAG
1 AAACAGAAATAGAAAG
4775083 AAACAG-AATAGAAACG
1 AAACAGAAATAGAAA-G
4775099 AAACA
1 AAACA
4775104 CGGAGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 4 0.13
15 11 0.35
16 16 0.52
ACGTcount: A:0.73, C:0.10, G:0.14, T:0.04
Consensus pattern (16 bp):
AAACAGAAATAGAAAG
Found at i:4775136 original size:21 final size:20
Alignment explanation
Indices: 4775108--4775147 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
4775098 GAAACACGGA
4775108 GAAAAAG-AAAGACAAGAAAG
1 GAAAAAGAAAAGA-AAGAAAG
4775128 GAAAGAAGAAAAGAAAGAAA
1 GAAA-AAGAAAAGAAAGAAA
4775148 AAGGAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (20 bp):
GAAAAAGAAAAGAAAGAAAG
Found at i:4775148 original size:9 final size:9
Alignment explanation
Indices: 4775110--4775148 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
4775100 AACACGGAGA
4775110 AAAAGAAAG
1 AAAAGAAAG
*
4775119 ACAAGAAAG
1 AAAAGAAAG
*
4775128 GAAAG-AAG
1 AAAAGAAAG
4775136 AAAAGAAAG
1 AAAAGAAAG
4775145 AAAA
1 AAAA
4775149 AGGAGAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:4775336 original size:29 final size:29
Alignment explanation
Indices: 4775295--4775352 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
4775285 TTTTTTAGTA
4775295 GGGTTCATGTTGAATA-AATGATTGAATTAG
1 GGGTTCATGTTG-ATAGAATGATTG-ATTAG
* *
4775325 GGGTTTAT-TTGATAGAATTATTGATTAG
1 GGGTTCATGTTGATAGAATGATTGATTAG
4775353 AATTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (29 bp):
GGGTTCATGTTGATAGAATGATTGATTAG
Found at i:4776120 original size:38 final size:39
Alignment explanation
Indices: 4776018--4776125 Score: 112
Period size: 38 Copynumber: 2.8 Consensus size: 39
4776008 GACCTCGAGT
* **
4776018 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
* * *
4776059 CGATGAGATACTGGGTATC-ACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
* *
4776096 CGATGTGACACTGGGTGTCAACTTTGCTTC
1 CGATGAGACACTGGGTGTCAACTTTACTTC
4776126 AAACTATCCG
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
37 16 0.29
38 23 0.41
41 17 0.30
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:4778054 original size:19 final size:20
Alignment explanation
Indices: 4778012--4778054 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4778002 TCATGCTTTC
* *
4778012 TATTCGCATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
4778032 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
4778050 TATTC
1 TATTC
4778055 CACAATCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:4778951 original size:29 final size:29
Alignment explanation
Indices: 4778903--4778960 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
4778893 TTAATCAATT
4778903 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAAGATAAACCC
* *
4778931 CTAATTCAATCATT-TATTCAAGATGAACCC
1 CTAA-TCAATAATTCTA-TCAAGATAAACCC
4778961 TACTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAAGATAAACCC
Found at i:4779159 original size:21 final size:20
Alignment explanation
Indices: 4779100--4779165 Score: 51
Period size: 26 Copynumber: 2.9 Consensus size: 20
4779090 AAAAACCTTA
*
4779100 TTTCTCCCTTTTCTCTCTTT
1 TTTCTCCCTTTTCTTTCTTT
4779120 TCTTCTTTCCCTTCTTTTCTTTCTTT
1 T-TTC--T-CC--CTTTTCTTTCTTT
4779146 TTTCTCCCTGTTTCGTTTCT
1 TTTCTCCCT-TTTC-TTTCT
4779166 ATTCTGTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
20 3 0.08
21 7 0.19
22 7 0.19
23 2 0.05
24 2 0.05
25 3 0.08
26 13 0.35
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTCTCCCTTTTCTTTCTTT
Found at i:4779179 original size:15 final size:16
Alignment explanation
Indices: 4779153--4779196 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4779143 TTTTTTCTCC
4779153 CTGTTTCGTTTCTATT
1 CTGTTTCGTTTCTATT
4779169 CTGTTTC-TTTCTATT
1 CTGTTTCGTTTCTATT
*
4779184 -TCTTTCTGTTTCT
1 CTGTTTC-GTTTCT
4779197 TTTTATGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 12 0.48
ACGTcount: A:0.05, C:0.20, G:0.09, T:0.66
Consensus pattern (16 bp):
CTGTTTCGTTTCTATT
Found at i:4779185 original size:10 final size:10
Alignment explanation
Indices: 4779156--4779198 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
4779146 TTTCTCCCTG
4779156 TTTC-GTTTC
1 TTTCTGTTTC
4779165 TATTCTGTTTC
1 T-TTCTGTTTC
*
4779176 TTTCTATTTC
1 TTTCTGTTTC
4779186 TTTCTGTTTC
1 TTTCTGTTTC
4779196 TTT
1 TTT
4779199 TTATGCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 1 0.03
10 23 0.77
11 6 0.20
ACGTcount: A:0.05, C:0.19, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTCTGTTTC
Found at i:4779547 original size:191 final size:192
Alignment explanation
Indices: 4779223--4779588 Score: 671
Period size: 191 Copynumber: 1.9 Consensus size: 192
4779213 TACTTTAGTC
* * *
4779223 TAATAATTATTTTTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGTATATGAT
1 TAATAATTATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAC
4779288 TTATTACACTTGTACTTTACTATCACCATACATTTGTCAACTTATTAATTTGTTCATTAATCTAA
66 TTATTACACTTGTACTTTACTATCACCATACATTTGTCAACTTATTAATTTGTTCATTAATCTAA
*
4779353 TAATATAATATCAATTAAA-AATAATAACAATGATAATTATTATATTATTATATTAACTTAA
131 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATATTATTATATTAACTTAA
* *
4779414 TAATAATTATTATTTCTTAAATATTAAGTAAATAAATATGTATTTTACAATTGTATGCATATGAC
1 TAATAATTATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAC
4779479 TTATTACACTTGTACTTTACTATCACCATACATTTGTCAACTTATTAATTTGTTCATTAATCTAA
66 TTATTACACTTGTACTTTACTATCACCATACATTTGTCAACTTATTAATTTGTTCATTAATCTAA
4779544 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATA
131 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATA
4779589 ATAATAACAA
Statistics
Matches: 168, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
191 144 0.86
192 24 0.14
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (192 bp):
TAATAATTATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAC
TTATTACACTTGTACTTTACTATCACCATACATTTGTCAACTTATTAATTTGTTCATTAATCTAA
TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATATTATTATATTAACTTAA
Found at i:4779604 original size:24 final size:24
Alignment explanation
Indices: 4779562--4779610 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
4779552 TATCAATTAA
*
4779562 ATAATAATAACAATAATAATTATT
1 ATAATAATAACAATAATAAATATT
4779586 ATAATAATAACAA-ATATAAATATT
1 ATAATAATAACAATA-ATAAATATT
4779610 A
1 A
4779611 CAAATGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATAATAACAATAATAAATATT
Found at i:4779721 original size:31 final size:31
Alignment explanation
Indices: 4779686--4779758 Score: 76
Period size: 34 Copynumber: 2.3 Consensus size: 31
4779676 TATTTATCAT
*
4779686 ATAAAAATCTTTTACTAATTA-ATAATAAATA
1 ATAAAAATCTTTTACTAACTATAT-ATAAATA
*
4779717 ATAAAATATATTTTTTACTAACTATATATAAATA
1 AT-AAA-A-ATCTTTTACTAACTATATATAAATA
*
4779751 ATACAAAT
1 ATAAAAAT
4779759 GTACTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
31 4 0.11
32 4 0.11
33 3 0.09
34 22 0.63
35 2 0.06
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (31 bp):
ATAAAAATCTTTTACTAACTATATATAAATA
Found at i:4782965 original size:3 final size:3
Alignment explanation
Indices: 4782912--4782947 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4782902 TTTAAATAAA
4782912 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4782948 TCCTTCGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4783135 original size:16 final size:16
Alignment explanation
Indices: 4783095--4783140 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
4783085 TAAATACCTC
**
4783095 TTTTAAAATGAAAATT
1 TTTTAAAATTTAAATT
*
4783111 TTTT--CATTTAAATT
1 TTTTAAAATTTAAATT
4783125 TTTTAAAATTTAAATT
1 TTTTAAAATTTAAATT
4783141 AGTAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTTAAAATTTAAATT
Found at i:4783222 original size:15 final size:17
Alignment explanation
Indices: 4783201--4783240 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
4783191 TAATTTTTTA
4783201 AAAATTATTAAAAT-AT
1 AAAATTATTAAAATGAT
4783217 -AAATTATTAAAATGAT
1 AAAATTATTAAAATGAT
4783233 AAAATTAT
1 AAAATTAT
4783241 ATTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAATTATTAAAATGAT
Found at i:4798208 original size:358 final size:357
Alignment explanation
Indices: 4797549--4798265 Score: 1319
Period size: 358 Copynumber: 2.0 Consensus size: 357
4797539 AAGAATTGAT
*
4797549 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
* *
4797614 CATAAGAACAACAATCGGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
66 CATAAGAACAACAATCAGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
*
4797679 GTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTTTGTCC
131 GTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
4797744 CTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
196 CTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
4797809 CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
261 CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
4797874 CTAAAAGCAAATGCCAAACCATGTTTAATTGCA
326 CTAAAAGC-AATGCCAAACCATGTTTAATTGCA
4797907 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
4797972 CATAAGAACAACAATCAGGGACCCATGACCGA-GGGTGCAGTTTGAAAGACAGCCTAGCAAATCA
66 CATAAGAACAACAATCAGGGACCCATGACC-ATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCA
*
4798036 GGTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTC
130 GGTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTC
* *
4798101 CCTATCAAGAGAGATTCAAATGAGAACATTCAAATATCAACCGACTAGTAATCAAGAAATAACCA
195 CCTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCA
* * *
4798166 ACAATGGTTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGA
260 ACAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGA
4798231 ACTAAAAGCAATGCCAAACCATGTTTAATTGCA
325 ACTAAAAGCAATGCCAAACCATGTTTAATTGCA
4798264 AT
1 AT
4798266 GGCAAATGAA
Statistics
Matches: 348, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
357 26 0.07
358 321 0.92
359 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (357 bp):
ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
CATAAGAACAACAATCAGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
GTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
CTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
CTAAAAGCAATGCCAAACCATGTTTAATTGCA
Found at i:4798801 original size:394 final size:394
Alignment explanation
Indices: 4798068--4798862 Score: 1581
Period size: 394 Copynumber: 2.0 Consensus size: 394
4798058 TCAACAGCAT
*
4798068 AACAATTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
1 AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
4798133 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
66 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
4798198 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
131 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
4798263 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
196 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
4798328 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
261 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
4798393 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
326 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
4798458 TAAA
391 TAAA
4798462 AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
1 AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
4798527 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
66 AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
4798592 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
131 AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
4798657 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
196 AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
4798722 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
261 TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
4798787 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
326 GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
4798852 TAAA
391 TAAA
4798856 AACAGTT
1 AACAGTT
4798863 CAACACAAAA
Statistics
Matches: 400, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
394 400 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (394 bp):
AACAGTTTTCTTGATGACTGATTGATCTATGTCCCTATCAAGAGAGATTCAAATGAGAACATTCA
AATATCAACCGACTAGTAATCAAGAAATAACCAACAATGGTTTCGGAACATTATTTCCAGTGGCA
AATGTGATTGTGATTGTAAGCTCTGAACAGGGAACTAAAAGCAATGCCAAACCATGTTTAATTGC
AATGGCAAATGAAAATGCCAAACTTAGCCATATCTGTAAGTTTCATTATGATGTGTTCTACAATT
TTATACCTTTACCTCTAATTTCTCAACTAAACAGCAAGTCTTTTACATGTAAAATTAAAAGCTAT
GGTAATTTTAAAAAAGAAATGTGCTTTATTTGATAATAAAACATCTTTATTTTACAGAATACTGA
TAAA
Found at i:4807681 original size:28 final size:29
Alignment explanation
Indices: 4807642--4807704 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
4807632 AATAAACACC
*
4807642 AAAAAATTATTTTAAAAATAA-AAAAATA
1 AAAAAAGTATTTTAAAAATAATAAAAATA
*
4807670 AAAAAAGTATTTTAAAAATAATTAAAAATT
1 AAAAAAGTATTTTAAAAATAA-TAAAAATA
4807700 AAAAA
1 AAAAA
4807705 TAAAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 20 0.65
30 11 0.35
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAAAAGTATTTTAAAAATAATAAAAATA
Found at i:4812985 original size:21 final size:21
Alignment explanation
Indices: 4812946--4812985 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4812936 TGAGTCGAGG
*
4812946 ATTTAATATTTAAGGTTTACA
1 ATTTAATATTTAAAGTTTACA
* *
4812967 ATTTAATGTTTAAATTTTA
1 ATTTAATATTTAAAGTTTA
4812986 GATTTCAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTAATATTTAAAGTTTACA
Found at i:4815104 original size:18 final size:18
Alignment explanation
Indices: 4815070--4815104 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4815060 CGAAAATGGT
* *
4815070 ATAAAATTTTAAAAAAAC
1 ATAAAAGTTAAAAAAAAC
4815088 ATAAAAGTTAAAAAAAA
1 ATAAAAGTTAAAAAAAA
4815105 AAGTTGGGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAAGTTAAAAAAAAC
Found at i:4815199 original size:10 final size:10
Alignment explanation
Indices: 4815184--4815260 Score: 70
Period size: 10 Copynumber: 7.7 Consensus size: 10
4815174 GCTGAAGGAG
4815184 AGGAAAGAAA
1 AGGAAAGAAA
*
4815194 AGGAAAGGAGA
1 AGGAAA-GAAA
4815205 A-GAAAGAAA
1 AGGAAAGAAA
*
4815214 AAGAAAGAAGA
1 AGGAAAGAA-A
*
4815225 A-GAAAGGAA
1 AGGAAAGAAA
*
4815234 AGGAAAGGAGA
1 AGGAAA-GAAA
4815245 A-GAAAGAAA
1 AGGAAAGAAA
4815254 AGGAAAG
1 AGGAAAG
4815261 GAGAAGAGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 10 0.18
10 36 0.65
11 9 0.16
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (10 bp):
AGGAAAGAAA
Found at i:4815203 original size:20 final size:20
Alignment explanation
Indices: 4815178--4815267 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
4815168 CATTTGGCTG
*
4815178 AAGGAGAGGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
*
4815198 AAGGAGAAGAAAGAAAAAGA
1 AAGGAGAAGAAAGAAAAGGA
* *
4815218 AAGAAGAAGAAAGGAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
4815238 AAGGAGAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
4815258 AAGGAGAAGA
1 AAGGAGAAGA
4815268 GGGAGGGAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAAAGGA
Found at i:4815848 original size:130 final size:131
Alignment explanation
Indices: 4815696--4815965 Score: 445
Period size: 130 Copynumber: 2.1 Consensus size: 131
4815686 TAAAAAATAC
* *
4815696 ACTAAATTAATACATTTTAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
*
4815761 TATATATATTTGAAAGTAATAAAATCC-GAAAAAAATACGAACAAATGGCTGAAATAAGAG-TTT
66 TATAT-TATTTGAAAGAAATAAAATCCGGAAAAAAATACGAACAAATGGCTGAAATAAGAGTTTT
4815824 TT
130 TT
*
4815826 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATATGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* * *
4815891 TATATTTTTTGAAAGAAATAAAATCCGGGGAAAAAATACGAACAAATGGCTGAAATAAGGGTTTT
66 TATATTATTTGAAAGAAATAAAATCC-GGAAAAAAATACGAACAAATGGCTGAAATAAGAGTTTT
4815956 TT
130 TT
4815958 ACTAAATT
1 ACTAAATT
4815966 TAATTAAAAA
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
129 19 0.15
130 67 0.52
131 31 0.24
132 13 0.10
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.30
Consensus pattern (131 bp):
ACTAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATACGAAAATAA
TATATTATTTGAAAGAAATAAAATCCGGAAAAAAATACGAACAAATGGCTGAAATAAGAGTTTTT
T
Found at i:4816013 original size:155 final size:154
Alignment explanation
Indices: 4815828--4816275 Score: 661
Period size: 155 Copynumber: 2.9 Consensus size: 154
4815818 GAGTTTTTAC
* *
4815828 TAAATTAATACATTTCAAACATAATATACTAAAATAATGTAAAATAATAAAATATGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
*
4815893 TATTTTTTGAAAGAAATAAAATCCGGGGAAAAAATACGAACAAATGGCTGAAATAAGGGTTTTTT
66 TATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCTGAAATAAGGGTTTTTT
*
4815958 ACTAAATTTAATTAAAAAATTACAG
131 ACTAAATTTAATTAAAAAA-CACAG
*
4815983 TAAATTAATACATTTCAAGCATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
** * **
4816048 TATTTTTATTGAAAGAAATAAAATCCAAGAAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTT
66 TA-TTTT-TTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCTGAAATAAGGGTTTT
* *
4816113 TT--TAAAATTTATTTAAAAAACATAG
129 TTACT-AAATTTAATTAAAAAACACAG
* *
4816138 TAAATTAATACATTTTAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATA
1 TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
* * * *
4816203 TATTTTTT-AAAGTAATAAAATCTGGGAAAAAAATATGAATAAATGG-TCGAAATAAGGGTTTTT
66 TATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCT-GAAATAAGGGTTTTT
4816266 TACTAAATTT
130 TACTAAATTT
4816276 GTTTTGAAGT
Statistics
Matches: 263, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
152 46 0.17
153 8 0.03
154 5 0.02
155 132 0.50
156 19 0.07
157 53 0.20
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (154 bp):
TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
TATTTTTTGAAAGAAATAAAATCCGGGAAAAAAATACGAACAAATGGCTGAAATAAGGGTTTTTT
ACTAAATTTAATTAAAAAACACAG
Found at i:4821559 original size:37 final size:40
Alignment explanation
Indices: 4821467--4821565 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 40
4821457 CCACTAATCC
**
4821467 TAATAACTAACACAATAATAATAATAGTTTTTTACTCAAAATAA
1 TAATAACT-A-ACAATAATAAT-ATAGGGTTTTACT-AAAATAA
4821511 TAATAACTAACAATAATAAT-TAGGGTTTTACT-AAA-AA
1 TAATAACTAACAATAATAATATAGGGTTTTACTAAAATAA
4821548 TAATAACTAACAATAATA
1 TAATAACTAACAATAATA
4821566 TAATGTAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
37 20 0.38
38 3 0.06
40 10 0.19
42 11 0.21
43 1 0.02
44 8 0.15
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (40 bp):
TAATAACTAACAATAATAATATAGGGTTTTACTAAAATAA
Found at i:4821597 original size:23 final size:23
Alignment explanation
Indices: 4821552--4821598 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4821542 TAAAAATAAT
*
4821552 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
4821575 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
4821598 A
1 A
4821599 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:4821936 original size:3 final size:3
Alignment explanation
Indices: 4821930--4821966 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
4821920 TTGGCACCAC
*
4821930 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
4821967 AGCTGGACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:4823907 original size:42 final size:42
Alignment explanation
Indices: 4823837--4823917 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
4823827 CGTGTCCTTG
*
4823837 CCCGTGTAACTCACTGACTTGAAACACACGACCGTGTCCCAA
1 CCCGTGTAACTCACTGACTTGAAACACACGACCATGTCCCAA
* * *** *
4823879 CCCGTGTAATTCTCTGACTTGGGTCACACGGCCATGTCC
1 CCCGTGTAACTCACTGACTTGAAACACACGACCATGTCC
4823918 TACGTCATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (42 bp):
CCCGTGTAACTCACTGACTTGAAACACACGACCATGTCCCAA
Found at i:4827516 original size:2 final size:2
Alignment explanation
Indices: 4827511--4827537 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4827501 TATTTTATGC
4827511 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4827538 AACTGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4835263 original size:25 final size:25
Alignment explanation
Indices: 4835234--4835283 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4835224 ATGTTTATAC
4835234 ATTATGATGAACACGAGATTTCCAT
1 ATTATGATGAACACGAGATTTCCAT
4835259 ATTATGATGAACACGAGATTTCCAT
1 ATTATGATGAACACGAGATTTCCAT
4835284 GCAAGGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
ATTATGATGAACACGAGATTTCCAT
Found at i:4835722 original size:30 final size:31
Alignment explanation
Indices: 4835688--4835750 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
4835678 ACTTATTTTA
*
4835688 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
*
4835718 TTGTTAATTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTTGTTATTATTTTAAAGACAT
4835749 TT
1 TT
4835751 TCTTTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGACAT
Found at i:4836396 original size:27 final size:27
Alignment explanation
Indices: 4836366--4836424 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
4836356 TTAAACCTCG
*
4836366 AACTTCGAATCTTGAAC-CCAAACCTTA
1 AACTTCGAA-CTTGAACTCCAAACCCTA
*
4836393 AACTTCGAACTTGAACTCTAAACCCTA
1 AACTTCGAACTTGAACTCCAAACCCTA
4836420 AACTT
1 AACTT
4836425 TAAATTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (27 bp):
AACTTCGAACTTGAACTCCAAACCCTA
Found at i:4836428 original size:34 final size:33
Alignment explanation
Indices: 4836341--4836463 Score: 108
Period size: 34 Copynumber: 3.6 Consensus size: 33
4836331 TACATTTAAT
* * *
4836341 TCTAAATCTTAAACCTTAAACCTCGAACTTCGAA
1 TCTAAACCCTAAACCTTAAACTTCGAACTT-GAA
*
4836375 TCTTGAACCC-AAACCTTAAACTTCGAACTTGAA
1 TC-TAAACCCTAAACCTTAAACTTCGAACTTGAA
* *
4836408 CTCTAAACCCTAAACTTTAAA-TTCTAAACTTGAA
1 -TCTAAACCCTAAACCTTAAACTTC-GAACTTGAA
*
4836442 TCTCAAA-TCTAAAACCTTAAAC
1 TCT-AAACCCT-AAACCTTAAAC
4836464 CCCAAACCGA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
33 17 0.23
34 52 0.71
35 4 0.05
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.29
Consensus pattern (33 bp):
TCTAAACCCTAAACCTTAAACTTCGAACTTGAA
Found at i:4837539 original size:3 final size:3
Alignment explanation
Indices: 4837531--4837565 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4837521 CTTGAACTAA
4837531 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4837566 AATCTTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4837703 original size:3 final size:3
Alignment explanation
Indices: 4837695--4837727 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4837685 TATAAAGGTT
4837695 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4837728 GAGTTTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4839824 original size:5 final size:6
Alignment explanation
Indices: 4839795--4839822 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4839785 CACAGGGTGT
4839795 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
4839823 GAGATAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4842306 original size:18 final size:18
Alignment explanation
Indices: 4842285--4842325 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4842275 TATAACTCCT
*
4842285 TTTAAAATTTAATCATAA
1 TTTAAAATTTAATAATAA
* *
4842303 TTTAGAATTTAATAATAT
1 TTTAAAATTTAATAATAA
4842321 TTTAA
1 TTTAA
4842326 TTCATCCAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAAAATTTAATAATAA
Found at i:4842645 original size:21 final size:21
Alignment explanation
Indices: 4842619--4842668 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
4842609 CGCTATTGAA
* *
4842619 GAAGACGATGAAGATGAAGAC
1 GAAGACGAAGAAGACGAAGAC
*
4842640 GAAGACGAAGAAGACGAAGAT
1 GAAGACGAAGAAGACGAAGAC
*
4842661 GAAAACGA
1 GAAGACGA
4842669 CGACGTCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.32, T:0.06
Consensus pattern (21 bp):
GAAGACGAAGAAGACGAAGAC
Found at i:4842653 original size:33 final size:33
Alignment explanation
Indices: 4842590--4842663 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
4842580 GGTGAAGATT
* * * *
4842590 ACGATGACGATGAAGACGACGCTATTGAAGAAG
1 ACGATGAAGATGAAGACGAAGCGATAGAAGAAG
*
4842623 ACGATGAAGATGAAGACGAAGACGA-AGAAGACG
1 ACGATGAAGATGAAGACGAAG-CGATAGAAGAAG
*
4842656 AAGATGAA
1 ACGATGAA
4842664 AACGACGACG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.46, C:0.12, G:0.31, T:0.11
Consensus pattern (33 bp):
ACGATGAAGATGAAGACGAAGCGATAGAAGAAG
Found at i:4842671 original size:15 final size:15
Alignment explanation
Indices: 4842616--4842659 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
4842606 CGACGCTATT
* *
4842616 GAAGAAGACGATGAA
1 GAAGAAGACGAAGAC
*
4842631 GATGAAGACGAAGAC
1 GAAGAAGACGAAGAC
4842646 GAAGAAGACGAAGA
1 GAAGAAGACGAAGA
4842660 TGAAAACGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.52, C:0.09, G:0.34, T:0.05
Consensus pattern (15 bp):
GAAGAAGACGAAGAC
Found at i:4845076 original size:28 final size:28
Alignment explanation
Indices: 4845036--4845090 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
4845026 AGCATTAATG
4845036 GTGCAATTGACTGCTAGATGGAAGTTTA
1 GTGCAATTGACTGCTAGATGGAAGTTTA
*
4845064 GTGCAATTGACTGCTGGATGGAAGTTT
1 GTGCAATTGACTGCTAGATGGAAGTTT
4845091 TGGTATTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.33
Consensus pattern (28 bp):
GTGCAATTGACTGCTAGATGGAAGTTTA
Found at i:4857265 original size:12 final size:13
Alignment explanation
Indices: 4857240--4857272 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
4857230 CAGCTCTCAT
4857240 ATAAGAAGAGAAA
1 ATAAGAAGAGAAA
4857253 ATAAGAA-AGAAA
1 ATAAGAAGAGAAA
4857265 ATAA-AAGA
1 ATAAGAAGA
4857273 AACTTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 10 0.53
13 7 0.37
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (13 bp):
ATAAGAAGAGAAA
Found at i:4861129 original size:12 final size:12
Alignment explanation
Indices: 4861112--4861143 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4861102 TTATATTTTT
4861112 TAAAAAATGATA
1 TAAAAAATGATA
4861124 TAAAAAATGATA
1 TAAAAAATGATA
4861136 TAAAAAAT
1 TAAAAAAT
4861144 TAATACGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAAAAATGATA
Found at i:4882552 original size:25 final size:25
Alignment explanation
Indices: 4882505--4882552 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4882495 TACACTAATA
* *
4882505 AGAGTTTAAGTGTGAAACTAAAAAT
1 AGAGTTTAAGTGGGAAACGAAAAAT
4882530 AGAGTTTAAGTGGGAGAA-GAAAA
1 AGAGTTTAAGTGGGA-AACGAAAA
4882553 GCCAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.27, T:0.23
Consensus pattern (25 bp):
AGAGTTTAAGTGGGAAACGAAAAAT
Found at i:4885274 original size:25 final size:24
Alignment explanation
Indices: 4885238--4885294 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4885228 AAATTTCAGA
4885238 ATTTATAATTTTTATAAACT-TATAT
1 ATTT-TAATTTTT-TAAACTATATAT
* *
4885263 ATTTTAATTTTTTTAGATTATATAT
1 ATTTTAA-TTTTTTAAACTATATAT
4885288 ATTTTAA
1 ATTTTAA
4885295 ATCTCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTAATTTTTTAAACTATATAT
Found at i:4889285 original size:402 final size:400
Alignment explanation
Indices: 4888498--4889303 Score: 1344
Period size: 402 Copynumber: 2.0 Consensus size: 400
4888488 TTAGGGACTA
* * ** *
4888498 AATTGATCAAATCCTAAAATTTCTGGGTAAAACCATAAAATCTAAAAAAAGGGACATGTAGTCAT
1 AATTGATCAAATCCTAAAATTTCTCGGAAAAACCATAAAATCTAAAAAAAGGGACACATAGTAAT
* * *
4888563 GTGATTGGACCGTGTGGAAAGCTCTAGACTGTGTGGAAGGGATACATGGCCATGTCACAAACTGT
66 GTGATTGGACCGTGTAGAAAGCTCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTGT
4888628 GGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTA
131 GGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTA
4888693 GGGTTTCAAGGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCGTGT
196 GGGTTTCAAGGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCGTGT
* * * *
4888758 GGCCCTATCTTAGGCATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCATTGGGA
261 GACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTGGGA
* *
4888823 TCTCCAGCGACGTTCCTCACGTTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACGACA
326 TCTCCAGCGACGTTCCTCACATTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACAACA
*
4888888 TTTACTCAAT
391 TTTACGCAAT
* **
4888898 AATTGATCAAATCCTAAAATTTTTCGGAAAAACTGTAAAATCTAAAAAAAAGGGACACATAGTAA
1 AATTGATCAAATCCTAAAATTTCTCGGAAAAACCATAAAATCT-AAAAAAAGGGACACATAGTAA
*
4888963 TGTGATTGGACCGTGTAGAAAGC-CTTAGATTGTGTAGAAGGGATACACGGCCATGTCACAAACT
65 TGTGATTGGACCGTGTAGAAAGCTC-TAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACT
* *
4889027 GTGGTCATGTGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACC
129 GTGGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACC
* * *
4889092 TAGGGTTTCAAGGGGACATGGATGTGTGATGGGTTGTGTGGTCCACATGCCTATGTGGAAGATCG
194 TAGGGTTTCAA-GGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCG
4889157 TGTGACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTG
258 TGTGACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTG
* *
4889222 GGATCTCCAGCGACGTTCCTCACATTCAAATCTGGTCTGAGGTACCTAAACGGGTCTTTCAAACA
323 GGATCTCCAGCGACGTTCCTCACATTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACA
4889287 ACATTTACGCAAT
388 ACATTTACGCAAT
4889300 AATT
1 AATT
4889304 AATAACGAAT
Statistics
Matches: 377, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
400 39 0.10
401 150 0.40
402 188 0.50
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (400 bp):
AATTGATCAAATCCTAAAATTTCTCGGAAAAACCATAAAATCTAAAAAAAGGGACACATAGTAAT
GTGATTGGACCGTGTAGAAAGCTCTAGACTGTGTAGAAGGGATACACGGCCATGTCACAAACTGT
GGCCATATGGTATTTGCAAAATCAACCTACCGTGTGGCAGGTCGTGTGAGAATTGAAATAACCTA
GGGTTTCAAGGGACATGGATGTGTAATGGGTTGTGTGGTCCACACGCCTACGTGGAAGATCGTGT
GACCCTATCCTAGACATAGTTTTACCTCGATTCACTTGTAAAAGAACACACACCTGTCAGTGGGA
TCTCCAGCGACGTTCCTCACATTAAAATCTGGTCTGAGGTACCTAAACGGGTCATTCAAACAACA
TTTACGCAAT
Found at i:4891169 original size:17 final size:17
Alignment explanation
Indices: 4891142--4891174 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4891132 ACTTACATTA
4891142 AAATCCTAATTTGTCTAC
1 AAATCCTAATTT-TCTAC
4891160 AAAT-CTAATTTTCTA
1 AAATCCTAATTTTCTA
4891175 GAGATTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATCCTAATTTTCTAC
Found at i:4896419 original size:18 final size:19
Alignment explanation
Indices: 4896396--4896431 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4896386 CCCAACAATA
4896396 TCTTCTGCTTTTT-TTTTT
1 TCTTCTGCTTTTTGTTTTT
*
4896414 TCTTCTTCTTTTTGTTTT
1 TCTTCTGCTTTTTGTTTT
4896432 GCTCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (19 bp):
TCTTCTGCTTTTTGTTTTT
Done.