Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 14 of 182
Found at i:4792913 original size:62 final size:60
Alignment explanation
Indices: 4792835--4792979 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 60
4792825 TCAAGCTTTA
* * *
4792835 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
4792897 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
4792958 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
4792980 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 39 0.53
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:4793043 original size:19 final size:20
Alignment explanation
Indices: 4793000--4793055 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4792990 ATTGGGTCTT
4793000 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
4793020 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
4793039 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
4793056 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:4798454 original size:18 final size:18
Alignment explanation
Indices: 4798423--4798460 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4798413 AAAAGAAAAA
*
4798423 GAAGAAGAAGAGAAGCAG
1 GAAGAAGAAGAGAAGAAG
4798441 GAAG-AGAAGAAGAAGAAG
1 GAAGAAGAAG-AGAAGAAG
4798459 GA
1 GA
4798461 TAAGAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.58, C:0.03, G:0.39, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAGAGAAGAAG
Found at i:4799596 original size:21 final size:21
Alignment explanation
Indices: 4799563--4799611 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4799553 GTTGGGGCAC
* *
4799563 CTTGTTGAGTTGGGGTACCCT
1 CTTGCTGACTTGGGGTACCCT
*
4799584 CTTGCTGACTTGGGGTAGCCT
1 CTTGCTGACTTGGGGTACCCT
4799605 CTTGCTG
1 CTTGCTG
4799612 GGTTCGGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.08, C:0.22, G:0.33, T:0.37
Consensus pattern (21 bp):
CTTGCTGACTTGGGGTACCCT
Found at i:4800360 original size:43 final size:43
Alignment explanation
Indices: 4800263--4800397 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 43
4800253 TAAAAAAAAC
* * * *
4800263 TCATTGCATGTATATTAAAAACTAGGCAAC-AC--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
4800303 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* * *
4800346 TCATTGCATACATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
4800388 TCACTGCATG
1 TCATTGCATG
4800398 TGATCAGCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 27 0.33
41 2 0.02
42 25 0.31
43 27 0.33
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
Found at i:4802058 original size:15 final size:16
Alignment explanation
Indices: 4802033--4802063 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4802023 TTCAGATGCA
4802033 TCACTATCACTACCAG
1 TCACTATCACTACCAG
4802049 TCAC-ATCACTACCAG
1 TCACTATCACTACCAG
4802064 ACACGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.39, G:0.06, T:0.23
Consensus pattern (16 bp):
TCACTATCACTACCAG
Found at i:4802395 original size:16 final size:16
Alignment explanation
Indices: 4802352--4802387 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4802342 TAGGAGCTTG
4802352 GATACAAACAATGGCA
1 GATACAAACAATGGCA
4802368 GATACAAACAATGGCA
1 GATACAAACAATGGCA
4802384 GATA
1 GATA
4802388 TACACAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.14
Consensus pattern (16 bp):
GATACAAACAATGGCA
Found at i:4802521 original size:64 final size:64
Alignment explanation
Indices: 4802359--4802757 Score: 599
Period size: 64 Copynumber: 6.3 Consensus size: 64
4802349 TTGGATACAA
* * *
4802359 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATG-TA-TAAT
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCAT
** * *
4802421 TTAATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCAT
* * *
4802485 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATG-TA-TAAT
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCAT
** * *
4802547 TTAATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCAT
* *
4802611 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCAT
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCAT
* * *
4802675 ACAATGACAGATACAAACAATGGCAGATACACACAATAAAGATCAGTTTGATAATGACATTCAT
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCAT
4802739 ACAATGGCAGATACAAACA
1 ACAATGGCAGATACAAACA
4802758 CATCAAAATC
Statistics
Matches: 302, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
62 105 0.35
63 3 0.01
64 194 0.64
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (64 bp):
ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCAT
Found at i:4802523 original size:126 final size:126
Alignment explanation
Indices: 4802359--4802757 Score: 681
Period size: 126 Copynumber: 3.2 Consensus size: 126
4802349 TTGGATACAA
4802359 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTA
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTA
4802424 ATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
66 ATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
4802485 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTA
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTA
4802550 ATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
66 ATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
* * * * *
4802611 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATA
1 ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAAT-GTA-TAATT
* * * * * *
4802676 CAATGACAGATACAAACAATGGCAGATACACACAATAAAGATCAGTTTGATAATGACATTCAT
64 TAATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
4802739 ACAATGGCAGATACAAACA
1 ACAATGGCAGATACAAACA
4802758 CATCAAAATC
Statistics
Matches: 260, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
126 179 0.69
127 2 0.01
128 79 0.30
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (126 bp):
ACAATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTA
ATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
Found at i:4802663 original size:190 final size:188
Alignment explanation
Indices: 4802361--4802757 Score: 587
Period size: 190 Copynumber: 2.1 Consensus size: 188
4802351 GGATACAAAC
* * **
4802361 AATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAAT
1 AATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGCATAATACAAT
*
4802426 GGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATG
66 GGCAGATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATG
* *
4802491 GCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTT
131 ACAGATACAAACAATGGCAGATACACACAATAAACATCAGTTTAATAATGTATAATTT
* * *
4802549 AATGGCAGATACAATCAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACA
1 AATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATG-CA-TAATACA
* * *
4802614 ATGGCAGATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAA
64 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAA
* * * * **
4802679 TGACAGATACAAACAATGGCAGATACACACAATAAAGATCAGTTTGATAATGACATTCATAC
129 TGACAGATACAAACAATGGCAGATACACACAATAAACATCAGTTTAATAATG-TA-TAATTT
4802741 AATGGCAGATACAAACA
1 AATGGCAGATACAAACA
4802758 CATCAAAATC
Statistics
Matches: 185, Mismatches: 20, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
188 51 0.28
189 1 0.01
190 113 0.61
191 1 0.01
192 19 0.10
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (188 bp):
AATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGCATAATACAAT
GGCAGATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATG
ACAGATACAAACAATGGCAGATACACACAATAAACATCAGTTTAATAATGTATAATTT
Found at i:4802667 original size:34 final size:34
Alignment explanation
Indices: 4802629--4802730 Score: 83
Period size: 32 Copynumber: 3.1 Consensus size: 34
4802619 AGATACAAAC
4802629 AATGGCAGATATACACAATAAAGATCAGTTTGAT
1 AATGGCAGATATACACAATAAAGATCAGTTTGAT
* * * *
4802663 AATGGC--AT-TCATACAATGACAGATACA----AAC
1 AATGGCAGATAT-ACACAAT-AAAGAT-CAGTTTGAT
*
4802693 AATGGCAGATACACACAATAAAGATCAGTTTGAT
1 AATGGCAGATATACACAATAAAGATCAGTTTGAT
4802727 AATG
1 AATG
4802731 ACATTCATAC
Statistics
Matches: 49, Mismatches: 9, Indels: 20
0.63 0.12 0.26
Matches are distributed among these distances:
30 9 0.18
31 6 0.12
32 16 0.33
33 5 0.10
34 13 0.27
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.24
Consensus pattern (34 bp):
AATGGCAGATATACACAATAAAGATCAGTTTGAT
Found at i:4802696 original size:16 final size:16
Alignment explanation
Indices: 4802675--4802711 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4802665 TGGCATTCAT
4802675 ACAATGACAGATACAA
1 ACAATGACAGATACAA
* *
4802691 ACAATGGCAGATACAC
1 ACAATGACAGATACAA
4802707 ACAAT
1 ACAAT
4802712 AAAGATCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (16 bp):
ACAATGACAGATACAA
Found at i:4807159 original size:16 final size:17
Alignment explanation
Indices: 4807128--4807160 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4807118 CCACTCAGGG
*
4807128 GTTTTGGTTTTCTTTAT
1 GTTTTGGTTATCTTTAT
4807145 GTTTT-GTTATCTTTAT
1 GTTTTGGTTATCTTTAT
4807161 TATTTTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.70
Consensus pattern (17 bp):
GTTTTGGTTATCTTTAT
Found at i:4809921 original size:35 final size:35
Alignment explanation
Indices: 4809882--4810072 Score: 103
Period size: 35 Copynumber: 5.2 Consensus size: 35
4809872 CCGACTAGCC
*
4809882 TTGGGCGCAATTACCATTGGTTTATCCAACTAGAG
1 TTGGGCACAATTACCATTGGTTTATCCAACTAGAG
* ** * * * **
4809917 TTGGGCTCAAAATCATTATTATCGGTATATCCGACTAGCC
1 TTGGG--C-ACA--ATTACCATTGGTTTATCCAACTAGAG
* *
4809957 CTGAGCACAATTACCATTGGTTTATCCAACTAGAG
1 TTGGGCACAATTACCATTGGTTTATCCAACTAGAG
* ** * * * **
4809992 TTGGGCTCAAAATCATTATTATCGGTATATCCGACTAGCC
1 TTGGG--C-ACA--ATTACCATTGGTTTATCCAACTAGAG
* *
4810032 CTGAGCACAATTACCATTGGTTTATCCAACTAGAG
1 TTGGGCACAATTACCATTGGTTTATCCAACTAGAG
4810067 TTGGGC
1 TTGGGC
4810073 TCAAAATCAT
Statistics
Matches: 105, Mismatches: 41, Indels: 20
0.63 0.25 0.12
Matches are distributed among these distances:
35 50 0.48
37 6 0.06
38 5 0.05
40 44 0.42
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (35 bp):
TTGGGCACAATTACCATTGGTTTATCCAACTAGAG
Found at i:4809954 original size:75 final size:75
Alignment explanation
Indices: 4809870--4810180 Score: 469
Period size: 75 Copynumber: 4.1 Consensus size: 75
4809860 CTGTCGGTTA
* * *
4809870 ATCCGACTAGCCTTGGGCGCAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
1 ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
4809935 TTATCGGTAT
66 TTATCGGTAT
4809945 ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
1 ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
4810010 TTATCGGTAT
66 TTATCGGTAT
4810020 ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
1 ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
*
4810085 TTGTCGGTAT
66 TTATCGGTAT
* * * ** * *** * *
4810095 ATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTTAAAATCATTA
1 ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
* *
4810160 TTGTCGATAT
66 TTATCGGTAT
4810170 ATCCGACTAGC
1 ATCCGACTAGC
4810181 ACTGGGTGCA
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 219 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (75 bp):
ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
TTATCGGTAT
Found at i:4810023 original size:40 final size:40
Alignment explanation
Indices: 4809904--4810179 Score: 145
Period size: 40 Copynumber: 7.3 Consensus size: 40
4809894 ACCATTGGTT
*
4809904 TATCCAACTAGAGTTGGGCTCAAAATCATTATTATCGGTA
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTATCGGTA
* ** * * ** * *
4809944 TATCCGACTAGCCCTGAG--C-ACA--ATTACCATTGGTT
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTATCGGTA
*
4809979 TATCCAACTAGAGTTGGGCTCAAAATCATTATTATCGGTA
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTATCGGTA
* ** * * ** * *
4810019 TATCCGACTAGCCCTGAG--C-ACA--ATTACCATTGGTT
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTATCGGTA
* *
4810054 TATCCAACTAGAGTTGGGCTCAAAATCATTATTGTCGGTA
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTATCGGTA
** * *
4810094 TATCTGACTAGCA-CTGGG-TGC-AAAT-ATT-GT-T-GGTT
1 TATCCAACTAG-AGCTGGGCT-CAAAATCATTATTATCGGTA
* * *
4810129 TATCCAACTAGAGCTGGGCTTAAAATCATTATTGTCGATA
1 TATCCAACTAGAGCTGGGCTCAAAATCATTATTATCGGTA
*
4810169 TATCCGACTAG
1 TATCCAACTAG
4810180 CACTGGGTGC
Statistics
Matches: 164, Mismatches: 53, Indels: 38
0.64 0.21 0.15
Matches are distributed among these distances:
34 1 0.01
35 61 0.37
36 6 0.04
37 10 0.06
38 10 0.06
39 6 0.04
40 69 0.42
41 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (40 bp):
TATCCAACTAGAGCTGGGCTCAAAATCATTATTATCGGTA
Found at i:4810139 original size:35 final size:35
Alignment explanation
Indices: 4810100--4810211 Score: 109
Period size: 35 Copynumber: 3.1 Consensus size: 35
4810090 GGTATATCTG
4810100 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
1 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
** * * *
4810135 ACTAG-AGCTGGGCTTAAAATCATTATTGTCGATATATCCG
1 ACTAGCA-CTGGG-TGCAAAT-ATTGTTG--G-TTTATCCA
*
4810175 ACTAGCACTGGGTGCAAATATTGTTGGTTAATCCA
1 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
4810210 AC
1 AC
4810212 CAGAGCTAGG
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
34 1 0.02
35 17 0.29
36 6 0.10
37 6 0.10
38 6 0.10
39 6 0.10
40 16 0.27
41 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (35 bp):
ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
Found at i:4810233 original size:150 final size:150
Alignment explanation
Indices: 4809870--4810242 Score: 406
Period size: 150 Copynumber: 2.5 Consensus size: 150
4809860 CTGTCGGTTA
* * * * * * *
4809870 ATCCGACTAGC-CTTGGGCGCAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATT
1 ATCCGACTAGCAC-TGAGCACAAATACCATTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATT
* * * * ** * *** *
4809934 ATTATCGGTATATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCT
65 ATTGTCGGTATATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCT
*
4809999 CAAAATCATTATTATCGGTAT
130 CAAAATCATTATTATCGATAT
* * * * * *
4810020 ATCCGACTAGCCCTGAGCACAATTACCATTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTA
1 ATCCGACTAGCACTGAGCACAAATACCATTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTA
*
4810085 TTGTCGGTATATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTT
66 TTGTCGGTATATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTC
*
4810150 AAAATCATTATTGTCGATAT
131 AAAATCATTATTATCGATAT
* ** *** ***
4810170 ATCCGACTAGCACTGGGTGCAAATATTGTTGGTTAATCCAACCAGAGCTAGGCTCACTTTCATTA
1 ATCCGACTAGCACTGAGCACAAATACCATTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTA
4810235 TTGTCGGT
66 TTGTCGGT
4810243 TAATCCAGCT
Statistics
Matches: 191, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
150 190 0.99
151 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (150 bp):
ATCCGACTAGCACTGAGCACAAATACCATTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTA
TTGTCGGTATATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTC
AAAATCATTATTATCGATAT
Found at i:4810255 original size:75 final size:75
Alignment explanation
Indices: 4809898--4810242 Score: 339
Period size: 75 Copynumber: 4.6 Consensus size: 75
4809888 GCAATTACCA
* * * * * * * *
4809898 TTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTATTATCGGTATATCCGACTAGCCCTGAGC
1 TTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGT
* * ***
4809963 ACAATTACCA
66 GCAAATATTG
* * * * * * * *
4809973 TTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTATTATCGGTATATCCGACTAGCCCTGAGC
1 TTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGT
* * ***
4810038 ACAATTACCA
66 GCAAATATTG
* * * * *
4810048 TTGGTTTATCCAACTAGAGTTGGGCTCAAAATCATTATTGTCGGTATATCTGACTAGCACTGGGT
1 TTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGT
4810113 GCAAATATTG
66 GCAAATATTG
* * * * *
4810123 TTGGTTTATCCAACTAGAGCTGGGCTTAAAATCATTATTGTCGATATATCCGACTAGCACTGGGT
1 TTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGT
4810188 GCAAATATTG
66 GCAAATATTG
***
4810198 TTGGTTAATCCAACCAGAGCTAGGCTCACTTTCATTATTGTCGGT
1 TTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTATTGTCGGT
4810243 TAATCCAGCT
Statistics
Matches: 248, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 248 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (75 bp):
TTGGTTAATCCAACCAGAGCTAGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGT
GCAAATATTG
Found at i:4817532 original size:75 final size:74
Alignment explanation
Indices: 4817433--4817621 Score: 236
Period size: 75 Copynumber: 2.5 Consensus size: 74
4817423 ATTACCGTTG
* * *
4817433 GTTTATCCAACTAGAGCTGAGCTCAAAATCATTATTTTCCATATATCCGACTAGCACTGGGTGCA
1 GTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCCATATATCCGACTAGCACTGGGTGCA
4817498 AATATTGTT
66 AATATTGTT
** * *
4817507 AGTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCGGTATATTCGACTAGCGCTGGGTGC
1 -GTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCCATATATCCGACTAGCACTGGGTGC
4817572 AAATATTGTT
65 AAATATTGTT
* * ***
4817582 GGTTAGTCCAACCAGAGT-TGGGCTCACTTTCATTATTGTC
1 GTTTA-TCCAACTAGA-TCTGGGCTCAAAATCATTATTGTC
4817622 GGTTAATCCG
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
74 4 0.04
75 95 0.95
76 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (74 bp):
GTTTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCCATATATCCGACTAGCACTGGGTGCA
AATATTGTT
Found at i:4817622 original size:75 final size:75
Alignment explanation
Indices: 4817435--4817643 Score: 235
Period size: 75 Copynumber: 2.8 Consensus size: 75
4817425 TACCGTTGGT
* * * * **
4817435 TTATCCAACTAGAGCTGAGCTCAAAATCATTATTTTCCATATATCCGACTAGCACTGGGTGCAAA
1 TTATCCAACCAGATCTGGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGTGCAAA
*
4817500 TATTGTTAGT
66 TATTGTTAGG
* * *
4817510 TTATCCAACTAGATCTGGGCTCAAAATCATTATTGTCGGTATATTCGACTAGCGCTGGGTGCAAA
1 TTATCCAACCAGATCTGGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGTGCAAA
4817575 TATTGTT-GG
66 TATTGTTAGG
*** *
4817584 TTAGTCCAACCAGAGT-TGGGCTCACTTTCATTATTGTCGGT-TAATCCGGCTAGCCACTGG
1 TTA-TCCAACCAGA-TCTGGGCTCAAAATCATTATTGTCGGTAT-ATCCGACTAG-CACTGG
4817644 ATGCCACATT
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
74 5 0.04
75 104 0.90
76 6 0.05
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (75 bp):
TTATCCAACCAGATCTGGGCTCAAAATCATTATTGTCGGTATATCCGACTAGCACTGGGTGCAAA
TATTGTTAGG
Found at i:4819328 original size:23 final size:23
Alignment explanation
Indices: 4819302--4819346 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4819292 TGCTTCGGTA
4819302 CTTCTATTACTAGCACTGCAGTG
1 CTTCTATTACTAGCACTGCAGTG
*
4819325 CTTCTATTACTAGCACTTCAGT
1 CTTCTATTACTAGCACTGCAGT
4819347 ATGATACTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (23 bp):
CTTCTATTACTAGCACTGCAGTG
Found at i:4820983 original size:55 final size:55
Alignment explanation
Indices: 4820914--4821091 Score: 221
Period size: 55 Copynumber: 3.2 Consensus size: 55
4820904 TTATCGCTAA
* * * *
4820914 AAGGCCATTCATTCAAGAGGTTGCCATAAAAGTTACTCTTTTCAAAATTCACCAT
1 AAGGCCATTCATTCAAGAGTTTGCCACAAAAGCTACTCTTTTCAAAATTCACCAC
* * * *
4820969 AAGGCCATTCATTCAAGAGTTTGCCACAAATGCCACTTTTTTCAAAATTCACCGC
1 AAGGCCATTCATTCAAGAGTTTGCCACAAAAGCTACTCTTTTCAAAATTCACCAC
** * * *
4821024 AAGGTTAATCATTCAAGAGTTTGCCACAAAGGCTACTCTTTTCAGAATTCACCAC
1 AAGGCCATTCATTCAAGAGTTTGCCACAAAAGCTACTCTTTTCAAAATTCACCAC
*
4821079 AAGGGCGATTCAT
1 AA-GGCCATTCAT
4821092 AGAAGTGCGG
Statistics
Matches: 103, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
55 96 0.93
56 7 0.07
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (55 bp):
AAGGCCATTCATTCAAGAGTTTGCCACAAAAGCTACTCTTTTCAAAATTCACCAC
Found at i:4825933 original size:45 final size:45
Alignment explanation
Indices: 4825869--4825958 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
4825859 AAAGCATTTC
4825869 TTTCCCCACTCTAAACAGAAACTAATTATTCCAATTTTGGGTTTT
1 TTTCCCCACTCTAAACAGAAACTAATTATTCCAATTTTGGGTTTT
* * *
4825914 TTTCCCTATTCTAAACAGAAACTAATTATTCTAATTTTGGGTTTT
1 TTTCCCCACTCTAAACAGAAACTAATTATTCCAATTTTGGGTTTT
4825959 CTGCTACATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (45 bp):
TTTCCCCACTCTAAACAGAAACTAATTATTCCAATTTTGGGTTTT
Found at i:4834656 original size:39 final size:39
Alignment explanation
Indices: 4834616--4834870 Score: 341
Period size: 39 Copynumber: 6.5 Consensus size: 39
4834606 GTTCACTTTT
* * *
4834616 AAGCATATATCACATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
4834655 AAGCATATATCACAATACTCATAAAATTACGTAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
4834694 AAGC-TCATATCACAATACTCATATAATCACATAACATTC
1 AAGCAT-ATATCACAATACTCATATAATCACATAACATTC
* *** *
4834733 AAGAATATATTGTAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
4834772 AAGCATATATCACAATACTCATATAATCATATAAAATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * *
4834811 AAGCATATATTACTATTCTCATATAATCACATAATATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
4834850 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
4834871 GAAACATGTT
Statistics
Matches: 185, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
38 1 0.01
39 183 0.99
40 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:4840145 original size:17 final size:18
Alignment explanation
Indices: 4840123--4840158 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4840113 TTACACAGCC
4840123 TGAAG-ACACGGGCGTGT
1 TGAAGAACACGGGCGTGT
4840140 TGAAGACACACGGGCGTGT
1 TGAAGA-ACACGGGCGTGT
4840159 CCTTGTGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
19 12 0.71
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (18 bp):
TGAAGAACACGGGCGTGT
Found at i:4857788 original size:67 final size:64
Alignment explanation
Indices: 4857641--4857824 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
4857631 ATATAGTTCG
* * * * *
4857641 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCAT-CTGACCTAGC--CAGTTTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGC-GACCTAGCTACA-TATATCCCG
4857702 TA
63 TA
* * *
4857704 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACCCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
4857769 TA
63 TA
* *
4857771 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
4857825 CATAATGTCT
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.17
64 29 0.28
66 23 0.22
67 30 0.29
68 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:4858593 original size:30 final size:30
Alignment explanation
Indices: 4858559--4858619 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4858549 TCCTTAACTC
4858559 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
4858589 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
4858619 A
1 A
4858620 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:4865176 original size:75 final size:76
Alignment explanation
Indices: 4865046--4865210 Score: 235
Period size: 75 Copynumber: 2.2 Consensus size: 76
4865036 TAAAATAATA
* **
4865046 GAGAAGTAGAAATAACATTAAGGAAGGAAAAGAAAATCATGACAAACATCCAACTAAATGAACGA
1 GAGAAG-AGAAATAACATTAAAGAAGGAAAAGAAAATCATGACAAACATCCAACTAAACAAACGA
4865111 ATGCAATTATAAG
65 ATGCAATTAT-AG
* * *
4865124 GA-AAGAGAAATAGCATTAAAGAAGGAAAA-AAAATCATGACAAACATCTAACTAAACAAATGAA
1 GAGAAGAGAAATAACATTAAAGAAGGAAAAGAAAATCATGACAAACATCCAACTAAACAAACGAA
4865187 TGCAATTATAG
66 TGCAATTATAG
*
4865198 GAGAATAGAAATA
1 GAGAAGAGAAATA
4865211 CTAAAAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
74 4 0.05
75 48 0.61
76 22 0.28
77 3 0.04
78 2 0.03
ACGTcount: A:0.56, C:0.10, G:0.17, T:0.17
Consensus pattern (76 bp):
GAGAAGAGAAATAACATTAAAGAAGGAAAAGAAAATCATGACAAACATCCAACTAAACAAACGAA
TGCAATTATAG
Found at i:4893664 original size:42 final size:42
Alignment explanation
Indices: 4893503--4893665 Score: 147
Period size: 42 Copynumber: 3.9 Consensus size: 42
4893493 TACCACACCA
* *
4893503 ATGCCATATCCCAGATATGGTCTT--ACATGAGATCTCCTGTCG
1 ATGCCATATCCCAGATATGGTCTTAGACAT-AG-TCTCATATCG
* * * * * * *
4893545 ATTCCAATAGCCCAGCTATGGTCTTACACAAAATCTAATATCG
1 ATGCC-ATATCCCAGATATGGTCTTAGACATAGTCTCATATCG
*
4893588 ATGCCATATCCCAGATATGGTTTTACG-CGA-AGTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTA-GAC-ATAGTCTCAT-ATCG
4893630 ATGCCATATCCCAGATATGGTCTTAGACATAGTCTC
1 ATGCCATATCCCAGATATGGTCTTAGACATAGTCTC
4893666 GGTAACCCTA
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 60 0.62
43 31 0.32
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTAGACATAGTCTCATATCG
Found at i:4897608 original size:14 final size:14
Alignment explanation
Indices: 4897589--4897620 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4897579 TTAATTCTCT
4897589 CAATTCAATCAGGG
1 CAATTCAATCAGGG
4897603 CAATTCAATCAGGG
1 CAATTCAATCAGGG
4897617 CAAT
1 CAAT
4897621 CCTATGCGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (14 bp):
CAATTCAATCAGGG
Found at i:4902182 original size:39 final size:40
Alignment explanation
Indices: 4902065--4902249 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
4902055 GCTACTCGTT
*
4902065 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
4902105 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
4902145 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
4902184 CAAATGTCTTC-GGATCTTGGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
4902225 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4902250 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:4902209 original size:79 final size:81
Alignment explanation
Indices: 4902067--4902249 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
4902057 TACTCGTTCA
* *
4902067 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
4902131 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * ***
4902147 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGTCTTC-GGATCTTGGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
4902209 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
4902226 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
4902250 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:4903445 original size:56 final size:56
Alignment explanation
Indices: 4903378--4903497 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
4903368 TATTAGTTTA
4903378 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
4903434 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
4903490 TTGCCCAT
1 TTGCCCAT
4903498 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:4908715 original size:15 final size:15
Alignment explanation
Indices: 4908695--4908725 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4908685 GGGTATGTTA
4908695 GTTACTAACCAGTTG
1 GTTACTAACCAGTTG
*
4908710 GTTACTAACTAGTTG
1 GTTACTAACCAGTTG
4908725 G
1 G
4908726 AAAAAGTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (15 bp):
GTTACTAACCAGTTG
Found at i:4909004 original size:48 final size:48
Alignment explanation
Indices: 4908928--4909019 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
4908918 AAGGAAGGAT
*
4908928 TTGAAAAGAGTAAGTTATTATGACTCTGTATGTGATATATGTTATATA
1 TTGAAAAGAGTAAGTTATTATGAATCTGTATGTGATATATGTTATATA
* *
4908976 TTGAAAAGAGTAAGTTGA-TGTGAATCTGTATGTGCTATATGTTA
1 TTGAAAAGAGTAAGTT-ATTATGAATCTGTATGTGATATATGTTA
4909020 CGTATAGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (48 bp):
TTGAAAAGAGTAAGTTATTATGAATCTGTATGTGATATATGTTATATA
Found at i:4924148 original size:40 final size:40
Alignment explanation
Indices: 4924097--4924194 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
4924087 CTATCTCAGT
*
4924097 ATCGCACACTTAGTGCCTCAAATAGCCGAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAAATAACCGAAGCTATTTTGA
* *
4924137 ATTGCACACTTAATGCCTCAAATAACCGAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAAATAACCGAAGCTATTTTGA
4924177 ATCGCACACTTAGTGCCT
1 ATCGCACACTTAGTGCCT
4924195 AATACCATTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAAATAACCGAAGCTATTTTGA
Found at i:4929669 original size:111 final size:111
Alignment explanation
Indices: 4929475--4929914 Score: 835
Period size: 111 Copynumber: 4.0 Consensus size: 111
4929465 GACACATCGT
* *
4929475 CGTGTCTCTGCCCGAGTGACCCTTACCATGCATTCTGACTTGAAATTTCTAGGTGCAGGGATGCA
1 CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGATGCA
4929540 CGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCGGC
66 CGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCGGC
4929586 CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGATGCA
1 CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGATGCA
4929651 CGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCGGC
66 CGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCGGC
4929697 CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGATGCA
1 CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGATGCA
4929762 CGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCGGC
66 CGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCGGC
4929808 CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGGATGC
1 CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCA-GGGATGC
* *
4929873 ACGGCCTGCTCACATGCCCATAGGGCTGACCGTGTGTCACAC
65 ACGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACAC
4929915 ATGGCCTAGA
Statistics
Matches: 324, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
111 277 0.85
112 47 0.15
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.25
Consensus pattern (111 bp):
CGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGATGCA
CGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCGGC
Found at i:4930767 original size:47 final size:46
Alignment explanation
Indices: 4930606--4930778 Score: 174
Period size: 50 Copynumber: 3.7 Consensus size: 46
4930596 TTAAGTTATG
* * *
4930606 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATGTATCCAT-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-AC--ATGTCT-CATAGCC
*
4930656 GATGCCATGTCCCAGACATGGTCTTACACTGACATGTCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACATGTCTCATAGCC
* * *
4930702 GATG-CATTTCCCAGACAT-GTCTTACACTGGCACTCGTCTCAATA-CT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACA-T-GTCTC-ATAGCC
*
4930748 TATGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
4930779 TCATACAAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
44 13 0.12
45 16 0.15
46 20 0.19
47 15 0.14
48 12 0.11
49 1 0.01
50 30 0.28
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACATGTCTCATAGCC
Found at i:4933579 original size:55 final size:55
Alignment explanation
Indices: 4933520--4933661 Score: 212
Period size: 55 Copynumber: 2.6 Consensus size: 55
4933510 CAACACACGC
* *
4933520 CCGTGTGCTTTGGCCGTGGTCGAATCTAACTTGGGCCACACGGCTAGCCACAAGG
1 CCGTGTGCCTTGGCCGTGGTCGAATCTGACTTGGGCCACACGGCTAGCCACAAGG
* * * * *
4933575 CCGTGTGCCTTGGCCGTGGTCTAATCTGATTTGGGTCACACGGCTAGCCACATGT
1 CCGTGTGCCTTGGCCGTGGTCGAATCTGACTTGGGCCACACGGCTAGCCACAAGG
*
4933630 ACGTGTGCCTTGGCCGTGGTCGAATCTGACTT
1 CCGTGTGCCTTGGCCGTGGTCGAATCTGACTT
4933662 ACAATTGTAG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 77 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.27
Consensus pattern (55 bp):
CCGTGTGCCTTGGCCGTGGTCGAATCTGACTTGGGCCACACGGCTAGCCACAAGG
Found at i:4934680 original size:40 final size:40
Alignment explanation
Indices: 4934628--4934721 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
4934618 CTCGGTATCA
* *
4934628 CACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCCTCAGATAACCAAAGCTATTTTGAATCG
4934668 CACACTTAGTGCCTCAGATAACCAAAGCTATTTTGAATCG
1 CACACTTAGTGCCTCAGATAACCAAAGCTATTTTGAATCG
* *
4934708 CAGAATTAGTGCCT
1 CACACTTAGTGCCT
4934722 AATACCATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (40 bp):
CACACTTAGTGCCTCAGATAACCAAAGCTATTTTGAATCG
Found at i:4937800 original size:109 final size:109
Alignment explanation
Indices: 4937609--4938560 Score: 1843
Period size: 109 Copynumber: 8.7 Consensus size: 109
4937599 ATAAGGATAT
4937609 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4937674 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
4937718 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4937783 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
4937827 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4937892 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
4937936 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4938001 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
4938045 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4938110 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
4938154 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4938219 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
4938263 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4938328 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
4938372 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4938437 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
* * * * * *
4938481 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
4938545 ATGTCAAGACATGGCA
66 ATGTCAAGACATGGCA
4938561 ATGGTAAGTT
Statistics
Matches: 837, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
108 38 0.05
109 799 0.95
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGATC
ATGTCAAGACATGGCATTGATGAGATACTATAAGGCAAAGGTCC
Found at i:4946831 original size:26 final size:30
Alignment explanation
Indices: 4946802--4946859 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
4946792 TATTTCTCCT
4946802 TTCTCCCT-TTTC-TTT-T-TCTTTCTTTC
1 TTCTCCCTGTTTCGTTTCTATCTTTCTTTC
**
4946828 TTCTTTCTGTTTCGTTTCTATCTTTCTTTC
1 TTCTCCCTGTTTCGTTTCTATCTTTCTTTC
4946858 TT
1 TT
4946860 TATTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 6 0.23
27 4 0.15
28 3 0.12
29 1 0.04
30 12 0.46
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.69
Consensus pattern (30 bp):
TTCTCCCTGTTTCGTTTCTATCTTTCTTTC
Found at i:4946833 original size:22 final size:23
Alignment explanation
Indices: 4946808--4946860 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
4946798 TCCTTTCTCC
*
4946808 CTTTTCTTTTTC-TTTCTTTCTT
1 CTTTTCTTTTTCGTTTCTATCTT
*
4946830 C-TTTCTGTTTCGTTTCTATCTT
1 CTTTTCTTTTTCGTTTCTATCTT
4946852 -TCTTTCTTT
1 CT-TTTCTTT
4946861 ATTTATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 9 0.36
22 10 0.40
23 6 0.24
ACGTcount: A:0.02, C:0.23, G:0.04, T:0.72
Consensus pattern (23 bp):
CTTTTCTTTTTCGTTTCTATCTT
Found at i:4946874 original size:8 final size:8
Alignment explanation
Indices: 4946863--4946887 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4946853 CTTTCTTTAT
4946863 TTATAATA
1 TTATAATA
4946871 TTATAATA
1 TTATAATA
4946879 TTATAATA
1 TTATAATA
4946887 T
1 T
4946888 ATATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTATAATA
Found at i:4949479 original size:27 final size:27
Alignment explanation
Indices: 4949449--4949626 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 27
4949439 ATATTGAGCC
* *
4949449 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
4949476 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
4949503 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
4949531 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
4949558 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
4949585 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
4949612 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4949627 GTACAATTTA
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
27 99 0.80
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:4949615 original size:54 final size:53
Alignment explanation
Indices: 4949449--4949625 Score: 178
Period size: 54 Copynumber: 3.3 Consensus size: 53
4949439 ATATTGAGCC
* * * *
4949449 CGCACACTCAGTGCTAT-ATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCCACATAGTC-AAT
* * * *
4949503 CGCACACTTAGTGC-TACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCCACATAGTCAA-T
* ** *
4949558 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTC-AAT
4949612 CGCACACTTAGTGC
1 CGCACACTTAGTGC
4949626 TGTACAATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
52 1 0.01
54 56 0.55
55 44 0.43
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAT
Found at i:4957943 original size:39 final size:39
Alignment explanation
Indices: 4957780--4957961 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
4957770 TTGAATGCTG
* *
4957780 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAA-A
* * *
4957819 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
4957859 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
4957899 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
4957938 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4957962 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 54 0.45
40 59 0.49
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:4957981 original size:79 final size:79
Alignment explanation
Indices: 4957832--4957996 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
4957822 GGACTAAGAT
* * * ** ** *
4957832 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
4957897 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* * * *
4957912 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
4957976 TATCCGGTTAAATC
66 AATCCGGTTAAATC
4957990 CCGAAGG
1 CCGAAGG
4957997 TACGTGATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 15 0.21
79 49 0.69
80 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:4959187 original size:114 final size:114
Alignment explanation
Indices: 4958987--4959214 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
4958977 ATGTATGGAT
4958987 TCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGAGAGAT
1 TCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGAGAGAT
4959052 ATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCAACCCCTGTAACATG
66 ATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCAACCCCTGTAACATG
4959101 TCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGAGAGAT
1 TCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGAGAGAT
4959166 ATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCAACCCCTGTAACATG
66 ATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCAACCCCTGTAACATG
4959215 GGAGACTTTG
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (114 bp):
TCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGAGAGAT
ATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCAACCCCTGTAACATG
Found at i:4965894 original size:40 final size:40
Alignment explanation
Indices: 4965811--4966873 Score: 1925
Period size: 40 Copynumber: 26.6 Consensus size: 40
4965801 TTGAATGCTG
* * * * * *
4965811 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
4965851 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
4965891 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4965931 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4965971 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966011 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966051 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966091 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966131 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966171 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966211 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966251 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966291 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966331 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966371 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966411 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966451 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966491 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966531 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966571 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966611 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966651 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966691 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4966731 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
4966771 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
4966811 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
4966850 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
4966874 TGAACGAGGA
Statistics
Matches: 1001, Mismatches: 19, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
39 35 0.03
40 958 0.96
41 8 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:4977299 original size:40 final size:40
Alignment explanation
Indices: 4977205--4977312 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
4977195 CTTGTATGGG
* * *
4977205 ATTTGCACTTCGGTGCCCCTGTATACACTTTGGTGTCTCT
1 ATTTGCACTTCGGTGCCCCTGTTTGCACTTTGGTGCCTCT
** *
4977245 ATTCCCACTACGGTGCCCCTGTTTGCACATTT-GTGCCTCT
1 ATTTGCACTTCGGTGCCCCTGTTTGCAC-TTTGGTGCCTCT
*
4977285 GTTTGCACTTCGGTGCCCCTGTTATGCA
1 ATTTGCACTTCGGTGCCCCTGTT-TGCA
4977313 TCTATGATGC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
40 49 0.88
41 7 0.12
ACGTcount: A:0.12, C:0.31, G:0.20, T:0.37
Consensus pattern (40 bp):
ATTTGCACTTCGGTGCCCCTGTTTGCACTTTGGTGCCTCT
Found at i:4977300 original size:20 final size:20
Alignment explanation
Indices: 4977206--4977312 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
4977196 TTGTATGGGA
4977206 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * * * *
4977226 TATACACTTTGGTGTCTCTA
1 TTTGCACTTCGGTGCCCCTG
** *
4977246 TTCCCACTACGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* *
4977266 TTTGCACATT-TGTGCCTCTG
1 TTTGCAC-TTCGGTGCCCCTG
4977286 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
4977306 TTATGCA
1 TT-TGCA
4977313 TCTATGATGC
Statistics
Matches: 63, Mismatches: 21, Indels: 5
0.71 0.24 0.06
Matches are distributed among these distances:
19 2 0.03
20 56 0.89
21 5 0.08
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.37
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:4980772 original size:17 final size:18
Alignment explanation
Indices: 4980737--4980772 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4980727 TCGTTCTTAT
4980737 TGTTTAATCTATCAAACA
1 TGTTTAATCTATCAAACA
*
4980755 TGTTTCATCTAT-AAACA
1 TGTTTAATCTATCAAACA
4980772 T
1 T
4980773 TGGCTGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (18 bp):
TGTTTAATCTATCAAACA
Found at i:4987709 original size:35 final size:34
Alignment explanation
Indices: 4987645--4987723 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
4987635 CCATTTTCTA
*
4987645 AATAAAATAATAATAACTATCTAAGTAAAATATT
1 AATAAAATAATAATAACTATCTAAGTAAAAAATT
* *
4987679 AATAAAATAATATTTAACTAAT-TAATTAAAAAATT
1 AATAAAATAATA-ATAACT-ATCTAAGTAAAAAATT
*
4987714 ACAAAAAATA
1 A-ATAAAATA
4987724 TCATCAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 12 0.32
35 17 0.45
36 9 0.24
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (34 bp):
AATAAAATAATAATAACTATCTAAGTAAAAAATT
Found at i:4996232 original size:24 final size:23
Alignment explanation
Indices: 4996205--4996253 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
4996195 TTAAAACTAC
4996205 TTCTAA-AGAAAACTCAAGAGAGAA
1 TTCTAAGAG-AAACTCAA-AGAGAA
**
4996229 TTCTTGGAGAAACTCAAAGAGAA
1 TTCTAAGAGAAACTCAAAGAGAA
4996252 TT
1 TT
4996254 TTCACTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 12 0.55
25 2 0.09
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (23 bp):
TTCTAAGAGAAACTCAAAGAGAA
Found at i:5010904 original size:26 final size:25
Alignment explanation
Indices: 5010854--5010924 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
5010844 TGACATATTG
5010854 AATTTTACCGGGGTAAAATCATCAA
1 AATTTTACCGGGGTAAAATCATCAA
* **
5010879 AATTTTATCGGAGGTAAAATTGTCAAA
1 AATTTTACCGG-GGTAAAATCATC-AA
* *
5010906 AAATTTACTGGGGTAAAAT
1 AATTTTACCGGGGTAAAAT
5010925 TAGAATGAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.26
26 18 0.47
27 10 0.26
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (25 bp):
AATTTTACCGGGGTAAAATCATCAA
Found at i:5011755 original size:24 final size:23
Alignment explanation
Indices: 5011728--5011792 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 23
5011718 ATATAATGAT
5011728 TAAAATAATTTATAATATCACTAA
1 TAAAATAATTTATAATATCA-TAA
* *
5011752 TAAAGTTCAATTTATACA-A-CATTA
1 TAAA-AT-AATTTATA-ATATCATAA
5011776 TAAAATAATTT-TAATAT
1 TAAAATAATTTATAATAT
5011793 ATTTTAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 5 0.15
23 1 0.03
24 10 0.30
25 3 0.09
26 9 0.27
27 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAAATAATTTATAATATCATAA
Found at i:5013417 original size:5 final size:5
Alignment explanation
Indices: 5013409--5013440 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
5013399 TAAATATATG
5013409 TGATA TGATA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TG
5013441 GAATACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:5015803 original size:24 final size:23
Alignment explanation
Indices: 5015776--5015840 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 23
5015766 ATATAATGAT
5015776 TAAAATAATTTATAATATCACTAA
1 TAAAATAATTTATAATATCA-TAA
* *
5015800 TAAAGTTCAATTTATACA-A-CATTA
1 TAAA-AT-AATTTATA-ATATCATAA
5015824 TAAAATAATTT-TAATAT
1 TAAAATAATTTATAATAT
5015841 ATTTTAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 5 0.15
23 1 0.03
24 10 0.30
25 3 0.09
26 9 0.27
27 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAAATAATTTATAATATCATAA
Found at i:5017465 original size:5 final size:5
Alignment explanation
Indices: 5017457--5017488 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
5017447 TAAATATATG
5017457 TGATA TGATA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TG
5017489 GAATACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:5020998 original size:211 final size:211
Alignment explanation
Indices: 5020633--5021046 Score: 801
Period size: 211 Copynumber: 2.0 Consensus size: 211
5020623 TTGGTTGGTA
5020633 AAAGTACCAGGGAAGCCCCTTACTTAGGGGTGGATTGCAGTTTGGTCCCGCAATTGAAAAAAAAT
1 AAAGTACCAGGGAAGCCCCTTACTTAGGGGTGGATTGCAGTTTGGTCCCGCAATTGAAAAAAAAT
5020698 GGACAAATTAGCCCTTATATATTTTTAAACATGCAAATTAGTCTTTCTGTTAAATTTTCTGTTAA
66 GGACAAATTAGCCCTTATATATTTTTAAACATGCAAATTAGTCTTTCTGTTAAATTTTCTGTTAA
* *
5020763 ATGATGATGTGGACATGTTAAAAATTATTTTTTATGGCTAAGCTACAAAAATGTTTACACAACTA
131 ATGATGATGTGGACATGATAAAAATTATTTTTTATGGCTAAACTACAAAAATGTTTACACAACTA
5020828 TTCTTTTTTTGAATTT
196 TTCTTTTTTTGAATTT
*
5020844 AAAGTACCAGGGAAGTCCCTTACTTAGGGGTGGATTGCAGTTTGGTCCCGCAATTGAAAAAAAAT
1 AAAGTACCAGGGAAGCCCCTTACTTAGGGGTGGATTGCAGTTTGGTCCCGCAATTGAAAAAAAAT
5020909 GGACAAATTAGCCCTTATATATTTTTAAACATGCAAATTAGTCTTTCTGTTAAATTTTCTGTTAA
66 GGACAAATTAGCCCTTATATATTTTTAAACATGCAAATTAGTCTTTCTGTTAAATTTTCTGTTAA
5020974 ATGATGATGTGGACATGATAAAAATTATTTTTTATGGCTAAACTACAAAAATGTTTACACAACTA
131 ATGATGATGTGGACATGATAAAAATTATTTTTTATGGCTAAACTACAAAAATGTTTACACAACTA
5021039 TTCTTTTT
196 TTCTTTTT
5021047 GTTCTATTTT
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
211 200 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (211 bp):
AAAGTACCAGGGAAGCCCCTTACTTAGGGGTGGATTGCAGTTTGGTCCCGCAATTGAAAAAAAAT
GGACAAATTAGCCCTTATATATTTTTAAACATGCAAATTAGTCTTTCTGTTAAATTTTCTGTTAA
ATGATGATGTGGACATGATAAAAATTATTTTTTATGGCTAAACTACAAAAATGTTTACACAACTA
TTCTTTTTTTGAATTT
Found at i:5036588 original size:16 final size:16
Alignment explanation
Indices: 5036567--5036625 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
5036557 TATTATTAGT
5036567 ATAACC-TTTCTAATCA
1 ATAACCTTTTC-AATCA
*
5036583 ATAACCTTTTCAATCG
1 ATAACCTTTTCAATCA
* *
5036599 ATAACCTTTTCATTGA
1 ATAACCTTTTCAATCA
5036615 A-AACCTTTTCA
1 ATAACCTTTTCA
5036626 TCCTTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 10 0.26
16 24 0.63
17 4 0.11
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAACCTTTTCAATCA
Found at i:5036621 original size:15 final size:15
Alignment explanation
Indices: 5036585--5036627 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
5036575 TCTAATCAAT
*
5036585 AACCTTTTCAATCGAT
1 AACCTTTTC-ATCGAA
*
5036601 AACCTTTTCATTGAA
1 AACCTTTTCATCGAA
5036616 AACCTTTTCATC
1 AACCTTTTCATC
5036628 CTTTTTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.40
Consensus pattern (15 bp):
AACCTTTTCATCGAA
Found at i:5040915 original size:6 final size:6
Alignment explanation
Indices: 5040904--5040935 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5040894 GAAAATGAGT
5040904 GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GA
1 GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GA
5040936 TATGTGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:5048748 original size:259 final size:259
Alignment explanation
Indices: 5048289--5048808 Score: 1040
Period size: 259 Copynumber: 2.0 Consensus size: 259
5048279 ATGCTATAAA
5048289 CTTAAAATACTTGCATTCACTTATACCCAAATGATAATTTGATAGTGTGATAACATGTCCGGCGA
1 CTTAAAATACTTGCATTCACTTATACCCAAATGATAATTTGATAGTGTGATAACATGTCCGGCGA
5048354 TCTCCAAGCCTAGCTAGCTATATAAACCTATAAGATGAGAGAAAGCAAAAGGAATAAGCTATAAA
66 TCTCCAAGCCTAGCTAGCTATATAAACCTATAAGATGAGAGAAAGCAAAAGGAATAAGCTATAAA
5048419 GCTTAGTAAGTTAATATATAAATAATAAAAAATTTATTAATATGCTTTTATCAATCTTCACAATA
131 GCTTAGTAAGTTAATATATAAATAATAAAAAATTTATTAATATGCTTTTATCAATCTTCACAATA
5048484 TGTTCTCAAAATAATACAATCATAAAAGCACATAATTCCAATATTTACTCAAGTTCGTATCTAG
196 TGTTCTCAAAATAATACAATCATAAAAGCACATAATTCCAATATTTACTCAAGTTCGTATCTAG
5048548 CTTAAAATACTTGCATTCACTTATACCCAAATGATAATTTGATAGTGTGATAACATGTCCGGCGA
1 CTTAAAATACTTGCATTCACTTATACCCAAATGATAATTTGATAGTGTGATAACATGTCCGGCGA
5048613 TCTCCAAGCCTAGCTAGCTATATAAACCTATAAGATGAGAGAAAGCAAAAGGAATAAGCTATAAA
66 TCTCCAAGCCTAGCTAGCTATATAAACCTATAAGATGAGAGAAAGCAAAAGGAATAAGCTATAAA
5048678 GCTTAGTAAGTTAATATATAAATAATAAAAAATTTATTAATATGCTTTTATCAATCTTCACAATA
131 GCTTAGTAAGTTAATATATAAATAATAAAAAATTTATTAATATGCTTTTATCAATCTTCACAATA
5048743 TGTTCTCAAAATAATACAATCATAAAAGCACATAATTCCAATATTTACTCAAGTTCGTATCTAG
196 TGTTCTCAAAATAATACAATCATAAAAGCACATAATTCCAATATTTACTCAAGTTCGTATCTAG
5048807 CT
1 CT
5048809 GTCTACTCAA
Statistics
Matches: 261, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 261 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (259 bp):
CTTAAAATACTTGCATTCACTTATACCCAAATGATAATTTGATAGTGTGATAACATGTCCGGCGA
TCTCCAAGCCTAGCTAGCTATATAAACCTATAAGATGAGAGAAAGCAAAAGGAATAAGCTATAAA
GCTTAGTAAGTTAATATATAAATAATAAAAAATTTATTAATATGCTTTTATCAATCTTCACAATA
TGTTCTCAAAATAATACAATCATAAAAGCACATAATTCCAATATTTACTCAAGTTCGTATCTAG
Found at i:5049734 original size:51 final size:51
Alignment explanation
Indices: 5049655--5049842 Score: 175
Period size: 51 Copynumber: 3.7 Consensus size: 51
5049645 ATGCTATCTG
* * *
5049655 GTACACATAGTAGCCTACACTTAGTACTAAACATGTGACCACTA-CCATCCA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AAGCCATCCA
* * * ** * * *
5049706 GTACACGTAGTAGCCTGCACATAATACTACACACATGACGAAAGCTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAAGCCATCCA
* *
5049757 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAA-CTATCTTA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AAGCCATC-CA
* * * *
5049809 -TACTCATTGTAGCCTACACATAGTACTACACATG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATG
5049843 AGTTCTCATG
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
50 1 0.01
51 108 0.97
52 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (51 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAAGCCATCCA
Found at i:5049821 original size:102 final size:102
Alignment explanation
Indices: 5049647--5049840 Score: 266
Period size: 102 Copynumber: 1.9 Consensus size: 102
5049637 TATGATCAAT
*
5049647 GCTATCTGGTACACATAGTAGCCTACACTTAGTACTAAACATGTGACCACTACCATCCAGTACAC
1 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTAAACATGTGACCACTACCATCCAGTACAC
* *
5049712 GTAGTAGCCTGCACATAATACTACACACATGACGAAA
66 ATAGTAGCCTACACATAATACTACACACATGACGAAA
* * * *
5049749 GCTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-TAACTATCTTA-TAC
1 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTAAACATGTGACCACT-ACCATC-CAGTAC
* * *
5049812 TCATTGTAGCCTACACATAGTACTACACA
64 ACATAGTAGCCTACACATAATACTACACA
5049841 TGAGTTCTCA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 1 0.01
102 78 0.98
103 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (102 bp):
GCTATCCGGTACACATAGTAGCCTACACTTAGTACTAAACATGTGACCACTACCATCCAGTACAC
ATAGTAGCCTACACATAATACTACACACATGACGAAA
Found at i:5053585 original size:26 final size:26
Alignment explanation
Indices: 5053556--5053611 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
5053546 TGATATATGA
5053556 CTCTTCATGAGCTTCTCGATTAAAGG
1 CTCTTCATGAGCTTCTCGATTAAAGG
** *
5053582 CTCTTTGTGAGCTTCTCGATTAATGG
1 CTCTTCATGAGCTTCTCGATTAAAGG
5053608 CTCT
1 CTCT
5053612 CTAGAGATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (26 bp):
CTCTTCATGAGCTTCTCGATTAAAGG
Found at i:5053682 original size:25 final size:25
Alignment explanation
Indices: 5053662--5053721 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
5053652 ATTGGCTCGT
5053662 ATGAGCTTCCCGTTACATGGCTCAA
1 ATGAGCTTCCCGTTACATGGCTCAA
*
5053687 ATGAGCTTCCCGTTATATGGCTCACA
1 ATGAGCTTCCCGTTACATGGCTCA-A
5053713 A-GAGCTTCC
1 ATGAGCTTCC
5053722 TGTTTATGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGGCTCAA
Found at i:5060612 original size:337 final size:337
Alignment explanation
Indices: 5059997--5060670 Score: 1348
Period size: 337 Copynumber: 2.0 Consensus size: 337
5059987 ATTCAATTCT
5059997 AACGCACCCAGACATGAGGAAGAGGTTAGATGTCTTTGCTTTAAGTATATATGGCTTGGTTATTT
1 AACGCACCCAGACATGAGGAAGAGGTTAGATGTCTTTGCTTTAAGTATATATGGCTTGGTTATTT
5060062 TCCCCAAAGCCTTGGGGCATGTTGATGAAGTAGTCACCGATTTATTCGACCGACTTGATAAGAGG
66 TCCCCAAAGCCTTGGGGCATGTTGATGAAGTAGTCACCGATTTATTCGACCGACTTGATAAGAGG
5060127 GTTACACCAATTTCAACGATTTTGGCAGAAACTTTCAGGTCATTGAGTGCATGCCGGAAAGCGGG
131 GTTACACCAATTTCAACGATTTTGGCAGAAACTTTCAGGTCATTGAGTGCATGCCGGAAAGCGGG
5060192 AGAGGGTAGATTCATTGGATGTGCACAACTCCTACTCGCATGGTTTCACAGTCTCTTTTGGAAGG
196 AGAGGGTAGATTCATTGGATGTGCACAACTCCTACTCGCATGGTTTCACAGTCTCTTTTGGAAGG
5060257 TTGATAGGGTTTCGTACCGGGTTTTCTCCAAAAATTATTCGCCACTAAAGGAGATTGTAGCCACA
261 TTGATAGGGTTTCGTACCGGGTTTTCTCCAAAAATTATTCGCCACTAAAGGAGATTGTAGCCACA
5060322 CCAAGGAGAGAC
326 CCAAGGAGAGAC
5060334 AACGCACCCAGACATGAGGAAGAGGTTAGATGTCTTTGCTTTAAGTATATATGGCTTGGTTATTT
1 AACGCACCCAGACATGAGGAAGAGGTTAGATGTCTTTGCTTTAAGTATATATGGCTTGGTTATTT
5060399 TCCCCAAAGCCTTGGGGCATGTTGATGAAGTAGTCACCGATTTATTCGACCGACTTGATAAGAGG
66 TCCCCAAAGCCTTGGGGCATGTTGATGAAGTAGTCACCGATTTATTCGACCGACTTGATAAGAGG
5060464 GTTACACCAATTTCAACGATTTTGGCAGAAACTTTCAGGTCATTGAGTGCATGCCGGAAAGCGGG
131 GTTACACCAATTTCAACGATTTTGGCAGAAACTTTCAGGTCATTGAGTGCATGCCGGAAAGCGGG
5060529 AGAGGGTAGATTCATTGGATGTGCACAACTCCTACTCGCATGGTTTCACAGTCTCTTTTGGAAGG
196 AGAGGGTAGATTCATTGGATGTGCACAACTCCTACTCGCATGGTTTCACAGTCTCTTTTGGAAGG
5060594 TTGATAGGGTTTCGTACCGGGTTTTCTCCAAAAATTATTCGCCACTAAAGGAGATTGTAGCCACA
261 TTGATAGGGTTTCGTACCGGGTTTTCTCCAAAAATTATTCGCCACTAAAGGAGATTGTAGCCACA
5060659 CCAAGGAGAGAC
326 CCAAGGAGAGAC
5060671 GATATTTCAG
Statistics
Matches: 337, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
337 337 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (337 bp):
AACGCACCCAGACATGAGGAAGAGGTTAGATGTCTTTGCTTTAAGTATATATGGCTTGGTTATTT
TCCCCAAAGCCTTGGGGCATGTTGATGAAGTAGTCACCGATTTATTCGACCGACTTGATAAGAGG
GTTACACCAATTTCAACGATTTTGGCAGAAACTTTCAGGTCATTGAGTGCATGCCGGAAAGCGGG
AGAGGGTAGATTCATTGGATGTGCACAACTCCTACTCGCATGGTTTCACAGTCTCTTTTGGAAGG
TTGATAGGGTTTCGTACCGGGTTTTCTCCAAAAATTATTCGCCACTAAAGGAGATTGTAGCCACA
CCAAGGAGAGAC
Found at i:5064278 original size:6 final size:6
Alignment explanation
Indices: 5064262--5064306 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
5064252 TGATGATGGA
*
5064262 AAAAAG GAAAAG AAAAAG -AAAA- AAAAAG AAAAAG --AAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
5064306 A
1 A
5064307 GGAAAAGGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
4 4 0.12
5 8 0.24
6 21 0.64
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:5064289 original size:10 final size:10
Alignment explanation
Indices: 5064261--5064304 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
5064251 ATGATGATGG
*
5064261 AAAAAAGGAA
1 AAAAAAAGAA
5064271 AAGAAAAAGAA
1 AA-AAAAAGAA
5064282 AAAAAAAGAA
1 AAAAAAAGAA
*
5064292 AAAGAAAGAA
1 AAAAAAAGAA
5064302 AAA
1 AAA
5064305 GAGGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:5064290 original size:16 final size:16
Alignment explanation
Indices: 5064269--5064306 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
5064259 GGAAAAAAGG
5064269 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
*
5064285 AAAAGAAAAAGAAAGA
1 AAAAGAAAAAGAAAAA
5064301 AAAAGA
1 AAAAGA
5064307 GGAAAAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAA
Found at i:5064620 original size:35 final size:35
Alignment explanation
Indices: 5064574--5064644 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
5064564 TCTTTAGGAA
5064574 GTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGG
1 GTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGG
5064609 GTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGG
1 GTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGG
5064644 G
1 G
5064645 CGCCTAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.28
Consensus pattern (35 bp):
GTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGG
Found at i:5065674 original size:45 final size:45
Alignment explanation
Indices: 5065618--5065764 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 45
5065608 TCCCTGAATA
* *
5065618 GCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTG
1 GCAGTGAAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTG
* * * * * * * * ***
5065663 GCAGTGAAGTAGATCGCAGATACCAG-CCTTGTCTCCCAG-AGCA
1 GCAGTGAAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTG
* * * *
5065706 GCAGTGGAGTAGTTTGAAAATAGCAGATCTTGCCTTCCTATATTG
1 GCAGTGAAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTG
5065751 GCAGTGAAGTAGGT
1 GCAGTGAAGTAGGT
5065765 CGAAGATATC
Statistics
Matches: 71, Mismatches: 29, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 21 0.30
44 18 0.25
45 32 0.45
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (45 bp):
GCAGTGAAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTG
Found at i:5065715 original size:88 final size:88
Alignment explanation
Indices: 5065601--5065772 Score: 263
Period size: 88 Copynumber: 2.0 Consensus size: 88
5065591 GAAACTCCAA
* * * *
5065601 CCTTGTCTCCCTGAATAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCA
1 CCTTGTCTCCCAGAACAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTATATTGGCA
*
5065666 GTGAAGTAGATCGCAGATACCAG
66 GTGAAGTAGATCGAAGATACCAG
* * *
5065689 CCTTGTCTCCCAGAGCAGCAGTGGAGTAGTTTGAAAATAGCAGATCTTGCCTTCCTATATTGGCA
1 CCTTGTCTCCCAGAACAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTATATTGGCA
*
5065754 GTGAAGTAGGTCGAAGATA
66 GTGAAGTAGATCGAAGATA
5065773 TCAGTCTTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (88 bp):
CCTTGTCTCCCAGAACAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTATATTGGCA
GTGAAGTAGATCGAAGATACCAG
Found at i:5066299 original size:267 final size:266
Alignment explanation
Indices: 5065802--5066614 Score: 1261
Period size: 267 Copynumber: 3.0 Consensus size: 266
5065792 GTAGCAATGG
* * * *
5065802 AAAATATTGAAGCCACAACGGCGAATCTTATTTCCCTGGCGTTATAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
5065867 CGACGGTGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
66 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCTGATTGAAGCT
* *
5065932 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAGGCCGCAACTGCGAATTT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGAAGATTAAGGCCGCAA-TGCGAATCT
*
5065997 TACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATT
195 TACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCTCAACATT
*
5066062 GCAATTA
260 ACAATTA
* *
5066069 AAAAGATTGAAACCGCAACGGAGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
5066134 CAACGGTGAATCTTATCTCCCCGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCTGATTGAAGCT
66 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCTGATTGAAGCT
* * * *
5066199 ATGGGTAGCGAATCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAGGCCTCAATGACGAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGAAGATTAAGGCCGCAATG-CGAATCT
* *
5066264 TACTCCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACAACGGTGAATCTTGTTTCCTCAACATT
195 TACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCTCAACATT
5066329 ACAATTA
260 ACAATTA
* *
5066336 AAAATATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTTAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* * *
5066401 CGACAGCGAATCTTATCTCCTTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAG-TGGATTGAAGC
66 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCT-GATTGAAGC
* * *
5066465 TGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAA-GCCGCAACGGCGAAT
130 TGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGAAGATT-AAGGCCGCAA-TGCGAAT
* * * *
5066529 CTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCCAACA
193 CTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCTCAACA
*
5066594 TTTCAATTA
258 TTACAATTA
*
5066603 AAAAGACTGAAG
1 AAAAGATTGAAG
5066615 ATGGCGAATC
Statistics
Matches: 498, Mismatches: 44, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
266 3 0.01
267 492 0.99
268 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (266 bp):
AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCTGATTGAAGCT
GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGAAGATTAAGGCCGCAATGCGAATCTT
ACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCTCAACATTA
CAATTA
Found at i:5066689 original size:44 final size:45
Alignment explanation
Indices: 5066621--5066858 Score: 217
Period size: 44 Copynumber: 5.5 Consensus size: 45
5066611 GAAGATGGCG
5066621 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCA-AT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACAT
* * **
5066665 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACAT
* * * ** **
5066709 GATCTTATCTCTCTGAAGTTGCA-AAGAGCA-A--ATCG-CATC-T
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCA-CAT
* * *
5066749 AGTCTTATATCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACAT
* * * *
5066793 AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAATCCACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACAT
* *
5066837 GATCTTATCTCTCTGAAGTTAC
1 AATCTTATCTCCCTGAAGTTAC
5066859 TGTAGAGTAG
Statistics
Matches: 152, Mismatches: 32, Indels: 20
0.75 0.16 0.10
Matches are distributed among these distances:
39 2 0.01
40 21 0.14
41 5 0.03
42 2 0.01
43 4 0.03
44 114 0.75
45 4 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACAT
Found at i:5066851 original size:128 final size:129
Alignment explanation
Indices: 5066623--5066910 Score: 429
Period size: 128 Copynumber: 2.2 Consensus size: 129
5066613 AGATGGCGAA
* *
5066623 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
* * *
5066688 GTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGC-AAAGAGCAAATCGCATCTA-G
66 GTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACTAAAGAGCAAATCACATC-AGG
* *
5066751 TCTTATATCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
** * *
5066816 GTGGAGCAGATT-AAATCCACAGATCTTATCTCTCTGAAGTTACTGTAGAGTAGATCACATCAGG
66 GTGGAGCAGATTAAAAT-CACAGATCTTATCTCTCTGAAGTTACTAAAGAGCAAATCACATCAGG
*
5066880 TCTTATCTCCCTGAAATTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
5066911 CTCAAGAAAG
Statistics
Matches: 144, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
127 4 0.03
128 98 0.68
129 42 0.29
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
GTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACTAAAGAGCAAATCACATCAGG
Found at i:5068517 original size:27 final size:26
Alignment explanation
Indices: 5068473--5068529 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
5068463 TATAATTTTC
*
5068473 ATATGTAATTATTATTTTATCTATAT
1 ATATGTAATTATTATTTTATCTACAT
*
5068499 ATATGTATATTTATT-TTTTATGTACAT
1 ATATGTA-A-TTATTATTTTATCTACAT
5068526 ATAT
1 ATAT
5068530 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 7 0.26
27 15 0.56
28 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (26 bp):
ATATGTAATTATTATTTTATCTACAT
Found at i:5068642 original size:25 final size:29
Alignment explanation
Indices: 5068584--5068643 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
5068574 ACATATTTTT
*
5068584 TTATTTAATTAATTTTGATAATGTAGATA
1 TTATTTAATTAATTTTGATAATCTAGATA
*
5068613 TTATTTAATT-ATTTT-A-AATCTATATA
1 TTATTTAATTAATTTTGATAATCTAGATA
5068639 -TATTT
1 TTATTT
5068644 TATATGTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 8 0.28
27 1 0.03
28 5 0.17
29 10 0.34
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (29 bp):
TTATTTAATTAATTTTGATAATCTAGATA
Found at i:5068936 original size:27 final size:26
Alignment explanation
Indices: 5068892--5068948 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
5068882 TATAATTTTC
*
5068892 ATATGTAATTATTATTTTATCTATAT
1 ATATGTAATTATTATTTTATCTACAT
*
5068918 ATATGTATATTTATT-TTTTATGTACAT
1 ATATGTA-A-TTATTATTTTATCTACAT
5068945 ATAT
1 ATAT
5068949 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 7 0.26
27 15 0.56
28 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (26 bp):
ATATGTAATTATTATTTTATCTACAT
Found at i:5069061 original size:25 final size:29
Alignment explanation
Indices: 5069003--5069062 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
5068993 ACATATTTTT
*
5069003 TTATTTAATTAATTTTGATAATGTAGATA
1 TTATTTAATTAATTTTGATAATCTAGATA
*
5069032 TTATTTAATT-ATTTT-A-AATCTATATA
1 TTATTTAATTAATTTTGATAATCTAGATA
5069058 -TATTT
1 TTATTT
5069063 TATATGTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 8 0.28
27 1 0.03
28 5 0.17
29 10 0.34
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (29 bp):
TTATTTAATTAATTTTGATAATCTAGATA
Found at i:5069211 original size:419 final size:419
Alignment explanation
Indices: 5068433--5069273 Score: 1682
Period size: 419 Copynumber: 2.0 Consensus size: 419
5068423 AATTAGTTAA
5068433 TTTTAATAATGTAATTATTATTTTTATTTTTATAATTTTCATATGTAATTATTATTTTATCTATA
1 TTTTAATAATGTAATTATTATTTTTATTTTTATAATTTTCATATGTAATTATTATTTTATCTATA
5068498 TATATGTATATTTATTTTTTATGTACATATATATATTTTTTTCAAACTAATATTTTTCGCATATT
66 TATATGTATATTTATTTTTTATGTACATATATATATTTTTTTCAAACTAATATTTTTCGCATATT
5068563 TATATATATACACATATTTTTTTATTTAATTAATTTTGATAATGTAGATATTATTTAATTATTTT
131 TATATATATACACATATTTTTTTATTTAATTAATTTTGATAATGTAGATATTATTTAATTATTTT
5068628 AAATCTATATATATTTTATATGTACATGTATACATTTTTTAATGAATATTCTTTTATATTTATAT
196 AAATCTATATATATTTTATATGTACATGTATACATTTTTTAATGAATATTCTTTTATATTTATAT
5068693 ATATGCGTATATATCTATGTTTTTTTATTTATTTTCGAAAATGTTTAACTACCTACTTATATTTT
261 ATATGCGTATATATCTATGTTTTTTTATTTATTTTCGAAAATGTTTAACTACCTACTTATATTTT
5068758 TAACACATATTTTATAATTTATGTATATATGTATATGCTTATATTTTTTTCTTTGTTTTCATAAA
326 TAACACATATTTTATAATTTATGTATATATGTATATGCTTATATTTTTTTCTTTGTTTTCATAAA
5068823 TGTATTATGTATTATATATATATATAAGC
391 TGTATTATGTATTATATATATATATAAGC
5068852 TTTTAATAATGTAATTATTATTTTTATTTTTATAATTTTCATATGTAATTATTATTTTATCTATA
1 TTTTAATAATGTAATTATTATTTTTATTTTTATAATTTTCATATGTAATTATTATTTTATCTATA
5068917 TATATGTATATTTATTTTTTATGTACATATATATATTTTTTTCAAACTAATATTTTTCGCATATT
66 TATATGTATATTTATTTTTTATGTACATATATATATTTTTTTCAAACTAATATTTTTCGCATATT
5068982 TATATATATACACATATTTTTTTATTTAATTAATTTTGATAATGTAGATATTATTTAATTATTTT
131 TATATATATACACATATTTTTTTATTTAATTAATTTTGATAATGTAGATATTATTTAATTATTTT
5069047 AAATCTATATATATTTTATATGTACATGTATACATTTTTTAATGAATATTCTTTTATATTTATAT
196 AAATCTATATATATTTTATATGTACATGTATACATTTTTTAATGAATATTCTTTTATATTTATAT
5069112 ATATGCGTATATATCTATGTTTTTTTATTTATTTTCGAAAATGTTTAACTACCTACTTATATTTT
261 ATATGCGTATATATCTATGTTTTTTTATTTATTTTCGAAAATGTTTAACTACCTACTTATATTTT
5069177 TAACACATATTTTATAATTTATGTATATATGTATATGCTTATATTTTTTTCTTTGTTTTCATAAA
326 TAACACATATTTTATAATTTATGTATATATGTATATGCTTATATTTTTTTCTTTGTTTTCATAAA
5069242 TGTATTATGTATTATATATATATATAAGC
391 TGTATTATGTATTATATATATATATAAGC
5069271 TTT
1 TTT
5069274 ATAACCCAAA
Statistics
Matches: 422, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
419 422 1.00
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (419 bp):
TTTTAATAATGTAATTATTATTTTTATTTTTATAATTTTCATATGTAATTATTATTTTATCTATA
TATATGTATATTTATTTTTTATGTACATATATATATTTTTTTCAAACTAATATTTTTCGCATATT
TATATATATACACATATTTTTTTATTTAATTAATTTTGATAATGTAGATATTATTTAATTATTTT
AAATCTATATATATTTTATATGTACATGTATACATTTTTTAATGAATATTCTTTTATATTTATAT
ATATGCGTATATATCTATGTTTTTTTATTTATTTTCGAAAATGTTTAACTACCTACTTATATTTT
TAACACATATTTTATAATTTATGTATATATGTATATGCTTATATTTTTTTCTTTGTTTTCATAAA
TGTATTATGTATTATATATATATATAAGC
Found at i:5070355 original size:19 final size:19
Alignment explanation
Indices: 5070333--5070369 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5070323 AAATTATATA
*
5070333 AAATTTTAAAATATAAAAG
1 AAATTATAAAATATAAAAG
*
5070352 AAATTATAAACTATAAAA
1 AAATTATAAAATATAAAA
5070370 ATATATCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATTATAAAATATAAAAG
Found at i:5073818 original size:98 final size:98
Alignment explanation
Indices: 5073649--5073843 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
5073639 ATACAATAAA
*
5073649 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
5073714 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
* * *
5073747 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCGCACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
5073812 CCTTTAGAATCTCAAACTCAGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTT
5073844 CATGATTTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
Found at i:5075360 original size:19 final size:19
Alignment explanation
Indices: 5075336--5075448 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
5075326 AATCATATAT
5075336 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
5075355 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
5075374 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
5075393 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
5075414 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
5075433 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
5075449 CTAAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:5075424 original size:40 final size:40
Alignment explanation
Indices: 5075336--5075447 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
5075326 AATCATATAT
5075336 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
5075374 TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
5075414 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
5075448 CCTAAAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 27 0.40
40 41 0.60
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:5075429 original size:59 final size:56
Alignment explanation
Indices: 5075329--5075448 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 56
5075319 ATTACAAAAT
* *
5075329 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAATATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
** *
5075384 CATATCATATCTAAGATTGCATATATCATATCTTGGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
5075443 CATATC
1 CATATC
5075449 CTAAAAAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.04
57 11 0.20
59 38 0.68
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:5076025 original size:217 final size:217
Alignment explanation
Indices: 5075644--5076085 Score: 715
Period size: 217 Copynumber: 2.0 Consensus size: 217
5075634 TTAGTGGTTC
* *
5075644 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCCTCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTT
* * *
5075709 TAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGC
66 CAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGC
* * * *
5075774 GATCTGTTCTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTTA
131 AATCTGCTCTCTACAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCA
*
5075839 GGGAAACAGGATTGTCGGCTTT
196 GGGAAACAGGATTGTCGACTTT
* * *
5075861 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCATTCTGCCTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTT
5075926 CAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTC-AGGAAGATAAGACTAGATG
66 CAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAAGG-AGATAAGACTAGATG
*
5075990 CAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTC
130 CAATCTGCTCTCTACAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTC
* *
5076055 AGGGAGATAGGATTGTCGACTTT
195 AGGGAAACAGGATTGTCGACTTT
*
5076078 AATTTGCT
1 AATCTGCT
5076086 TCCCACTATC
Statistics
Matches: 207, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
216 3 0.01
217 204 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTT
CAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGC
AATCTGCTCTCTACAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCA
GGGAAACAGGATTGTCGACTTT
Found at i:5076062 original size:44 final size:42
Alignment explanation
Indices: 5075644--5076063 Score: 273
Period size: 44 Copynumber: 9.7 Consensus size: 42
5075634 TTAGTGGTTC
* *
5075644 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--AT-TTT
* * *
5075689 AGTCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTCCTT
1 AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATT--TT
* * * **
5075733 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGA-TGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTTT
* * * * *
5075774 GATCTG-TTCTCTACAACTTCAGAGAGATAAGATCTGTGATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTT
* * * * * * **
5075817 AATCCGCTCCACTGCAACTTTAGGGAAACAGGATTGTCGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T-GATTTT
* *
5075861 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--AT-TTT
* *
5075906 ATTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTT-ACTTACTT
1 AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGA-TT--TT
* * * **
5075950 AGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGA-TGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTTT
* *
5075991 AATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTATGATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTT
*
5076034 AATCCGCTCCACTGCAACTTCAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
5076064 GGATTGTCGA
Statistics
Matches: 288, Mismatches: 61, Indels: 53
0.72 0.15 0.13
Matches are distributed among these distances:
40 42 0.15
41 15 0.05
42 8 0.03
43 21 0.07
44 137 0.48
45 65 0.23
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTTT
Found at i:5076252 original size:132 final size:132
Alignment explanation
Indices: 5076082--5076953 Score: 1449
Period size: 132 Copynumber: 6.6 Consensus size: 132
5076072 GACTTTAATT
* * *
5076082 TGCTTCCCACTATCTTGGAAAGATATGATTTG-TCGTCTTCGATCTACTCCACTATTGCTTAGGG
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCT-GTCTTCGATCTGCTCCACTACTGCTTAGGG
* * *
5076146 AGATAAGATCTACAATCTTTAACCTACTCCGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCTTGA
65 AGATAAGATCTACAATCTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAA
5076211 ATC
130 ATC
5076214 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
*
5076279 GATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
66 GATAAGATCTACAATCTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
5076344 TC
131 TC
* *
5076346 TGCTGCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
* * *
5076411 GATAAGATCTATAATCTTTAACCTTTTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
66 GATAAGATCTACAATCTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
5076476 TC
131 TC
* *
5076478 TGCTTCCCACTATCTTGGAAAGATGAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
* * *
5076543 GATAAGATCTATAATCTTTAACCTTTTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
66 GATAAGATCTACAATCTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
5076608 TC
131 TC
* * * *
5076610 TGCTTCCCACTATCTTGGAAAGATGAGATTTGCCGTCTTCGATCTGCTCCACTATTTCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
* * * *
5076675 GATAAGATCTACAATTTTTAACTTTCTCCGCTACTACTCAGGGAGACAAGGCTTGGTGGCTTAAA
66 GATAAGATCTACAATCTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
5076740 TC
131 TC
*
5076742 TGCTTCCCACTATCTTGGAAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
* *
5076807 GATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
66 GATAAGATCTACAATCTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
5076872 TC
131 TC
* * *
5076874 TGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
5076939 GATAAGATCTACAAT
66 GATAAGATCTACAAT
5076954 TTTCACTGAT
Statistics
Matches: 700, Mismatches: 39, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
132 699 1.00
133 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (132 bp):
TGCTTCCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTACAATCTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
TC
Found at i:5078187 original size:5 final size:6
Alignment explanation
Indices: 5078166--5078209 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
5078156 TGGCCTCTCA
* *
5078166 TTTTAC TTTTTC TTTTTC TTTTTTCC TTTTTC CTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC -TTTTT-C TTTTTC TTTTTC TTTTTC
5078210 CTCTTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 22 0.67
7 10 0.30
8 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:5078194 original size:20 final size:19
Alignment explanation
Indices: 5078166--5078221 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
5078156 TGGCCTCTCA
*
5078166 TTTTACTTTTTCTTTTTCTT
1 TTTTCCTTTTTCTTTTTC-T
*
5078186 TTTTCCTTTTTCCTTTTCT
1 TTTTCCTTTTTCTTTTTCT
5078205 TTTTCCTCTTTT-TTTTT
1 TTTTCCT-TTTTCTTTTT
5078222 GAAATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCCTTTTTCTTTTTCT
Found at i:5078210 original size:12 final size:12
Alignment explanation
Indices: 5078173--5078220 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
5078163 TCATTTTACT
*
5078173 TTTTCTTTTTCTT
1 TTTTCTTTTTC-C
5078186 TTTTCCTTTTTCC
1 TTTT-CTTTTTCC
5078199 TTTTCTTTTTCC
1 TTTTCTTTTTCC
5078211 TCTTT-TTTTT
1 T-TTTCTTTTT
5078221 TGAAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.44
13 11 0.34
14 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTTCC
Found at i:5081167 original size:152 final size:152
Alignment explanation
Indices: 5080979--5081285 Score: 614
Period size: 152 Copynumber: 2.0 Consensus size: 152
5080969 CAAATTGACA
5080979 TTCCCAAACATGAAACAACTGTAAGCAGGATTCCAAAACTAGGTGAGGGCTTGAAACAAATGTTT
1 TTCCCAAACATGAAACAACTGTAAGCAGGATTCCAAAACTAGGTGAGGGCTTGAAACAAATGTTT
5081044 GTCTACCTTCTCATCAAGCAAATAAGGCTAGTCCCCATAATTGTCGTAAAATAACTGCCTAGCCT
66 GTCTACCTTCTCATCAAGCAAATAAGGCTAGTCCCCATAATTGTCGTAAAATAACTGCCTAGCCT
5081109 CATTATTCCATTGATTCCAAAT
131 CATTATTCCATTGATTCCAAAT
5081131 TTCCCAAACATGAAACAACTGTAAGCAGGATTCCAAAACTAGGTGAGGGCTTGAAACAAATGTTT
1 TTCCCAAACATGAAACAACTGTAAGCAGGATTCCAAAACTAGGTGAGGGCTTGAAACAAATGTTT
5081196 GTCTACCTTCTCATCAAGCAAATAAGGCTAGTCCCCATAATTGTCGTAAAATAACTGCCTAGCCT
66 GTCTACCTTCTCATCAAGCAAATAAGGCTAGTCCCCATAATTGTCGTAAAATAACTGCCTAGCCT
5081261 CATTATTCCATTGATTCCAAAT
131 CATTATTCCATTGATTCCAAAT
5081283 TTC
1 TTC
5081286 TTTCAACTCC
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 155 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (152 bp):
TTCCCAAACATGAAACAACTGTAAGCAGGATTCCAAAACTAGGTGAGGGCTTGAAACAAATGTTT
GTCTACCTTCTCATCAAGCAAATAAGGCTAGTCCCCATAATTGTCGTAAAATAACTGCCTAGCCT
CATTATTCCATTGATTCCAAAT
Found at i:5082630 original size:98 final size:98
Alignment explanation
Indices: 5082461--5082648 Score: 331
Period size: 98 Copynumber: 1.9 Consensus size: 98
5082451 ATACAATAAA
*
5082461 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
5082526 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* * *
5082559 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCATAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
5082624 CCTTTAGAATCTCAAACTCGGAATA
66 CCTTTAGAATCCCAAACTCGGAATA
5082649 CTTCTTTCAT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:5083366 original size:25 final size:26
Alignment explanation
Indices: 5083323--5083372 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
5083313 ATATAAATAT
5083323 GAAAATATTCATTAAAAAA-ATATAG
1 GAAAATATTCATTAAAAAATATATAG
* **
5083348 GAAAATATTCGTTTTAAAATATATA
1 GAAAATATTCATTAAAAAATATATA
5083373 TATACATGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (26 bp):
GAAAATATTCATTAAAAAATATATAG
Found at i:5084164 original size:19 final size:19
Alignment explanation
Indices: 5084140--5084252 Score: 154
Period size: 19 Copynumber: 5.8 Consensus size: 19
5084130 AATCATATAT
5084140 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
5084159 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
5084178 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
5084197 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
** *
5084218 TCTTGGATTACATATCATA
1 TCTAAGATTGCATATCATA
5084237 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
5084253 CTAAAAAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 64 0.80
21 16 0.20
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:5084227 original size:59 final size:56
Alignment explanation
Indices: 5084133--5084252 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
5084123 ATTACAAAAT
* *
5084133 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAATATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
**
5084188 CATATCATATCTAAGATTGCATATATCATATCTTGGATTACATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
5084247 CATATC
1 CATATC
5084253 CTAAAAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.04
57 11 0.19
59 39 0.68
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:5084232 original size:40 final size:40
Alignment explanation
Indices: 5084140--5084251 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
5084130 AATCATATAT
5084140 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
5084178 TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
** *
5084218 TCTTGGATTACATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
5084252 CCTAAAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
38 27 0.40
40 40 0.60
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:5086088 original size:11 final size:11
Alignment explanation
Indices: 5086072--5086097 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5086062 ATGATTTAAT
5086072 TTTTTATTTTA
1 TTTTTATTTTA
5086083 TTTTTATTTTA
1 TTTTTATTTTA
5086094 TTTT
1 TTTT
5086098 ATAATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:5090096 original size:39 final size:40
Alignment explanation
Indices: 5090051--5090235 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
5090041 GCTCCTCGTT
* * *
5090051 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
5090091 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
5090130 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
5090170 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
5090211 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
5090236 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:5090151 original size:40 final size:39
Alignment explanation
Indices: 5090018--5090235 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
5090008 AAATCACGTA
* * **
5090018 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
5090057 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
5090096 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
5090136 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
5090176 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
5090216 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
5090236 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:5100337 original size:27 final size:27
Alignment explanation
Indices: 5100298--5100466 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
5100288 NNNNNNNNNC
* * *
5100298 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
5100325 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
5100352 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
5100380 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
5100407 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
5100434 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
5100461 AGTGCT
1 AGTGCT
5100467 GTACAATTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:5100435 original size:82 final size:81
Alignment explanation
Indices: 5100310--5100465 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5100300 TGCTATATAA
* *
5100310 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
5100375 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
5100392 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
5100456 CACTTAGTGC
65 CACTTAGTGC
5100466 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:5103958 original size:29 final size:29
Alignment explanation
Indices: 5103892--5103956 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
5103882 TAAGATGTTC
*
5103892 GCCACAAAGGCGTCCTTAAACAGAGGTTT
1 GCCACAAAGGCGTCCTTAAACAAAGGTTT
*
5103921 GCCACAAAGGTGTCCTTAAACAAAGG-TT
1 GCCACAAAGGCGTCCTTAAACAAAGGTTT
5103949 GCCACAAA
1 GCCACAAA
5103957 AGCTTACCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (29 bp):
GCCACAAAGGCGTCCTTAAACAAAGGTTT
Found at i:5103966 original size:29 final size:29
Alignment explanation
Indices: 5103892--5103966 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
5103882 TAAGATGTTC
* * *
5103892 GCCACAAAGGCGTCCTTAAACAGAGGTTT
1 GCCACAAAAGCTTCCTTAAACAAAGGTTT
*
5103921 GCCAC-AAAGGTGTCCTTAAACAAAGG-TT
1 GCCACAAAAGCT-TCCTTAAACAAAGGTTT
5103949 GCCACAAAAGCTTACCTT
1 GCCACAAAAGCTT-CCTT
5103967 TCCAGATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 11 0.29
29 27 0.71
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (29 bp):
GCCACAAAAGCTTCCTTAAACAAAGGTTT
Found at i:5110708 original size:50 final size:50
Alignment explanation
Indices: 5110566--5110859 Score: 311
Period size: 50 Copynumber: 5.9 Consensus size: 50
5110556 GATAATAACA
* * * ** * * * *
5110566 TGCCAAAGCCATGTCCTAGATATGGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * * * ** * *
5110615 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * ** *
5110665 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
5110715 TGCCAACTCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
5110765 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
5110815 TGCCAACACCATGTCCCAGACATGGTCTTACATGTGAACTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
5110860 AATCTCAATG
Statistics
Matches: 205, Mismatches: 39, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 0.19
50 167 0.81
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:5110828 original size:150 final size:149
Alignment explanation
Indices: 5110574--5110845 Score: 348
Period size: 150 Copynumber: 1.8 Consensus size: 149
5110564 CATGCCAAAG
* ** * * * * * *
5110574 CCATGTCCTAGATATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCCAGATATG
1 CCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCCCAGACATG
** ** * **
5110639 GTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC
66 GTCTTACATGGGACCTCTCATATCAATGCCAACACCATGTCCCAGACATGGTCTTACGGGGGACC
5110704 TCTCATCTTAGTGCCAACT
131 TCTCATCTTAGTGCCAACT
* *
5110723 CCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCCATGTCTCAGACA
1 CCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAC--TGCCAACGCCATATCCCAGACA
*
5110787 TGGTCTTACATGGGACCTCTCATCTCAATGCCAACACCATGTCCCAGACATGGTCTTAC
64 TGGTCTTACATGGGACCTCTCATATCAATGCCAACACCATGTCCCAGACATGGTCTTAC
5110846 ATGTGAACTC
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
148 1 0.01
149 33 0.32
150 68 0.67
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (149 bp):
CCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCCCAGACATG
GTCTTACATGGGACCTCTCATATCAATGCCAACACCATGTCCCAGACATGGTCTTACGGGGGACC
TCTCATCTTAGTGCCAACT
Found at i:5133352 original size:28 final size:28
Alignment explanation
Indices: 5133321--5133389 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
5133311 GTTTTGCCGC
5133321 AAAGGCATCCTTAAATAGAG-GTTGCCAA
1 AAAGGCATCCTT-AATAGAGTGTTGCCAA
* ** * *
5133349 AAAGGCTTACCTTTTTAGAGTTTTGCCAC
1 AAAGGCAT-CCTTAATAGAGTGTTGCCAA
5133378 AAAGGCATCCTT
1 AAAGGCATCCTT
5133390 TACATTTAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (28 bp):
AAAGGCATCCTTAATAGAGTGTTGCCAA
Found at i:5133358 original size:57 final size:58
Alignment explanation
Indices: 5133279--5133389 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
5133269 ATGTTCCTTA
* *
5133279 AGAGGTTCGCCATAAAGGCTTACCTTTCCAAAGTTTTGCCGCAAAGGCATCCTTAAAT
1 AGAGGTTCGCCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCATCCTTAAAT
** *
5133337 AGAGGTT-GCCAAAAAGGCTTACCTTTTTAGAGTTTTGCCACAAAGGCATCCTT
1 AGAGGTTCGCCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCATCCTT
5133390 TACATTTAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 41 0.85
58 7 0.15
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (58 bp):
AGAGGTTCGCCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCATCCTTAAAT
Found at i:5133390 original size:28 final size:28
Alignment explanation
Indices: 5133310--5133391 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
5133300 ACCTTTCCAA
* *
5133310 AGTTTTGCCGCAAAGGCATCCTTAAATAG
1 AGTTTTGCCACAAAGGCATCCTT-TATAG
* * * *
5133339 AG-GTTGCCAAAAAGGCTTACCTTTTTAG
1 AGTTTTGCCACAAAGGCAT-CCTTTATAG
5133367 AGTTTTGCCACAAAGGCATCCTTTA
1 AGTTTTGCCACAAAGGCATCCTTTA
5133392 CATTTAGTAC
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (28 bp):
AGTTTTGCCACAAAGGCATCCTTTATAG
Found at i:5133665 original size:53 final size:53
Alignment explanation
Indices: 5133598--5133748 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
5133588 CAGTTACGAC
* * * *
5133598 CTTACACGATATGGTCTTCTTTCCATATGATGTCATAATCCA-CCATTAATAGT
1 CTTACACGATATGGTATTCTTTCCATATGATGTCATAACCCATCAATT-ACAGT
* * * * *
5133651 CTTAGACGATATGGTATTTTTTCCGTATGATGCCATAACCCATCAATTACGGT
1 CTTACACGATATGGTATTCTTTCCATATGATGTCATAACCCATCAATTACAGT
* *
5133704 CTTACACGATATGATATTCTGTCCATATGATGTCATAACCCATCA
1 CTTACACGATATGGTATTCTTTCCATATGATGTCATAACCCATCA
5133749 GCTACGATCT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 78 0.95
54 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (53 bp):
CTTACACGATATGGTATTCTTTCCATATGATGTCATAACCCATCAATTACAGT
Found at i:5140107 original size:29 final size:29
Alignment explanation
Indices: 5140065--5140532 Score: 317
Period size: 29 Copynumber: 16.1 Consensus size: 29
5140055 TATGCTAATA
5140065 ATGGTCGAAACCATCCCTTTTCATATTCG
1 ATGGTCGAAACCATCCCTTTTCATATTCG
**
5140094 ATGGTCGTCACCATCCCTTTTCATAGTT-G
1 ATGGTCGAAACCATCCCTTTTCATA-TTCG
* ** * *
5140123 ATAGTCGAAAATATCCTTTTTCATAATCG
1 ATGGTCGAAACCATCCCTTTTCATATTCG
* * * *
5140152 ATAGTCGAAACTATCTCTTTTCATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATATTCG
** *
5140181 ATGGTCGTCATCATCCCTTTTCATAGTT-G
1 ATGGTCGAAACCATCCCTTTTCATA-TTCG
* ** * *
5140210 ATGGCCGTCACCATCCCTTTCCATATTTG
1 ATGGTCGAAACCATCCCTTTTCATATTCG
* *
5140239 ATGGTTGAAACCATCCCTTTTCATTAATCG
1 ATGGTCGAAACCATCCCTTTTCA-TATTCG
** *
5140269 ATGGTCGTCATCATCCCTTTTCATAGTT-G
1 ATGGTCGAAACCATCCCTTTTCATA-TTCG
** *
5140298 ATGGTCGTCACCATCCCTTTTCATA-GCTG
1 ATGGTCGAAACCATCCCTTTTCATATTC-G
* *
5140327 ATGGTC-ATCACCATCCTTTTTCATAGTT-G
1 ATGGTCGA-AACCATCCCTTTTCATA-TTCG
* * * *
5140356 ATAGTCAAAACTATCCCTTTTCATAATCG
1 ATGGTCGAAACCATCCCTTTTCATATTCG
** * * *
5140385 ACAGTCGAAACTATCACTTTTCATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATATTCG
*
5140414 ATGGTC-ATCACCATCCCTTTTCATAGTT-G
1 ATGGTCGA-AACCATCCCTTTTCATA-TTCG
* ** * *
5140443 ATGGTTGTCATCTTCCCTTTTCATAGTT-G
1 ATGGTCGAAACCATCCCTTTTCATA-TTCG
* * *
5140472 -TAGTCGAAACTATCCCTTTTCATAATCG
1 ATGGTCGAAACCATCCCTTTTCATATTCG
* * *
5140500 ATGGACAAAACCATCCCTTTTCATTTTTCG
1 ATGGTCGAAACCATCCCTTTTCA-TATTCG
5140530 ATG
1 ATG
5140533 ATCATCGATA
Statistics
Matches: 347, Mismatches: 73, Indels: 37
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.00
28 23 0.07
29 287 0.83
30 36 0.10
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.38
Consensus pattern (29 bp):
ATGGTCGAAACCATCCCTTTTCATATTCG
Found at i:5140172 original size:58 final size:58
Alignment explanation
Indices: 5140065--5140523 Score: 399
Period size: 58 Copynumber: 7.9 Consensus size: 58
5140055 TATGCTAATA
* * *
5140065 ATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGACACTATCCCTTTTCATAGTTG
* ** * * * * *
5140123 ATAGTCGAAAATATCCTTTTTCATAATCGATAGTCGAAACTATCTCTTTTCATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGACACTATCCCTTTTCATAGTTG
** * * * * * * * *
5140181 ATGGTCGTCATCATCCCTTTTCATAGTTGATGGCCGTCACCATCCCTTTCCATATTTG
1 ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGACACTATCCCTTTTCATAGTTG
* *
5140239 ATGGTTGAAACCATCCCTTTTCATTAATCGATGGTCGTCA-TCATCCCTTTTCATAGTTG
1 ATGGTCGAAACCATCCCTTTTCA-TAATCGATGGTCGACACT-ATCCCTTTTCATAGTTG
** * * *
5140298 ATGGTCGTCACCATCCCTTTTCAT-AGCTGATGGTC-ATCACCATCCTTTTTCATAGTTG
1 ATGGTCGAAACCATCCCTTTTCATAATC-GATGGTCGA-CACTATCCCTTTTCATAGTTG
* * * ** * * *
5140356 ATAGTCAAAACTATCCCTTTTCATAATCGACAGTCGAAACTATCACTTTTCATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGACACTATCCCTTTTCATAGTTG
* * * * *
5140414 ATGGTC-ATCACCATCCCTTTTCATAGTTGATGGTTGTCATCT-TCCCTTTTCATAGTTG
1 ATGGTCGA-AACCATCCCTTTTCATAATCGATGGTCGACA-CTATCCCTTTTCATAGTTG
* * * * * *
5140472 -TAGTCGAAACTATCCCTTTTCATAATCGATGGACAAAACCATCCCTTTTCAT
1 ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGACACTATCCCTTTTCAT
5140524 TTTTCGATGA
Statistics
Matches: 309, Mismatches: 81, Indels: 23
0.75 0.20 0.06
Matches are distributed among these distances:
56 1 0.00
57 40 0.13
58 215 0.70
59 53 0.17
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (58 bp):
ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGACACTATCCCTTTTCATAGTTG
Found at i:5140249 original size:87 final size:87
Alignment explanation
Indices: 5140065--5140523 Score: 413
Period size: 87 Copynumber: 5.3 Consensus size: 87
5140055 TATGCTAATA
* * *
5140065 ATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATAGTCG
1 ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGTCATCATCCCTTTTCATAGTTGATGGTCG
** ** * *
5140130 AAAATATCCTTTTTCATAATCG
66 TCACCATCCCTTTTCATAATTG
* * * * *
5140152 ATAGTCGAAACTATCTCTTTTCATAGTCGATGGTCGTCATCATCCCTTTTCATAGTTGATGGCCG
1 ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGTCATCATCCCTTTTCATAGTTGATGGTCG
* *
5140217 TCACCATCCCTTTCCATATTTG
66 TCACCATCCCTTTTCATAATTG
*
5140239 ATGGTTGAAACCATCCCTTTTCATTAATCGATGGTCGTCATCATCCCTTTTCATAGTTGATGGTC
1 ATGGTCGAAACCATCCCTTTTCA-TAATCGATGGTCGTCATCATCCCTTTTCATAGTTGATGGTC
**
5140304 GTCACCATCCCTTTTCATAGCTG
65 GTCACCATCCCTTTTCATAATTG
* * * * * ** * * * **
5140327 ATGGTC-ATCACCATCCTTTTTCATAGTTGATAGTC-AAAACTATCCCTTTTCATAATCGACAGT
1 ATGGTCGA-AACCATCCCTTTTCATAATCGATGGTCGTCATC-ATCCCTTTTCATAGTTGATGGT
** * * * *
5140390 CGAAACTATCACTTTTCATAGTCG
64 CGTCACCATCCCTTTTCATAATTG
* * * * * *
5140414 ATGGTC-ATCACCATCCCTTTTCATAGTTGATGGTTGTCATCTTCCCTTTTCATAGTTG-TAGTC
1 ATGGTCGA-AACCATCCCTTTTCATAATCGATGGTCGTCATCATCCCTTTTCATAGTTGATGGTC
** * *
5140477 GAAACTATCCCTTTTCATAATCG
65 GTCACCATCCCTTTTCATAATTG
* *
5140500 ATGGACAAAACCATCCCTTTTCAT
1 ATGGTCGAAACCATCCCTTTTCAT
5140524 TTTTCGATGA
Statistics
Matches: 310, Mismatches: 57, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
86 47 0.15
87 184 0.59
88 79 0.25
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (87 bp):
ATGGTCGAAACCATCCCTTTTCATAATCGATGGTCGTCATCATCCCTTTTCATAGTTGATGGTCG
TCACCATCCCTTTTCATAATTG
Found at i:5145747 original size:24 final size:23
Alignment explanation
Indices: 5145715--5145761 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
5145705 TTGTAAAGAA
*
5145715 GAAGAAGAAGATGAAGCTTTTAGT
1 GAAGAAGAAAATGAAG-TTTTAGT
*
5145739 GAAGAAGAAAATGGAGTTTTAGT
1 GAAGAAGAAAATGAAGTTTTAGT
5145762 TAACCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.26
Consensus pattern (23 bp):
GAAGAAGAAAATGAAGTTTTAGT
Found at i:5145946 original size:27 final size:27
Alignment explanation
Indices: 5145909--5145976 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
5145899 AAAAATAAAA
5145909 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTT
*
5145936 ATTTACCAAAATATTATAATTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTT
*
5145963 ATTTATCAAAATAT
1 ATTTACCAAAATAT
5145977 ACCAAAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTACCAAAATATTATAACTTTTTTT
Done.