Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 19
Found at i:2356210 original size:22 final size:25
Alignment explanation
Indices: 2356182--2356229 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
2356172 AGTGTTGGGA
2356182 TGGCTGG-TCA-GATGCATG-TGGT
1 TGGCTGGATCATGATGCATGTTGGT
*
2356204 TGGCTGGATCATGATTCATGTTGGT
1 TGGCTGGATCATGATGCATGTTGGT
2356229 T
1 T
2356230 TAGACTCCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 3 0.14
24 7 0.32
25 5 0.23
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (25 bp):
TGGCTGGATCATGATGCATGTTGGT
Found at i:2358528 original size:90 final size:93
Alignment explanation
Indices: 2358418--2358601 Score: 331
Period size: 91 Copynumber: 2.0 Consensus size: 93
2358408 CTCCTCTACC
2358418 ATACTAGGTAAACTCTCTCATCATC-AAAGAATTTTCACCATCAGTTTCCTAAAATC-AATCTGA
1 ATACTAGGTAAACTCTCTCATCATCAAAAGAATTTTCACCATCAGTTTCCTAAAATCAAATCTGA
2358481 TTCATC-GATCCATTATTTTCATCTTCT
66 TTCATCAGATCCATTATTTTCATCTTCT
2358508 ATACTAGGT-AACTCTCCTCATCATCAAAAGAATTTTCACCATCAGTTTCCTAAAATCAAATCTG
1 ATACTAGGTAAACTCT-CTCATCATCAAAAGAATTTTCACCATCAGTTTCCTAAAATCAAATCTG
2358572 ATTCATCAGATCCATTATTTTCATCTTCT
65 ATTCATCAGATCCATTATTTTCATCTTCT
2358601 A
1 A
2358602 CCAACTTCTT
Statistics
Matches: 90, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
89 6 0.07
90 18 0.20
91 31 0.34
92 13 0.14
93 22 0.24
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (93 bp):
ATACTAGGTAAACTCTCTCATCATCAAAAGAATTTTCACCATCAGTTTCCTAAAATCAAATCTGA
TTCATCAGATCCATTATTTTCATCTTCT
Found at i:2358696 original size:15 final size:15
Alignment explanation
Indices: 2358672--2358930 Score: 97
Period size: 15 Copynumber: 17.3 Consensus size: 15
2358662 TTATTGTCCC
*
2358672 TTTCAACATTACCCA
1 TTTCAGCATTACCCA
*
2358687 TTTCAGCATTATCCA
1 TTTCAGCATTACCCA
* *
2358702 TTTCTA-CACTA-ACA
1 TTTC-AGCATTACCCA
* **
2358716 CTTTCAACATTGTCCA
1 -TTTCAGCATTACCCA
* *
2358732 TTTCAACACTACCCA
1 TTTCAGCATTACCCA
**
2358747 TTTCAGCATTGTCCA
1 TTTCAGCATTACCCA
2358762 TTTCTA-CATTACCCA
1 TTTC-AGCATTACCCA
**
2358777 TTTCAGCATTATACA
1 TTTCAGCATTACCCA
* *
2358792 TTTCAACATTATCCA
1 TTTCAGCATTACCCA
** *
2358807 TTTCTA-CACCA-GCA
1 TTTC-AGCATTACCCA
* * *
2358821 CTTTCAGCACTATCAA
1 -TTTCAGCATTACCCA
*
2358837 TTTCTA-CACTA-CCA
1 TTTC-AGCATTACCCA
*
2358851 CTTTCAGCATTGTCCC-
1 -TTTCAGCATT-ACCCA
* *
2358867 TTTCAACACTACCCA
1 TTTCAGCATTACCCA
*
2358882 TTTCAGCATTGTCCC-
1 TTTCAGCATT-ACCCA
*
2358897 TTTCTA-CAATACCCA
1 TTTC-AGCATTACCCA
* *
2358912 TTTCAGCAGTATCCA
1 TTTCAGCATTACCCA
2358927 TTTC
1 TTTC
2358931 TACCCCACCA
Statistics
Matches: 185, Mismatches: 39, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
14 17 0.09
15 155 0.84
16 11 0.06
17 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTCAGCATTACCCA
Found at i:2358722 original size:45 final size:45
Alignment explanation
Indices: 2358671--2358952 Score: 171
Period size: 45 Copynumber: 6.3 Consensus size: 45
2358661 CTTATTGTCC
* *
2358671 CTTTCAACATTACCCATTTCAGCATTATCCATTTCTACACTAACA
1 CTTTCAACATTACCCATTTCAGCACTATCCATTTCTACACTATCA
** * * * *
2358716 CTTTCAACATTGTCCATTTCAACACTACCCATTTC-AGCATTGTC-
1 CTTTCAACATTACCCATTTCAGCACTATCCATTTCTA-CACTATCA
* * * * *
2358760 CATTTCTACATTACCCATTTCAGCATTATACATTTCAACATTATC-
1 C-TTTCAACATTACCCATTTCAGCACTATCCATTTCTACACTATCA
* ** * * *
2358805 CATTTCTACACCA-GCACTTTCAGCACTATCAATTTCTACACTACCA
1 C-TTTCAACATTACCCA-TTTCAGCACTATCCATTTCTACACTATCA
* * * * * * *
2358851 CTTTCAGCATTGTCCC-TTTCAACACTACCCATTTC-AGCATTGTCC
1 CTTTCAACATT-ACCCATTTCAGCACTATCCATTTCTA-CACTATCA
* * * * * *
2358896 CTTTCTACAATACCCATTTCAGCAGTATCCATTTCTACCCCACCA
1 CTTTCAACATTACCCATTTCAGCACTATCCATTTCTACACTATCA
*
2358941 CTTTCAGCATTA
1 CTTTCAACATTA
2358953 TCCACTTCTA
Statistics
Matches: 173, Mismatches: 54, Indels: 20
0.70 0.22 0.08
Matches are distributed among these distances:
44 8 0.05
45 161 0.93
46 3 0.02
47 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.05, T:0.35
Consensus pattern (45 bp):
CTTTCAACATTACCCATTTCAGCACTATCCATTTCTACACTATCA
Found at i:2358736 original size:60 final size:60
Alignment explanation
Indices: 2358664--2358810 Score: 197
Period size: 60 Copynumber: 2.5 Consensus size: 60
2358654 TGTCTTTCTT
*
2358664 ATTGTCCCTTTCAACATTACCCATTTCAGCATTATCCATTTCTACACTAACAC-TTTCAAC
1 ATTGTCCATTTCAACATTACCCATTTCAGCATTATCCATTTCTACA-TAACACATTTCAAC
* * * * *
2358724 ATTGTCCATTTCAACACTACCCATTTCAGCATTGTCCATTTCTACATTACCCATTTCAGC
1 ATTGTCCATTTCAACATTACCCATTTCAGCATTATCCATTTCTACATAACACATTTCAAC
* * *
2358784 ATTATACATTTCAACATTATCCATTTC
1 ATTGTCCATTTCAACATTACCCATTTC
2358811 TACACCAGCA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
59 4 0.05
60 72 0.95
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.38
Consensus pattern (60 bp):
ATTGTCCATTTCAACATTACCCATTTCAGCATTATCCATTTCTACATAACACATTTCAAC
Found at i:2358801 original size:30 final size:30
Alignment explanation
Indices: 2358672--2358810 Score: 172
Period size: 30 Copynumber: 4.6 Consensus size: 30
2358662 TTATTGTCCC
2358672 TTTCAACATTACCCATTTCAGCATTATCCA
1 TTTCAACATTACCCATTTCAGCATTATCCA
* * * * *
2358702 TTTCTACACTA-ACACTTTCAACATTGTCCA
1 TTTCAACATTACCCA-TTTCAGCATTATCCA
* *
2358732 TTTCAACACTACCCATTTCAGCATTGTCCA
1 TTTCAACATTACCCATTTCAGCATTATCCA
* *
2358762 TTTCTACATTACCCATTTCAGCATTATACA
1 TTTCAACATTACCCATTTCAGCATTATCCA
*
2358792 TTTCAACATTATCCATTTC
1 TTTCAACATTACCCATTTC
2358811 TACACCAGCA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
29 2 0.02
30 89 0.96
31 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTCAACATTACCCATTTCAGCATTATCCA
Found at i:2358826 original size:30 final size:30
Alignment explanation
Indices: 2358792--2358976 Score: 194
Period size: 30 Copynumber: 6.2 Consensus size: 30
2358782 GCATTATACA
* *
2358792 TTTCAACATTATCCATTTCTACACCAGCAC
1 TTTCAGCATTATCCATTTCTACACCACCAC
* * *
2358822 TTTCAGCACTATCAATTTCTACACTACCAC
1 TTTCAGCATTATCCATTTCTACACCACCAC
* * * *
2358852 TTTCAGCATTGTCCCTTTCAACACTACC-C
1 TTTCAGCATTATCCATTTCTACACCACCAC
* * **
2358881 ATTTCAGCATTGTCCCTTTCTACAATACC-C
1 -TTTCAGCATTATCCATTTCTACACCACCAC
* *
2358911 ATTTCAGCAGTATCCATTTCTACCCCACCAC
1 -TTTCAGCATTATCCATTTCTACACCACCAC
*
2358942 TTTCAGCATTATCCACTTCTACACCACCAC
1 TTTCAGCATTATCCATTTCTACACCACCAC
2358972 TTTCA
1 TTTCA
2358977 TAACAACCAC
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
29 1 0.01
30 130 0.98
31 1 0.01
ACGTcount: A:0.26, C:0.36, G:0.05, T:0.34
Consensus pattern (30 bp):
TTTCAGCATTATCCATTTCTACACCACCAC
Found at i:2361095 original size:134 final size:134
Alignment explanation
Indices: 2360855--2361122 Score: 536
Period size: 134 Copynumber: 2.0 Consensus size: 134
2360845 GTCCACTACG
2360855 CCCACATTGCTCTTTAAGTCATAATCAAACCTCAATTCTCCATAATTTTTCATCTTTCAATGGAA
1 CCCACATTGCTCTTTAAGTCATAATCAAACCTCAATTCTCCATAATTTTTCATCTTTCAATGGAA
2360920 CCCTAATAATAAATCCCTCAAACCTCAAAACCTCACAAAATTGATCCCATGGAAAACTTCTCCTG
66 CCCTAATAATAAATCCCTCAAACCTCAAAACCTCACAAAATTGATCCCATGGAAAACTTCTCCTG
2360985 CTCT
131 CTCT
2360989 CCCACATTGCTCTTTAAGTCATAATCAAACCTCAATTCTCCATAATTTTTCATCTTTCAATGGAA
1 CCCACATTGCTCTTTAAGTCATAATCAAACCTCAATTCTCCATAATTTTTCATCTTTCAATGGAA
2361054 CCCTAATAATAAATCCCTCAAACCTCAAAACCTCACAAAATTGATCCCATGGAAAACTTCTCCTG
66 CCCTAATAATAAATCCCTCAAACCTCAAAACCTCACAAAATTGATCCCATGGAAAACTTCTCCTG
2361119 CTCT
131 CTCT
2361123 TCTTATCCGG
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.34, C:0.30, G:0.06, T:0.31
Consensus pattern (134 bp):
CCCACATTGCTCTTTAAGTCATAATCAAACCTCAATTCTCCATAATTTTTCATCTTTCAATGGAA
CCCTAATAATAAATCCCTCAAACCTCAAAACCTCACAAAATTGATCCCATGGAAAACTTCTCCTG
CTCT
Found at i:2364485 original size:46 final size:46
Alignment explanation
Indices: 2364431--2364529 Score: 198
Period size: 46 Copynumber: 2.2 Consensus size: 46
2364421 AATAAAAGCC
2364431 AATAAAAATATGGTAATTCTATTGTACGACAGTATAATATAATATT
1 AATAAAAATATGGTAATTCTATTGTACGACAGTATAATATAATATT
2364477 AATAAAAATATGGTAATTCTATTGTACGACAGTATAATATAATATT
1 AATAAAAATATGGTAATTCTATTGTACGACAGTATAATATAATATT
2364523 AATAAAA
1 AATAAAA
2364530 GGTGTTATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (46 bp):
AATAAAAATATGGTAATTCTATTGTACGACAGTATAATATAATATT
Found at i:2366082 original size:183 final size:177
Alignment explanation
Indices: 2365741--2366120 Score: 554
Period size: 183 Copynumber: 2.1 Consensus size: 177
2365731 TTTTCTAATT
*
2365741 TATATAA-AAATTAAATATTTTTTAATTCAAAAAACAGTTTACAATTAAGTTAAATAATATATAA
1 TATATAATATATT-AATA-TTTTTAATTCAAAAAACAGTTTACAATTAAGTTAAATAATATATAA
2365805 TTATAAAATAAAAAATTATAATTTTTTATTAATAATATTGATTTAGGTTTAAAAGTTATTGGATC
64 TTATAAAATAAAAAATTATAATTTTTTATTAATAATATTGATTTAGGTTTAAAAGTTATTGGATC
2365870 TTAAATTATTATTGAGTTTTTAAATGGTTTGGGCTGAGCCAATATGTTA
129 TTAAATTATTATTGAGTTTTTAAATGGTTTGGGCTGAGCCAATATGTTA
*
2365919 TATATAATATATTAATATTTTTAATTCAAAAAA-A-TAATTACAATTAATTTAAATAATATATAA
1 TATATAATATATTAATATTTTTAATTCAAAAAACAGT--TTACAATTAAGTTAAATAATATATAA
* **
2365982 TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTATTTTTAAAAGTTAT
64 TTATAAAATAAAAA--AT-TAT-AATTTTTT-ATTAA-TAATATTGATTTAGGTTTAAAAGTTAT
* *
2366047 TGGATCTTAAATTATTAATTGAG-TTTTAAATGGTTTGGGCTGAGCCCATATGTTG
123 TGGATCTTAAATTATT-ATTGAGTTTTTAAATGGTTTGGGCTGAGCCAATATGTTA
*
2366102 TATATAATAT-TTAAAATTT
1 TATATAATATATTAATATTT
2366121 AATTTCGATT
Statistics
Matches: 184, Mismatches: 8, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
175 1 0.01
176 1 0.01
177 55 0.30
178 11 0.06
179 5 0.03
180 3 0.02
181 8 0.04
182 13 0.07
183 81 0.44
184 6 0.03
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (177 bp):
TATATAATATATTAATATTTTTAATTCAAAAAACAGTTTACAATTAAGTTAAATAATATATAATT
ATAAAATAAAAAATTATAATTTTTTATTAATAATATTGATTTAGGTTTAAAAGTTATTGGATCTT
AAATTATTATTGAGTTTTTAAATGGTTTGGGCTGAGCCAATATGTTA
Found at i:2371450 original size:41 final size:41
Alignment explanation
Indices: 2371393--2371474 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
2371383 CTACTTTACA
2371393 AGGTAGTATATGTTTAAACCCAAGGTCATTTAATGAGTTCT
1 AGGTAGTATATGTTTAAACCCAAGGTCATTTAATGAGTTCT
*
2371434 AGGTAGTATATGTTTAAACCTAAGGTCATTTAATGAGTTCT
1 AGGTAGTATATGTTTAAACCCAAGGTCATTTAATGAGTTCT
2371475 TTATCATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (41 bp):
AGGTAGTATATGTTTAAACCCAAGGTCATTTAATGAGTTCT
Found at i:2372060 original size:21 final size:21
Alignment explanation
Indices: 2372031--2372083 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2372021 ATTCTAACTA
2372031 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
2372052 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
2372073 TCGCAATGCGA
1 TCGCATTGCGA
2372084 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:2372098 original size:20 final size:20
Alignment explanation
Indices: 2372073--2372145 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
2372063 TTTTCCTAAT
2372073 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
2372093 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
2372113 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
2372133 TCGCAACGCGAAT
1 TCGCAATGCGAAT
2372146 CTGACTATCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:2372367 original size:22 final size:22
Alignment explanation
Indices: 2372342--2372407 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
2372332 GGCGACATCC
2372342 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
2372364 GTCCCCATCTTCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
2372386 GTCTCCATCTCC-AGCGAAATCA
1 GTCCCCATCTCCGA-CGAAATCA
2372408 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:2372768 original size:20 final size:19
Alignment explanation
Indices: 2372743--2372790 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2372733 GCGATTCTGT
2372743 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC-AATTCG
** *
2372763 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCAATTCG
2372782 CGTTGCGAT
1 CGTTGCGAT
2372791 TCTTACATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTCG
Found at i:2372824 original size:21 final size:20
Alignment explanation
Indices: 2372798--2372845 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2372788 GATTCTTACA
2372798 TTGCGATAGTCATTTTTCGTG
1 TTGCGATAGTCA-TTTTCGTG
**
2372819 TTGCGATTTTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
2372839 TTGCGAT
1 TTGCGAT
2372846 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.50
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGTG
Found at i:2372836 original size:20 final size:20
Alignment explanation
Indices: 2372811--2372848 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2372801 CGATAGTCAT
2372811 TTTTCGTGTTGCGATTTTCA
1 TTTTCGTGTTGCGATTTTCA
2372831 TTTTCGTGTTGCGATTTT
1 TTTTCGTGTTGCGATTTT
2372849 AAGTTTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.13, G:0.21, T:0.58
Consensus pattern (20 bp):
TTTTCGTGTTGCGATTTTCA
Found at i:2372855 original size:20 final size:20
Alignment explanation
Indices: 2372812--2372855 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2372802 GATAGTCATT
* *
2372812 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
2372832 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
2372852 TTTC
1 TTTC
2372856 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:2374755 original size:20 final size:20
Alignment explanation
Indices: 2374730--2374866 Score: 95
Period size: 20 Copynumber: 7.5 Consensus size: 20
2374720 AGAATAGTTT
2374730 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
2374750 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
2374770 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
2374786 A--ATCGCAATACG-AAATG
1 ACTATCGCAATGCGAAAATG
**
2374803 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
2374819 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
2374837 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
2374857 ACTATCGCAA
1 ACTATCGCAA
2374867 CGAAAGAATC
Statistics
Matches: 97, Mismatches: 6, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
14 14 0.14
16 10 0.10
17 8 0.08
18 5 0.05
19 7 0.07
20 53 0.55
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:2374833 original size:33 final size:33
Alignment explanation
Indices: 2374753--2374833 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
2374743 GAAAATGACT
** * * *
2374753 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
**
2374787 ATCGCAATACGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
2374820 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2374834 ATGACTATCG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:2374879 original size:87 final size:87
Alignment explanation
Indices: 2374733--2374898 Score: 278
Period size: 87 Copynumber: 1.9 Consensus size: 87
2374723 ATAGTTTACT
* *
2374733 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAATACG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATACG
2374798 AAATGAAAATCGCAACAACAAA
66 AAATGAAAATCGCAACAACAAA
* ** *
2374820 ATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATACG
2374885 AAATGAAAATCGCA
66 AAATGAAAATCGCA
2374899 TTGCGATTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (87 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATACG
AAATGAAAATCGCAACAACAAA
Found at i:2374936 original size:20 final size:20
Alignment explanation
Indices: 2374911--2374956 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
2374901 GCGATTCTCT
*
2374911 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCA
2374931 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCA
2374951 CGTTGC
1 CGTTGC
2374957 AATTTTAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:2376924 original size:14 final size:14
Alignment explanation
Indices: 2376905--2376940 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2376895 ATTGTTTAAT
2376905 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2376919 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2376933 TGATTTGT
1 TGATTTGT
2376941 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2377152 original size:20 final size:20
Alignment explanation
Indices: 2377127--2377237 Score: 129
Period size: 20 Copynumber: 5.5 Consensus size: 20
2377117 TCTCTTGTTA
2377127 CGATAGTCATTTCTGCGTTG
1 CGATAGTCATTTCTGCGTTG
*
2377147 CGATAGTCATTT-TCGCGTTA
1 CGATAGTCATTTCT-GCGTTG
2377167 CGATAGTCAATTTC-GCGTTG
1 CGATAGTC-ATTTCTGCGTTG
*
2377187 CGATAGTCATTTCTGTGTGTTG
1 CGATAGTCATTTC--TGCGTTG
*
2377209 GGATAGTCATATTC-GCGTTG
1 CGATAGTCAT-TTCTGCGTTG
2377229 CGATAGTCA
1 CGATAGTCA
2377238 AATGAATATC
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.08
20 51 0.65
21 4 0.05
22 14 0.18
23 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
CGATAGTCATTTCTGCGTTG
Found at i:2377167 original size:40 final size:41
Alignment explanation
Indices: 2377123--2377237 Score: 153
Period size: 40 Copynumber: 2.8 Consensus size: 41
2377113 CGATTCTCTT
2377123 GTTACGATAGTCATTTCTGCGTTGCGATAGTCATTT-T-CGC
1 GTTACGATAGTCATTTC-GCGTTGCGATAGTCATTTCTGCGC
* *
2377163 GTTACGATAGTCAATTTCGCGTTGCGATAGTCATTTCTGTGT
1 GTTACGATAGTC-ATTTCGCGTTGCGATAGTCATTTCTGCGC
**
2377205 GTTGGGATAGTCATATTCGCGTTGCGATAGTCA
1 GTTACGATAGTCAT-TTCGCGTTGCGATAGTCA
2377238 AATGAATATC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
40 30 0.45
41 8 0.12
42 29 0.43
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
GTTACGATAGTCATTTCGCGTTGCGATAGTCATTTCTGCGC
Found at i:2379686 original size:24 final size:24
Alignment explanation
Indices: 2379659--2379705 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2379649 CAAAATCCGA
2379659 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
2379683 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
2379706 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:2379714 original size:24 final size:24
Alignment explanation
Indices: 2379663--2379714 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2379653 ATCCGAGTAT
** *
2379663 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
2379687 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
2379711 TGAC
1 TGAC
2379715 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:2380567 original size:20 final size:20
Alignment explanation
Indices: 2380542--2380648 Score: 169
Period size: 20 Copynumber: 5.3 Consensus size: 20
2380532 AAATTCAGTA
*
2380542 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
2380562 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
2380582 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
2380602 TTGCGATAGTCATAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
2380622 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
2380642 TTGCGAT
1 TTGCGAT
2380649 TTAAATATTC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:2380658 original size:20 final size:20
Alignment explanation
Indices: 2380635--2380707 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
2380625 CGATAGTCAG
* **
2380635 ATTCGCGTTGCGATTTAAAT
1 ATTCGCATTGCGATTTACGT
*
2380655 ATTCGCATTGCGCTTTACGT
1 ATTCGCATTGCGATTTACGT
2380675 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
2380695 ATTCGCATTGCGA
1 ATTCGCATTGCGA
2380708 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:2380666 original size:40 final size:40
Alignment explanation
Indices: 2380541--2380707 Score: 117
Period size: 40 Copynumber: 4.2 Consensus size: 40
2380531 GAAATTCAGT
* * * * * *
2380541 ATTGCGACAGTCAGAATCGCGTTGCGATAGT-CAGAATCTC
1 ATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATATTCGC
* * * * *
2380581 GTTGCGATAGTCAGAATCTCGTTGCGATAGT-CATAATCGC
1 ATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATATTCGC
* *
2380621 GTTGCGATAGTCAGATTCGCGTTGCGATTTAAATATTCGC
1 ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
* * * *
2380661 ATTGCGCT--TTACGTATTCGCATTGCGATTTACGTATTCGC
1 ATTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATATTCGC
2380701 ATTGCGA
1 ATTGCGA
2380708 ATTAGGAAAA
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 103 0.96
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
Found at i:2380728 original size:21 final size:21
Alignment explanation
Indices: 2380704--2380744 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2380694 TATTCGCATT
2380704 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
*
2380725 GCGAATTTGGAAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
2380745 TGTGATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2382369 original size:6 final size:6
Alignment explanation
Indices: 2382358--2382409 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
2382348 TGGTCTCCCA
2382358 TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG
1 TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG TGTACG
2382406 TGTA
1 TGTA
2382410 TATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (6 bp):
TGTACG
Found at i:2382417 original size:6 final size:6
Alignment explanation
Indices: 2382410--2382450 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
2382400 TGTACGTGTA
*
2382410 TATATA TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATAT
2382451 TGAAGCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:2390319 original size:20 final size:20
Alignment explanation
Indices: 2390296--2390347 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2390286 AACGCGATCC
2390296 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2390316 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2390336 CCAAAATCGCAA
1 CCAGAATCGCAA
2390348 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2390445 original size:20 final size:20
Alignment explanation
Indices: 2390422--2390595 Score: 208
Period size: 20 Copynumber: 8.7 Consensus size: 20
2390412 GCGAATATGA
* *
2390422 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2390442 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2390462 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2390482 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2390502 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
2390522 ATATCGCAACGCGTATCCAT
1 AAATCGCAACGCGTATCCGT
* * *
2390542 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2390562 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2390583 AAATCGCAACGCG
1 AAATCGCAACGCG
2390596 ATATTTAAAG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 113 0.86
21 17 0.13
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2390486 original size:60 final size:60
Alignment explanation
Indices: 2390422--2390595 Score: 240
Period size: 60 Copynumber: 2.9 Consensus size: 60
2390412 GCGAATATGA
* * *
2390422 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
* *** * *
2390482 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCAT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
**
2390542 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
2390596 ATATTTAAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 65 0.68
61 31 0.32
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
Found at i:2391015 original size:33 final size:33
Alignment explanation
Indices: 2390976--2391043 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
2390966 TTCACTTAGA
*
2390976 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2391009 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2391042 TT
1 TT
2391044 CAAGTTAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.10, C:0.22, G:0.19, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2391185 original size:14 final size:14
Alignment explanation
Indices: 2391166--2391220 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2391156 AGAATGACTG
2391166 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
2391180 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
2391199 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2391213 TCGCAACG
1 TCGCAACG
2391221 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:2391203 original size:33 final size:33
Alignment explanation
Indices: 2391166--2391236 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2391156 AGAATGACTG
**
2391166 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2391199 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2391232 TCGCA
1 TCGCA
2391237 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:2391254 original size:19 final size:19
Alignment explanation
Indices: 2391232--2391329 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2391222 GAAACCAAAA
*
2391232 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2391251 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2391265 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2391284 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
2391298 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
2391317 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2391330 CTCGTTGCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2391273 original size:14 final size:14
Alignment explanation
Indices: 2391254--2391341 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
2391244 TTTCATTTCG
2391254 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2391268 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2391287 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2391301 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
2391318 CGCGTTGCGA-T-TCT
1 --CGTTGCGATTCTCT
2391332 CGTTGCGATT
1 CGTTGCGATT
2391342 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 23
0.71 0.02 0.27
Matches are distributed among these distances:
12 8 0.13
13 1 0.02
14 21 0.34
15 1 0.02
16 6 0.10
17 6 0.10
19 18 0.30
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2391279 original size:33 final size:33
Alignment explanation
Indices: 2391237--2391349 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
2391227 CAAAATCGCA
2391237 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2391270 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
2391303 TTGCGATTGTCATCTCGCGTTGCGA-T-TCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2391334 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2391350 AACCAAAGAC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 19 0.25
32 1 0.01
33 56 0.74
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2393288 original size:231 final size:230
Alignment explanation
Indices: 2392886--2393346 Score: 913
Period size: 231 Copynumber: 2.0 Consensus size: 230
2392876 GGTTGCCGCT
2392886 CTACGTGAGATGATAGTATCGTTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAG
1 CTACGTGAGATGATAGTATCGTTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAG
2392951 ATTTTCCATATTAACTTAATGATAAATTTACTCGTAATTTCACTTAGATTAGCCATTTCACTTAG
66 ATTTTCCATATTAACTTAATGATAAATTTACTCGTAATTTCACTTAGATTAGCCATTTCACTTAG
2393016 ATTGCTTAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGA
131 ATTGCTTAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGA
2393081 AATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
196 AATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2393116 CTACGTGAGATGATAGTATCGTTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAG
1 CTACGTGAGATGATAGTATCGTTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAG
2393181 ATTTTCCATATTTAACTTAATGATAAATTTACTCGTAATTTCACTTAGATTAGCCATTTCACTTA
66 ATTTTCCATA-TTAACTTAATGATAAATTTACTCGTAATTTCACTTAGATTAGCCATTTCACTTA
2393246 GATTGCTTAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG
130 GATTGCTTAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG
2393311 AAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
195 AAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2393347 GTAAATTTGT
Statistics
Matches: 230, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
230 75 0.33
231 155 0.67
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (230 bp):
CTACGTGAGATGATAGTATCGTTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAG
ATTTTCCATATTAACTTAATGATAAATTTACTCGTAATTTCACTTAGATTAGCCATTTCACTTAG
ATTGCTTAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGA
AATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2393484 original size:90 final size:93
Alignment explanation
Indices: 2393254--2393533 Score: 495
Period size: 93 Copynumber: 3.1 Consensus size: 93
2393244 TAGATTGCTT
*
2393254 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2393319 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2393346 AGTAAATTTGTTCGG-TG-TG-C-ATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2393404 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2393432 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2393497 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2393525 AGTAAATTT
1 AGTAAATTT
2393534 ATCCATTCAA
Statistics
Matches: 179, Mismatches: 1, Indels: 15
0.92 0.01 0.08
Matches are distributed among these distances:
85 28 0.16
86 17 0.09
87 4 0.02
88 35 0.20
89 2 0.01
90 35 0.20
91 4 0.02
92 15 0.08
93 39 0.22
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2393600 original size:19 final size:19
Alignment explanation
Indices: 2393576--2393703 Score: 91
Period size: 19 Copynumber: 7.3 Consensus size: 19
2393566 TAGTTTACTT
* *
2393576 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACTAAAA
*
2393595 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
2393613 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
*
2393632 TCGCAA--CG--AC-AGAA
1 TCGCAACGCGAAACTAAAA
*
2393646 TCGCAAACGCGAAACCAAAA
1 TCGC-AACGCGAAACTAAAA
*
2393666 TCGCAA--CG--AC-AAGA
1 TCGCAACGCGAAACTAAAA
*
2393680 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
2393699 TCGCA
1 TCGCA
2393704 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 28
0.72 0.06 0.23
Matches are distributed among these distances:
14 16 0.18
15 5 0.06
16 2 0.02
17 6 0.07
18 18 0.20
19 34 0.39
20 7 0.08
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:2393666 original size:34 final size:32
Alignment explanation
Indices: 2393609--2393703 Score: 145
Period size: 34 Copynumber: 2.9 Consensus size: 32
2393599 AACGCGAAAC
**
2393609 CAAATCGCAACGCGAAATGAAAATCGCAACGA
1 CAAATCGCAACGCGAAACCAAAATCGCAACGA
2393641 CAGAATCGCAAACGCGAAACCAAAATCGCAACGA
1 CA-AATCGC-AACGCGAAACCAAAATCGCAACGA
2393675 CAAGATCGCAACGCGAAACCAAAATCGCA
1 CAA-ATCGCAACGCGAAACCAAAATCGCA
2393704 TTGCGATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
32 2 0.03
33 27 0.47
34 29 0.50
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.07
Consensus pattern (32 bp):
CAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:2393721 original size:19 final size:19
Alignment explanation
Indices: 2393699--2393831 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
2393689 GAAACCAAAA
*
2393699 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2393718 TCGCGTTGCGA--TTC--T
1 TCGCGTTGCGATTTTCATT
2393733 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2393749 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2393765 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2393782 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2393801 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2393821 TCGTGTTGCGA
1 TCGCGTTGCGA
2393832 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
13 8 0.09
14 10 0.11
15 2 0.02
16 7 0.08
17 8 0.09
18 7 0.08
19 39 0.42
20 12 0.13
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2393739 original size:13 final size:13
Alignment explanation
Indices: 2393721--2393775 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 13
2393711 TTTCATTTCG
2393721 CGTTGCGATTCTT
1 CGTTGCGATTCTT
2393734 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC--TT
2393750 CGCATTGCGATTCTGT
1 CG--TTGCGATTCT-T
2393766 CGTTGCGATT
1 CGTTGCGATT
2393776 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
13 8 0.22
14 11 0.31
15 1 0.03
16 7 0.19
17 3 0.08
18 6 0.17
ACGTcount: A:0.11, C:0.22, G:0.24, T:0.44
Consensus pattern (13 bp):
CGTTGCGATTCTT
Found at i:2393749 original size:31 final size:33
Alignment explanation
Indices: 2393704--2393794 Score: 159
Period size: 31 Copynumber: 2.8 Consensus size: 33
2393694 CAAAATCGCA
2393704 TTGCGATTTTCATTTCGCGTTGCGATTCT-TCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
2393736 TTGCGA-TTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2393768 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
2393795 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
31 21 0.38
32 15 0.27
33 19 0.35
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:2395610 original size:14 final size:14
Alignment explanation
Indices: 2395591--2395627 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2395581 TGATTGTTTA
2395591 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
2395605 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
*
2395619 TTGATTTGT
1 ATGATTTGT
2395628 GTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (14 bp):
ATGATTTGTAAAAG
Found at i:2395750 original size:19 final size:19
Alignment explanation
Indices: 2395734--2395835 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2395724 AAAAATGACT
2395734 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2395753 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2395772 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2395786 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2395805 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2395825 ATCGCAATGCG
1 ATCGCAATGCG
2395836 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2395888 original size:19 final size:19
Alignment explanation
Indices: 2395864--2396137 Score: 336
Period size: 19 Copynumber: 15.4 Consensus size: 19
2395854 GATTATCTCG
2395864 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2395883 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
2395902 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
2395916 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2395935 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2395954 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2395973 TTGCGATTTTCATTCCGCA
1 TTGCGATTTTCATTTCGCA
*
2395992 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2396011 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
2396025 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2396044 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2396063 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2396077 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2396097 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
2396111 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
2396130 TTGCGATT
1 TTGCGATT
2396138 GTATTTTCCG
Statistics
Matches: 222, Mismatches: 12, Indels: 42
0.80 0.04 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 19 0.09
18 3 0.01
19 135 0.61
20 12 0.05
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2395904 original size:52 final size:52
Alignment explanation
Indices: 2395826--2396106 Score: 420
Period size: 52 Copynumber: 5.3 Consensus size: 52
2395816 GAAATGAAAA
* *
2395826 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTT-TAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
2395878 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
2395930 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATT
* *
2395987 CCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
2396039 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
2396091 TCCGCATTGCGATTTT
1 T-CGCATTGCGATTTT
2396107 CATGTTGGGA
Statistics
Matches: 212, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
52 138 0.65
53 17 0.08
54 7 0.03
55 8 0.04
57 42 0.20
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:2396102 original size:34 final size:33
Alignment explanation
Indices: 2395842--2396137 Score: 146
Period size: 33 Copynumber: 8.5 Consensus size: 33
2395832 TGCGTTTATA
*
2395842 ATTTCGCATTGCGATTATC-TCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCAT-GTTGCGATTTTC
* *
2395875 ATTTCGCATTGCGATTTTAAT-TT-CGCATTGCGATTC
1 ATTTCGCATTGCGATTCTCATGTTGCG-ATT----TTC
*
2395911 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCA--T-G--TTGCGATTTTC
*
2395946 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCA--T-G--TTGCGATTTTC
* * * *
2395984 ATTCCGCATTGCGATTTTAAT-TT-CGCA-TTGC
1 ATTTCGCATTGCGATTCTCATGTTGCG-ATTTTC
* *
2396015 GA-TTCTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 -ATTTC-G-CATTGCGATTCTCA--T-G--TTGCGATTTTC
2396055 ATTTCGCATTGCGATTCTC-TCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCAT-GTTGCGATTTTC
* *
2396088 ATTTCCGCATTGCGATTTTCATGTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTCATGTTGCGATTTTC
*
2396122 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
2396138 GTATTTTCCG
Statistics
Matches: 217, Mismatches: 15, Indels: 62
0.74 0.05 0.21
Matches are distributed among these distances:
31 9 0.04
32 10 0.05
33 66 0.30
34 30 0.14
35 14 0.06
36 9 0.04
38 59 0.27
39 10 0.05
40 10 0.05
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCATGTTGCGATTTTC
Found at i:2398433 original size:12 final size:12
Alignment explanation
Indices: 2398416--2398440 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2398406 TCTTCGGGGA
2398416 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2398428 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2398440 C
1 C
2398441 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2398649 original size:24 final size:24
Alignment explanation
Indices: 2398615--2398661 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2398605 CTGAAACATC
2398615 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2398639 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2398662 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2399372 original size:20 final size:20
Alignment explanation
Indices: 2399344--2399712 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
2399334 AAATTTAAGT
* * * *
2399344 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2399364 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2399384 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2399404 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2399424 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2399444 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2399464 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2399484 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2399504 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2399524 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2399544 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
2399564 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2399584 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2399604 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2399624 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2399644 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2399664 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2399684 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2399704 GTTGCGATT
1 GTTGCGATT
2399713 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2401492 original size:181 final size:181
Alignment explanation
Indices: 2401265--2401795 Score: 803
Period size: 182 Copynumber: 2.9 Consensus size: 181
2401255 AACGCTATCA
* *
2401265 GATATATTGAAAGTGTCGATAATTTAATATAAGTATTGAAACTTTCTGAATTTAAAAGAGAAGAA
1 GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
* * * ** * *
2401330 GTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAACAGGT
66 GTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAACAATATAACAGGT
2401395 AAAAATATGATAAAATC-GGTCTAAAAATGACAAAACCGAAAAAAATTACCG
131 AAAAATATGATAAAA-CAGGTCTAAAAATGACAAAACCGAAAAAAATTACCG
* * * *
2401446 GATATTTTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAAAGAATAA
1 GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
* ** *
2401511 GTTATAGTGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACCAATATAACAGGT
66 GTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAACAATATAACAGGT
* * *
2401576 AAAAATATGATAAAACATGTCTCAAAAATGACAAAATCGAAAAAAGTTACCG
131 AAAAATATGATAAAACAGGTCT-AAAAATGACAAAACCGAAAAAAATTACCG
* * * *
2401628 GATATGTTAAAAGTGTCGATAATTTAATATAAGTATCAACACTTTCTTAATTTAAAAGAGAAGAA
1 GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
2401693 GTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAACAATATAACAGGT
66 GTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAACAATATAACAGGT
* *
2401758 AAAAATATGATAAAACTGGTCTTAAAATGACAAAACCG
131 AAAAATATGATAAAACAGGTCTAAAAATGACAAAACCG
2401796 GTAAATATAT
Statistics
Matches: 314, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
180 1 0.00
181 147 0.47
182 166 0.53
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.29
Consensus pattern (181 bp):
GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
GTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAACAATATAACAGGT
AAAAATATGATAAAACAGGTCTAAAAATGACAAAACCGAAAAAAATTACCG
Found at i:2401816 original size:182 final size:182
Alignment explanation
Indices: 2401201--2401823 Score: 785
Period size: 182 Copynumber: 3.4 Consensus size: 182
2401191 GCTCCATAGG
* * * ** * * * *
2401201 AATATTACAGGTACAAAA-ATGACAAAACCGGTCCCAAAATGAAAAAACCGG-TAAAACGCTATC
1 AATATAACAGGTA-AAAATATGATAAAACTGGTCTAAAAATGACAAAACCGGAAAAAAC-TTACC
* *
2401264 AGATATATTGAAAGTGTCGATAATTTAATATAAGTATTGAA-ACTTTCTGAATTTAAAAGAGAAG
64 AGATATGTTGAAAGTGTCGATAATTTAATATAAGTA-TCAACACTTTCTGAATTTAAAAGAGAAG
* * * ** * *
2401328 AAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAAC
128 AAGTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAAC
* *
2401383 AATATAACAGGTAAAAATATGATAAAA-TCGGTCTAAAAATGACAAAACC-GAAAAAAATTACCG
1 AATATAACAGGTAAAAATATGATAAAACT-GGTCTAAAAATGACAAAACCGGAAAAAACTTACCA
* * * * *
2401446 GATATTTTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAAAGAATAA
65 GATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTTCTGAATTTAAAAGAGAAGAA
* ** *
2401511 GTTATAGTGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACC
130 GTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAAC
* *
2401564 AATATAACAGGTAAAAATATGATAAAACAT-GTCTCAAAAATGACAAAATC-GAAAAAAGTTACC
1 AATATAACAGGTAAAAATATGATAAAAC-TGGTCT-AAAAATGACAAAACCGGAAAAAACTTACC
* * *
2401627 GGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCAACACTTTCTTAATTTAAAAGAGAAGA
64 AGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTTCTGAATTTAAAAGAGAAGA
2401692 AGTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAAC
129 AGTTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAAC
* * * *
2401746 AATATAACAGGTAAAAATATGATAAAACTGGTCTTAAAATGACAAAACCGGTAAATA-TATACTA
1 AATATAACAGGTAAAAATATGATAAAACTGGTCTAAAAATGACAAAACCGGAAAAAACT-TACCA
2401810 GATATGTTGAAAGT
65 GATATGTTGAAAGT
2401824 ATACTTTAAT
Statistics
Matches: 384, Mismatches: 47, Indels: 20
0.85 0.10 0.04
Matches are distributed among these distances:
180 2 0.01
181 153 0.40
182 228 0.59
183 1 0.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (182 bp):
AATATAACAGGTAAAAATATGATAAAACTGGTCTAAAAATGACAAAACCGGAAAAAACTTACCAG
ATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTTCTGAATTTAAAAGAGAAGAAG
TTATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAAC
Found at i:2402245 original size:18 final size:19
Alignment explanation
Indices: 2402222--2402266 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
2402212 TAGTTAATAT
2402222 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
2402240 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
2402259 TTTTAGGT
1 TTATAGGT
2402267 TGTATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:2402552 original size:18 final size:18
Alignment explanation
Indices: 2402517--2402555 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2402507 TTGAAATGGT
2402517 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
2402535 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
2402553 AAT
1 AAT
2402556 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:2403566 original size:22 final size:22
Alignment explanation
Indices: 2403516--2403570 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
2403506 AATGTTTTTG
2403516 TTTT-TTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
2403538 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
2403560 CTTTTATTATA
1 -TTTTATTATA
2403571 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 10 0.36
23 3 0.11
24 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:2404269 original size:22 final size:18
Alignment explanation
Indices: 2404220--2404258 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2404210 GAAAAAATTT
*
2404220 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
2404238 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
2404256 GAA
1 GAA
2404259 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:2405752 original size:19 final size:19
Alignment explanation
Indices: 2405730--2405774 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2405720 GCATGGTTAA
* *
2405730 TTTGTATAAGATTTTTTAT
1 TTTGTATAAGATTTATAAT
*
2405749 TTTGTATACGATTTATAAT
1 TTTGTATAAGATTTATAAT
2405768 TTTGTAT
1 TTTGTAT
2405775 GTGAATGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (19 bp):
TTTGTATAAGATTTATAAT
Found at i:2406458 original size:199 final size:199
Alignment explanation
Indices: 2406118--2407518 Score: 2402
Period size: 199 Copynumber: 7.1 Consensus size: 199
2406108 AGGTAAACTT
* *
2406118 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
*
2406183 TAGGTAAATTATTCATGTAAAC-GGTCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAA
66 TAGGTAAATTATTCATGT-AACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* * *
2406247 GTTTTGACACAAATAGAACAAGTGTTGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
2406312 CTAAA
195 CTAAA
* *
2406317 AAGTGTCGATATATTTGTAACAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
2406382 TAGGTAAATTA-GCAATATAACTGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAA
66 TAGGTAAATTATTC-ATGTAACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
*
2406446 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTT-AAAACACAAGTGC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAA-ACAAGTGC
2406510 CCTAAA
194 CCTAAA
2406516 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * * *
2406581 TAGGTAAATTAGTAATATAAATGGTCTAAATATACC-GATTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
2406645 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
2406710 TAAA
196 TAAA
*
2406714 AAGTATCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
2406779 TAGGTAAATTATTCATGTAAATGATCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* *
2406844 TATCGACACAAATAGAACAAATGTCGATACTTTTTGTTCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
2406909 TAAA
196 TAAA
2406913 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
2406978 TAGGTAAATTATTCATGTAAAC-GGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
66 TAGGTAAATTATTCATGT-AACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* *
2407042 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTTCATAATGTATTTCAAAAACAAGTGCC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
2407107 CTAAA
195 CTAAA
2407112 AAGTGTCGATACA-TTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
*
2407176 TAGGTAAATTATTCATGTAAACT-GTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAA
66 TAGGTAAATTATTCATGT-AACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
*
2407240 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTACC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
2407305 CTAAA
195 CTAAA
2407310 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
2407375 TAGGTAAATTATTCATGTAAATGTTCTAAATATACCGGTTTTTGAGAAAACAGTTGTACAAAAAG
66 TAGGTAAATTATTCATGTAACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* * *
2407440 TATCGACATAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTAAAAAACAAGTGTCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
2407505 TAAA
196 TAAA
2407509 AAGTGTCGAT
1 AAGTGTCGAT
2407519 CCCAAAAGCA
Statistics
Matches: 1146, Mismatches: 46, Indels: 20
0.95 0.04 0.02
Matches are distributed among these distances:
198 390 0.34
199 754 0.66
200 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (199 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTATTCATGTAACTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
TAAA
Found at i:2406852 original size:397 final size:396
Alignment explanation
Indices: 2406118--2407657 Score: 2480
Period size: 397 Copynumber: 3.9 Consensus size: 396
2406108 AGGTAAACTT
* *
2406118 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
*
2406183 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* * *
2406248 TTTTGACACAAATAGAACAAGTGTTGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
* *
2406313 TAAAAAGTGTCGATATATTTGTAACAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACA-TTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
* * *
2406378 GTAATAGGTAAATTAGCAATATAACTGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAA
260 GTAATAGGTAAATTAGC-ATATAAATGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAA
*
2406443 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTT-AAAACACAAG
324 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAA-ACAAG
2406507 TGCCCTAAA
388 TGCCCTAAA
2406516 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * * *
2406581 TAGGTAAATTAGTAATATAAATGGTCTAAATATACC-GATTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
2406645 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
*
2406710 TAAAAAGTATCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACA-TTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
* * * * *
2406775 GTAATAGGTAAATTATTCATGTAAATGATCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAA
260 GTAATAGGTAAATTA-GCATATAAATGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAA
* *
2406840 AAAGTATCGACACAAATAGAACAAATGTCGATACTTTTTGTTCAGAATGTATTTCAAAAACAAGT
324 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGT
2406905 GCCCTAAA
389 GCCCTAAA
2406913 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
2406978 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* *
2407043 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTTCATAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
2407108 TAAAAAGTGTCGATACATTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATG
196 TAAAAAGTGTCGATACATTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATG
* *
2407173 TAATAGGTAAATTATTCATGTAAACT-GTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAA
261 TAATAGGTAAATTA-GCATATAAA-TGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAA
2407237 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGT
324 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGT
*
2407302 ACCCTAAA
389 GCCCTAAA
2407310 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
2407375 TAGGTAAATTATTCATGTAAATGTTCTAAATATACCGGTTTTTGAGAAAACAGTTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
2407440 TATCGACATAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTT--AAAA-AA-----C
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
* *
2407497 ----AAGTGTC----C----TAAAAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAATG
196 TAAAAAGTGTCGATACATTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATG
*
2407550 TAATAGGTAAATTAGCA-ATATAATCGGTCTAAATATACCGGGTTTTGAGAAAACAAGTGTACAA
261 TAATAGGTAAATTAGCATATA-AAT-GGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAA
*
2407614 AAAGTATCGACACAAACAGAACAAGTGTCGATACTTTTTGTCCA
324 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCA
2407658 AACTTCGTTA
Statistics
Matches: 1086, Mismatches: 49, Indels: 35
0.93 0.04 0.03
Matches are distributed among these distances:
375 3 0.00
376 4 0.00
377 137 0.13
381 1 0.00
385 7 0.01
389 1 0.00
394 2 0.00
395 4 0.00
397 719 0.66
398 208 0.19
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (396 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
TAAAAAGTGTCGATACATTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATG
TAATAGGTAAATTAGCATATAAATGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAA
AGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGC
CCTAAA
Found at i:2407255 original size:596 final size:595
Alignment explanation
Indices: 2406118--2407657 Score: 2545
Period size: 596 Copynumber: 2.6 Consensus size: 595
2406108 AGGTAAACTT
* *
2406118 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
2406183 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
66 TAGGTAAATTATTCATGTAAATGATCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
* * *
2406248 TTTTGACACAAATAGAACAAGTGTTGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
*
2406313 TAAAAAGTGTCGATATATTTGTAACAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAAT
*
2406378 GTAATAGGTAAATTAGCA-ATATAACTGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACA
261 GTAATAGGTAAATTAGCATATA-AAC-GGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACA
2406442 AAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTAAAACACAAG
324 AAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTAAAACACAAG
2406507 TGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATT
389 TGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATT
*
2406572 ATAATGTAATAGGTAAATTAGTAATATAAATGGTCTAAATATACCGATTTTGAGAAAACAGGTGT
454 ATAATGTAATAGGTAAATTAGTAATATAAATGGTCTAAATATACCGATTTTGAGAAAACAAGTGT
*
2406637 ACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAAC
519 ACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAAC
*
2406702 AAGTGCCCTAAA
584 AAGTACCCTAAA
*
2406714 AAGTATCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
2406779 TAGGTAAATTATTCATGTAAATGATCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAATGATCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
* *
2406844 TATCGACACAAATAGAACAAATGTCGATACTTTTTGTTCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
*
2406909 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAAT
* *
2406974 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAA
261 GTAATAGGTAAATTA-GCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAA
*
2407039 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTTCATAATGTATTTCAAAA-ACAAG
325 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTT-AAAACACAAG
2407103 TGCCCTAAAAAGTGTCGATACA-TTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATT
389 TGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATT
* * * *
2407167 ATAATGTAATAGGTAAATTATTCATGTAAACT-GTCTAAATATACCGGTTTTTGAGAAAACAAGT
454 ATAATGTAATAGGTAAATTAGTAATATAAA-TGGTCTAAATATACC-GATTTTGAGAAAACAAGT
2407231 GTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAA
517 GTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAA
2407296 ACAAGTACCCTAAA
582 ACAAGTACCCTAAA
2407310 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
2407375 TAGGTAAATTATTCATGTAAATGTTCTAAATATACCGGTTTTTGAGAAAACAGTTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAATGATCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
*
2407440 TATCGACATAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTT--AAAA-AA-----C
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
*
2407497 ----AAGTGTC----C-----TAAAAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAAT
* * *
2407549 GTAATAGGTAAATTAGCAATATAATCGGTCTAAATATACCGGGTTTTGAGAAAACAAGTGTACAA
261 GTAATAGGTAAATTAGC-ATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAA
*
2407614 AAAGTATCGACACAAACAGAACAAGTGTCGATACTTTTTGTCCA
325 AAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCA
2407658 AACTTCGTTA
Statistics
Matches: 897, Mismatches: 41, Indels: 33
0.92 0.04 0.03
Matches are distributed among these distances:
574 1 0.00
575 142 0.16
580 1 0.00
584 7 0.01
588 1 0.00
593 2 0.00
594 4 0.00
595 82 0.09
596 646 0.72
597 9 0.01
598 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (595 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTATTCATGTAAATGATCTAAATATACCGGTTTTTGAGAAAACAGATGTACAAAAAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
TAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAAT
GTAATAGGTAAATTAGCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
AAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTAAAACACAAGTG
CCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTAT
AATGTAATAGGTAAATTAGTAATATAAATGGTCTAAATATACCGATTTTGAGAAAACAAGTGTAC
AAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAA
GTACCCTAAA
Found at i:2407637 original size:178 final size:178
Alignment explanation
Indices: 2407331--2407657 Score: 543
Period size: 178 Copynumber: 1.8 Consensus size: 178
2407321 CATTTGTAAC
* *
2407331 AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGTAAA
1 AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATGCATATAAA
* * * *
2407396 TGTTCTAAATATACCGGTTTTTGAGAAAACAGTTGTACAAAAAGTATCGACATAAATAGAACAAG
66 TGGTCTAAATATACCGGGTTTTGAGAAAACAGTTGTACAAAAAGTATCGACACAAACAGAACAAG
2407461 TGTCGATACTTTTTGTCCAGAATGTATTTAAAAAACAAGTGTCCTAAA
131 TGTCGATACTTTTTGTCCAGAATGTATTTAAAAAACAAGTGTCCTAAA
*
2407509 AAGTGTCGATCCCAAAAGCATCGAAAACCATAATTATAATGTAATAGGTAAATTA-GCA-ATATA
1 AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATGCATATA-A
2407572 ATCGGTCTAAATATACCGGGTTTTGAGAAAACAAG-TGTACAAAAAGTATCGACACAAACAGAAC
65 AT-GGTCTAAATATACCGGGTTTTGAGAAAAC-AGTTGTACAAAAAGTATCGACACAAACAGAAC
2407636 AAGTGTCGATACTTTTTGTCCA
128 AAGTGTCGATACTTTTTGTCCA
2407658 AACTTCGTTA
Statistics
Matches: 139, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
176 2 0.01
177 5 0.04
178 130 0.94
179 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (178 bp):
AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATGCATATAAA
TGGTCTAAATATACCGGGTTTTGAGAAAACAGTTGTACAAAAAGTATCGACACAAACAGAACAAG
TGTCGATACTTTTTGTCCAGAATGTATTTAAAAAACAAGTGTCCTAAA
Found at i:2408531 original size:23 final size:23
Alignment explanation
Indices: 2408505--2408552 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2408495 AAATAGGTCA
* *
2408505 ATATAAGCGTTACATATTATATT
1 ATATAAGCGCTACATAATATATT
*
2408528 ATATAAGCGCTACTTAATATATT
1 ATATAAGCGCTACATAATATATT
2408551 AT
1 AT
2408553 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
ATATAAGCGCTACATAATATATT
Found at i:2435441 original size:23 final size:23
Alignment explanation
Indices: 2435408--2435470 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2435398 CCCCCCATGA
*
2435408 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
2435431 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
* *
2435454 GGGAATCGATACCCCCT
1 GGGAACCGATTCCCCCT
2435471 GGGGTTCTGG
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:0.22, C:0.30, G:0.25, T:0.22
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:2435469 original size:24 final size:23
Alignment explanation
Indices: 2435388--2435470 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
2435378 TTGGTGCAGA
* *
2435388 GGGAATCGATCCCCCC-ATG-A-
1 GGGAACCGATCCCCCCTTTGAAG
* *
2435408 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATCCCCCCTTTGAAG
*
2435431 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATCCCCCCTTTGAAG
* *
2435454 GGGAATCGATACCCCCT
1 GGGAACCGATCCCCCCT
2435471 GGGGTTCTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 13 0.25
21 2 0.04
22 1 0.02
23 37 0.70
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.20
Consensus pattern (23 bp):
GGGAACCGATCCCCCCTTTGAAG
Found at i:2446607 original size:28 final size:28
Alignment explanation
Indices: 2446570--2446624 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
2446560 GAAAAGAGAG
2446570 AAAAATACAGTTAACTTTAATTCAAAAA
1 AAAAATACAGTTAACTTTAATTCAAAAA
2446598 AAAAATACAGTTAACTTTAATTCAAAA
1 AAAAATACAGTTAACTTTAATTCAAAA
2446625 TTGAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAAATACAGTTAACTTTAATTCAAAAA
Found at i:2450536 original size:16 final size:14
Alignment explanation
Indices: 2450515--2450552 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
2450505 TAATAAAATA
2450515 GTAATAAAAATGTCAT
1 GTAATAAAAAT-T-AT
2450531 GTAATAAAAATTAT
1 GTAATAAAAATTAT
2450545 -TAATAAAA
1 GTAATAAAA
2450553 TAAATTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 2 0.09
15 1 0.05
16 11 0.50
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (14 bp):
GTAATAAAAATTAT
Found at i:2451640 original size:2 final size:2
Alignment explanation
Indices: 2451633--2451676 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2451623 AATAATATTC
2451633 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
2451675 AT
1 AT
2451677 TTATCCTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2452919 original size:2 final size:2
Alignment explanation
Indices: 2452912--2452938 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2452902 TAACAAAATC
2452912 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2452939 GGGTAGGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2453746 original size:26 final size:28
Alignment explanation
Indices: 2453687--2453754 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 28
2453677 GGCCGTAGGA
2453687 CGCCATGCCTTCCGGGCGACCTACTACGT
1 CGCCATGCCTTCCGGGCGACC-ACTACGT
2453716 CGCCATGCCTTCCGGGCGA-C-CTACGT
1 CGCCATGCCTTCCGGGCGACCACTACGT
*
2453742 CGCCATGGCTTCC
1 CGCCATGCCTTCC
2453755 CGGGAGCTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 18 0.47
28 1 0.03
29 19 0.50
ACGTcount: A:0.12, C:0.43, G:0.25, T:0.21
Consensus pattern (28 bp):
CGCCATGCCTTCCGGGCGACCACTACGT
Found at i:2453826 original size:32 final size:33
Alignment explanation
Indices: 2453790--2453867 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2453780 GTCTACATGT
2453790 GCCATGCACGTCCCCAACA-CCCAACACAGGTC
1 GCCATGCACGTCCCCAACACCCCAACACAGGTC
2453822 GCCATGCACGTCCCCAACACCCCAACACAGGTC
1 GCCATGCACGTCCCCAACACCCCAACACAGGTC
2453855 GCCATGCAC-TCCC
1 GCCATGCACGTCCC
2453868 AGCGACCTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 23 0.51
33 22 0.49
ACGTcount: A:0.26, C:0.49, G:0.15, T:0.10
Consensus pattern (33 bp):
GCCATGCACGTCCCCAACACCCCAACACAGGTC
Found at i:2454012 original size:23 final size:23
Alignment explanation
Indices: 2453982--2454025 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2453972 GTGCATGCGT
2453982 TGCATCCACAGCTGGGAGATTCA
1 TGCATCCACAGCTGGGAGATTCA
*
2454005 TGCATCCATAGCTGGGAGATT
1 TGCATCCACAGCTGGGAGATT
2454026 GTAGCCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (23 bp):
TGCATCCACAGCTGGGAGATTCA
Found at i:2454491 original size:28 final size:30
Alignment explanation
Indices: 2454451--2454512 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
2454441 AATTTAGTTA
2454451 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
2454479 ATTAGTTTGTTAGTTTAAGTTATATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
2454509 ATTA
1 ATTA
2454513 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTATATATTAT
Found at i:2454542 original size:50 final size:44
Alignment explanation
Indices: 2454474--2454575 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 44
2454464 TTTAAGTTAT
*
2454474 ATTATATTAGTTTGTTAGTTTAAGTTATATATTATATTATATAAAAAATTA
1 ATTA-ATTAGTTTCTTAGTTTAAGTTAT-TA--A-A-TATA-AAAAAATTA
2454525 ATTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAAATTA
1 ATTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAAATTA
2454569 ATTAATT
1 ATTAATT
2454576 TGTTAGTATC
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
44 16 0.32
45 4 0.08
46 1 0.02
47 1 0.02
49 2 0.04
50 22 0.44
51 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (44 bp):
ATTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAAATTA
Found at i:2455024 original size:17 final size:16
Alignment explanation
Indices: 2454989--2455047 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
2454979 AGATAATTTC
2454989 TGTTTAAAAAATATTG
1 TGTTTAAAAAATATTG
*
2455005 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A--TATTG
* *
2455024 TTGTTTTAAAAATATTT
1 -TGTTTAAAAAATATTG
2455041 TGTTTAA
1 TGTTTAA
2455048 TTTATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 16 0.47
17 4 0.12
19 5 0.15
20 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (16 bp):
TGTTTAAAAAATATTG
Found at i:2455051 original size:20 final size:21
Alignment explanation
Indices: 2455007--2455051 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2454997 AAATATTGTG
**
2455007 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
2455028 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
2455048 TTTA
1 TTTA
2455052 TATTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:2458183 original size:10 final size:10
Alignment explanation
Indices: 2458165--2458196 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
2458155 AGTAATGATA
2458165 TATGTATTTC
1 TATGTATTTC
*
2458175 TATGAATTTC
1 TATGTATTTC
2458185 TATGTATTTC
1 TATGTATTTC
2458195 TA
1 TA
2458197 AGATTTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (10 bp):
TATGTATTTC
Found at i:2458275 original size:60 final size:60
Alignment explanation
Indices: 2458198--2458440 Score: 341
Period size: 60 Copynumber: 4.2 Consensus size: 60
2458188 GTATTTCTAA
*
2458198 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
2458258 GATTTAGTAAT-ATTTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGA-TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
2458318 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
2458378 GA-TTA-T--T-A--A-TAATAAT----TTATTATTATTATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
2458426 GATTTAGTAATGATT
1 GATTTAGTAATGATT
2458441 TGATAGTAAT
Statistics
Matches: 167, Mismatches: 7, Indels: 23
0.85 0.04 0.12
Matches are distributed among these distances:
48 31 0.19
49 3 0.02
50 1 0.01
52 8 0.05
53 2 0.01
55 1 0.01
56 1 0.01
58 1 0.01
59 4 0.02
60 114 0.68
61 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:2458410 original size:48 final size:49
Alignment explanation
Indices: 2458322--2458436 Score: 171
Period size: 48 Copynumber: 2.3 Consensus size: 49
2458312 ATTAATGATT
2458322 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
2458371 TAGTAATGATTATTAATAAT-AATTTATTATT-ATTATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATT-TTTAATGATTTGA
*
2458419 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
2458437 GATTTGATAG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
47 3 0.05
48 31 0.52
49 26 0.43
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:2458426 original size:14 final size:14
Alignment explanation
Indices: 2458408--2458455 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
2458398 TATTATTATT
*
2458408 TAATGATTTGATAT
1 TAATGATTTGATAG
2458422 TAATGA-TT--TAG
1 TAATGATTTGATAG
2458433 TAATGATTTGATAG
1 TAATGATTTGATAG
2458447 TAATGATTT
1 TAATGATTT
2458456 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:2458437 original size:25 final size:25
Alignment explanation
Indices: 2458408--2458456 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2458398 TATTATTATT
*
2458408 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
2458433 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
2458457 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:2458553 original size:21 final size:20
Alignment explanation
Indices: 2458529--2458614 Score: 61
Period size: 21 Copynumber: 4.2 Consensus size: 20
2458519 GAAATTATAA
*
2458529 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAATAATGATTAG
* * * *
2458550 TAATA-ATGA-AATTATTAT
1 TAATATTTAATAATGATTAG
*
2458568 TAATATTTAATGATTTGA-TAG
1 TAATATTTAAT-A-ATGATTAG
2458589 TAATGATTTAATAATGATTAG
1 TAAT-ATTTAATAATGATTAG
2458610 TAATA
1 TAATA
2458615 ATGAAATTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 13
0.67 0.15 0.18
Matches are distributed among these distances:
18 12 0.25
19 3 0.06
20 5 0.10
21 19 0.40
22 9 0.19
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
TAATATTTAATAATGATTAG
Found at i:2458558 original size:13 final size:12
Alignment explanation
Indices: 2458522--2458678 Score: 66
Period size: 11 Copynumber: 13.1 Consensus size: 12
2458512 TAGTAATGAA
2458522 ATTATAATAATG
1 ATTATAATAATG
*
2458534 ATT-TAGTAATG
1 ATTATAATAATG
2458545 ATTAGTAATAATG
1 ATTA-TAATAATG
*
2458558 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
2458572 ATT-TAATGAT-
1 ATTATAATAATG
*
2458582 -TTGATAGTAATG
1 ATT-ATAATAATG
2458594 ATT-TAATAATG
1 ATTATAATAATG
2458605 ATTAGTAATAATG
1 ATTA-TAATAATG
*
2458618 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
2458632 ATT-TAATGAT-
1 ATTATAATAATG
*
2458642 -TTGATATTAATG
1 ATT-ATAATAATG
*
2458654 ATT-TAGTAATG
1 ATTATAATAATG
2458665 ATTATTAATAATG
1 ATTA-TAATAATG
2458678 A
1 A
2458679 AATTATTATT
Statistics
Matches: 110, Mismatches: 17, Indels: 35
0.68 0.10 0.22
Matches are distributed among these distances:
9 4 0.04
10 10 0.09
11 40 0.36
12 9 0.08
13 27 0.25
15 20 0.18
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:2458596 original size:60 final size:60
Alignment explanation
Indices: 2458529--2458775 Score: 356
Period size: 60 Copynumber: 4.3 Consensus size: 60
2458519 GAAATTATAA
2458529 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
2458589 TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
2458649 TAATGATTTAGTAATGATTATTAATAATGAAATTATTATTAATTTTTAATGA-TT--T-G
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
2458705 --AT-A---A-TAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
2458757 TAATGATTTAGTAATGATT
1 TAATGATTTAGTAATGATT
2458776 TGATAGAATG
Statistics
Matches: 166, Mismatches: 10, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
48 21 0.13
49 18 0.11
50 1 0.01
51 1 0.01
53 1 0.01
54 4 0.02
55 1 0.01
57 1 0.01
58 1 0.01
59 10 0.06
60 107 0.64
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (60 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
Found at i:2458745 original size:48 final size:49
Alignment explanation
Indices: 2458660--2458771 Score: 172
Period size: 48 Copynumber: 2.3 Consensus size: 49
2458650 AATGATTTAG
* *
2458660 TAATGATTATTAATAATGAAATTATTATTAATTTTTAATGATTTGATAA
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAA
* *
2458709 TAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAA
2458757 TAATGATTTAGTAAT
1 TAATGA-TTAGTAAT
2458772 GATTTGATAG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
48 34 0.59
49 24 0.41
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (49 bp):
TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAA
Found at i:2458759 original size:14 final size:14
Alignment explanation
Indices: 2458742--2458789 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
2458732 TTATTAATAT
2458742 TTAATGATTTGATA
1 TTAATGATTTGATA
2458756 TTAATGA-TT--TA
1 TTAATGATTTGATA
*
2458767 GTAATGATTTGATA
1 TTAATGATTTGATA
*
2458781 -GAATGATTT
1 TTAATGATTT
2458790 ACGACTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 8 0.28
12 2 0.07
13 10 0.34
14 9 0.31
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:2458916 original size:35 final size:35
Alignment explanation
Indices: 2458849--2458976 Score: 98
Period size: 38 Copynumber: 3.9 Consensus size: 35
2458839 ACATAACTAG
*
2458849 TAATGAAATTA-TAATAATGATTTAGTAGTGATTAGTAA
1 TAATGAAATTATTATTAAT-ATTTA--A-TGATTAGTAA
*
2458887 TAATGAAATTATTATTAATATTTAATGATT--TGA
1 TAATGAAATTATTATTAATATTTAATGATTAGTAA
* * *
2458920 T-AT----TAATGATT--TA-GTAATGATTAGTAA
1 TAATGAAATTATTATTAATATTTAATGATTAGTAA
2458947 TAATGAAATTATTATTAATATTTAATGATT
1 TAATGAAATTATTATTAATATTTAATGATT
2458977 TGATAGTAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 25
0.67 0.09 0.24
Matches are distributed among these distances:
25 8 0.11
26 2 0.03
27 3 0.04
28 8 0.11
32 8 0.11
33 3 0.04
34 2 0.03
35 13 0.19
36 1 0.01
38 16 0.23
39 6 0.09
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (35 bp):
TAATGAAATTATTATTAATATTTAATGATTAGTAA
Found at i:2458930 original size:60 final size:60
Alignment explanation
Indices: 2458863--2459178 Score: 512
Period size: 60 Copynumber: 5.3 Consensus size: 60
2458853 GAAATTATAA
* *
2458863 TAATGATTTAGTAGTGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
2458923 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* * * *
2458983 TAATGATTTAGTAATGATTAATAATAATAAAATTATTATTAATATTTAATAATTTGATAC
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
2459043 TAATAATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* * *
2459103 TAATGA-TTAATAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGAT-T
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
2459160 TAATGATTTAGTAATGATT
1 TAATGATTTAGTAATGATT
2459179 TGATAGTAAT
Statistics
Matches: 237, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
57 6 0.03
58 38 0.16
59 20 0.08
60 173 0.73
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (60 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
Found at i:2459010 original size:394 final size:400
Alignment explanation
Indices: 2458529--2459275 Score: 1319
Period size: 394 Copynumber: 1.9 Consensus size: 400
2458519 GAAATTATAA
2458529 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
* * * * *
2458594 ATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTA
66 ATTTAATAATGATTAATAATAATAAAATTATTATTAATATTTAATAATTTGATACTAATAATTTA
*
2458659 GTAATGATTATTAATAATGAAATTATTATTAATTTTT-A-A-TGAT-T-TGA-TAATAATGATTA
131 GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAAGATTGATATATGATTAATAATGATTA
2458718 GTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAG-
196 GTAATAATAATTTATTATTAATATTTAATGATTTGAT-TTAATGATTTAGTAATGATTTGATAGT
* *
2458782 AATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATGTTTTCTTTACATAACT
260 AATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACT
2458847 AGTAATGAAATTATAATAATGATTTAGTAGTGATTAGTAATAATGAAATTATTATTAATATTTAA
325 AGTAATGAAATTATAATAATGATTTAGTAGTGATTAGTAATAATGAAATTATTATTAATATTTAA
2458912 TGATTTGATAT
390 TGATTTGATAT
2458923 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
*
2458988 ATTTAGTAATGATTAATAATAATAAAATTATTATTAATATTTAATAATTTGATACTAATAATTTA
66 ATTTAATAATGATTAATAATAATAAAATTATTATTAATATTTAATAATTTGATACTAATAATTTA
2459053 GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAATAATG
131 GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAA-GA-TTGATA-T-ATGATTAATAATG
2459118 ATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATTTAATGATTTAGTAATGATTTGAT
192 ATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATTTAATGATTTAGTAATGATTTGAT
2459183 AGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATA
257 AGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATA
2459248 ACTAGTAATGAAATTATAATAATGATTT
322 ACTAGTAATGAAATTATAATAATGATTT
2459276 GATACTAAAA
Statistics
Matches: 333, Mismatches: 9, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
394 160 0.48
395 1 0.00
397 1 0.00
399 4 0.01
401 1 0.00
403 29 0.09
404 137 0.41
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.45
Consensus pattern (400 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
ATTTAATAATGATTAATAATAATAAAATTATTATTAATATTTAATAATTTGATACTAATAATTTA
GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAAGATTGATATATGATTAATAATGATTA
GTAATAATAATTTATTATTAATATTTAATGATTTGATTTAATGATTTAGTAATGATTTGATAGTA
ATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTA
GTAATGAAATTATAATAATGATTTAGTAGTGATTAGTAATAATGAAATTATTATTAATATTTAAT
GATTTGATAT
Found at i:2459067 original size:21 final size:21
Alignment explanation
Indices: 2458923--2459070 Score: 73
Period size: 21 Copynumber: 7.3 Consensus size: 21
2458913 GATTTGATAT
*
2458923 TAATGATTTAGTAATGATTAG
1 TAATAATTTAGTAATGATTAG
* * *
2458944 TAATAA--T-GAAATTATTAT
1 TAATAATTTAGTAATGATTAG
* *
2458962 TAAT-ATTTAATGATTTGA-TAG
1 TAATAATTTAGT-A-ATGATTAG
* *
2458983 TAATGATTTAGTAATGATTAA
1 TAATAATTTAGTAATGATTAG
* * *
2459004 TAATAA--TA-AAATTATTAT
1 TAATAATTTAGTAATGATTAG
* *
2459022 TAAT-ATTTAATAATTTGA-TAC
1 TAATAATTTAGTAA--TGATTAG
2459043 TAATAATTTAGTAATGATTAG
1 TAATAATTTAGTAATGATTAG
2459064 TAATAAT
1 TAATAAT
2459071 GAAATTATTA
Statistics
Matches: 92, Mismatches: 21, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
17 2 0.02
18 23 0.25
19 6 0.07
20 8 0.09
21 35 0.38
22 18 0.20
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.45
Consensus pattern (21 bp):
TAATAATTTAGTAATGATTAG
Found at i:2459160 original size:13 final size:13
Alignment explanation
Indices: 2459147--2459193 Score: 62
Period size: 14 Copynumber: 3.7 Consensus size: 13
2459137 TATTAATATT
*
2459147 TAATGATTTGATT
1 TAATGATTTGATG
2459160 TAATGATTT-A-G
1 TAATGATTTGATG
2459171 TAATGATTTGATAG
1 TAATGATTTGAT-G
2459185 TAATGATTT
1 TAATGATTT
2459194 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 9 0.30
12 2 0.07
13 9 0.30
14 10 0.33
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (13 bp):
TAATGATTTGATG
Found at i:2459176 original size:24 final size:25
Alignment explanation
Indices: 2459147--2459194 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
2459137 TATTAATATT
*
2459147 TAATGATTTGAT-TTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
2459171 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
2459195 CGACTTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:2461441 original size:251 final size:252
Alignment explanation
Indices: 2460976--2461478 Score: 999
Period size: 251 Copynumber: 2.0 Consensus size: 252
2460966 GAAATGAAAC
2460976 GTGTGCGTTTCTGGTCTCCAACGCACAATCAAGGCACTGATCAAACCTGTGACCAACTTGTAATC
1 GTGTGCGTTTCTGGTCTCCAACGCACAATCAAGGCACTGATCAAACCTGTGACCAACTTGTAATC
2461041 TCGCAAAAATGTTACATACCAAAATCCAGCCTCCTGCAAGTTTTCTTCTATCAATCTGTGTGGCT
66 TCGCAAAAATGTTACATACCAAAATCCAGCCTCCTGCAAGTTTTCTTCTATCAATCTGTGTGGCT
2461106 TGGGCACTTTATGTAGCTGAAGACGAAGGACTCGCTGCTCGTCCTCCTGCAATTAAATATTTCAA
131 TGGGCACTTTATGTAGCTGAAGACGAAGGACTCGCTGCTCGTCCTCCTGCAATTAAATATTTCAA
2461171 AATTTTTATCACAATCATAAAATAATATTCAAATATTTATTAATTATAATTCATTAA
196 AATTTTTATCACAATCATAAAATAATATTCAAATATTTATTAATTATAATTCATTAA
2461228 GTGTGCGTTTCTGGTCTCCAA-GCACAATCAAGGCACTGATCAAACCTGTGACCAACTTGTAATC
1 GTGTGCGTTTCTGGTCTCCAACGCACAATCAAGGCACTGATCAAACCTGTGACCAACTTGTAATC
2461292 TCGCAAAAATGTTACATACCAAAATCCAGCCTCCTGCAAGTTTTCTTCTATCAATCTGTGTGGCT
66 TCGCAAAAATGTTACATACCAAAATCCAGCCTCCTGCAAGTTTTCTTCTATCAATCTGTGTGGCT
2461357 TGGGCACTTTATGTAGCTGAAGACGAAGGACTCGCTGCTCGTCCTCCTGCAATTAAATATTTCAA
131 TGGGCACTTTATGTAGCTGAAGACGAAGGACTCGCTGCTCGTCCTCCTGCAATTAAATATTTCAA
2461422 AATTTTTATCACAATCATAAAATAATATTCAAATATTTATTAATTATAATTCATTAA
196 AATTTTTATCACAATCATAAAATAATATTCAAATATTTATTAATTATAATTCATTAA
2461479 ACAAATATTT
Statistics
Matches: 251, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
251 230 0.92
252 21 0.08
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (252 bp):
GTGTGCGTTTCTGGTCTCCAACGCACAATCAAGGCACTGATCAAACCTGTGACCAACTTGTAATC
TCGCAAAAATGTTACATACCAAAATCCAGCCTCCTGCAAGTTTTCTTCTATCAATCTGTGTGGCT
TGGGCACTTTATGTAGCTGAAGACGAAGGACTCGCTGCTCGTCCTCCTGCAATTAAATATTTCAA
AATTTTTATCACAATCATAAAATAATATTCAAATATTTATTAATTATAATTCATTAA
Found at i:2461677 original size:15 final size:14
Alignment explanation
Indices: 2461654--2461684 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
2461644 TACAACACTA
2461654 AACTTTAATATAAT
1 AACTTTAATATAAT
2461668 AACTTATAATATAAT
1 AACTT-TAATATAAT
2461683 AA
1 AA
2461685 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:2461692 original size:16 final size:16
Alignment explanation
Indices: 2461659--2461705 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
2461649 CACTAAACTT
*
2461659 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
2461674 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
2461690 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
2461706 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:2462045 original size:22 final size:21
Alignment explanation
Indices: 2462007--2462047 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2461997 TTTATGTATA
*
2462007 ATATAACTTAAACTAACAATC
1 ATATAACCTAAACTAACAATC
*
2462028 ATATAACCCTAAATTAACAA
1 ATATAA-CCTAAACTAACAA
2462048 ACTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAACCTAAACTAACAATC
Found at i:2462240 original size:26 final size:26
Alignment explanation
Indices: 2462194--2462251 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
2462184 CCCATTCTTT
*
2462194 CTTTC-TCGGCTGCAATTTCTTCTCC
1 CTTTCTTCGGCTGCAATCTCTTCTCC
*
2462219 CTTTCTTCTGCTGCAATCTCTTCTCC
1 CTTTCTTCGGCTGCAATCTCTTCTCC
2462245 CTTTCTT
1 CTTTCTT
2462252 TCTTTTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.07, C:0.36, G:0.09, T:0.48
Consensus pattern (26 bp):
CTTTCTTCGGCTGCAATCTCTTCTCC
Found at i:2463118 original size:23 final size:23
Alignment explanation
Indices: 2463091--2463140 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
2463081 TATTATTATT
2463091 ATATAATCAAGAACAAAAGAAAA
1 ATATAATCAAGAACAAAAGAAAA
2463114 ATATAATCAAGAACAAAAGAAAA
1 ATATAATCAAGAACAAAAGAAAA
2463137 ATAT
1 ATAT
2463141 TAACACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (23 bp):
ATATAATCAAGAACAAAAGAAAA
Found at i:2464511 original size:35 final size:35
Alignment explanation
Indices: 2464472--2464562 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
2464462 ACATGTTCTC
* * * *
2464472 TCCTTTTAGCTATTGAGACCATTTGATGAGTTTTA
1 TCCTTTTAACTACTGAAACCATATGATGAGTTTTA
2464507 TCCTTTTAACTACTGAAACCATATGATGAGTTCTT-
1 TCCTTTTAACTACTGAAACCATATGATGAGTT-TTA
*
2464542 TTCTTTTAA-TAACTGAAACCA
1 TCCTTTTAACT-ACTGAAACCA
2464563 CTTGATAGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.02
35 46 0.94
36 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (35 bp):
TCCTTTTAACTACTGAAACCATATGATGAGTTTTA
Found at i:2464828 original size:85 final size:85
Alignment explanation
Indices: 2464688--2464956 Score: 303
Period size: 85 Copynumber: 3.2 Consensus size: 85
2464678 ACACAAATGC
* * * * * * *
2464688 GCGTCGTTGAAGCCACCGA-CATAAATCTCAGATGACACGCAATTGTGTGTTATAAATCTACGAC
1 GCGTCATTGAAGCC-CCCATCATAAATCT-AGATGACACACATTTGTGTGTCATAAATTTATGAC
* *
2464752 GCGCATTTATGACGTT-CATTGA
64 ACGCATGTATGAC-TTACATTGA
*
2464774 GCGTCATTGAAGCCCCCATCATAAAT-TAAGATGACACTCATTTGTGTGTCATAAATTTATGACA
1 GCGTCATTGAAGCCCCCATCATAAATCT-AGATGACACACATTTGTGTGTCATAAATTTATGACA
*
2464838 CACATGTATGACTTACATTGA
65 CGCATGTATGACTTACATTGA
** * * *
2464859 GCGTCATTGAAGCCCCTGTCATAAATCT-GCTTGACACACATTTGTGTGTCATAATTTTTTGACA
1 GCGTCATTGAAGCCCCCATCATAAATCTAG-ATGACACACATTTGTGTGTCATAAATTTATGACA
*
2464923 CGCATGTATGACTTACATTGC
65 CGCATGTATGACTTACATTGA
*
2464944 GTGTCATTGAAGC
1 GCGTCATTGAAGC
2464957 ACACGTCATT
Statistics
Matches: 159, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
84 3 0.02
85 135 0.85
86 21 0.13
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (85 bp):
GCGTCATTGAAGCCCCCATCATAAATCTAGATGACACACATTTGTGTGTCATAAATTTATGACAC
GCATGTATGACTTACATTGA
Found at i:2465026 original size:2 final size:2
Alignment explanation
Indices: 2465013--2465052 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2465003 TTTCGTAAAT
*
2465013 TA TA TC 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
2465053 CTGTAGATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2467583 original size:38 final size:38
Alignment explanation
Indices: 2467512--2467640 Score: 156
Period size: 39 Copynumber: 3.3 Consensus size: 38
2467502 TTTGCGGTGT
* *
2467512 TCCCTCCTCATTTTCTTTCTTTTTTTCCCCTCTTCAGTG
1 TCCCTTCTCCTTTTCTTTCTTTTTTT-CCCTCTTCAGTG
2467551 TCCCTTCTCCTTTTCTTTCTTTTTTTCCCTCTTCAGTG
1 TCCCTTCTCCTTTTCTTTCTTTTTTTCCCTCTTCAGTG
* *
2467589 TCCCTTCTCCTTTCTACTCTTC-CTTTTT-CCT-TTGCGGTG
1 TCCCTTCTCCTTT-T-CT-TTCTTTTTTTCCCTCTT-CAGTG
2467628 TCCCTTCTCCTTT
1 TCCCTTCTCCTTT
2467641 CCCCTCTTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
38 27 0.33
39 45 0.55
40 7 0.09
41 3 0.04
ACGTcount: A:0.03, C:0.36, G:0.06, T:0.54
Consensus pattern (38 bp):
TCCCTTCTCCTTTTCTTTCTTTTTTTCCCTCTTCAGTG
Found at i:2467641 original size:39 final size:39
Alignment explanation
Indices: 2467533--2467654 Score: 144
Period size: 39 Copynumber: 3.1 Consensus size: 39
2467523 TTTCTTTCTT
*
2467533 TTTTTCCCCTCTTCAGTGTCCCTTCTCCTTT-TCT-TTCTT
1 TTTTT-CCCTCTTCAGTGTCCCTTCTCCTTTCTCTCTTC-C
2467572 TTTTTCCCTCTTCAGTGTCCCTTCTCCTTTCTACTCTTCC
1 TTTTTCCCTCTTCAGTGTCCCTTCTCCTTTCT-CTCTTCC
* *
2467612 TTTTT-CCT-TTGCGGTGTCCCTTCTCCTTTCCCCTCTTCC
1 TTTTTCCCTCTT-CAGTGTCCCTTCTCCTTT-CTCTCTTCC
2467651 TTTT
1 TTTT
2467655 GTTTCTTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
38 27 0.36
39 37 0.49
40 8 0.11
41 3 0.04
ACGTcount: A:0.02, C:0.38, G:0.07, T:0.53
Consensus pattern (39 bp):
TTTTTCCCTCTTCAGTGTCCCTTCTCCTTTCTCTCTTCC
Found at i:2467734 original size:94 final size:94
Alignment explanation
Indices: 2467562--2467799 Score: 313
Period size: 94 Copynumber: 2.6 Consensus size: 94
2467552 CCCTTCTCCT
* * * *
2467562 TTTCTTTCTTTTTTTCCCTCTTCAGTGTCCCTTCTCCTTTCTACTCTTCC-TTTTTCCTTTGCGG
1 TTTCTTT-TTTTTTTCCGTCTTCGGTGTCCCTTCTCCTTTCTCCTATTCCTTTTTTCCTTTGCGG
* * *
2467626 TGTCCCTTCTCCTTTCCCCTCTTCCTTTTG
65 TGCCCCTTCTCCTTTCCCCTCTTCATTTTC
* *
2467656 TTTCTTTTTTTTTTCCGTCTTCGGTGTCCCTTCTCATTTCTCCTATTCCTTTTTTCCTTTGTGGT
1 TTTCTTTTTTTTTTCCGTCTTCGGTGTCCCTTCTCCTTTCTCCTATTCCTTTTTTCCTTTGCGGT
2467721 GCCCCTTCTCCTTTCCCCTCTTCATTTTC
66 GCCCCTTCTCCTTTCCCCTCTTCATTTTC
* ** * *
2467750 TTTC---TTTTTTTCTGTCTTCGGTGTCATTTGTCCTTTCTCATATTCCTTTT
1 TTTCTTTTTTTTTTCCGTCTTCGGTGTCCCTTCTCCTTTCTCCTATTCCTTTT
2467800 CAACAAGTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
91 40 0.31
93 37 0.29
94 51 0.40
ACGTcount: A:0.03, C:0.32, G:0.08, T:0.56
Consensus pattern (94 bp):
TTTCTTTTTTTTTTCCGTCTTCGGTGTCCCTTCTCCTTTCTCCTATTCCTTTTTTCCTTTGCGGT
GCCCCTTCTCCTTTCCCCTCTTCATTTTC
Found at i:2480360 original size:12 final size:12
Alignment explanation
Indices: 2480343--2480371 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2480333 TTGGCAAATT
2480343 TGATGCTAAAAG
1 TGATGCTAAAAG
2480355 TGATGCTAAAAG
1 TGATGCTAAAAG
2480367 TGATG
1 TGATG
2480372 AAGGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (12 bp):
TGATGCTAAAAG
Found at i:2482572 original size:21 final size:23
Alignment explanation
Indices: 2482548--2482598 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
2482538 AGTGAATCGA
2482548 TACCCCCTTG-A-GGGAACCGAT
1 TACCCCCTTGAAGGGGAACCGAT
* *
2482569 TACCCCTTTGAAGGGGAACTGAT
1 TACCCCCTTGAAGGGGAACCGAT
*
2482592 TCCCCCC
1 TACCCCC
2482599 ACAGGAGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 9 0.38
22 1 0.04
23 14 0.58
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.22
Consensus pattern (23 bp):
TACCCCCTTGAAGGGGAACCGAT
Found at i:2488907 original size:15 final size:15
Alignment explanation
Indices: 2488882--2488937 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
2488872 GATGCTTTCT
2488882 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTTGACG
2488898 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
2488913 TTTTCTTCTTGGACG
1 TTTTCTTCTTTGACG
*
2488928 TTGTCTTCTT
1 TTTTCTTCTT
2488938 ACCCCATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.05, C:0.21, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:2494048 original size:17 final size:18
Alignment explanation
Indices: 2494022--2494056 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2494012 CTAAACCCAG
2494022 TTAAAATAATT-ATTATA
1 TTAAAATAATTAATTATA
*
2494039 TTAAATTAATTAATTATA
1 TTAAAATAATTAATTATA
2494057 AACATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATAATTAATTATA
Found at i:2497862 original size:21 final size:21
Alignment explanation
Indices: 2497838--2497888 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2497828 GTCCGAGTTA
*
2497838 CCCGCTACACCCGCAATAGTG
1 CCCGCGACACCCGCAATAGTG
** *
2497859 CCCGCGACGGCCGCAATAGCG
1 CCCGCGACACCCGCAATAGTG
*
2497880 CCTGCGACA
1 CCCGCGACA
2497889 GCCACAATCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.43, G:0.25, T:0.10
Consensus pattern (21 bp):
CCCGCGACACCCGCAATAGTG
Found at i:2497896 original size:21 final size:21
Alignment explanation
Indices: 2497851--2497896 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2497841 GCTACACCCG
* * *
2497851 CAATAGTGCCCGCGACGGCCG
1 CAATAGCGCCCGCGACAGCCA
*
2497872 CAATAGCGCCTGCGACAGCCA
1 CAATAGCGCCCGCGACAGCCA
2497893 CAAT
1 CAAT
2497897 CACGGTAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (21 bp):
CAATAGCGCCCGCGACAGCCA
Found at i:2512453 original size:20 final size:20
Alignment explanation
Indices: 2512428--2512466 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2512418 GATTAGGAAC
*
2512428 CGATTTTCAGGTCATCCAAG
1 CGATTTACAGGTCATCCAAG
*
2512448 CGATTTACAGGTCTTCCAA
1 CGATTTACAGGTCATCCAA
2512467 ACAAGTCAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (20 bp):
CGATTTACAGGTCATCCAAG
Found at i:2512664 original size:16 final size:15
Alignment explanation
Indices: 2512643--2512694 Score: 70
Period size: 16 Copynumber: 3.4 Consensus size: 15
2512633 ATTCCCTCAC
*
2512643 TATTATAATATTTATA
1 TATTAT-ATATATATA
2512659 TATTATATATATATAA
1 TATTATATATATAT-A
2512675 TATTATATATATA-A
1 TATTATATATATATA
2512689 TATTAT
1 TATTAT
2512695 TAATTTCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.21
15 7 0.21
16 20 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATATATATATA
Found at i:2512683 original size:14 final size:14
Alignment explanation
Indices: 2512646--2512694 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
2512636 CCCTCACTAT
2512646 TATAATATT-TATA
1 TATAATATTATATA
2512659 TAT--TA-TATATA
1 TATAATATTATATA
2512670 TATAATATTATATA
1 TATAATATTATATA
2512684 TATAATATTAT
1 TATAATATTAT
2512695 TAATTTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.03
11 9 0.28
13 5 0.16
14 17 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATAATATTATATA
Found at i:2513708 original size:21 final size:21
Alignment explanation
Indices: 2513682--2513731 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2513672 CATTTTGCTT
* *
2513682 TTCAATTTAGCCCCTGTTAAA
1 TTCAATTCAACCCCTGTTAAA
2513703 TTCAATTCAACCCCTGTTAAA
1 TTCAATTCAACCCCTGTTAAA
2513724 TTCAATTC
1 TTCAATTC
2513732 GTAATCTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (21 bp):
TTCAATTCAACCCCTGTTAAA
Done.