Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008653.1 Hibiscus syriacus cultivar Beakdansim tig00111644_pilon, whole genome shotgun sequence
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: 1778368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:15035 original size:31 final size:31
Alignment explanation
Indices: 14994--15153 Score: 232
Period size: 31 Copynumber: 5.1 Consensus size: 31
14984 ACTCGTTTAA
* *
14994 TAAACCGTCCATATGTCTCGAAGAACATAGG
1 TAAACTGTCCATATGTCCCGAAGAACATAGG
15025 TAAACTGTCCATATGTCCCGAAGAACATAGG
1 TAAACTGTCCATATGTCCCGAAGAACATAGG
*
15056 TAAATTGTCCATATGTCCCGAAGAACATAGG
1 TAAACTGTCCATATGTCCCGAAGAACATAGG
* *
15087 TAATCCTGTCTATATGTCCCGAAGAACATAGG
1 TAA-ACTGTCCATATGTCCCGAAGAACATAGG
*
15119 TAATCCTGTCCATATGTCCCGAA-AGACATAGG
1 TAA-ACTGTCCATATGTCCCGAAGA-ACATAGG
15151 TAA
1 TAA
15154 CCCTCGACTA
Statistics
Matches: 120, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
31 63 0.52
32 57 0.47
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (31 bp):
TAAACTGTCCATATGTCCCGAAGAACATAGG
Found at i:15107 original size:32 final size:32
Alignment explanation
Indices: 15000--15153 Score: 235
Period size: 32 Copynumber: 4.9 Consensus size: 32
14990 TTAATAAACC
* *
15000 GTCCATATGTCTCGAAGAACATAGGTAA-ACT
1 GTCCATATGTCCCGAAGAACATAGGTAATCCT
15031 GTCCATATGTCCCGAAGAACATAGGTAAAT--T
1 GTCCATATGTCCCGAAGAACATAGGT-AATCCT
15062 GTCCATATGTCCCGAAGAACATAGGTAATCCT
1 GTCCATATGTCCCGAAGAACATAGGTAATCCT
*
15094 GTCTATATGTCCCGAAGAACATAGGTAATCCT
1 GTCCATATGTCCCGAAGAACATAGGTAATCCT
15126 GTCCATATGTCCCGAA-AGACATAGGTAA
1 GTCCATATGTCCCGAAGA-ACATAGGTAA
15154 CCCTCGACTA
Statistics
Matches: 115, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
30 3 0.03
31 53 0.46
32 59 0.51
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (32 bp):
GTCCATATGTCCCGAAGAACATAGGTAATCCT
Found at i:30900 original size:31 final size:31
Alignment explanation
Indices: 30857--31016 Score: 227
Period size: 31 Copynumber: 5.1 Consensus size: 31
30847 ACTCGTTTAA
* *
30857 TAAACTGTCCATATGTCTCGAAGAACATAGG
1 TAAATTGTCCATATGTCCCGAAGAACATAGG
30888 TAAATTGTCCATATGTCCCGAAGAACATAGG
1 TAAATTGTCCATATGTCCCGAAGAACATAGG
30919 TAAATTGTCCATATGTCCCGAAGAACATAGG
1 TAAATTGTCCATATGTCCCGAAGAACATAGG
*
30950 T-AATCCTGTCTATATGTCCCGAAGAACATAGG
1 TAAAT--TGTCCATATGTCCCGAAGAACATAGG
30982 T-AATCATGTCCATATGTCCCGAA-AGACATAGG
1 TAAAT--TGTCCATATGTCCCGAAGA-ACATAGG
31014 TAA
1 TAA
31017 CCCTCGACTA
Statistics
Matches: 120, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
30 3 0.03
31 62 0.52
32 54 0.45
33 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (31 bp):
TAAATTGTCCATATGTCCCGAAGAACATAGG
Found at i:46133 original size:63 final size:63
Alignment explanation
Indices: 46066--46197 Score: 185
Period size: 63 Copynumber: 2.1 Consensus size: 63
46056 CGACCTCATG
* * * * *
46066 AGCTTATATTTTTTTTCT-AAAAAATGCGCACAAGTTACTTGATATATGATTCGAAAGCTCACA
1 AGCTTATA-TTTTTTTCTAAAAAAAGGCCCACAAGCTACTTGATATACGACTCGAAAGCTCACA
* *
46129 AGCTTATATTTTTTTCTAAAAAAAGGCCCACAAGCTACTTGATATCCGACTCGAAATCTCACA
1 AGCTTATATTTTTTTCTAAAAAAAGGCCCACAAGCTACTTGATATACGACTCGAAAGCTCACA
46192 AGCTTA
1 AGCTTA
46198 AAATTTCAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 9 0.15
63 52 0.85
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (63 bp):
AGCTTATATTTTTTTCTAAAAAAAGGCCCACAAGCTACTTGATATACGACTCGAAAGCTCACA
Found at i:51806 original size:33 final size:33
Alignment explanation
Indices: 51764--51828 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
51754 GATCCATAAG
51764 AAGACAATAGTATTTACAGCACTGAATTTCAAC
1 AAGACAATAGTATTTACAGCACTGAATTTCAAC
51797 AAGACAATAGTATTTACAGCACTGAATTTCAA
1 AAGACAATAGTATTTACAGCACTGAATTTCAA
51829 TAAAGGAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
AAGACAATAGTATTTACAGCACTGAATTTCAAC
Found at i:54985 original size:23 final size:23
Alignment explanation
Indices: 54938--54987 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
54928 AATAACATAT
**
54938 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
54961 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
54984 TAGG
1 TAGG
54988 CATTTAACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:55052 original size:22 final size:23
Alignment explanation
Indices: 55024--55084 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
55014 AATAACATAT
55024 TAGGTAGCGCTTATAT-ATGTAA
1 TAGGTAGCGCTTATATAATGTAA
55046 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
* *
55069 TAGATAACGCTTATAT
1 TAGGTAGCGCTTATAT
55085 TGACATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:55601 original size:200 final size:198
Alignment explanation
Indices: 55102--55804 Score: 834
Period size: 199 Copynumber: 3.5 Consensus size: 198
55092 TTTTATAAGT
* * * *
55102 AAACCGGTATATTTATACC-GTTAACATTGCAAATTTAGCTATTACATTATAATTATCGATTTCA
1 AAACTGGTATATTTATACCGGTT-ACATTGTAAATTTACCTATTACATTATAATTATCGATTTCG
* * * * * * *
55166 ATATTTTTTGGATCGATACAATTT--GAAATGTATCGACACTTTATGCGTGCTCATCGTTGGGCA
65 ATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCAC-CCGTTTGGCA
* * * * *
55229 TTCATTTTGGAAAAAAGTATCGACACAAACTTAAAAAGTGTTGATACATTAT-TTAGACCTATTT
128 TTCATTATGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGTT-GACCTATTT
55293 TCTCATA
192 TCTCATA
* * * *
55300 AAACTGGTATATTTCTATCAGG-TACATTGTAAATTTACCTATCACATTGTAATTATCGATTTCG
1 AAACTGGTATATTTATA-CCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCG
* *
55364 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACATTTTATGCATGCACCCGTTTGGCATT
65 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATT
* *
55429 CATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGCTGACCTATTTTC
130 CATTATGGACAAAA-GTATCGACACAAATTTAACAAGTGTCGATACATTATGTTGACCTATTTTC
55494 TCATA
194 TCATA
*
55499 AAACTGGTATATTTATACCCGGTTACATTGTAAATTTACATATTACATTATAATTATC-AGTTTC
1 AAACTGGTATATTTATA-CCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGA-TTTC
55563 GAT-TTTATTGGGATCGATA-TGTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGG
64 GATGTTT-TTGGGATCGATACT-TTTAATAAATGTATCGACACTTTATGCGTGCACC-CGTTT-G
* ** * * *
55626 GCATTCATTCTGGACAATAAGTATCGACACACAATTCCACAGGTGTCGATACATAATGTTGACAT
125 GCATTCATTATGGACAA-AAGTATCGACACA-AATTTAACAAGTGTCGATACATTATGTTGACCT
* *
55691 GTTTTCTAAT-
188 ATTTTCTCATA
* * * * * *
55701 TAACTGGCATATTTATACCGGTTACATTGTTAATTTACCTCTTACATTATAATTATTGGTTTCGA
1 AAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGA
55766 TGTTTTTTGGG-TCGATACTTTTAGA-AAATGTATCGACAC
66 TG-TTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
55805 ATTTTTAGGT
Statistics
Matches: 437, Mismatches: 49, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
197 3 0.01
198 90 0.21
199 98 0.22
200 85 0.19
201 72 0.16
202 50 0.11
203 39 0.09
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (198 bp):
AAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGA
TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATTC
ATTATGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGTTGACCTATTTTCTC
ATA
Found at i:58314 original size:19 final size:19
Alignment explanation
Indices: 58269--58317 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
58259 TTACATTCAC
58269 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
** *
58288 ATGTAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
58307 ATACAAAATTA
1 ATACAAAATTA
58318 ACCCTACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:60377 original size:200 final size:200
Alignment explanation
Indices: 59916--60883 Score: 1200
Period size: 200 Copynumber: 4.8 Consensus size: 200
59906 CGTGCTATTT
* * * *
59916 AAAAAGTATCGACACAAATT-TAAAAGTGTTGATACATTATGTTGACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * *
59980 GATATATTTATACCGATTACATTGTAAATTTACCTATTACGTTATAATTATCTGTTTCGATGTTT
66 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
* ** * * * * *
60045 TTGGGATCAATACAATTT-CAAATGTATCGAAACTTTATGCCTGCACCCCGTTTCGCATTCATTC
131 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCCGTTTGGCATTCATTC
60109 TGGAC
196 TGGAC
* * * * ** * *
60114 AAAATA-TACCGACA-AAAATCTAAAACGTTTCGATACATTATGTTCACTTATTTTCTCATAAAA
1 AAAA-AGTATCGACACAAATTCCAAAA-GTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
*
60177 CCGATATATTTATACCGGTTACATTGTAAATTTACTTATTACATTATAATTATCAGTTTCGATGT
64 CCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGT
*
60242 TTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCAT
129 TTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCCGTTTGGCATTCAT
*
60307 TTTGGAC
194 TCTGGAC
* * *
60314 AAAAAATATCGACACGAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* *
60379 GGTATAGTTT-TACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTT
66 GATATA-TTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTT
* ** * * **
60443 TCTATGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTC-ACCATTTTGGGCATTCAT
130 TTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCCGTTT-GGCATTCAT
60507 TCTGGAC
194 TCTGGAC
* *
60514 AAAAAGTATCGACACAAAATT-CAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAA-
1 AAAAAGTATCGACAC-AAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* ** * ** * * **
60577 CTAGTATATTTATACCAATTATATTACAAAATTACATATTACATTATAATTATGGGTTTCGATGT
65 CGA-TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGT
* *
60642 TTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGT-CCACCACGTTTGTCATTCA
129 TTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACC-CGTTTGGCATTCA
60706 TT-TGTGAC
193 TTCTG-GAC
* * * * * *
60714 AAAAAGTATCGGCACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACC
1 AAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * * * **
60779 GGTATATTTATACCGGATACATTGTAAATTTACCTACTATATTATAATTTTTGGTTTCGATGTTT
66 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
*
60844 TTGGGATTGATACTTTTTAAAAATGTATCGACACTTTATG
131 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
60884 GGAAACTTTA
Statistics
Matches: 667, Mismatches: 87, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
197 4 0.01
198 16 0.02
199 130 0.19
200 499 0.75
201 18 0.03
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCCGTTTGGCATTCATTC
TGGAC
Found at i:62203 original size:24 final size:24
Alignment explanation
Indices: 62176--62223 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
62166 TAGTGGAGCC
* *
62176 GAAATTTATATTGAAACTCAAATT
1 GAAATTTAAATTCAAACTCAAATT
*
62200 GAAATTTAAATTCAAACTCCAATT
1 GAAATTTAAATTCAAACTCAAATT
62224 ACATATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (24 bp):
GAAATTTAAATTCAAACTCAAATT
Found at i:63498 original size:6 final size:6
Alignment explanation
Indices: 63480--63529 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
63470 ACTTGTTTGA
* * * * *
63480 ATCATC ATAATC ATCATC ATCATC ATCTTC ATCGTC ATCTTC ATCTTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
63528 AT
1 AT
63530 TGACCTCTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (6 bp):
ATCATC
Found at i:63511 original size:18 final size:18
Alignment explanation
Indices: 63480--63529 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
63470 ACTTGTTTGA
**
63480 ATCATCATAATCATCATC
1 ATCATCATCTTCATCATC
*
63498 ATCATCATCTTCATCGTC
1 ATCATCATCTTCATCATC
*
63516 ATCTTCATCTTCAT
1 ATCATCATCTTCAT
63530 TGACCTCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:65483 original size:201 final size:200
Alignment explanation
Indices: 65138--65543 Score: 580
Period size: 201 Copynumber: 2.0 Consensus size: 200
65128 CTCTGGGATT
* * * * *
65138 GACACTTTATGGGTGTACCCTTTTGGGCATTCTTTCTGGACAAACAGTATCGACACAAATTCCAT
1 GACACTTTATGCGTGTACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAA
* * * * * *
65203 AAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATAGTTATACCATTTACATTG
66 AAGTGTCGATACATTATATAGACATATTCTCACATAAAACCAGTATAGTTATACCAGTTACATTA
* **
65268 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTTATAAA
131 CAAAAGTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATAC-TTTTTATAAA
65333 TGTATC
195 TGTATC
* *
65339 GACACTTTATGCGT-TCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACCAATTTCA
1 GACACTTTATGCGTGT-ACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCA
* * ** *
65403 AAAGTTTCGATACATTATATAGACATATTCTCACATAAAACCAGTATATTTATACTGGTTATATT
65 AAAGTGTCGATACATTATATAGACATATTCTCACATAAAACCAGTATAGTTATACCAGTTACATT
* *
65468 ACAAAAGTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGATACTTTTTATAAA
130 ACAAAAGTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAA
65533 TGTATC
195 TGTATC
65539 GACAC
1 GACAC
65544 ATCTGCTTAC
Statistics
Matches: 181, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
200 22 0.12
201 159 0.88
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (200 bp):
GACACTTTATGCGTGTACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAA
AAGTGTCGATACATTATATAGACATATTCTCACATAAAACCAGTATAGTTATACCAGTTACATTA
CAAAAGTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAAT
GTATC
Found at i:65921 original size:19 final size:18
Alignment explanation
Indices: 65899--65944 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
65889 ATTCACATAC
65899 AAAAATTATAAATCGTATA
1 AAAAATTATAAATCGTA-A
*
65918 AAAAATTATAAATCTTAA
1 AAAAATTATAAATCGTAA
65936 ACAAAATTA
1 A-AAAATTA
65945 ACCCTACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAATTATAAATCGTAA
Found at i:66829 original size:21 final size:18
Alignment explanation
Indices: 66791--66847 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
66781 TCCTCATCAT
*
66791 TTCCTCTATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
66809 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
66827 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
66845 TTC
1 TTC
66848 ATATTTTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.05, C:0.37, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:67216 original size:15 final size:15
Alignment explanation
Indices: 67196--67226 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67186 TCTGTTTTCT
67196 CTCACCATCATCCCC
1 CTCACCATCATCCCC
*
67211 CTCACCGTCATCCCC
1 CTCACCATCATCCCC
67226 C
1 C
67227 CAATACAACC
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:0.16, C:0.61, G:0.03, T:0.19
Consensus pattern (15 bp):
CTCACCATCATCCCC
Found at i:69846 original size:182 final size:182
Alignment explanation
Indices: 69522--70195 Score: 1023
Period size: 182 Copynumber: 3.7 Consensus size: 182
69512 TACGCATACT
* * * * *
69522 TATTAAAGTATCTACACTTTCAATATATCCGGTAG-TGCTTTACCGGTTTTGTCATTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCT-CTATACCGGTTTTGTCCTTTAGAGACC
* * * * * *
69586 AGTTTTGTTATATTTTTATC-TGTTATATCGTTATGGATCGATATATTTTTATAAAGTATTGACA
65 GGTTTTGTCATATTTTTA-CATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACA
* * *
69650 CTATATAAGCGCTAAAATTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
129 CTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
** *
69704 TATTAAAGTATCGACACTTTCAATATATTTGGTCGCTCTATACTGGTTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
*
69769 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATTGATACATTGTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
*
69834 TTATAGGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* *
69886 TATTAAAGTATCGACACTTTCAATGTATCCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCT
1 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
*
69951 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
70016 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* ** *
70068 TATTAAAGTATCGACACTTTCAATATATCTGGTACTGCT-T-TACCGGTTTTGTATTTTCGAGAC
1 TATTAAAGTATCGACACTTTCAATATATCCGGT-C-GCTCTATACCGGTTTTGTCCTTTAGAGAC
* * *
70131 CGGTTTTGTCATATTTTTACATGTTATATTGATGTGGATCGATACATTTTTATAAAGTATCGACA
64 CGGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACA
70196 TAAACCGACA
Statistics
Matches: 451, Mismatches: 37, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
181 1 0.00
182 444 0.98
183 3 0.01
184 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:71660 original size:17 final size:17
Alignment explanation
Indices: 71634--71667 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71624 CCTAGTAACT
*
71634 TAAATCCCTAAAGATGA
1 TAAATACCTAAAGATGA
71651 TAAATACCTAAAGATGA
1 TAAATACCTAAAGATGA
71668 CCTCTCAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
TAAATACCTAAAGATGA
Found at i:77686 original size:42 final size:42
Alignment explanation
Indices: 77627--77848 Score: 276
Period size: 42 Copynumber: 5.3 Consensus size: 42
77617 CGTTGCGATT
77627 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
77669 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
77711 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * * * *
77753 TTCGACTATCGCAATGAACTTGGACT--ATCGCAA--CGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * * * *
77791 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAGC
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAAC
77835 TTGGACTATCGCAA
1 TTGGACTATCGCAA
77849 TGCGAATATG
Statistics
Matches: 162, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
38 9 0.06
40 14 0.09
42 130 0.80
44 9 0.06
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:77782 original size:61 final size:62
Alignment explanation
Indices: 77697--77848 Score: 261
Period size: 61 Copynumber: 2.4 Consensus size: 62
77687 TTTGGAATAA
77697 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAAC-CGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
77760 ATCGCAA-TGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
77821 ATCGCAACGCGAGCTTGGACTATCGCAA
1 ATCGCAAC-CGAACTTGGACTATCGCAA
77849 TGCGAATATG
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
61 60 0.71
63 24 0.29
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (62 bp):
ATCGCAACCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:77853 original size:21 final size:21
Alignment explanation
Indices: 77627--77854 Score: 197
Period size: 21 Copynumber: 11.0 Consensus size: 21
77617 CGTTGCGATT
*
77627 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
77646 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
77669 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
77688 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
77711 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
77730 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
77753 TTCGACTATCGCAA--TGAAC
1 TTGGACTATCGCAACGCGAAC
*
77772 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
77791 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
77814 TTCGACTATCGCAACGCGAGC
1 TTGGACTATCGCAACGCGAAC
*
77835 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
77855 TATGTAAATC
Statistics
Matches: 169, Mismatches: 24, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
19 52 0.31
21 79 0.47
23 38 0.22
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:79086 original size:83 final size:83
Alignment explanation
Indices: 78975--79128 Score: 245
Period size: 83 Copynumber: 1.9 Consensus size: 83
78965 CTCTTCTGTG
* * * *
78975 AAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGTCCAAAGG
1 AAGGCTTACAAATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGG
79040 ACTTATCATCTTGCTCTA
66 ACTTATCATCTTGCTCTA
* * *
79058 AAGGCTTACAGATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
1 AAGGCTTACAAATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGG
79123 ACTTAT
66 ACTTAT
79129 AAATTGCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 64 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (83 bp):
AAGGCTTACAAATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGG
ACTTATCATCTTGCTCTA
Found at i:79119 original size:42 final size:42
Alignment explanation
Indices: 78990--79120 Score: 149
Period size: 42 Copynumber: 3.1 Consensus size: 42
78980 TTACAAATTA
*
78990 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGG
* * * * * * *
79032 TCC-AAAGGACTT-ATCATCTTGCTCTAAAGGCTTACAGATGA
1 CCCGAAA-GATTTAATCATCATGCTCGAAAGACTTACTGATGG
* *
79073 CCCGAAAGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
1 CCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGG
79115 CCCGAA
1 CCCGAA
79121 GGACTTATAA
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
41 32 0.46
42 37 0.54
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
CCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGG
Found at i:79699 original size:214 final size:213
Alignment explanation
Indices: 79027--80556 Score: 2367
Period size: 214 Copynumber: 7.2 Consensus size: 213
79017 AAGACTTACT
* * *
79027 GATGGTCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAAGATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* ** *
79092 ATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAAATTGCAAAATTTTGAAAATCACATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
* *
79157 TTAGCTTTCAAAAATTTCATCTTCTTAAAACATCATTTTCTATTTTCAAATTCATGTG-AAA-AT
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTC-ATTTTCAAATTCATGTGAAAACAT
*
79220 CCTACCCGAAGGTTTTATG
195 CCTACCCGAAGGTCTTATG
* * *
79239 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGTTTACGGATGACCCGAAGGATTTAAACATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* **
79304 ATGGTTAAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTG--ATTTTGAAAATCGCATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
*
79367 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTCTCATTTTCAAATTCATTTGAAAACA
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATC-TTTT-TCATTTTCAAATTCATGTGAAAACA
79432 TCCTACCCGAAGGTCTTATG
194 TCCTACCCGAAGGTCTTATG
* * * *
79452 GATGACCTGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCTAAGAATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
*
79517 ATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACT-AATTGTGAAATTTTGAAAATCGCATT
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA-TAAATTGTGAAATTTTGAAAATCGCATT
79581 CTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTTCATTTTCAAATTCATGTGAAAACA
130 CTTAGTTTTCAAAAATTTCATCTTCTTAAAACATC-TTTTTCATTTTCAAATTCATGTGAAAACA
*
79646 TCCTACCCAAAGGTCTTATG
194 TCCTACCCGAAGGTCTTATG
*
79666 GATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* * * *
79731 ATGCTCAAAAGTCTTACTAATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATTGCATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
79796 TTAGTTTTCAAAAATTTCATCTTCTT--AA-A--------A-TTTCAAATTCATGTGAAAACATC
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTCATTTTCAAATTCATGTGAAAACATC
*
79849 TTACCCGAAGGTCTTATG
196 CTACCCGAAGGTCTTATG
79867 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* *
79932 ATGCTCGAAAGACTTACTAATGGCACGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
* *
79997 CTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTTCAAATTCATATGAAAACAT
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATC-TTTTTCATTTTCAAATTCATGTGAAAACAT
*
80062 CCTACTCGAAGGTCTTATG
195 CCTACCCGAAGGTCTTATG
** *
80081 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAATAATTTATGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
** *
80146 ATGCTCGAAAGACTTACTGATGGCTTGAAGGACTTATAAATTGTGAAATTTTGAAAATCGTATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
** ***
80211 TTAGTTTTCAAAAAATTT-ATCTTCTTAAAATTTCAAATTCATTTTCAAATTCATGTGAAAACAT
131 TTAGTTTTC-AAAAATTTCATCTTCTTAAAACATCTTTTTCATTTTCAAATTCATGTGAAAACAT
80275 CCTACCCGAAGGTCTTATG
195 CCTACCCGAAGGTCTTATG
*
80294 GATGGCCCGAGGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* * *
80359 ATGCTCAAAAGACTTACTGATGGCCCGAATGACTTATAAATTGTGAAATTTTAAAAATCGCATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
*
80424 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTTTCACTTTCAAATTCATGTGAAAA
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATC----TTTTTCATTTTCAAATTCATGTGAAAA
80489 CATCCTACCCGAAGGTCTTATG
192 CATCCTACCCGAAGGTCTTATG
* *
80511 GATGGCCCGAAGGACTTATCATCTTTCTCTAAAGGCTTATAGATGA
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
80557 TTTGCTTCAC
Statistics
Matches: 1205, Mismatches: 86, Indels: 49
0.90 0.06 0.04
Matches are distributed among these distances:
201 189 0.16
202 1 0.00
203 2 0.00
204 1 0.00
210 50 0.04
211 20 0.02
212 113 0.09
213 306 0.25
214 371 0.31
215 64 0.05
217 88 0.07
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (213 bp):
GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTCATTTTCAAATTCATGTGAAAACATC
CTACCCGAAGGTCTTATG
Found at i:79720 original size:41 final size:42
Alignment explanation
Indices: 79666--79767 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
79656 AGGTCTTATG
* * *
79666 GATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTAC-A
1 GATGGCCCGAAGGACTTATCATCATGCTCAAAAGGCTTACTA
* * * *
79707 GATGACCCGAAGGATTTAAGCATCATGCTCAAAAGTCTTACTA
1 GATGGCCCGAAGGACTT-ATCATCATGCTCAAAAGGCTTACTA
79750 -ATGGCCCGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
79768 AAATTGTGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 15 0.31
42 33 0.67
43 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTATCATCATGCTCAAAAGGCTTACTA
Found at i:79917 original size:41 final size:42
Alignment explanation
Indices: 79867--79968 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
79857 AGGTCTTATG
* * *
79867 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTAC-A
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACTA
* * *
79908 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTA
1 GATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACTA
*
79951 -ATGGCACGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
79969 AAATTGTGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 16 0.33
42 32 0.65
43 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACTA
Found at i:79965 original size:415 final size:419
Alignment explanation
Indices: 79027--80556 Score: 2285
Period size: 415 Copynumber: 3.6 Consensus size: 419
79017 AAGACTTACT
* * *
79027 GATGGTCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAAGATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* ** *
79092 ATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAAATTGCAAAATTTTGAAAATCACATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
* *
79157 TTAGCTTTCAAAAATTTCATCTTCTTAAAACATC-ATTTTCTATTTTCAAATTCATGTG-AAA-A
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTTC-ATTTTCAAATTCATGTGAAAACA
* * *
79219 TCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGTTTACGGATG
195 TCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATG
* * * * *
79284 ACCCGAAGGATTTAAACATCATGGTTAAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTG
260 ACCCGAAGAATTTAAGCATCATGCTCAAAAGACTTACTAATGGCCCGAAGGACTTATAAATTGTG
*
79349 --ATTTTGAAAATCGCATTCTTAGTTTTC-AAAAATTTCATCTTC-TTAAAACATCATTTTCTCA
325 AAATTTTGAAAATCGCATTCTTAGTTTTCAAAAAATTT-ATCTTCATT----CA--A----AT-A
*
79410 TTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATG
378 TTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATG
* * * *
79452 GATGACCTGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCTAAGAATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
*
79517 ATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACT-AATTGTGAAATTTTGAAAATCGCATT
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA-TAAATTGTGAAATTTTGAAAATCGCATT
79581 CTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTTCATTTTCAAATTCATGTGAAAACA
130 CTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTTCATTTTCAAATTCATGTGAAAACA
* *
79646 TCCTACCCAAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATG
195 TCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATG
* *
79711 ACCCGAAGGATTTAAGCATCATGCTCAAAAGTCTTACTAATGGCCCGAAGGACTTATAAATTGTG
260 ACCCGAAGAATTTAAGCATCATGCTCAAAAGACTTACTAATGGCCCGAAGGACTTATAAATTGTG
*
79776 AAATTTTGAAAATTGCATTCTTAGTTTTC-AAAAATTTCATCTTC-TT-AAA-A-TTTCAAATTC
325 AAATTTTGAAAATCGCATTCTTAGTTTTCAAAAAATTT-ATCTTCATTCAAATATTTTCAAATTC
*
79836 ATGTGAAAACATCTTACCCGAAGGTCTTATG
389 ATGTGAAAACATCCTACCCGAAGGTCTTATG
79867 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* *
79932 ATGCTCGAAAGACTTACTAATGGCACGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
* * *
79997 CTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTCATTTTCAAATTCATATGAAAACAT
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTTCATTTTCAAATTCATGTGAAAACAT
*
80062 CCTACTCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
196 CCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
* * * * **
80127 CCCGAATAATTTATGCATCATGCTCGAAAGACTTACTGATGGCTTGAAGGACTTATAAATTGTGA
261 CCCGAAGAATTTAAGCATCATGCTCAAAAGACTTACTAATGGCCCGAAGGACTTATAAATTGTGA
*
80192 AATTTTGAAAATCGTATTCTTAGTTTTCAAAAAATTTATCTTCTTAAAATTTCAAATTCATTTTC
326 AATTTTGAAAATCGCATTCTTAGTTTTCAAAAAATTTATCTTC-----A-TTCAAA-T-ATTTTC
80257 AAATTCATGTGAAAACATCCTACCCGAAGGTCTTATG
383 AAATTCATGTGAAAACATCCTACCCGAAGGTCTTATG
*
80294 GATGGCCCGAGGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
1 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
* * *
80359 ATGCTCAAAAGACTTACTGATGGCCCGAATGACTTATAAATTGTGAAATTTTAAAAATCGCATTC
66 ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
*
80424 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTTTCACTTTCAAATTCATGTGAAAA
131 TTAGTTTTCAAAAATTTCATCTTCTTAAAACATC---TTTTTTCATTTTCAAATTCATGTGAAAA
* *
80489 CATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTTCTCTAAAGGCTTATAGA
193 CATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGA
80554 TGA
258 TGA
80557 TTTGCTTCAC
Statistics
Matches: 1019, Mismatches: 63, Indels: 41
0.91 0.06 0.04
Matches are distributed among these distances:
414 1 0.00
415 373 0.37
416 9 0.01
422 3 0.00
423 3 0.00
424 1 0.00
425 168 0.16
426 10 0.01
427 318 0.31
429 43 0.04
430 90 0.09
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (419 bp):
GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATC
ATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTC
TTAGTTTTCAAAAATTTCATCTTCTTAAAACATCTTTTTTCATTTTCAAATTCATGTGAAAACAT
CCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGA
CCCGAAGAATTTAAGCATCATGCTCAAAAGACTTACTAATGGCCCGAAGGACTTATAAATTGTGA
AATTTTGAAAATCGCATTCTTAGTTTTCAAAAAATTTATCTTCATTCAAATATTTTCAAATTCAT
GTGAAAACATCCTACCCGAAGGTCTTATG
Found at i:80596 original size:36 final size:36
Alignment explanation
Indices: 80540--80659 Score: 170
Period size: 36 Copynumber: 3.3 Consensus size: 36
80530 CATCTTTCTC
* *
80540 TAAAGGCTTATAGATGATTTGCTTCACTCCTCTTCGG
1 TAAAGGCTTA-AGATGATTTGCTTCACTACTCTCCGG
80577 TAAAGGCTTAAGATGATTTGCTTCACTACTCTCCGG
1 TAAAGGCTTAAGATGATTTGCTTCACTACTCTCCGG
* *
80613 TGAAGGCTTAAGAT-AGTTTACTTCACTACTCTCCGG
1 TAAAGGCTTAAGATGA-TTTGCTTCACTACTCTCCGG
*
80649 TGAAGGCTTAA
1 TAAAGGCTTAA
80660 AATTAACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
35 1 0.01
36 67 0.86
37 10 0.13
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (36 bp):
TAAAGGCTTAAGATGATTTGCTTCACTACTCTCCGG
Found at i:84481 original size:20 final size:21
Alignment explanation
Indices: 84437--84486 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
84427 ACCCCCCATT
84437 TGAAGTGGTCTTCTCGTCTTTA
1 TGAA-TGGTCTTCTCGTCTTTA
84459 TGAATGGTCTTCTCGTC-TTA
1 TGAATGGTCTTCTCGTCTTTA
84479 TGAATGGT
1 TGAATGGT
84487 ATTCCTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 11 0.39
21 13 0.46
22 4 0.14
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (21 bp):
TGAATGGTCTTCTCGTCTTTA
Found at i:90933 original size:22 final size:22
Alignment explanation
Indices: 90905--90958 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
90895 TGTATGAACA
90905 TATCGATACCATATAGAAGA-GG
1 TATCGATACCATAT-GAAGAGGG
**
90927 TATCGATACC-TATGTGGAGGG
1 TATCGATACCATATGAAGAGGG
90948 TATCGATACCA
1 TATCGATACCA
90959 GGGAACATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 15 0.54
22 10 0.36
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
TATCGATACCATATGAAGAGGG
Found at i:92055 original size:2 final size:2
Alignment explanation
Indices: 92038--92109 Score: 89
Period size: 2 Copynumber: 37.5 Consensus size: 2
92028 AGTTAATTAG
*
92038 TA TA TA CA TA TGA TA TA TA TA TA T- TA T- TA -A TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
92078 TA TA TA GA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92110 GACTATGAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
1 4 0.07
2 55 0.90
3 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:93694 original size:49 final size:49
Alignment explanation
Indices: 93606--93702 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
93596 TTCTAAACTC
* * *
93606 GAGTTGAGTGCGTACAATGGGGTTTAATTATCGGATCTAATTCAGATGA
1 GAGTTGAGTGCATACAAAGGGGTTTAATTATCAGATCTAATTCAGATGA
* *
93655 GAGTTGAGTGCATACAAAGGGGTTTAAATT-TTAGCTCTAATTCAGATG
1 GAGTTGAGTGCATACAAAGGGGTTT-AATTATCAGATCTAATTCAGATG
93703 GGCCAAAAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 38 0.90
50 4 0.10
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (49 bp):
GAGTTGAGTGCATACAAAGGGGTTTAATTATCAGATCTAATTCAGATGA
Found at i:99668 original size:32 final size:32
Alignment explanation
Indices: 99618--99690 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
99608 AATTTCTTGT
* *
99618 ATTAAATTTTATAAAATTACTA-TATAATGATA
1 ATTAAATTTTATAAAATTA-TAGTAAAATAATA
** *
99650 ATTAAATTTTATTCAATTATAGTAAAATAATT
1 ATTAAATTTTATAAAATTATAGTAAAATAATA
99682 ATTAAATTT
1 ATTAAATTT
99691 ATTATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTAAATTTTATAAAATTATAGTAAAATAATA
Found at i:105182 original size:2 final size:2
Alignment explanation
Indices: 105175--105207 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
105165 TAGATCAAAC
105175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105208 TGCAATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112905 original size:6 final size:6
Alignment explanation
Indices: 112894--112927 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
112884 TGTTCTCGTT
*
112894 TCACAC TCACAC TCGCAC TCACAC TCACAC TCAC
1 TCACAC TCACAC TCACAC TCACAC TCACAC TCAC
112928 TTTAATCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.29, C:0.50, G:0.03, T:0.18
Consensus pattern (6 bp):
TCACAC
Found at i:116997 original size:17 final size:18
Alignment explanation
Indices: 116970--117005 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
116960 ACATTTTTTC
116970 TATCCCTTAATTTACTTT
1 TATCCCTTAATTTACTTT
*
116988 TATCCC-TAATTTTCTTT
1 TATCCCTTAATTTACTTT
117005 T
1 T
117006 TTGGGGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.58
Consensus pattern (18 bp):
TATCCCTTAATTTACTTT
Found at i:117006 original size:18 final size:19
Alignment explanation
Indices: 116965--117006 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
116955 ATTCTACATT
116965 TTTTCTATCCCTTAATTTAC
1 TTTT-TATCCCTTAATTTAC
*
116985 -TTTTATCCC-TAATTTTC
1 TTTTTATCCCTTAATTTAC
117002 TTTTT
1 TTTTT
117007 TGGGGTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.35
18 10 0.50
19 3 0.15
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATCCCTTAATTTAC
Found at i:125419 original size:16 final size:16
Alignment explanation
Indices: 125398--125441 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
125388 TAATATATAA
125398 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
125414 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
125430 ACGAACATAAAC
1 ACGAACATAAAC
125442 ATTGGAGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:126552 original size:24 final size:24
Alignment explanation
Indices: 126516--126601 Score: 127
Period size: 24 Copynumber: 3.6 Consensus size: 24
126506 GATTGGGTTA
**
126516 AACATAAATGAACGAACATAAACG
1 AACATAACCGAACGAACATAAACG
**
126540 AACATAACCGAACGAACATAAATA
1 AACATAACCGAACGAACATAAACG
126564 AACATAACCGAACGAACATAAACG
1 AACATAACCGAACGAACATAAACG
*
126588 ATCATAACCGAACG
1 AACATAACCGAACG
126602 TTCACGAACG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.55, C:0.22, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAACCGAACGAACATAAACG
Found at i:126583 original size:14 final size:14
Alignment explanation
Indices: 126536--126584 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
126526 AACGAACATA
126536 AACGAACATAACCG
1 AACGAACATAACCG
126550 AACGAACATAA---
1 AACGAACATAACCG
126561 ATA--AACATAACCG
1 A-ACGAACATAACCG
126574 AACGAACATAA
1 AACGAACATAA
126585 ACGATCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
10 7 0.24
11 1 0.03
12 2 0.07
13 1 0.03
14 18 0.62
ACGTcount: A:0.57, C:0.22, G:0.10, T:0.10
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:127745 original size:14 final size:15
Alignment explanation
Indices: 127726--127792 Score: 59
Period size: 14 Copynumber: 4.6 Consensus size: 15
127716 GATACTCTCT
127726 CTCTCTCTCT-CCAG
1 CTCTCTCTCTGCCAG
* *
127740 CTCTCTCTCTGACAAT
1 CTCTCTCTCTG-CCAG
*
127756 CTCTCTCTCT-TCAG
1 CTCTCTCTCTGCCAG
* *
127770 CTTTCTCTCTGACA-
1 CTCTCTCTCTGCCAG
127784 CTCTCTCTC
1 CTCTCTCTC
127793 ATCGTTTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 28 0.67
15 2 0.05
16 12 0.29
ACGTcount: A:0.10, C:0.43, G:0.06, T:0.40
Consensus pattern (15 bp):
CTCTCTCTCTGCCAG
Found at i:127761 original size:30 final size:30
Alignment explanation
Indices: 127725--127792 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
127715 AGATACTCTC
127725 TCTCTCTCTCTCCAGCTCTCTCTCTGACAA
1 TCTCTCTCTCTCCAGCTCTCTCTCTGACAA
* * *
127755 TCTCTCTCTCTTCAGCTTTCTCTCTGACAC
1 TCTCTCTCTCTCCAGCTCTCTCTCTGACAA
127785 TCTCTCTC
1 TCTCTCTC
127793 ATCGTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.10, C:0.43, G:0.06, T:0.41
Consensus pattern (30 bp):
TCTCTCTCTCTCCAGCTCTCTCTCTGACAA
Found at i:131055 original size:40 final size:40
Alignment explanation
Indices: 131000--131081 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
130990 GTTCTAGCTG
131000 AGATGGGAGTGTCACTTGATGAAGCTCCCATAGTAACACC
1 AGATGGGAGTGTCACTTGATGAAGCTCCCATAGTAACACC
131040 AGATGGGAGTGTCACTTGATGAAGCTCCCATAGTAACACC
1 AGATGGGAGTGTCACTTGATGAAGCTCCCATAGTAACACC
131080 AG
1 AG
131082 CACTATTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (40 bp):
AGATGGGAGTGTCACTTGATGAAGCTCCCATAGTAACACC
Found at i:144453 original size:12 final size:13
Alignment explanation
Indices: 144424--144448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144414 AGACTATATC
144424 AAAATAAAAAATG
1 AAAATAAAAAATG
144437 AAAATAAAAAAT
1 AAAATAAAAAAT
144449 TAAATCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATG
Found at i:164482 original size:15 final size:15
Alignment explanation
Indices: 164462--164495 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
164452 TCGTGTGGTC
164462 TTTGTGGAATAAATT
1 TTTGTGGAATAAATT
164477 TTTGTGGAATAAATT
1 TTTGTGGAATAAATT
164492 TTTG
1 TTTG
164496 CAGTATTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (15 bp):
TTTGTGGAATAAATT
Found at i:168330 original size:1 final size:1
Alignment explanation
Indices: 168324--168349 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
168314 TTTGGGTTGG
168324 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
168350 GCGACTCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:170736 original size:19 final size:18
Alignment explanation
Indices: 170698--170733 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
170688 GGAAAAAATG
170698 TTATAAAAAATATTAAAA
1 TTATAAAAAATATTAAAA
170716 TTATAAAAGAAT-TTAAAA
1 TTATAAAA-AATATTAAAA
170734 ATTTTAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TTATAAAAAATATTAAAA
Found at i:179616 original size:330 final size:329
Alignment explanation
Indices: 179016--179672 Score: 1215
Period size: 330 Copynumber: 2.0 Consensus size: 329
179006 TCAAGGATCC
179016 AATGGCGTATCCGAATCAGCCGCTTTCCATGCATAGAAATCATCAGGCATCTCTCCATGTAGTAT
1 AATGGCGTATCCGAATCAGCCGCTTTCCATGCATAGAAATCATCAGGCATCTCTCCATGTAGTAT
*
179081 AAATAAAAAAATAACCCGAGCATAGACGAACTTTGTCTTCATTCAACAGTAATCTTGTCATCACC
66 AAATAAAAAAATAACCCGAGCATACACGAACTTTGTCTTCATTCAACAGTAATCTTGTCATCACC
* * * *
179146 CTGAAAGCTCCATTTTGTTTCCTTTTTGGAGCTTTGGATCGAGTTAGTAACGTAGCATTACTATC
131 CTGAAAGCTCCATTTTGTTTCCTTTTTGGAGATTCGGATCGAGTTAGTAACATAGAATTACTATC
*
179211 TTTGTTGCAAATATTCATTTCCATGTTTTGTTGCAAGATTAATACAGCTTTGCTTAAGCAGACGA
196 TTTGTTGCAAATATTCATTTCCATGTTTTGTTGCAAGATTAATACAGCTTTGCCTAAGCAGACGA
*
179276 AGGGAAATCTGAGGCTTAATGGAAGGGAAGTAGGCCGAAGCTCTGAAATCCAGATGCTCAAACAT
261 AGGGAAATCTGAGGCTTAATGGAAGGGAAGGAGGCCGAAGCTCTGAAATCCAGATGCTCAAACAT
179341 TTCG
326 TTCG
179345 AATGGCGTATCCGAATCAGCCGCTTTCCATGCATAGAAATCATCAGGCATCTCTCCATGTAGTAT
1 AATGGCGTATCCGAATCAGCCGCTTTCCATGCATAGAAATCATCAGGCATCTCTCCATGTAGTAT
*
179410 AAATAAAAAAAATAACCCGAGCATACACGAACTTTGTCTTCATTCAACCGTAATCTTGTCATCAC
66 AAAT-AAAAAAATAACCCGAGCATACACGAACTTTGTCTTCATTCAACAGTAATCTTGTCATCAC
*
179475 CCTGAAAGCTCCATTTTGTTTCCTTTTTGGAGATTCGGATCGAGTTAGTAACATGGAATTACTAT
130 CCTGAAAGCTCCATTTTGTTTCCTTTTTGGAGATTCGGATCGAGTTAGTAACATAGAATTACTAT
*
179540 CTTTGTTGCAAATATTCATTTCCATGTTTTGTTGTAAGATTAATACAGCTTTGCCTAAGCAGACG
195 CTTTGTTGCAAATATTCATTTCCATGTTTTGTTGCAAGATTAATACAGCTTTGCCTAAGCAGACG
179605 AAGGGAAATCTGAGGCTTAATGGAAGGGAAGGAGGCCGAAGCTCTGAAATCCAGATGCTCAAACA
260 AAGGGAAATCTGAGGCTTAATGGAAGGGAAGGAGGCCGAAGCTCTGAAATCCAGATGCTCAAACA
179670 TTT
325 TTT
179673 GGTGTTTACT
Statistics
Matches: 317, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
329 69 0.22
330 248 0.78
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (329 bp):
AATGGCGTATCCGAATCAGCCGCTTTCCATGCATAGAAATCATCAGGCATCTCTCCATGTAGTAT
AAATAAAAAAATAACCCGAGCATACACGAACTTTGTCTTCATTCAACAGTAATCTTGTCATCACC
CTGAAAGCTCCATTTTGTTTCCTTTTTGGAGATTCGGATCGAGTTAGTAACATAGAATTACTATC
TTTGTTGCAAATATTCATTTCCATGTTTTGTTGCAAGATTAATACAGCTTTGCCTAAGCAGACGA
AGGGAAATCTGAGGCTTAATGGAAGGGAAGGAGGCCGAAGCTCTGAAATCCAGATGCTCAAACAT
TTCG
Found at i:182968 original size:23 final size:22
Alignment explanation
Indices: 182942--182988 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
182932 ATAAAGTATA
*
182942 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAG-GCTTAT
**
182965 ATAATGTAATAGGTAGGCTTAT
1 ATAACATAATAGGTAGGCTTAT
182987 AT
1 AT
182989 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAACATAATAGGTAGGCTTAT
Found at i:183460 original size:20 final size:21
Alignment explanation
Indices: 183423--183462 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
183413 TTCCACAATG
*
183423 AAAAAAGTATGGACACTTTAT
1 AAAAAAGTATAGACACTTTAT
*
183444 AAAAAAG-ATAGATACTTTA
1 AAAAAAGTATAGACACTTTA
183463 CAACTACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (21 bp):
AAAAAAGTATAGACACTTTAT
Found at i:183495 original size:22 final size:23
Alignment explanation
Indices: 183467--183528 Score: 99
Period size: 22 Copynumber: 2.7 Consensus size: 23
183457 ACTTTACAAC
183467 TACCTATTACATTATATAA-CGA
1 TACCTATTACATTATATAAGCGA
*
183489 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAGCGA
*
183512 TACCTATTACATCATAT
1 TACCTATTACATTATAT
183529 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGA
Found at i:183976 original size:23 final size:23
Alignment explanation
Indices: 183946--184008 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
183936 ACTTTACAAC
183946 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
183969 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
183992 TACCTATTACATCATAT
1 TACCTATTACATTATAT
184009 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:184340 original size:959 final size:957
Alignment explanation
Indices: 183062--185195 Score: 3965
Period size: 959 Copynumber: 2.2 Consensus size: 957
183052 TTATAATATG
*
183062 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
183127 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
183192 CAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 C-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
183257 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATA
183322 TATCCTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
259 TATCCTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
183387 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACAC-TTTATAAAAAAG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAAG
*
183451 ATAGATACTTTACAACTACCTATTACATTATAT-AACGATACCTATTACATTATATAAGCGCTAC
389 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTAC
183515 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACA
454 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACA
183580 CTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCT
519 C-TTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCT
183645 ACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT-ATTTGATATTTTATAAAA
582 ACAATATTAATTTAATAATTTCATTTACAC-AAAAATTATTTGATTGATTTGATATTTTATAAAA
*
183709 TATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGT
646 TAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGT
* *
183774 TTATTGTTTTTAATTTAATAAT-ATATATATCGTAATGTAAAAAATAAATCATTAGACGCTTATA
711 TTATTG-TTTTAATTTAATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATA
*
183838 ATTACTAAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGA
774 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGA
183902 AAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAAC
839 AAAAAGTATGGACACTTTTATAAAAAGGATAGATAC-TTACAACTACCTATTACA-TATATAAAC
183967 GATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
902 GATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
184023 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
184088 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
184153 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
*
184218 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATA
*
184283 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 TCCTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* *
184348 AAAAGATAACCTTAAATTAATGTTTTCTACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAAGAT
184413 AGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCT
391 AGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCT
184478 ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACT
456 ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACT
184543 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
521 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
*
184608 TATTAATTTAATAATTTCATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATA
586 TATTAATTTAATAATTTCATTTACACAAAAATTATTTGATTGATTTGATATTTTATAAAATAATA
184673 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATT
651 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATT
184738 GTTTTAATTTAATAATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTA
716 GTTTTAATTTAATAATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTA
184803 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGT
781 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGT
184868 ATGGACACTTTTATAAAAAGGATAGATACTTACAACTACCTATTACATATATAAACGATACCTAT
846 ATGGACACTTTTATAAAAAGGATAGATACTTACAACTACCTATTACATATATAAACGATACCTAT
184933 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
911 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* **
184980 TTGAAAGTGTCCATACTTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
185045 TCAAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
185110 AAAAAATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
185174 AACCAAAGATAATAATAAATAT
196 AACCAAAGATAATAATAAATAT
185196 ATTTTTCACA
Statistics
Matches: 1147, Mismatches: 21, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
956 69 0.06
957 206 0.18
958 102 0.09
959 473 0.41
960 134 0.12
961 163 0.14
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (957 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATA
TCCTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAAGAT
AGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCT
ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACT
TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
TATTAATTTAATAATTTCATTTACACAAAAATTATTTGATTGATTTGATATTTTATAAAATAATA
TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATT
GTTTTAATTTAATAATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGT
ATGGACACTTTTATAAAAAGGATAGATACTTACAACTACCTATTACATATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:184461 original size:23 final size:23
Alignment explanation
Indices: 184431--184489 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
184421 TACAACTACC
184431 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
184454 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
184477 TATTACATCATAT
1 TATTACATTATAT
184490 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:184531 original size:481 final size:481
Alignment explanation
Indices: 183062--185195 Score: 3948
Period size: 480 Copynumber: 4.5 Consensus size: 481
183052 TTATAATATG
* *
183062 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* *
183127 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
183192 CAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 C-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* *
183257 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
183322 TATCCTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
259 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
183387 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACAC-TTTATAAAAAAG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
183451 ATAGATACTTTACAACTACCTATTACATTATAT-AACGATACCTATTACATTATATAAGCGCTAC
389 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
183515 CTATTACATCATATTTTTACCTATTATA
454 CTATTACATCATATTTTTACCTATTATA
183543 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
*
183608 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
183673 ACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
183737 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-ATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
183801 TATCGTAATGTAAAAAATAAATCATTAGACGCTTATAATTACTAAATTAATATCTTAAAACTCAC
259 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
183866 TC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
183930 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
389 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
183995 CTATTACATCATATTTTTACCTATTATA
454 CTATTACATCATATTTTTACCTATTATA
184023 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
184088 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
184153 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
184218 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
184283 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
184348 AAAAGATAACCTTAAATTAATGTTTTCTACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
184413 AGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCT
391 AGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
184478 ATTACATCATATTTTTACCTATTATA
456 ATTACATCATATTTTTACCTATTATA
184504 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
184569 TCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
184634 -AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
184698 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTG-TTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
184762 TCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
184826 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
184891 AGATAC-TTACAACTACCTATTACA-TATATAAACGATACCTATTACATTATATAAGCGCTACCT
391 AGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
184954 ATTACATCATATTTTTACCTATTATA
456 ATTACATCATATTTTTACCTATTATA
* ** *
184980 TTGAAAGTGTCCATACTTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
185045 TCAAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
185110 AAAAAATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
185174 AACCAAAGATAATAATAAATAT
196 AACCAAAGATAATAATAAATAT
185196 ATTTTTCACA
Statistics
Matches: 1614, Mismatches: 32, Indels: 19
0.97 0.02 0.01
Matches are distributed among these distances:
476 257 0.16
477 33 0.02
478 249 0.15
479 279 0.17
480 373 0.23
481 333 0.21
482 90 0.06
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (481 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
ATTACATCATATTTTTACCTATTATA
Found at i:184952 original size:23 final size:23
Alignment explanation
Indices: 184903--184965 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
184893 ATACTTACAA
184903 CTACCTATTACA-TATATAAACG
1 CTACCTATTACATTATATAAACG
* *
184925 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
184948 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
184966 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 11 0.31
23 25 0.69
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:185433 original size:229 final size:228
Alignment explanation
Indices: 184997--185477 Score: 883
Period size: 229 Copynumber: 2.1 Consensus size: 228
184987 TGTCCATACT
184997 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGT
185062 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
185127 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
131 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
185192 ATATATTTTTCACAGTGAAATAAGTATAAACAC
196 ATATATTTTTCACAGTGAAATAAGTATAAACAC
*
185225 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAG
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-ATTTTTTAATAG
*
185290 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATT
65 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT
185355 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
130 -TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
**
185420 AAATATA-TTTTCACAGTGAAATAAGTATGGACAC
194 AAATATATTTTTCACAGTGAAATAAGTATAAACAC
* *
185454 TTTTATAAAAAGGATAGATACTTT
1 TTTTATAAAAATGATATATACTTT
185478 ACAATATAAC
Statistics
Matches: 245, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
228 52 0.21
229 122 0.50
230 71 0.29
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (228 bp):
TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGT
GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
ATATATTTTTCACAGTGAAATAAGTATAAACAC
Found at i:187114 original size:38 final size:38
Alignment explanation
Indices: 187058--187131 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
187048 TGCCCCACTA
* *
187058 GGGCAACTAAGGTAACCTGAGTACAACTTAATATAGTT
1 GGGCAACTAAGATAACCTGAGTACAACTTAACATAGTT
* * *
187096 GGGCAACTAAGATCACCTGGGTACACCTTAACATAG
1 GGGCAACTAAGATAACCTGAGTACAACTTAACATAG
187132 CTGGACTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (38 bp):
GGGCAACTAAGATAACCTGAGTACAACTTAACATAGTT
Found at i:189702 original size:22 final size:22
Alignment explanation
Indices: 189674--189717 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
189664 ATTCTTTATA
189674 AAAAAGTGTGCTATTTTTCGAC
1 AAAAAGTGTGCTATTTTTCGAC
189696 AAAAAGTGTGCTATTTTTCGAC
1 AAAAAGTGTGCTATTTTTCGAC
189718 CACGATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (22 bp):
AAAAAGTGTGCTATTTTTCGAC
Found at i:191166 original size:16 final size:16
Alignment explanation
Indices: 191141--191171 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
191131 TTAGATTTCG
*
191141 GGTCGGGTCAATATCA
1 GGTCGAGTCAATATCA
191157 GGTCGAGTCAATATC
1 GGTCGAGTCAATATC
191172 GAATCAGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (16 bp):
GGTCGAGTCAATATCA
Found at i:203100 original size:20 final size:20
Alignment explanation
Indices: 203072--203234 Score: 117
Period size: 20 Copynumber: 8.2 Consensus size: 20
203062 CCAAATTCGT
203072 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
* *
203092 AACGTGAATTTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
*
203112 AACACAGAA---GTCAAATTCGC
1 AACGC-GAATCTGT-AAA-TCGC
* *
203132 AACGCGAATTTGTAAATCAC
1 AACGCGAATCTGTAAATCGC
*
203152 AACACAGAA---GTCAAATTCGC
1 AACGC-GAATCTGT-AAA-TCGC
* *
203172 AACGCG-AT-AGTCAAATTCGT
1 AACGCGAATCTGT-AAA-TCGC
203192 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
*
203212 AACGCGAATTTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
203232 AAC
1 AAC
203235 ACATAAGTCA
Statistics
Matches: 117, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.04
19 10 0.09
20 84 0.72
21 14 0.12
22 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
AACGCGAATCTGTAAATCGC
Found at i:203132 original size:40 final size:40
Alignment explanation
Indices: 203088--203258 Score: 190
Period size: 40 Copynumber: 4.3 Consensus size: 40
203078 AATCTGTAAA
*
203088 TCGCAACGTGAATTTGTAAATCGCAACACAGAAGTCAAAT
1 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
*
203128 TCGCAACGCGAATTTGTAAATCACAACACAGAAGTCAAAT
1 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
* * *
203168 TCGCAACGCG-A-TAGTCAAATTCGTAACGC-GAA-TCTGTAAA-
1 TCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGTC---AAAT
* *
203208 TCGCAACGCGAATTTGTAAATCGCAACACATAAGTCAAAA
1 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
*
203248 TCACAACGCGA
1 TCGCAACGCGA
203259 TAGTTAAATT
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
38 5 0.05
39 10 0.09
40 81 0.74
41 9 0.08
42 5 0.05
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (40 bp):
TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
Found at i:203146 original size:60 final size:60
Alignment explanation
Indices: 203063--203258 Score: 229
Period size: 60 Copynumber: 3.3 Consensus size: 60
203053 ATCCAGTTTC
* *
203063 CAAATTCGTAACGCGAATCTGTAAATCGCAACGTGAATTTGTAAATCGCAACACAGAAGT
1 CAAATTCGCAACGCGAATCTGTAAATCGCAACGAGAATTTGTAAATCGCAACACAGAAGT
* * * *
203123 CAAATTCGCAACGCGAATTTGTAAATCACAACACAGAA---GTCAAATTCGCAACGC-GATAGT
1 CAAATTCGCAACGCGAATCTGTAAATCGCAAC-GAGAATTTGT-AAA-TCGCAACACAGA-AGT
* * *
203183 CAAATTCGTAACGCGAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACATAAGT
1 CAAATTCGCAACGCGAATCTGTAAATCGCAACGAGAATTTGTAAATCGCAACACAGAAGT
* *
203243 CAAAATCACAACGCGA
1 CAAATTCGCAACGCGA
203259 TAGTTAAATT
Statistics
Matches: 112, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
58 2 0.02
59 8 0.07
60 93 0.83
61 7 0.06
62 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (60 bp):
CAAATTCGCAACGCGAATCTGTAAATCGCAACGAGAATTTGTAAATCGCAACACAGAAGT
Found at i:203326 original size:20 final size:19
Alignment explanation
Indices: 203264--203328 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
203254 CGCGATAGTT
203264 AAATTCGCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
*
203283 AAATTCACAACTGAATTTC
1 AAATTCGCAACTGAATTTC
*
203302 AAATTCGCAACTAGATTTTC
1 AAATTCGCAACT-GAATTTC
*
203322 GAATTCG
1 AAATTCG
203329 TAACACAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATTCGCAACTGAATTTC
Found at i:203434 original size:27 final size:27
Alignment explanation
Indices: 203403--203465 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
203393 CGCAGCAGCA
203403 GCAACTCATAACCTAAATCCCTAAATC
1 GCAACTCATAACCTAAATCCCTAAATC
203430 GCAACTCATAACCTAAATCCCTAAATC
1 GCAACTCATAACCTAAATCCCTAAATC
203457 GCAACTCAT
1 GCAACTCAT
203466 TTCATCTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.22
Consensus pattern (27 bp):
GCAACTCATAACCTAAATCCCTAAATC
Found at i:203569 original size:16 final size:15
Alignment explanation
Indices: 203534--203572 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
203524 TCCCCATCTC
*
203534 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
203549 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
203565 TAATTTTT
1 TAATTTTT
203573 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:204188 original size:12 final size:12
Alignment explanation
Indices: 204167--204200 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
204157 ACCACATTTC
*
204167 CAATACCAAACA
1 CAATATCAAACA
204179 CAATATCAAACA
1 CAATATCAAACA
*
204191 CAATCTCAAA
1 CAATATCAAA
204201 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:206639 original size:18 final size:18
Alignment explanation
Indices: 206616--206651 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
206606 AAGCAAAAGG
*
206616 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
206634 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
206652 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:207083 original size:14 final size:14
Alignment explanation
Indices: 207064--207113 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
207054 ATTTAAAACA
207064 ACAAATCAACTTTT
1 ACAAATCAACTTTT
**
207078 ACAAATCAA-TTAA
1 ACAAATCAACTTTT
207091 ACAAATCAACTTTT
1 ACAAATCAACTTTT
207105 ACAAATCAA
1 ACAAATCAA
207114 TTAAACAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:207096 original size:13 final size:14
Alignment explanation
Indices: 207063--207121 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
207053 AATTTAAAAC
*
207063 AACAAATCAACTTT
1 AACAAATCAACTTA
*
207077 TACAAATCAA-TTA
1 AACAAATCAACTTA
*
207090 AACAAATCAACTTT
1 AACAAATCAACTTA
*
207104 TACAAATCAA-TTA
1 AACAAATCAACTTA
207117 AACAA
1 AACAA
207122 GTAAAAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 17 0.46
14 20 0.54
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (14 bp):
AACAAATCAACTTA
Found at i:207100 original size:27 final size:27
Alignment explanation
Indices: 207063--207121 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
207053 AATTTAAAAC
207063 AACAAATCAACTTTTACAAATCAATTA
1 AACAAATCAACTTTTACAAATCAATTA
207090 AACAAATCAACTTTTACAAATCAATTA
1 AACAAATCAACTTTTACAAATCAATTA
207117 AACAA
1 AACAA
207122 GTAAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (27 bp):
AACAAATCAACTTTTACAAATCAATTA
Found at i:208627 original size:21 final size:21
Alignment explanation
Indices: 208603--208642 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
208593 TCGATGATGA
* *
208603 GAGGGGCCTTTTGAACGATAG
1 GAGGCGCCTCTTGAACGATAG
208624 GAGGCGCCTCTTGAACGAT
1 GAGGCGCCTCTTGAACGAT
208643 GATAGGTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (21 bp):
GAGGCGCCTCTTGAACGATAG
Found at i:208644 original size:42 final size:42
Alignment explanation
Indices: 208546--208653 Score: 96
Period size: 42 Copynumber: 2.6 Consensus size: 42
208536 GCGGGCGGGA
*
208546 CCTCTTGAACGATGACAGGGGCATATTGAACAGTGGGAGGGC
1 CCTCTTGAACGATGACAGGGGCATATTGAACAGTAGGAGGGC
* * * * *
208588 CCTTTTCG-ATGATGAGAGGGGCCTTTTGAAC-GATAGGA-GGC
1 CCTCTT-GAACGATGACAGGGGCATATTGAACAG-TAGGAGGGC
* *
208629 GCCTCTTGAACGATGATAGGTGCAT
1 -CCTCTTGAACGATGACAGGGGCAT
208654 CGGGCTTCTT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
41 5 0.10
42 45 0.88
43 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (42 bp):
CCTCTTGAACGATGACAGGGGCATATTGAACAGTAGGAGGGC
Found at i:209077 original size:21 final size:21
Alignment explanation
Indices: 209049--209098 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
209039 AACATTATCT
209049 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGTACCGACCTCA
* *
209070 TGACGTAAAGTATCGACCTCA
1 TCACGTAAAGTACCGACCTCA
209091 TCACGTAA
1 TCACGTAA
209099 CTCCCCTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGTACCGACCTCA
Found at i:210783 original size:20 final size:21
Alignment explanation
Indices: 210754--210802 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
210744 GTTTCAACAA
210754 TGCG-ATTTTCATTTTCGTGT
1 TGCGAATTTTCATTTTCGTGT
210774 TGC-AATTTTCATTTTCGTGT
1 TGCGAATTTTCATTTTCGTGT
210794 TGCGAATTT
1 TGCGAATTT
210803 AAGTTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.53
Consensus pattern (21 bp):
TGCGAATTTTCATTTTCGTGT
Found at i:210809 original size:20 final size:20
Alignment explanation
Indices: 210766--210809 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
210756 CGATTTTCAT
* *
210766 TTTCGTGTTGCAATTTTCAT
1 TTTCGTGTTGCAATTTTAAG
210786 TTTCGTGTTGCGAA-TTTAAG
1 TTTCGTGTTGC-AATTTTAAG
210806 TTTC
1 TTTC
210810 AAAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTTAAG
Found at i:211174 original size:22 final size:22
Alignment explanation
Indices: 211147--211194 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
211137 GGAGATAGAA
*
211147 GGATTTCGCCGGAGATGGGGAT
1 GGATTTCGCCGGAGATGGGGAC
*
211169 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGCCGGAGATGGGGAC
211191 GGAT
1 GGAT
211195 GTCACCGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.46, T:0.23
Consensus pattern (22 bp):
GGATTTCGCCGGAGATGGGGAC
Found at i:211331 original size:20 final size:20
Alignment explanation
Indices: 211306--211441 Score: 127
Period size: 20 Copynumber: 6.8 Consensus size: 20
211296 ATATTGTGTT
211306 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*
211326 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* *
211346 TTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*
211366 TCGCATTGCGAATTTGACTTA
1 TCGCGTTGCGAATTTGAC-TA
* * * *
211387 T-GTGTTGCGATTTATAAAT-
1 TCGCGTTGCGAATT-TGACTA
*
211406 TCGCGTTGCG-ATTT-ACAGA
1 TCGCGTTGCGAATTTGAC-TA
211425 TTCGCGTTGCGAATTTG
1 -TCGCGTTGCGAATTTG
211442 GAAAATCGCA
Statistics
Matches: 92, Mismatches: 16, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 3 0.03
20 78 0.85
21 9 0.10
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:211354 original size:40 final size:40
Alignment explanation
Indices: 211310--211396 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
211300 TGTGTTTCGC
* *
211310 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGCATTGCGAATTTGACTTATGT
211350 GTTGCGAATTTGACTATCGCATTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTATCGCATTGCGAATTTGACTTATGT
211390 GTTGCGA
1 GTTGCGA
211397 TTTATAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGCATTGCGAATTTGACTTATGT
Found at i:211476 original size:20 final size:20
Alignment explanation
Indices: 211390--211477 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
211380 TGACTTATGT
*
211390 GTTGCGATTTATAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
211410 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
** *
211430 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** * *
211451 AATGCGATTTACATATGCGC
1 GTTGCGATTTACAAATTCGC
211471 GTTGCGA
1 GTTGCGA
211478 AATTGGAAAT
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
20 38 0.73
21 14 0.27
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:211515 original size:20 final size:20
Alignment explanation
Indices: 211472--211537 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
211462 CATATGCGCG
* **
211472 TTGCGAAATTGGAAATTGGG
1 TTGCGAAATTGGAGATTGCA
*
211492 TTGCGAAATTGGAGTTTGCA
1 TTGCGAAATTGGAGATTGCA
* *
211512 TTGCG-AATTTGAGATCGCA
1 TTGCGAAATTGGAGATTGCA
211531 TTGCGAA
1 TTGCGAA
211538 TTTGTTGGTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.42
20 22 0.58
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (20 bp):
TTGCGAAATTGGAGATTGCA
Found at i:213664 original size:29 final size:29
Alignment explanation
Indices: 213630--213813 Score: 133
Period size: 29 Copynumber: 6.4 Consensus size: 29
213620 ATTTTTTTAA
* *
213630 AATTACAAAAATATCACCATTTTGAAATT
1 AATTACAAAAATATCACCATTTTCAAAAT
* * *
213659 AATTACCAAAATAACATCATTTTCAAAAT
1 AATTACAAAAATATCACCATTTTCAAAAT
** *
213688 AATTACTGAAATATCACTC-TTTTAAAAAT
1 AATTACAAAAATATCAC-CATTTTCAAAAT
* *** * *
213717 -TTTA-AAAAA-ATTGTCATTTTTAAAAA
1 AATTACAAAAATATCACCATTTTCAAAAT
* *
213743 AATTACAGAAATAGCACCATTTTCAAAAT
1 AATTACAAAAATATCACCATTTTCAAAAT
* * * * *
213772 AATTACCAAAATAGCACTATTTCCCAAAT
1 AATTACAAAAATATCACCATTTTCAAAAT
*
213801 AATTACCAAAATA
1 AATTACAAAAATA
213814 GCATTCGGTC
Statistics
Matches: 119, Mismatches: 31, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
25 1 0.01
26 10 0.08
27 6 0.05
28 7 0.06
29 94 0.79
30 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (29 bp):
AATTACAAAAATATCACCATTTTCAAAAT
Found at i:216386 original size:15 final size:15
Alignment explanation
Indices: 216366--216398 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
216356 ATATCTTTAA
216366 AGCAAAAACCACGGC
1 AGCAAAAACCACGGC
*
216381 AGCAAATACCACGGC
1 AGCAAAAACCACGGC
216396 AGC
1 AGC
216399 TAACTCCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.21, T:0.03
Consensus pattern (15 bp):
AGCAAAAACCACGGC
Found at i:220197 original size:108 final size:108
Alignment explanation
Indices: 220008--220205 Score: 369
Period size: 108 Copynumber: 1.8 Consensus size: 108
219998 ATCCAATCAC
*
220008 TCCAATCACCAAAATGTGTAGGTTCCCCATAACCATACACCCACCTGCACACCAGTAAGGACTTA
1 TCCAATCACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTA
*
220073 CCCTGAGCACAAAGCCGAAGAGCCTGCGGTACTAACTTTCCCA
66 CCCTAAGCACAAAGCCGAAGAGCCTGCGGTACTAACTTTCCCA
220116 TCCAATCACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTA
1 TCCAATCACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTA
*
220181 CCCTAAGCACAAAGCCGAGGAGCCT
66 CCCTAAGCACAAAGCCGAAGAGCCT
220206 AAAATACTTC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 87 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.17
Consensus pattern (108 bp):
TCCAATCACCAAAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTA
CCCTAAGCACAAAGCCGAAGAGCCTGCGGTACTAACTTTCCCA
Found at i:221195 original size:29 final size:29
Alignment explanation
Indices: 221144--221227 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
221134 CATATTTTTA
* * *
221144 AATTACGAAAATAGCACCCTTTTGAAAT-T
1 AATTACCAAAATATCACCATTTT-AAATAT
* *
221173 AATTACCAAAATATCATCATTTTCAATAT
1 AATTACCAAAATATCACCATTTTAAATAT
*
221202 AATTACTAAAATATCACTC-TTTTAAA
1 AATTACCAAAATATCAC-CATTTTAAA
221228 AAATTTACGA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 3 0.07
29 41 0.91
30 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.36
Consensus pattern (29 bp):
AATTACCAAAATATCACCATTTTAAATAT
Found at i:221285 original size:29 final size:30
Alignment explanation
Indices: 221266--221333 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
221256 AAAATTATGT
*
221266 AAATAGCACCATTT-TCAAAATAATTACCA
1 AAATAGCACCATTTCTCAAAAAAATTACCA
* *
221295 AAATAGCACTATTTCTC-AAATAATTACCA
1 AAATAGCACCATTTCTCAAAAAAATTACCA
*
221324 TAATAGCACC
1 AAATAGCACC
221334 CGATCAAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (30 bp):
AAATAGCACCATTTCTCAAAAAAATTACCA
Found at i:221360 original size:13 final size:13
Alignment explanation
Indices: 221342--221371 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
221332 CCCGATCAAA
221342 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
221355 GGTCAACGGGTTG
1 GGTCAACGGGTCG
221368 GGTC
1 GGTC
221372 GGAAACCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:222102 original size:2 final size:2
Alignment explanation
Indices: 222095--222141 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
222085 AAATTCCAAT
222095 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
222137 TA TA T
1 TA TA T
222142 TAAATTTCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:223225 original size:21 final size:21
Alignment explanation
Indices: 223196--223238 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
223186 AATATGTAAA
223196 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
223217 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
223238 T
1 T
223239 TGCAACGCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:223248 original size:21 final size:21
Alignment explanation
Indices: 223131--223248 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 21
223121 AAATGACCAA
**
223131 CAAATTCGCAACGCGA-ACTC
1 CAAATTCGCAACGCGATTTTC
* * *
223151 CAATTTCGCAAC-CCAGTTTC
1 CAAATTCGCAACGCGATTTTC
* * * *
223171 CAATTTCGCAACGCGAATATG
1 CAAATTCGCAACGCGATTTTC
* **
223192 TAAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
***
223212 CAAATTCGCGTTGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
*
223233 CAAATTTGCAACGCGA
1 CAAATTCGCAACGCGA
223249 ATATTTAAAT
Statistics
Matches: 74, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
19 2 0.03
20 39 0.53
21 33 0.45
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:223269 original size:20 final size:20
Alignment explanation
Indices: 223241--223286 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
223231 TCCAAATTTG
*
223241 CAACGCGAATATT-TAAATCA
1 CAACACGAAT-TTGTAAATCA
*
223261 CAACACGAATTTGTAAATCG
1 CAACACGAATTTGTAAATCA
223281 CAACAC
1 CAACAC
223287 AGAAGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (20 bp):
CAACACGAATTTGTAAATCA
Found at i:223377 original size:81 final size:81
Alignment explanation
Indices: 223292--223444 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
223282 AACACAGAAG
** * * *
223292 TCAAATTCGCAATGCGATAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGTGATAGTCAAA
1 TCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGCGATAGTCAAA
223357 TTCGCAATACTGAATT
66 TTCGCAATACTGAATT
* * * * * *
223373 TCAAATTCGTAACACAAAAGTCAAATTTGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAA
1 TCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGCGATAGTCAAA
223438 TTCGCAA
66 TTCGCAA
223445 CGCGAAAGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.24
Consensus pattern (81 bp):
TCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGCGATAGTCAAA
TTCGCAATACTGAATT
Found at i:223387 original size:101 final size:101
Alignment explanation
Indices: 223282--223464 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 101
223272 TGTAAATCGC
* * *
223282 AACACAGAAGTCAAATTCGCAATGCGATAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGT
1 AACACAAAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGC
*
223347 GATAGTCAAATTCGCAATACTGAATTTCAAATTCGT
66 GAAAGTCAAATTCGCAATACTGAATTTCAAATTCGT
* * * * *
223383 AACACAAAAGTCAAATTTGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGC
1 AACACAAAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGC
223448 GAAAGTCAAATTCGCAA
66 GAAAGTCAAATTCGCAA
223465 CGCGAAACAC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.21
Consensus pattern (101 bp):
AACACAAAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAATCAAATTCGCAACGC
GAAAGTCAAATTCGCAATACTGAATTTCAAATTCGT
Found at i:223471 original size:20 final size:20
Alignment explanation
Indices: 223289--223471 Score: 204
Period size: 20 Copynumber: 9.1 Consensus size: 20
223279 CGCAACACAG
*
223289 AAGTCAAATTCGCAATGCGA
1 AAGTCAAATTCGCAACGCGA
* * *
223309 TAGTCAAATTCGCAACACAA
1 AAGTCAAATTCGCAACGCGA
* *
223329 AAATCAAATTCGCAACGTGA
1 AAGTCAAATTCGCAACGCGA
* **
223349 TAGTCAAATTCGCAATACTGA
1 AAGTCAAATTCGCAACGC-GA
** * * *
223370 ATTTCAAATTCGTAACACAA
1 AAGTCAAATTCGCAACGCGA
*
223390 AAGTCAAATTTGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
*
223410 TAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
*
223430 TAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
223450 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
223470 AA
1 AA
223472 CACAATATTA
Statistics
Matches: 133, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
20 118 0.89
21 15 0.11
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:226260 original size:21 final size:21
Alignment explanation
Indices: 226211--226283 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
226201 ACCTATCATC
* *
226211 GTTCAAAAGGCTCCTCTCATCA
1 GTTCAAGAGGCCCCTCTCA-CA
226233 --TCGAAGAGGCCCCTCTCACA
1 GTTC-AAGAGGCCCCTCTCACA
* * **
226253 GTTCAAGAGGCCCATGTCATT
1 GTTCAAGAGGCCCCTCTCACA
226274 GTTCAAGAGG
1 GTTCAAGAGG
226284 TCCCACCCGC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.10
21 36 0.86
22 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (21 bp):
GTTCAAGAGGCCCCTCTCACA
Found at i:227864 original size:20 final size:20
Alignment explanation
Indices: 227838--227937 Score: 103
Period size: 20 Copynumber: 4.9 Consensus size: 20
227828 GTTGAGGGTA
227838 CAAATTCGCAACGCGAAAGGT
1 CAAATTCGCAACGCGAAA-GT
** * **
227859 -AAATTCGCATTGTGATTTTGT
1 CAAATTCGCAACGCGA--AAGT
*
227880 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
227900 CAAATTCACAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
227920 CAAATTCGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
227938 TAAGCGTTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
20 49 0.77
21 2 0.03
22 13 0.20
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:228032 original size:20 final size:20
Alignment explanation
Indices: 228004--228044 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
227994 CGGTTTGCGA
*
228004 TTTCGCGTTGCAAATTTGAC
1 TTTCACGTTGCAAATTTGAC
*
228024 TTTCACGTTGCGAATTTGAC
1 TTTCACGTTGCAAATTTGAC
228044 T
1 T
228045 ATCGCAACGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (20 bp):
TTTCACGTTGCAAATTTGAC
Found at i:230269 original size:20 final size:20
Alignment explanation
Indices: 230244--230283 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
230234 TTTTAGTTGA
230244 TAGCCATCTTCCACACATTT
1 TAGCCATCTTCCACACATTT
*
230264 TAGCCATGTTCCACACATTT
1 TAGCCATCTTCCACACATTT
230284 CGTATACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.07, T:0.35
Consensus pattern (20 bp):
TAGCCATCTTCCACACATTT
Found at i:230732 original size:24 final size:24
Alignment explanation
Indices: 230681--230732 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
230671 ATCTGAGTAT
** *
230681 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
230705 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
230729 TGAC
1 TGAC
230733 TAGTACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:230865 original size:12 final size:12
Alignment explanation
Indices: 230844--230877 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
230834 GGTTGTGAGT
*
230844 TTTGAGATTGTG
1 TTTGATATTGTG
230856 TTTGATATTGTG
1 TTTGATATTGTG
*
230868 TTTGTTATTG
1 TTTGATATTG
230878 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:231445 original size:20 final size:20
Alignment explanation
Indices: 231422--231478 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
231412 GTTGATAATT
231422 TGGGTTGCGAAATTGGAAAC
1 TGGGTTGCGAAATTGGAAAC
*
231442 TGGGTTGCGAAATTAGAAAC
1 TGGGTTGCGAAATTGGAAAC
*
231462 TGGGATGCGAAATTGGA
1 TGGGTTGCGAAATTGGA
231479 GTTCGTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.35, T:0.25
Consensus pattern (20 bp):
TGGGTTGCGAAATTGGAAAC
Found at i:235181 original size:16 final size:16
Alignment explanation
Indices: 235160--235190 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
235150 CGGGATCGAG
*
235160 AAAAATATTATTTTAA
1 AAAAATATTAATTTAA
235176 AAAAATATTAATTTA
1 AAAAATATTAATTTA
235191 TCAAGCATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAATATTAATTTAA
Found at i:240779 original size:2 final size:2
Alignment explanation
Indices: 240772--240813 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
240762 AGCATATTAC
240772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
240814 CATAAGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:240938 original size:2 final size:2
Alignment explanation
Indices: 240931--240956 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
240921 GGTAATAATA
240931 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
240957 CATAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:240961 original size:143 final size:143
Alignment explanation
Indices: 240788--241076 Score: 578
Period size: 143 Copynumber: 2.0 Consensus size: 143
240778 ATATATATAT
240788 ATATATATATATATATATATATATATCATAAGAAAATAATTGTTATGAGTAGAAGAATAAAATAT
1 ATATATATATATATATATATATATATCATAAGAAAATAATTGTTATGAGTAGAAGAATAAAATAT
240853 GGAATAAAACATGGAATGGTGGAAGGTTGAGCGGGTTTTTATTTAATGGGGAATGGAGAATTAGG
66 GGAATAAAACATGGAATGGTGGAAGGTTGAGCGGGTTTTTATTTAATGGGGAATGGAGAATTAGG
240918 TTAGGTAATAATA
131 TTAGGTAATAATA
240931 ATATATATATATATATATATATATATCATAAGAAAATAATTGTTATGAGTAGAAGAATAAAATAT
1 ATATATATATATATATATATATATATCATAAGAAAATAATTGTTATGAGTAGAAGAATAAAATAT
240996 GGAATAAAACATGGAATGGTGGAAGGTTGAGCGGGTTTTTATTTAATGGGGAATGGAGAATTAGG
66 GGAATAAAACATGGAATGGTGGAAGGTTGAGCGGGTTTTTATTTAATGGGGAATGGAGAATTAGG
241061 TTAGGTAATAATA
131 TTAGGTAATAATA
241074 ATA
1 ATA
241077 ATAATAATAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 146 1.00
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (143 bp):
ATATATATATATATATATATATATATCATAAGAAAATAATTGTTATGAGTAGAAGAATAAAATAT
GGAATAAAACATGGAATGGTGGAAGGTTGAGCGGGTTTTTATTTAATGGGGAATGGAGAATTAGG
TTAGGTAATAATA
Found at i:241074 original size:3 final size:3
Alignment explanation
Indices: 241066--241140 Score: 132
Period size: 3 Copynumber: 24.7 Consensus size: 3
241056 TTAGGTTAGG
241066 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
241114 TAA TAA TAA TAA TAA TATT TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA
241141 TTTTTCCGAC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 67 0.97
4 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:243258 original size:6 final size:6
Alignment explanation
Indices: 243247--243274 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
243237 TGTAACTTGA
243247 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
243275 TTCTTACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:243912 original size:29 final size:29
Alignment explanation
Indices: 243857--243919 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
243847 AAATTATATT
* * **
243857 TTTAGTCACTAAACTTTCAAAGTTTACAC
1 TTTAGCCACCAAACTTTCAAAACTTACAC
*
243886 TTTAGCCACCAAACTTTCAAAACTTACAT
1 TTTAGCCACCAAACTTTCAAAACTTACAC
243915 TTTAG
1 TTTAG
243920 TCACTAGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (29 bp):
TTTAGCCACCAAACTTTCAAAACTTACAC
Found at i:249237 original size:118 final size:115
Alignment explanation
Indices: 249100--249336 Score: 289
Period size: 118 Copynumber: 2.0 Consensus size: 115
249090 TATTTTGAAA
** *
249100 ATATATAATATATAG-TTTTTAAAACATTTTGAAAACATTTATATATTATATAATTTGTTT-AAA
1 ATATATAATATATAGTTTTTTAAAACATTTTGAAAACAAATATATAATATATAATTT-TTTAAAA
* *
249163 ACGTTTTTACAAAAAAATATAATATATAGTTTTCAAAACATTTTTGAAAATATAT
65 AC-ATTTT--AAAAAAATATAATATATAATTTTCAAAACATTTTTGAAAAT-TAT
* * *
249218 ATATATATTATATAGTTTTTTTTAAACATTTTGAAAATAAATATATAATATATAATTTTTTGAAA
1 ATATATAATATATAG-TTTTTTAAAACATTTTGAAAACAAATATATAATATATAATTTTTT-AAA
* * * *
249283 AACATTTTGAAAATATATAATATATAATTTTTAAAATATTTTTGAAAATTAT
64 AACATTTTAAAAAAATATAATATATAATTTTCAAAACATTTTTGAAAATTAT
249335 AT
1 AT
249337 GGTTTTAAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
117 5 0.05
118 50 0.49
119 3 0.03
120 40 0.39
121 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (115 bp):
ATATATAATATATAGTTTTTTAAAACATTTTGAAAACAAATATATAATATATAATTTTTTAAAAA
CATTTTAAAAAAATATAATATATAATTTTCAAAACATTTTTGAAAATTAT
Found at i:249306 original size:35 final size:37
Alignment explanation
Indices: 249086--249336 Score: 117
Period size: 39 Copynumber: 6.6 Consensus size: 37
249076 TATATTTTCG
*
249086 AAAAT-ATTTTGAAAATATAT-A-ATATATAGTTTTT
1 AAAATAATTTTGAAAATATATAATATATATAATTTTT
* * *
249120 AAAA-CATTTTGAAAACATTTATATATTATATAATTTGTTT
1 AAAATAATTTTGAAAATATATA-ATA-TATATAA-TT-TTT
** * * * * *
249160 AAAA-CGTTTTTACAAAAAAAT-ATAATATATAGTTTTC
1 AAAATAATTTTGA-AAATATATAAT-ATATATAATTTTT
* *
249197 AAAACATTTTTGAAAATATATATATATATTATATAGTTTTTTT
1 AAAATAATTTTGAAAATATATA-ATATA-TATA-A---TTTTT
* * *
249240 TAAA-CATTTTGAAAATAAATATATAATATATAATTTTTT
1 AAAATAATTTTGAAAATATATA-AT-ATATATAA-TTTTT
249279 GAAAA-ACATTTTGAAAATATAT-A-ATATATAATTTTT
1 -AAAATA-ATTTTGAAAATATATAATATATATAATTTTT
*
249315 AAAATATTTTTGAAAATTATAT
1 AAAATAATTTTGAAAA-TATAT
249337 GGTTTTAAAA
Statistics
Matches: 170, Mismatches: 25, Indels: 42
0.72 0.11 0.18
Matches are distributed among these distances:
34 17 0.10
35 13 0.08
36 12 0.07
37 21 0.12
38 16 0.09
39 23 0.14
40 17 0.10
41 20 0.12
42 21 0.12
43 10 0.06
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (37 bp):
AAAATAATTTTGAAAATATATAATATATATAATTTTT
Found at i:249353 original size:31 final size:30
Alignment explanation
Indices: 249315--249400 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 30
249305 TATAATTTTT
*
249315 AAAATATTTTTGAAAATTATATGGTTTTAAA
1 AAAATATTTTTGAAAATTATAT-ATTTTAAA
**
249346 AAAATATTTTTGAAAATTATATATTTTTTA
1 AAAATATTTTTGAAAATTATATATTTTAAA
*
249376 AAAATATTTTTGGAAATTTATATAT
1 AAAATATTTTT-GAAAATTATATAT
249401 AATATATAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.32
31 34 0.68
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (30 bp):
AAAATATTTTTGAAAATTATATATTTTAAA
Found at i:249356 original size:118 final size:119
Alignment explanation
Indices: 249115--249336 Score: 263
Period size: 120 Copynumber: 1.9 Consensus size: 119
249105 TAATATATAG
** * *
249115 TTTTTAAAACATTTTGAAAACATTTATATATTATATAATTTGTTTAAAACGTTTTTACAAAAAAA
1 TTTTTAAAACATTTTGAAAACAAATATATAATATATAATTTGTTTAAAACGATTTTA-AAAAAAA
* * * *
249180 TATAATATATAGTTTTCAAAACATTTTTGAAAATATATATATATATTATATAGTT
65 TATAATATATAATTTTCAAAACATTTTTGAAAATATATATATATATTAAAAAATT
* * * *
249235 TTTTTTAAACATTTTGAAAATAAATATATAATATATAATTT-TTTGAAAAAC-ATTTT-GAAAAT
1 TTTTTAAAACATTTTGAAAACAAATATATAATATATAATTTGTTT--AAAACGATTTTAAAAAAA
* *
249297 ATATAATATATAATTTTTAAAATATTTTTGAAAAT-TATAT
64 ATATAATATATAATTTTCAAAACATTTTTGAAAATATATAT
249337 GGTTTTAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
117 5 0.06
118 36 0.40
119 3 0.03
120 40 0.45
121 5 0.06
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (119 bp):
TTTTTAAAACATTTTGAAAACAAATATATAATATATAATTTGTTTAAAACGATTTTAAAAAAAAT
ATAATATATAATTTTCAAAACATTTTTGAAAATATATATATATATTAAAAAATT
Found at i:249465 original size:3 final size:3
Alignment explanation
Indices: 249457--249509 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
249447 GTTTTTATAT
* * *
249457 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TCA CTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
249503 TT- TTA TT
1 TTA TTA TT
249510 TCTTATTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:249481 original size:22 final size:22
Alignment explanation
Indices: 249454--249499 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
249444 ATAGTTTTTA
* *
249454 TATTTATTATTATTATTATTAT
1 TATTTATTATCACTATTATTAT
249476 TATTTATTATCACTATTATTAT
1 TATTTATTATCACTATTATTAT
249498 TA
1 TA
249500 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTATTATCACTATTATTAT
Found at i:249482 original size:19 final size:19
Alignment explanation
Indices: 249460--249498 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
249450 TTTATATTTA
* *
249460 TTATTATTATTATTATTAT
1 TTATTATCACTATTATTAT
249479 TTATTATCACTATTATTAT
1 TTATTATCACTATTATTAT
249498 T
1 T
249499 AATATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATCACTATTATTAT
Found at i:250752 original size:4 final size:4
Alignment explanation
Indices: 250743--250778 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
250733 TTTGGTCCCT
*
250743 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
250779 CCTATACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:256144 original size:165 final size:163
Alignment explanation
Indices: 255870--256730 Score: 1145
Period size: 165 Copynumber: 5.2 Consensus size: 163
255860 TAAACAAACT
*
255870 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
** * * *
255935 GCTTCGAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACC
256000 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCAA-GGCACATC
256035 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* **
256100 GCTTCGAGGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACC
*
256165 TTTGAGTTCGACTACGCTCAGCTCCAAGGCATATC
130 TTTGAGTTCGACTACGCTCAGCT-CAAGGCACATC
256200 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * *
256265 GCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACC
*
256330 TTTGATTTCGACTACGCTCAGCTCAACGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCAA-GGCACATC
* *
256365 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGTCAAAGACCGCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * **
256430 GCTTCGAGGGCACATCATTTGTAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACC
* * *
256495 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
130 TTTGAGTTCGACTACGCTCAGCT-CAAGGCACATC
* * * * *** *
256530 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * * *
256595 CTCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAG
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAG
*** * * *
256656 ACCCCCCGAGTTCGATTACGATCAGCTCTAGGGCACATC
127 A-CCTTTGAGTTCGACTACGCTCAGCTC-AAGGCACATC
* * * *
256695 ATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
256731 TCAACAAAAT
Statistics
Matches: 618, Mismatches: 66, Indels: 24
0.87 0.09 0.03
Matches are distributed among these distances:
164 14 0.02
165 525 0.85
166 12 0.02
168 42 0.07
169 25 0.04
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (163 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCT
TTGAGTTCGACTACGCTCAGCTCAAGGCACATC
Found at i:256471 original size:330 final size:330
Alignment explanation
Indices: 255870--256734 Score: 1308
Period size: 330 Copynumber: 2.6 Consensus size: 330
255860 TAAACAAACT
*
255870 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
255935 GCTTCGAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
256000 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
*
256065 TATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTGCAGCATAAC
196 TATCTGTCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTGCAGCATAAC
*
256130 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
256195 ATATC
326 ATATC
256200 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
256265 GCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
*
256330 TTTGATTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
* * * *
256395 TATCTGTCAAAGACCGCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGTATAAC
196 TATCTGTCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTGCAGCATAAC
*
256460 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
256525 ATATC
326 ATATC
* * * * *** *
256530 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * * * * * * *
256595 CTCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
*** * * * * * * * *
256655 GACCCCCCGAGTTCGATTACGATCAGCTCTAGGGCACATCATTTACAGCATAGCTCAAGGCAAGA
127 GA-CCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
256720 AGGGCTATCTGTCAA
191 AGGGCTATCTGTCAA
256735 CAAAATTCGA
Statistics
Matches: 490, Mismatches: 40, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
329 5 0.01
330 418 0.85
331 3 0.01
333 39 0.08
334 25 0.05
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (330 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
TATCTGTCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTGCAGCATAAC
TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ATATC
Found at i:257302 original size:34 final size:33
Alignment explanation
Indices: 257263--257416 Score: 119
Period size: 34 Copynumber: 4.2 Consensus size: 33
257253 TTTATTTATT
257263 TATATATTTTTGAAAACATTTTGAAAATATATAA
1 TATATATTTTT-AAAACATTTTGAAAATATATAA
*
257297 TATATAGTTTTTAAAACATTTTGAAAACATTTATATAT
1 TATATA-TTTTTAAAACATTTTG-AAA-A--TATATAA
* * *
257335 TATATAATTTGTTTAAAACGTTTTTACAAAAAAATATAA
1 TATAT-A-TT-TTTAAAAC-ATTTT--GAAAATATATAA
* *
257374 TATATAGTTTTCAAAACATTTTTGAATATATATATA
1 TATATA-TTTTTAAAACA-TTTTGAAAATATATA-A
257410 TATATAT
1 TATATAT
257417 ATTATATAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
34 17 0.18
35 17 0.18
36 8 0.08
37 11 0.11
38 14 0.15
39 13 0.14
40 8 0.08
41 5 0.05
42 3 0.03
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (33 bp):
TATATATTTTTAAAACATTTTGAAAATATATAA
Done.