Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007931.1 Hibiscus syriacus cultivar Beakdansim tig00110339_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: 2341804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 12
Found at i:1682129 original size:48 final size:48
Alignment explanation
Indices: 1682024--1682130 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
1682014 GTAAACGAGA
* * *
1682024 TTATAAACGAATCGATAAATAGACATATAAATGAATCGATAAATAGAC
1 TTATAAATGAGTCGATAAATAGACATATAAATGAATCGATAAAAAGAC
* * *
1682072 ATATGAATGAGTCGATAAATAGACATATAAATGAGTCGATAAAAA-AGC
1 TTATAAATGAGTCGATAAATAGACATATAAATGAATCGATAAAAAGA-C
1682120 TTATAAATGAG
1 TTATAAATGAG
1682131 CTTGTTTGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
47 1 0.02
48 49 0.98
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.25
Consensus pattern (48 bp):
TTATAAATGAGTCGATAAATAGACATATAAATGAATCGATAAAAAGAC
Found at i:1682130 original size:24 final size:24
Alignment explanation
Indices: 1682025--1682114 Score: 144
Period size: 24 Copynumber: 3.8 Consensus size: 24
1682015 TAAACGAGAT
* *
1682025 TATAAACGAATCGATAAATAGACA
1 TATAAATGAGTCGATAAATAGACA
*
1682049 TATAAATGAATCGATAAATAGACA
1 TATAAATGAGTCGATAAATAGACA
*
1682073 TATGAATGAGTCGATAAATAGACA
1 TATAAATGAGTCGATAAATAGACA
1682097 TATAAATGAGTCGATAAA
1 TATAAATGAGTCGATAAA
1682115 AAAGCTTATA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (24 bp):
TATAAATGAGTCGATAAATAGACA
Found at i:1682324 original size:14 final size:14
Alignment explanation
Indices: 1682300--1682356 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 14
1682290 AAAAACATTA
1682300 TATTATATTATTATT
1 TATT-TATTATTATT
1682315 TATTTATTATTA-T
1 TATTTATTATTATT
1682328 TATTTA--ATTATT
1 TATTTATTATTATT
*
1682340 TATTT-TTAAT-TT
1 TATTTATTATTATT
1682352 TATTT
1 TATTT
1682357 TTTTTGCAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 4 0.11
12 13 0.34
13 9 0.24
14 8 0.21
15 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTATTATTATT
Found at i:1682325 original size:17 final size:17
Alignment explanation
Indices: 1682301--1682355 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
1682291 AAAACATTAT
1682301 ATTA-TATTATTATTTA
1 ATTATTATTATTATTTA
*
1682317 TTTATTATTATTATTTA
1 ATTATTATTATTATTTA
1682334 ATTA-T-TTATT-TTTA
1 ATTATTATTATTATTTA
1682348 ATT-TTATT
1 ATTATTATT
1682356 TTTTTTGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.24
15 7 0.21
16 4 0.12
17 15 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTATTATTATTATTTA
Found at i:1682330 original size:25 final size:24
Alignment explanation
Indices: 1682296--1682344 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
1682286 CTACAAAAAC
1682296 ATTATATTATATT-ATTATTTATTT
1 ATTATATTAT-TTAATTATTTATTT
1682320 ATTATTATTATTTAATTATTTATTT
1 ATTA-TATTATTTAATTATTTATTT
1682345 TTAATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTATATTATTTAATTATTTATTT
Found at i:1688793 original size:106 final size:106
Alignment explanation
Indices: 1688608--1690249 Score: 2786
Period size: 106 Copynumber: 15.6 Consensus size: 106
1688598 GAAAAGTTGT
1688608 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1688673 GAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * *
1688714 TTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* *
1688779 CAGACAACGTAAGTTCAACTTCACAACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1688820 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * *
1688885 GAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGATGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1688926 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* *
1688991 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCACTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * *
1689032 TTGTCAATAGACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1689097 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1689138 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1689203 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1689244 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * *
1689309 GAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGATGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1689350 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1689415 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * *
1689456 TTGTCAATAGACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1689521 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1689562 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1689627 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1689668 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1689733 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* *
1689774 TTGTCAATAAACAA-----C---TTC----CCAATTTCAACTTCGCAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1689827 CAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1689868 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1689933 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * *
1689974 TTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAATTTCACAACAAAGGATATTGGACTC
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
1690039 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * *
1690080 TTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTA
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* *
1690145 CAGACAACACAAGTTCTACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * * ** *
1690186 TTGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACT
1 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
1690250 TGTAACAATA
Statistics
Matches: 1457, Mismatches: 67, Indels: 24
0.94 0.04 0.02
Matches are distributed among these distances:
94 87 0.06
98 3 0.00
99 1 0.00
101 1 0.00
102 3 0.00
106 1362 0.93
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
Found at i:1689764 original size:43 final size:43
Alignment explanation
Indices: 1689703--1689850 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 43
1689693 CAGAGCCAAT
1689703 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *** ** * * * *
1689746 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
*
1689797 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1689840 TTCAACTTCAC
1 TTCAACTTCAC
1689851 GATGAAGGGA
Statistics
Matches: 75, Mismatches: 22, Indels: 16
0.66 0.19 0.14
Matches are distributed among these distances:
43 30 0.40
44 3 0.04
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.25
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:1690637 original size:164 final size:167
Alignment explanation
Indices: 1690449--1690777 Score: 463
Period size: 164 Copynumber: 2.0 Consensus size: 167
1690439 TCTGCCAACA
*
1690449 AAAGACCTTTGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTGCAGCATAGCTTAAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCG
* * *
1690513 AGAAGGGCTATCTGCC-A-AAGACCCCCGAGTTCGATTACACTCAGCTTC-GAGGGCATATC-A-
65 AGAAGGGCTATCTGCCAACAAGACCCCCGAGTTCAATTACACTCAGC-TCAGA-GGCAAACCAAG
* * *
1690573 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC
128 TTTACAGAATAACTCAAGGCAAGAAGGGCTATCTGTGACC
* *
1690613 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGTTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
**
1690678 GAAGGGCTATCTGCCAACCGAAGACCTTCGAGTTCAATTACACTCAGCTCAGAGGCAAACCAAGT
66 GAAGGGCTATCTGCCAA-C-AAGACCCCCGAGTTCAATTACACTCAGCTCAGAGGCAAACCAAGT
*
1690743 TTACAGAATAGCTCAAGGCAAGAAGGGCTATCTGT
129 TTACAGAATAACTCAAGGCAAGAAGGGCTATCTGT
1690778 CAATAAAACT
Statistics
Matches: 145, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
164 73 0.50
165 4 0.03
167 8 0.06
168 28 0.19
169 32 0.22
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (167 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
GAAGGGCTATCTGCCAACAAGACCCCCGAGTTCAATTACACTCAGCTCAGAGGCAAACCAAGTTT
ACAGAATAACTCAAGGCAAGAAGGGCTATCTGTGACC
Found at i:1690702 original size:84 final size:84
Alignment explanation
Indices: 1690439--1690776 Score: 312
Period size: 84 Copynumber: 4.0 Consensus size: 84
1690429 AGAAGGAGTG
* * *
1690439 TCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTGCAGCATA
1 TCTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGCATA
1690503 GCTTAAGTCGAGAAGGGCTA
65 GCTTAAGTCGAGAAGGGCTA
** * * * * *
1690523 TCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATA
1 TCTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATA
* * * * *
1690584 ACTCAAGGCTAGAAGGGTTA
65 GCTTAAGTCGAGAAGGGCTA
** * *
1690604 TCTG-TGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAG
1 TCTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAG
*
1690668 TTTAAGTCGAGAAGGGCTA
66 CTTAAGTCGAGAAGGGCTA
* * * * * * *
1690687 TCTGCCAACCGAAGACCTTCGAGTTCAATTACACTCAGCT-CAGAGGCAAACCAAGTTTACAGAA
1 TCTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCA-AGGCACATC-A-TTTGCAGCA
* * *
1690751 TAGCTCAAGGCAAGAAGGGCTA
63 TAGCTTAAGTCGAGAAGGGCTA
1690773 TCTG
1 TCTG
1690777 TCAATAAAAC
Statistics
Matches: 201, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
80 25 0.12
81 38 0.19
82 1 0.00
83 40 0.20
84 67 0.33
85 1 0.00
86 29 0.14
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (84 bp):
TCTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAG
CTTAAGTCGAGAAGGGCTA
Found at i:1691077 original size:21 final size:21
Alignment explanation
Indices: 1691034--1691092 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1691024 AAAAACATTA
*
1691034 TATTATATTA-TATTA-TTATT
1 TATT-TATTATTATTATTTAAT
1691054 TATTTATTATTATTATTTAAT
1 TATTTATTATTATTATTTAAT
*
1691075 TATTTATTTTTATT-TTTA
1 TATTTATTATTATTATTTA
1691093 TTTTTTTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.14
20 13 0.37
21 17 0.49
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTATTATTATTATTTAAT
Found at i:1691095 original size:6 final size:6
Alignment explanation
Indices: 1691046--1691097 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
1691036 TTATATTATA
* *
1691046 TTATTAT TTATTT ATTATTA TTA-TT TAATTAT TTATTT TTATTT TTATTT
1 TTATT-T TTATTT -TTATTT TTATTT TTATT-T TTATTT TTATTT TTATTT
1691096 TT
1 TT
1691098 TTTGCAGGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
5 3 0.08
6 20 0.53
7 15 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:1691098 original size:14 final size:14
Alignment explanation
Indices: 1691044--1691099 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
1691034 TATTATATTA
*
1691044 TATTATTATTTATT
1 TATTATTATTTTTT
*
1691058 TATTATTATTATTT
1 TATTATTATTTTTT
* *
1691072 AATTATT-TATTTT
1 TATTATTATTTTTT
*
1691085 TATTTTTATTTTTT
1 TATTATTATTTTTT
1691099 T
1 T
1691100 TGCAGGCCCC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
13 9 0.27
14 24 0.73
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TATTATTATTTTTT
Found at i:1694351 original size:20 final size:20
Alignment explanation
Indices: 1694326--1694363 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1694316 AACACGCTGG
1694326 GCATCCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGAGA
1694346 GCATCCGAGGCCATCCGA
1 GCATCCGAGGCCATCCGA
1694364 CCGAGGCCAT
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:0.24, C:0.37, G:0.29, T:0.11
Consensus pattern (20 bp):
GCATCCGAGGCCATCCGAGA
Found at i:1694369 original size:14 final size:14
Alignment explanation
Indices: 1694350--1694382 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1694340 CCGAGAGCAT
1694350 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
1694364 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
1694378 ACGAG
1 CCGAG
1694383 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:1694377 original size:10 final size:10
Alignment explanation
Indices: 1694327--1694363 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
1694317 ACACGCTGGG
1694327 CATCCGAGGC
1 CATCCGAGGC
1694337 CATCCGAGAG-
1 CATCCGAG-GC
1694347 CATCCGAGGC
1 CATCCGAGGC
1694357 CATCCGA
1 CATCCGA
1694364 CCGAGGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:1694416 original size:33 final size:33
Alignment explanation
Indices: 1694374--1694448 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
1694364 CCGAGGCCAT
* * *
1694374 CCGAACGAGCTATGCGAGGGCATCTGAGGGCAA-
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGG-AAG
1694407 CCGAGCGAGCTATGCGAGGGAATCCGAGGGAAG
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGAAG
1694440 CCGAGCGAG
1 CCGAGCGAG
1694449 GGTAGGTCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.27, C:0.24, G:0.40, T:0.09
Consensus pattern (33 bp):
CCGAGCGAGCTATGCGAGGGAATCCGAGGGAAG
Found at i:1694499 original size:29 final size:29
Alignment explanation
Indices: 1694452--1694507 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1694442 GAGCGAGGGT
* * *
1694452 AGGTCTCCCGGAGTACATGGGGACCTACA
1 AGGTCGCCCGGAGGACATGGCGACCTACA
*
1694481 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGACATGGCGACCTA
1694508 TGTGTTGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.21, C:0.29, G:0.36, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGACATGGCGACCTACA
Found at i:1696143 original size:29 final size:28
Alignment explanation
Indices: 1696052--1696143 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 28
1696042 TTTGGATGAA
*
1696052 TTTAGGGATAAAATTGAAATATTCAAAAG
1 TTTAGGGATAAAATT-AAATGTTCAAAAG
* * * * *
1696081 TTTGGGGATTAATTTAAAAGTAGGTC-ATAG
1 TTTAGGGATAAAATT-AAA-T-GTTCAAAAG
*
1696111 TTTAGGGATGAAATTATAATGTTCAAAAG
1 TTTAGGGATAAAATTA-AATGTTCAAAAG
1696140 TTTA
1 TTTA
1696144 AGGACTAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
28 3 0.06
29 24 0.51
30 18 0.38
31 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (28 bp):
TTTAGGGATAAAATTAAATGTTCAAAAG
Found at i:1696199 original size:60 final size:60
Alignment explanation
Indices: 1696052--1696217 Score: 205
Period size: 60 Copynumber: 2.8 Consensus size: 60
1696042 TTTGGATGAA
* ** * *
1696052 TTTAGGGATAAAATTGAAATATTCAAAAGTTTGGGGATTAATTT-AA-AAGTAGGTCATAG
1 TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAAATAAG-AGGTCATAC
*
1696111 TTTAGGGATGAAATT-ATAATGTTCAAAAGTTTAAGGACTAATTTAGAATAAGAGG-CATAC
1 TTTAGGGATGAAATTGA-AATATTCAAAAGTTTAAGGACTAATTTA-AATAAGAGGTCATAC
* *
1696171 TTTAGGGATGAAATTGGAATATTTAAAAGTTTAAGGACTAATTTAAA
1 TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAAA
1696218 ATGAAGATTA
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
58 1 0.01
59 39 0.42
60 45 0.48
61 5 0.05
62 3 0.03
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (60 bp):
TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAAATAAGAGGTCATAC
Found at i:1696339 original size:18 final size:19
Alignment explanation
Indices: 1696314--1696358 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
1696304 TATTTTTGGA
*
1696314 TTAA-TTATTAGT-AATAT
1 TTAATTTATTAATAAATAT
*
1696331 TTAATTTATTAATAAATCT
1 TTAATTTATTAATAAATAT
1696350 TTAATTTAT
1 TTAATTTAT
1696359 AATTTATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 13 0.54
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAATTTATTAATAAATAT
Found at i:1705919 original size:59 final size:59
Alignment explanation
Indices: 1705815--1705990 Score: 221
Period size: 59 Copynumber: 2.9 Consensus size: 59
1705805 TAGTATGATT
*
1705815 ACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGCAATACCCTATAGTCGAAGG
1 ACCATTTTGTAACTTTTAATAGTCGAGA-ACTCAACAAAGTAATACCCTATAGTCGAAGG
* * * **
1705875 ACCATTTTGTAAC-TTTAATAGTTAGAGAACTCAACAAAGTAATACACTATAGTCAAATT
1 ACCATTTTGTAACTTTTAATAG-TCGAGAACTCAACAAAGTAATACCCTATAGTCGAAGG
* * *
1705934 ATCATTTTGTAACTTTTAATAGTCGAAGGACCCAACAAAGT-ATCACCCTATAGTCGA
1 ACCATTTTGTAACTTTTAATAGTCG-AGAACTCAACAAAGTAAT-ACCCTATAGTCGA
1705991 TAGACTATTT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
59 50 0.50
60 50 0.50
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (59 bp):
ACCATTTTGTAACTTTTAATAGTCGAGAACTCAACAAAGTAATACCCTATAGTCGAAGG
Found at i:1706223 original size:35 final size:35
Alignment explanation
Indices: 1706168--1706235 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
1706158 TTAGAGGATC
*
1706168 ATTATATACTCCTCTCGATTCAAAATAAAAAAAAA
1 ATTATATACCCCTCTCGATTCAAAATAAAAAAAAA
*
1706203 ATTATATACCCCTCAT-GATTCGAAATAAAAAAA
1 ATTATATACCCCTC-TCGATTCAAAATAAAAAAA
1706236 TTAATTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (35 bp):
ATTATATACCCCTCTCGATTCAAAATAAAAAAAAA
Found at i:1712074 original size:23 final size:24
Alignment explanation
Indices: 1712041--1712095 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
1712031 TTTCTATAAA
*
1712041 TATAATATTTTTCTTTCCTTTTTT
1 TATAATATTTTTATTTCCTTTTTT
1712065 TATAAT-TTTTTATTT-CTTTTTT
1 TATAATATTTTTATTTCCTTTTTT
*
1712087 TTTAA-ATTT
1 TATAATATTT
1712096 AGAGAAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.50
23 8 0.29
24 6 0.21
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (24 bp):
TATAATATTTTTATTTCCTTTTTT
Found at i:1713118 original size:3 final size:3
Alignment explanation
Indices: 1713110--1713147 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1713100 AAATAAACGG
1713110 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1713148 TAAAAACGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1713949 original size:134 final size:134
Alignment explanation
Indices: 1713353--1713920 Score: 750
Period size: 134 Copynumber: 4.2 Consensus size: 134
1713343 CACTATTATA
* * * * * * * *
1713353 CAGGGAAGATTAAATCGGAATCAATTTGTTTCATTGCTCTTCATGAAGACCAAATCTGAAAGAAT
1 CAGGGAAGATTGAATCGAAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAG
* * * * * * * * *
1713418 AAGAATTTACTTCAATACTTTTTAGGGTAGATCAAACTCGATG-AAACTTTGACCCACTTCACTA
66 AAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGA-GAAAACTTTGATCCACTTCACTG
*
1713482 TTCTT
130 CTCTT
*
1713487 CAGGGAAGATTGAATC-ATAATCGATTTGCTTCACTGTTCTTTAGGAAGACCAAATCTGAAAGAA
1 CAGGGAAGATTGAATCGA-AATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAA
* * *
1713551 GAAGAATATGCTCCACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTGATCCACTTCACTG
65 GAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTG
1713616 CTCTT
130 CTCTT
* * * *
1713621 TAGGGAAGATTGAATCAAAATTGATTTGCTTCACTGCTCTTTAGGAAGACAAAATCTGAAAGAAG
1 CAGGGAAGATTGAATCGAAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAG
* * *
1713686 AAGAATCTGCTCCACTAATATTTAGGGGAGATCAGACTCGAGAAAACCTTGATCCACTTCACTGC
66 AAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGC
1713751 TCTT
131 TCTT
* *
1713755 CAGGGAAGATAT-AATCGGAAA-CGATTTGCTTCACTACTCTTTAGGAAGACCAAATCTGAAATA
1 CAGGGAAGAT-TGAATC-GAAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGA
*
1713818 AGAGGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACT
64 AGAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACT
1713883 GCTCTT
129 GCTCTT
* *
1713889 CAGGGAAGA-TGAAATCGAATTTGATTTGCTTC
1 CAGGGAAGATTG-AATCGAAATCGATTTGCTTC
1713921 TCTTGTCTTC
Statistics
Matches: 383, Mismatches: 43, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
132 1 0.00
133 4 0.01
134 373 0.97
135 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (134 bp):
CAGGGAAGATTGAATCGAAATCGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAG
AAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGC
TCTT
Found at i:1714580 original size:45 final size:46
Alignment explanation
Indices: 1714520--1715030 Score: 519
Period size: 45 Copynumber: 11.4 Consensus size: 46
1714510 GGTTGATTCT
* * * * *
1714520 TCTTCGTGAGAAAGTCAA-AAAGGACAACACTAACAGATCGACTTC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
1714565 TCTTCGCGAGAAAGTCAAGGAAGGA-AACACTAAAAGATTGACTCC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
* * * *
1714610 TCTTCGTGAGAAAGTCAAGGAAGG-TAACACTAAAAGATTAAATCC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
** * *
1714655 TCTTCATGAGAAAGTCAAGGAA-GATAACACCAAAAGATTGACTCC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
* * * *
1714700 TTTTCGCGAGAAAATCAA-GAAGGACAACACTAAAAAATTGACTTC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
*
1714745 TCTTCGCGAGAAAGTAAAGGAA-GACAACACTAAAAGATTGACTCC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
* * * *
1714790 TCTTCGTGAGAAATTCTAGGAA-GACAACACTAAAAGATTAACTCC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
** * * *
1714835 TCTTCATGACAAAGTCAATGAAGG-CAACACTAAAAGATTGACTCA
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
* * * *
1714880 TCTTCACGAGAAAGTCAATGAA-GACAACACTAAAATATTAACTCC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
* * * ** *
1714925 TCTTCGCGAGAAAGTCAA-GAATGACAATACTAAGAGATTGGTTTC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
* * * **
1714970 TCTTCACGAGAAGGTCAA-G-A--ATAACACCGAAAGATTGACTCC
1 TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
* **
1715012 TCTTCACGAGGGAGTCAAG
1 TCTTCGCGAGAAAGTCAAG
1715031 AATAAAAAAG
Statistics
Matches: 394, Mismatches: 63, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.07
44 9 0.02
45 347 0.88
46 9 0.02
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (46 bp):
TCTTCGCGAGAAAGTCAAGGAAGGACAACACTAAAAGATTGACTCC
Found at i:1715055 original size:38 final size:38
Alignment explanation
Indices: 1714967--1715186 Score: 219
Period size: 38 Copynumber: 5.6 Consensus size: 38
1714957 AGAGATTGGT
*
1714967 TTCTCTTCACGA-GAAGGTCAAGAATAACACCGAAAGATTGAC
1 TTCTCTTCACGAGGGA-GTCAAGAAT-A-A-C-AAAGATTGAC
* * *
1715009 TCCTCTTCACGAGGGAGTCAAGAATAAAAAAGGTTGAC
1 TTCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGAC
* *
1715047 TT-TACTTCACGAGGAAGTCAAGAATAACAAATATTGAC
1 TTCT-CTTCACGAGGGAGTCAAGAATAACAAAGATTGAC
*
1715085 TTCTCTTCACGAGGGAGTCATGAATAACAAAGATTGAC
1 TTCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGAC
* * * *
1715123 TTCTCTTTACAAGGAAGTCAAGAGTAACATTCAAAGATTGAC
1 TTCTCTTCACGAGGGAGTCAAGAAT-A-A--CAAAGATTGAC
* *
1715165 TTCTCTTCGCGAGGGAGCCAAG
1 TTCTCTTCACGAGGGAGTCAAG
1715187 TTGAAGCTTC
Statistics
Matches: 149, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
37 1 0.01
38 93 0.62
39 2 0.01
40 2 0.01
41 1 0.01
42 48 0.32
43 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (38 bp):
TTCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGAC
Found at i:1715101 original size:76 final size:79
Alignment explanation
Indices: 1714967--1715186 Score: 270
Period size: 76 Copynumber: 2.8 Consensus size: 79
1714957 AGAGATTGGT
* *
1714967 TTCTCTTCACGA-GAAGGTCAAGAATAACACCGAAAGATTGACTCCTCTTCACGAGGGAGTCAAG
1 TTCTCTTCACGAGGAA-GTCAAGAATAACATC-AAAGATTGACTTCTCTTCACGAGGGAGTCAAG
*
1715031 AATAAAAAAGGTTGAC
64 AATAAAAAAGATTGAC
* *
1715047 TT-TACTTCACGAGGAAGTCAAGAAT-A-A-CAAATATTGACTTCTCTTCACGAGGGAGTCATGA
1 TTCT-CTTCACGAGGAAGTCAAGAATAACATCAAAGATTGACTTCTCTTCACGAGGGAGTCAAGA
*
1715108 ATAACAAAGATTGAC
65 ATAAAAAAGATTGAC
* * * * *
1715123 TTCTCTTTACAAGGAAGTCAAGAGTAACATTCAAAGATTGACTTCTCTTCGCGAGGGAGCCAAG
1 TTCTCTTCACGAGGAAGTCAAGAATAACA-TCAAAGATTGACTTCTCTTCACGAGGGAGTCAAG
1715187 TTGAAGCTTC
Statistics
Matches: 121, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
76 63 0.52
77 3 0.02
78 2 0.02
79 2 0.02
80 48 0.40
81 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (79 bp):
TTCTCTTCACGAGGAAGTCAAGAATAACATCAAAGATTGACTTCTCTTCACGAGGGAGTCAAGAA
TAAAAAAGATTGAC
Found at i:1716182 original size:24 final size:23
Alignment explanation
Indices: 1716124--1716190 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
1716114 CTTTTATTTC
1716124 CAAAAAA-TTGAAAAATATCAAT
1 CAAAAAATTTGAAAAATATCAAT
* * *
1716146 TAAAAGAATTTTGAAAAATGTTTAAT
1 CAAAA-AA-TTTGAAAAAT-ATCAAT
1716172 CAAAAAATTTGAAAAATAT
1 CAAAAAATTTGAAAAATAT
1716191 TGCCCCTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.11
23 3 0.08
24 10 0.28
25 11 0.31
26 8 0.22
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.30
Consensus pattern (23 bp):
CAAAAAATTTGAAAAATATCAAT
Found at i:1717169 original size:9 final size:9
Alignment explanation
Indices: 1717157--1717214 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
1717147 TCTTTTTTTC
1717157 TTCTTTCTT
1 TTCTTTCTT
*
1717166 TTCTATCTT
1 TTCTTTCTT
1717175 TTCTCTTC-T
1 TTCT-TTCTT
*
1717184 AT-TTTCTCT
1 TTCTTTCT-T
1717193 TT-TTTCTT
1 TTCTTTCTT
1717201 TTCTTTTCTT
1 TTC-TTTCTT
1717211 TTCT
1 TTCT
1717215 CTGTGTTTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 22 0.55
10 11 0.28
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.74
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:1717177 original size:14 final size:13
Alignment explanation
Indices: 1717118--1717210 Score: 65
Period size: 14 Copynumber: 7.3 Consensus size: 13
1717108 TTATTTTCTG
*
1717118 TCTT-TTTTCTTG
1 TCTTCTTTTCTTT
1717130 TCTT-TTTCCTCTTT
1 TCTTCTTT--TCTTT
*
1717144 TCCTC-TTT-TTT
1 TCTTCTTTTCTTT
1717155 TCTTC-TTTCTTT
1 TCTTCTTTTCTTT
*
1717167 TCTATCTTTTCTCT
1 TCT-TCTTTTCTTT
1717181 TCTAT-TTTCTCTTT
1 TCT-TCTTT-TCTTT
1717195 T-TTCTTTTCTTT
1 TCTTCTTTTCTTT
1717207 TCTT
1 TCTT
1717211 TTCTCTGTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
11 10 0.15
12 21 0.31
13 11 0.16
14 25 0.37
ACGTcount: A:0.02, C:0.24, G:0.01, T:0.73
Consensus pattern (13 bp):
TCTTCTTTTCTTT
Found at i:1717178 original size:21 final size:21
Alignment explanation
Indices: 1717152--1717209 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
1717142 TTTCCTCTTT
1717152 TTTTCTTCTTTCTTTTCTATC
1 TTTTCTTCTTTCTTTTCTATC
*
1717173 TTTTC-TC-TTCTATTT-TCTC
1 TTTTCTTCTTTCT-TTTCTATC
1717192 TTTT-TTCTTTTCTTTTCT
1 TTTTCTTC-TTTCTTTTCT
1717210 TTTCTCTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
19 13 0.42
20 8 0.26
21 10 0.32
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTTCTTTCTTTTCTATC
Found at i:1717183 original size:26 final size:24
Alignment explanation
Indices: 1717160--1717212 Score: 54
Period size: 26 Copynumber: 2.1 Consensus size: 24
1717150 TTTTTTCTTC
1717160 TTTCTTTTCTATCTTTTCTCTTCTAT
1 TTTCTTTTCTATCTTTTCT-TTCT-T
*
1717186 TTTCTCTTT-TTTCTTTTCTTTTCTT
1 TTTCT-TTTCTATCTTTTC-TTTCTT
1717211 TT
1 TT
1717213 CTCTGTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
25 3 0.12
26 17 0.71
27 4 0.17
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTCTTTTCTATCTTTTCTTTCTT
Found at i:1717198 original size:53 final size:52
Alignment explanation
Indices: 1717111--1717210 Score: 116
Period size: 53 Copynumber: 1.9 Consensus size: 52
1717101 TCTTGATTTA
* *
1717111 TTTTCTGTCTTTTTTCTTGTCTTTTTCCTCTTTTCCTCTTT-TTTTCTTCTTTC
1 TTTTCTATCTTTTCTCTTGTCTTTTTCCTCTTTT-CT-TTTCTTTTCTTCTTTC
*
1717164 TTTTCTATCTTTTCTC-T-TCTATTTTCTCTTTTTTCTTTTCTTTTCTT
1 TTTTCTATCTTTTCTCTTGTCT-TTTTC-CTCTTTTCTTTTCTTTTCTT
1717211 TTCTCTGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
51 6 0.15
52 15 0.37
53 20 0.49
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (52 bp):
TTTTCTATCTTTTCTCTTGTCTTTTTCCTCTTTTCTTTTCTTTTCTTCTTTC
Found at i:1717202 original size:5 final size:5
Alignment explanation
Indices: 1717147--1717214 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
1717137 CCTCTTTTCC
* * * *
1717147 TCTTT TTTTCT TC-TT TCTTT TC-TA TCTTT TCTCTT CTATTT TCTCT
1 TCTTT TCTT-T TCTTT TCTTT TCTTT TCTTT TCT-TT -TCTTT TCTTT
1717193 T-TTT TCTTT TCTTT TCTTT TCT
1 TCTTT TCTTT TCTTT TCTTT TCT
1717215 CTGTGTTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
4 9 0.18
5 32 0.65
6 6 0.12
7 2 0.04
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:1717229 original size:34 final size:31
Alignment explanation
Indices: 1717139--1717231 Score: 87
Period size: 35 Copynumber: 2.7 Consensus size: 31
1717129 GTCTTTTTCC
* *
1717139 TCTTTTCCTCTTTTTTTCTTCTTTCTTTTCTA
1 TCTTTT-CTCTTTTTCTCTTTTTTCTTTTCTA
*
1717171 TCTTTTCTCTTCTATTTTCTCTTTTTTCTTTTCTTT
1 TC-TTT-TC-TCT-TTTTCTCTTTTTTCTTTTC-TA
1717207 TCTTTTCTCTGTGTTTCTCTTTTTT
1 TCTTTTCTCT-T-TTTCTCTTTTTT
1717232 TCTTCTCTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
32 2 0.04
33 8 0.16
34 18 0.35
35 20 0.39
36 3 0.06
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (31 bp):
TCTTTTCTCTTTTTCTCTTTTTTCTTTTCTA
Found at i:1717231 original size:35 final size:35
Alignment explanation
Indices: 1717155--1717235 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
1717145 CCTCTTTTTT
* *
1717155 TCTTCTTTCTTTTCTATCTTTTCTCTTCTATTTTC
1 TCTTTTTTCTTTTCTATCTTTTCTCTTCTATTCTC
* *
1717190 TCTTTTTTCTTTTCTTTTCTTTTCTCTGTGT-TTCTC
1 TCTTTTTTCTTTTC-TATCTTTTCTCT-TCTATTCTC
1717226 T-TTTTTTCTT
1 TCTTTTTTCTT
1717236 CTCTCTCCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 22 0.55
36 16 0.40
37 2 0.05
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (35 bp):
TCTTTTTTCTTTTCTATCTTTTCTCTTCTATTCTC
Found at i:1717232 original size:25 final size:24
Alignment explanation
Indices: 1717171--1717241 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
1717161 TTCTTTTCTA
* *
1717171 TCTTTTCTCTTCTATTTTCTCTTTTT
1 TCTTTTCT-TT-TCTTTTCTCTTGTT
1717197 TCTTTTCTTTTCTTTTCTCTGTGTT
1 TCTTTTCTTTTCTTTTCTCT-TGTT
*
1717222 TCTCTTT-TTTTCTTCTCTCT
1 TCT-TTTCTTTTCTTTTCTCT
1717242 CCTCTTCATC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
24 9 0.22
25 20 0.50
26 11 0.28
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (24 bp):
TCTTTTCTTTTCTTTTCTCTTGTT
Found at i:1717233 original size:10 final size:10
Alignment explanation
Indices: 1717132--1717234 Score: 57
Period size: 12 Copynumber: 9.7 Consensus size: 10
1717122 TTTTCTTGTC
*
1717132 TTTTTC-CTC
1 TTTTTCTCTT
*
1717141 TTTTCCTCTT
1 TTTTTCTCTT
1717151 TTTTTCTTCTT
1 TTTTTC-TCTT
*
1717162 TCTTTTCT-AT
1 T-TTTTCTCTT
*
1717172 CTTTTCTCTT
1 TTTTTCTCTT
1717182 CTATTTTCTCTTT
1 -T-TTTTCTC-TT
*
1717195 TTTCTTTTCTTT
1 TTT-TTCTC-TT
*
1717207 TCTTTTCTCTG
1 T-TTTTCTCTT
*
1717218 TGTTTCTCTT
1 TTTTTCTCTT
1717228 TTTTTCT
1 TTTTTCT
1717235 TCTCTCTCCT
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
9 11 0.15
10 22 0.31
11 10 0.14
12 25 0.35
13 4 0.06
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:1722316 original size:17 final size:17
Alignment explanation
Indices: 1722274--1722316 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
1722264 GCACTCGAAT
*
1722274 TAAAATAAACAAAAATA
1 TAAAATAATCAAAAATA
*
1722291 TAAAATAATCACAAATA
1 TAAAATAATCAAAAATA
1722308 TAAAATAAT
1 TAAAATAAT
1722317 GAGCATAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAAATAATCAAAAATA
Found at i:1728226 original size:31 final size:31
Alignment explanation
Indices: 1728191--1728263 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
1728181 GTCTTTTGAG
* *
1728191 ACATATGGACA-TTATATCTATGTTCTAAGGA
1 ACATATGGACAGTT-TACCTAGGTTCTAAGGA
**
1728222 ACATATGGACAGTTTACCTAGGTTCTTCGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
*
1728253 ACCTATGGACA
1 ACATATGGACA
1728264 ATTGCCGAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (31 bp):
ACATATGGACAGTTTACCTAGGTTCTAAGGA
Found at i:1733528 original size:17 final size:17
Alignment explanation
Indices: 1733506--1733539 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1733496 ATCGATACCT
1733506 AGACATGGTACCGATAC
1 AGACATGGTACCGATAC
1733523 AGACATGGTACCGATAC
1 AGACATGGTACCGATAC
1733540 CACAGTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
AGACATGGTACCGATAC
Found at i:1734183 original size:18 final size:18
Alignment explanation
Indices: 1734143--1734230 Score: 113
Period size: 18 Copynumber: 4.9 Consensus size: 18
1734133 GAGGGATTAT
* *
1734143 AAGTGGTCCTTCGGAACA
1 AAGTGGTCATTCGGGACA
* * *
1734161 TAGTGATCCTTCGGGACA
1 AAGTGGTCATTCGGGACA
*
1734179 AAGTGGTCTTTCGGGACA
1 AAGTGGTCATTCGGGACA
*
1734197 AAGTGGTCATTTGGGACA
1 AAGTGGTCATTCGGGACA
1734215 AAGTGGTCATTCGGGA
1 AAGTGGTCATTCGGGA
1734231 AAAATTTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (18 bp):
AAGTGGTCATTCGGGACA
Found at i:1735720 original size:19 final size:19
Alignment explanation
Indices: 1735696--1735740 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1735686 GACCTTGCTC
1735696 AGCTGGTGGTGGTAGGAGT
1 AGCTGGTGGTGGTAGGAGT
1735715 AGCTGGTGGTGGTAGGAGT
1 AGCTGGTGGTGGTAGGAGT
1735734 AGCTGGT
1 AGCTGGT
1735741 ACTTCCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.16, C:0.07, G:0.51, T:0.27
Consensus pattern (19 bp):
AGCTGGTGGTGGTAGGAGT
Found at i:1736646 original size:18 final size:17
Alignment explanation
Indices: 1736576--1736648 Score: 65
Period size: 18 Copynumber: 4.1 Consensus size: 17
1736566 AAAAAATTAA
1736576 ATATAAATTTTAGTTTTT
1 ATATAAATTTTA-TTTTT
* * *
1736594 AAATTAATTTTAATTTTG
1 ATATAAATTTT-ATTTTT
* *
1736612 ATCCTAGATTTTATTTTT
1 AT-ATAAATTTTATTTTT
1736630 ATATAAATTTTACTTTTT
1 ATATAAATTTTA-TTTTT
1736648 A
1 A
1736649 CGTACTTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
17 8 0.19
18 27 0.64
19 7 0.17
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (17 bp):
ATATAAATTTTATTTTT
Found at i:1738006 original size:19 final size:19
Alignment explanation
Indices: 1737982--1738070 Score: 88
Period size: 21 Copynumber: 4.5 Consensus size: 19
1737972 TTAAAATAAT
1737982 AATAAATTTAATATTTTAA
1 AATAAATTTAATATTTTAA
* *
1738001 AATAAAATTCAATATGTATAA
1 AAT-AAATTTAATAT-TTTAA
*
1738022 AAAATAATTTAATATTTTTAA
1 AATA-AATTTAATA-TTTTAA
* *
1738043 AATAAATTTAAAATTTAAA
1 AATAAATTTAATATTTTAA
*
1738062 AATCAATTT
1 AATAAATTT
1738071 CATCGAATTC
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 16 0.28
20 19 0.33
21 21 0.37
22 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (19 bp):
AATAAATTTAATATTTTAA
Found at i:1738743 original size:135 final size:135
Alignment explanation
Indices: 1738557--1738830 Score: 548
Period size: 135 Copynumber: 2.0 Consensus size: 135
1738547 AAAATATTAT
1738557 CCAATCTGGTAGTGACATGTGTCACCACCTAATTAAAGATTAAATTTATTAAATTAAATTAAAAA
1 CCAATCTGGTAGTGACATGTGTCACCACCTAATTAAAGATTAAATTTATTAAATTAAATTAAAAA
1738622 TATGACCAAATTGATAGAATTTATAAATATTAAGGATTAAGTATGTAATTATAGTAGTATTATTA
66 TATGACCAAATTGATAGAATTTATAAATATTAAGGATTAAGTATGTAATTATAGTAGTATTATTA
1738687 ACTTG
131 ACTTG
1738692 CCAATCTGGTAGTGACATGTGTCACCACCTAATTAAAGATTAAATTTATTAAATTAAATTAAAAA
1 CCAATCTGGTAGTGACATGTGTCACCACCTAATTAAAGATTAAATTTATTAAATTAAATTAAAAA
1738757 TATGACCAAATTGATAGAATTTATAAATATTAAGGATTAAGTATGTAATTATAGTAGTATTATTA
66 TATGACCAAATTGATAGAATTTATAAATATTAAGGATTAAGTATGTAATTATAGTAGTATTATTA
1738822 ACTTG
131 ACTTG
1738827 CCAA
1 CCAA
1738831 GTCAATACTT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 139 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (135 bp):
CCAATCTGGTAGTGACATGTGTCACCACCTAATTAAAGATTAAATTTATTAAATTAAATTAAAAA
TATGACCAAATTGATAGAATTTATAAATATTAAGGATTAAGTATGTAATTATAGTAGTATTATTA
ACTTG
Found at i:1740210 original size:39 final size:39
Alignment explanation
Indices: 1740156--1740233 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
1740146 GTGATGAGTA
1740156 TGTTGATATTGATGCTACAACACCAACCACATTCGACTC
1 TGTTGATATTGATGCTACAACACCAACCACATTCGACTC
* *
1740195 TGTTGATCTTGATGCTACAACACCAACTACATTCGACTC
1 TGTTGATATTGATGCTACAACACCAACCACATTCGACTC
1740234 CCAATTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (39 bp):
TGTTGATATTGATGCTACAACACCAACCACATTCGACTC
Found at i:1745738 original size:16 final size:16
Alignment explanation
Indices: 1745717--1745749 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1745707 AGGTGCGGTG
1745717 CTAGTCAGAGATCTCA
1 CTAGTCAGAGATCTCA
1745733 CTAGTCAGAGATCTCA
1 CTAGTCAGAGATCTCA
1745749 C
1 C
1745750 GACAGAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (16 bp):
CTAGTCAGAGATCTCA
Found at i:1755655 original size:15 final size:15
Alignment explanation
Indices: 1755640--1755673 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
1755630 AGCTATTTGA
1755640 AAATGGTCTATGTGAAT
1 AAAT-GTCTATGTG-AT
1755657 AAATGTCTATGTGAT
1 AAATGTCTATGTGAT
1755672 AA
1 AA
1755674 GCTATGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (15 bp):
AAATGTCTATGTGAT
Found at i:1755795 original size:23 final size:23
Alignment explanation
Indices: 1755768--1755812 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1755758 GTTCTACGCG
1755768 GTCCTTCGAGACAATACTATGTT
1 GTCCTTCGAGACAATACTATGTT
* * *
1755791 GTCCTTCGGGACATTTCTATGT
1 GTCCTTCGAGACAATACTATGT
1755813 GGCACTTCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (23 bp):
GTCCTTCGAGACAATACTATGTT
Found at i:1758777 original size:36 final size:36
Alignment explanation
Indices: 1758737--1758811 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
1758727 CGATGATCCC
* *
1758737 TTATAATTCGATATGACCGACTT-TGATCGATCGATT
1 TTATAATTCGATATGACCGA-TTCTGATCAACCGATT
* * *
1758773 TTATATTTCGATCTGGCCGATTCTGATCAACCGATT
1 TTATAATTCGATATGACCGATTCTGATCAACCGATT
1758809 TTA
1 TTA
1758812 ATTACCAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (36 bp):
TTATAATTCGATATGACCGATTCTGATCAACCGATT
Found at i:1763618 original size:8 final size:8
Alignment explanation
Indices: 1763605--1763630 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1763595 GATTGCTTTT
1763605 TTAATTTA
1 TTAATTTA
1763613 TTAATTTA
1 TTAATTTA
1763621 TTAATTTA
1 TTAATTTA
1763629 TT
1 TT
1763631 CTTCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTAATTTA
Found at i:1764404 original size:19 final size:20
Alignment explanation
Indices: 1764380--1764430 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1764370 AATGACCAAT
1764380 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
1764399 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
1764419 AAAATCGCAACG
1 AAAATCGCAACG
1764431 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:1764424 original size:20 final size:20
Alignment explanation
Indices: 1764380--1764630 Score: 130
Period size: 20 Copynumber: 12.2 Consensus size: 20
1764370 AATGACCAAT
* *
1764380 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
1764399 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
1764419 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
1764439 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
1764459 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
1764480 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * * *
1764503 AAAAGCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* *
1764523 AGAATCGCAATGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
1764546 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
1764566 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
1764586 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
1764606 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
1764626 AAAAT
1 AAAAT
1764631 TTTGTTTCTT
Statistics
Matches: 179, Mismatches: 41, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
19 17 0.09
20 119 0.66
21 14 0.08
23 29 0.16
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:1764539 original size:43 final size:43
Alignment explanation
Indices: 1764484--1764627 Score: 213
Period size: 43 Copynumber: 3.4 Consensus size: 43
1764474 GCTTCCAAGT
* *
1764484 TCGCAACGCGATTTAGAAGAAAAGCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
* *
1764527 TCGCAATGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
* *
1764570 TCGCAATGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
1764610 TCGCAACGCGATTTAGAA
1 TCGCAACGCGATTTAGAA
1764628 AATTTTGTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 35 0.38
41 1 0.01
42 2 0.02
43 54 0.59
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (43 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAA
Found at i:1765428 original size:6 final size:6
Alignment explanation
Indices: 1765407--1765476 Score: 126
Period size: 6 Copynumber: 12.0 Consensus size: 6
1765397 TCTCGTCTCG
1765407 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1765453 GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT
1765477 ACGTGTCTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.16
6 54 0.84
ACGTcount: A:0.00, C:0.17, G:0.51, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:1765588 original size:20 final size:20
Alignment explanation
Indices: 1765563--1765713 Score: 187
Period size: 20 Copynumber: 7.4 Consensus size: 20
1765553 CTTTTGAACG
*
1765563 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
1765583 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATCAATCGCA
*
1765603 TTGCGATTTTCT-TCTAAATCGCG
1 TTGCGA--TTCTATC--AATCGCA
* *
1765626 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
1765646 TTGCGATTATATAAATCGCA
1 TTGCGATTCTATCAATCGCA
1765666 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
1765686 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
1765706 TTGCGATT
1 TTGCGATT
1765714 TTCTTCTAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
20 91 0.81
21 5 0.04
22 6 0.05
23 11 0.10
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTATCAATCGCA
Found at i:1765607 original size:40 final size:40
Alignment explanation
Indices: 1765563--1765713 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 40
1765553 CTTTTGAACG
*
1765563 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAATCGCA
* * *
1765603 TTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGA--TTC-TATAAATCGCATTGCGATTCTCTCAATCGCA
* *
1765646 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAATCGCA
*
1765686 TTGCGATTCTATCAATCGCATTGCGATT
1 TTGCGATTCTATAAATCGCATTGCGATT
1765714 TTCTTCTAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 59 0.61
41 2 0.02
42 3 0.03
43 33 0.34
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (40 bp):
TTGCGATTCTATAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:1765726 original size:83 final size:81
Alignment explanation
Indices: 1765563--1765734 Score: 213
Period size: 83 Copynumber: 2.1 Consensus size: 81
1765553 CTTTTGAACG
* * * *
1765563 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCGTT
1 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGA-TTTCTTC-AAATCGCATT
*
1765628 GCGACTCTCTCAATCGCA
64 GCGACTCTCTAAATCGCA
1765646 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGA-TTCTATC-AATCGCATTG
1 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTTCT-TCAAATCGCATTG
* *
1765709 CGATTTTCTTCTAAATCGCG
65 CGA--CTC-TCTAAATCGCA
1765729 TTGCGA
1 TTGCGA
1765735 ACTTGGAAGC
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
80 12 0.15
81 4 0.05
82 4 0.05
83 58 0.74
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (81 bp):
TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTTCTTCAAATCGCATTGC
GACTCTCTAAATCGCA
Found at i:1765811 original size:20 final size:20
Alignment explanation
Indices: 1765561--1765838 Score: 130
Period size: 20 Copynumber: 13.6 Consensus size: 20
1765551 TTCTTTTGAA
* *
1765561 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1765581 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
1765601 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
1765624 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
1765644 CATTGCGATTATATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1765664 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1765684 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
1765704 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
1765727 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
1765748 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
1765766 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
1765788 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
1765808 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
1765827 CGTTGCGATTTT
1 CGTTGCGATTTT
1765839 ATTGGTCATT
Statistics
Matches: 205, Mismatches: 42, Indels: 23
0.76 0.16 0.09
Matches are distributed among these distances:
18 2 0.01
19 17 0.08
20 138 0.67
21 14 0.07
22 6 0.03
23 28 0.14
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:1765828 original size:19 final size:20
Alignment explanation
Indices: 1765788--1765838 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1765778 TTCTTTTTAA
*
1765788 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
1765808 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
1765827 CGTTGCGATTTT
1 CGTTGCGATTTT
1765839 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:1767230 original size:36 final size:36
Alignment explanation
Indices: 1767104--1767443 Score: 223
Period size: 36 Copynumber: 9.5 Consensus size: 36
1767094 TTTATATATA
* * * *
1767104 TATATATTATATAGTTTGTAAAATGATTTTTGAAAAAAT
1 TATATAATATATAGTTT-TGAAATCA-TTTTG-AAAACT
**
1767143 ATATATAATATATAGTTTTTGAAAAT-ATTTCAAAAAACT
1 -TATATAATATATAG-TTTTG-AAATCATTT-TGAAAACT
*
1767182 TATATAGTATATAGTTTTGAAATCATTTTGAAAACT
1 TATATAATATATAGTTTTGAAATCATTTTGAAAACT
1767218 TATATTAA-ATATAGTTTTGAAATCATTTTGAAAACT
1 TATA-TAATATATAGTTTTGAAATCATTTTGAAAACT
* *
1767254 TATAT-A-ATATA----T-ACAT--TTTTGAAAACA
1 TATATAATATATAGTTTTGAAATCATTTTGAAAACT
* * *
1767281 TATATAATATATGGTTTT-AAGA-CATTTTTGATAACA
1 TATATAATATATAGTTTTGAA-ATCA-TTTTGAAAACT
* *
1767317 TATATAATTTATAGTTTT-AAAACATTTTTGAAAA-T
1 TATATAATATATAGTTTTGAAATCA-TTTTGAAAACT
**
1767352 TATATAATATATAGTTTTGAAAAAAT-ATTTTGAAAAAAAA
1 TATATAATATATAGTTTTG---AAATCATTTTG--AAAACT
* *
1767392 TAAATAATATATAGTTTTAAAAT-ATTTTTGAAAA--
1 TATATAATATATAGTTTTGAAATCA-TTTTGAAAACT
*
1767426 TATATATTATATAGTTTT
1 TATATAATATATAGTTTT
1767444 TGGAAATATT
Statistics
Matches: 251, Mismatches: 25, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
27 15 0.06
28 1 0.00
29 7 0.03
30 1 0.00
33 2 0.01
34 23 0.09
35 19 0.08
36 89 0.35
37 21 0.08
38 19 0.08
39 15 0.06
40 32 0.13
41 7 0.03
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTGAAATCATTTTGAAAACT
Found at i:1767275 original size:63 final size:63
Alignment explanation
Indices: 1767207--1767329 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
1767197 TTTGAAATCA
* *
1767207 TTTTGAAAACTTATATTAA-ATATAGTTTTGAA-ATCA-TTTTGAAAACTTATATAATATATACA
1 TTTTGAAAACATATA-TAATATATAGTTTT-AAGA-CATTTTTGAAAACATATATAATATATACA
1767269 T
63 T
* * *
1767270 TTTTGAAAACATATATAATATATGGTTTTAAGACATTTTTGATAACATATATAATTTATA
1 TTTTGAAAACATATATAATATATAGTTTTAAGACATTTTTGAAAACATATATAATATATA
1767330 GTTTTAAAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
62 7 0.13
63 45 0.87
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (63 bp):
TTTTGAAAACATATATAATATATAGTTTTAAGACATTTTTGAAAACATATATAATATATACAT
Found at i:1767347 original size:99 final size:98
Alignment explanation
Indices: 1767176--1767364 Score: 242
Period size: 99 Copynumber: 1.9 Consensus size: 98
1767166 AATATTTCAA
* * * *
1767176 AAAACTTATATAGTATATAGTTTTGAAATCATTTTGAAAACTTATATTAAATATAGTTTTGAAAT
1 AAAACATATATAATATATAGTTTTGAAATCATTTTGAAAACATATATTAAATATAGTTTTGAAAA
1767241 CATTTTGAAAACTTATATAATATATACATTTTTG
66 CATTTTGAAAA-TTATATAATATATACATTTTTG
* * *
1767275 AAAACATATATAATATATGGTTTT-AAGA-CATTTTTGATAACATATA-TAATTTATAGTTTT-A
1 AAAACATATATAATATATAGTTTTGAA-ATCA-TTTTGAAAACATATATTAA-ATATAGTTTTGA
1767336 AAACATTTTTGAAAATTATATAATATATA
63 AAACA-TTTTGAAAATTATATAATATATA
1767365 GTTTTGAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
98 26 0.33
99 53 0.67
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (98 bp):
AAAACATATATAATATATAGTTTTGAAATCATTTTGAAAACATATATTAAATATAGTTTTGAAAA
CATTTTGAAAATTATATAATATATACATTTTTG
Found at i:1767463 original size:25 final size:24
Alignment explanation
Indices: 1767416--1767461 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1767406 TTTTAAAATA
1767416 TTTTTGAAAATATATATTATATAG
1 TTTTTGAAAATATATATTATATAG
* *
1767440 TTTTTGGAAATAT-TTTTATATA
1 TTTTTGAAAATATATATTATATA
1767462 TAATATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (24 bp):
TTTTTGAAAATATATATTATATAG
Found at i:1767463 original size:34 final size:33
Alignment explanation
Indices: 1767280--1767472 Score: 118
Period size: 36 Copynumber: 5.3 Consensus size: 33
1767270 TTTTGAAAAC
* * * *
1767280 ATATATAATATATGGTTTTAAGACATTTTTGATAA
1 ATATATATTATATAGTTTTAAAATATTTTT-A-AA
*
1767315 CATATATAATT-TATAGTTTTAAAACATTTTTGAAA
1 -ATATAT-ATTATATAGTTTTAAAATATTTTT-AAA
* *
1767350 ATTATATAATATATAGTTTTGAAAAAATATTTTGAAAAAAA
1 A-TATATATTATATAGTTTT---AAAATATTTT----TAAA
* *
1767391 ATAAATAATATATAGTTTTAAAATATTTTTGAAA
1 ATATATATTATATAGTTTTAAAATATTTTT-AAA
* *
1767425 ATATATATTATATAGTTTTTGGAAATATTTTTATAT
1 ATATATATTATATAG-TTTT-AAAATATTTTTA-AA
1767461 ATAATATATTAT
1 AT-ATATATTAT
1767473 TATTGTTATT
Statistics
Matches: 130, Mismatches: 12, Indels: 29
0.76 0.07 0.17
Matches are distributed among these distances:
34 19 0.15
35 21 0.16
36 39 0.30
37 21 0.16
38 9 0.07
40 17 0.13
41 4 0.03
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (33 bp):
ATATATATTATATAGTTTTAAAATATTTTTAAA
Found at i:1767475 original size:3 final size:3
Alignment explanation
Indices: 1767467--1767508 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
1767457 ATATATAATA
*
1767467 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1767509 CTATTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:1767524 original size:22 final size:20
Alignment explanation
Indices: 1767499--1767553 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
1767489 ATTATTATTA
* *
1767499 TTATTTTATTCTATTTATTTAT
1 TTATTTTATTATATGT-TTT-T
1767521 TTATTTTTCATTATATGTTTTT
1 TTA-TTTT-ATTATATGTTTTT
1767543 TTATTTTATTA
1 TTATTTTATTA
1767554 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 4 0.14
21 4 0.14
22 7 0.24
23 7 0.24
24 7 0.24
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (20 bp):
TTATTTTATTATATGTTTTT
Found at i:1768762 original size:3 final size:3
Alignment explanation
Indices: 1768756--1768788 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1768746 CTTTTAACAT
1768756 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1768789 CCTGAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1768913 original size:27 final size:29
Alignment explanation
Indices: 1768858--1768914 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
1768848 ATTTTTTCTC
* *
1768858 TTTCCTTTATTTATTTATTTACTTATTAT
1 TTTCCTTTATTTATTTAATTAATTATTAT
*
1768887 TTTCC-TT-TTTATTTAATTAATTTTTAT
1 TTTCCTTTATTTATTTAATTAATTATTAT
1768914 T
1 T
1768915 CGATATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.72
28 2 0.08
29 5 0.20
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTCCTTTATTTATTTAATTAATTATTAT
Found at i:1769372 original size:20 final size:21
Alignment explanation
Indices: 1769344--1769383 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1769334 TATAAGTTTA
* *
1769344 AATTTTTATT-TTTTTTATTT
1 AATTCTTATTGTTTATTATTT
1769364 AATTCTTATTGTTTATTATT
1 AATTCTTATTGTTTATTATT
1769384 GATTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (21 bp):
AATTCTTATTGTTTATTATTT
Found at i:1774602 original size:85 final size:83
Alignment explanation
Indices: 1774460--1774927 Score: 488
Period size: 85 Copynumber: 5.5 Consensus size: 83
1774450 TCTCATCCTA
* * * * * *
1774460 TTACAGTATAGCTCAA-GCGAGAAGGGATATATGTCAACAAAACCTTCGAGTTTGATTAAGTTCA
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAAAAAAACCTTCGAGTTTGATTAA-TTCA
* *
1774524 GCTTAAAGACATATCAAAT
65 GCTCAAGGACATATCAAAT
* *
1774543 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAACCAAAACCTTCGAGTTCGATTACATTC
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAA-AAAAACCTTCGAGTTTGATTA-ATTC
* * *
1774608 AGGTCAAGGATAGATCAAAT
64 AGCTCAAGGACATATCAAAT
* * ** * *
1774628 TTATAGTATAACTCAAGGCGAGAAACGTTATCTATCAAAAAAACCTTTGAGTTTGATTCCATTCA
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAAAAAAACCTTCGAGTTTGATT-AATTCA
*
1774693 GCTCAAGGACACATCAAAT
65 GCTCAAGGACATATCAAAT
* * * * *
1774712 TTATAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAGCAAAAAAACCTTCGAGTTCGATTACAT
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATC--T-ATCAAAAAAACCTTCGAGTTTGATTA-AT
* * *
1774777 TGAACTCAAGGGCATATCAAAT
62 TCAGCTCAAGGACATATCAAAT
* * * *
1774799 TTACAGTATAACTTAAGGTGAGAAGGGTTATCTATCAATAAAAACCTTCGAGTTTGATTCCATTC
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAA-AAAAACCTTCGAGTTTGATT-AATTC
* *
1774864 AGCTCAAGGGCATGTCAAAT
64 AGCTCAAGGACATATCAAAT
* * * *
1774884 TTACAGCATAGCTCAAGGCGAGAAAGGCTATCTGTCAACAAAAA
1 TTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAA-AAAAA
1774928 ATTGTGGAGT
Statistics
Matches: 320, Mismatches: 55, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
83 14 0.04
84 87 0.27
85 149 0.47
86 2 0.01
87 68 0.21
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (83 bp):
TTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCAAAAAAACCTTCGAGTTTGATTAATTCAG
CTCAAGGACATATCAAAT
Found at i:1774899 original size:172 final size:170
Alignment explanation
Indices: 1774460--1774928 Score: 584
Period size: 169 Copynumber: 2.8 Consensus size: 170
1774450 TCTCATCCTA
* ** * * * * *
1774460 TTACAGTATAGCTCAA-GCGAGAAGGGATATATGTCAACAAAACCTTCGAGTTTGATT-AAGTTC
1 TTACAGTATAACTCAAGGCGAGAAACGTTATCTATCAAAAAAACCTTCGAGTTTGATTCCA-TTC
* * * * * **
1774523 AGCTTAAAGACATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTATCA-ACCAAAA
65 AGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCACAAAAAAA
** *
1774587 CCTTCGAGTTCGATTACATTCAGGTCAAGGATAGATCAAAT
130 CCTTCGAGTTCGATTACATTCAACTCAAGGACAGATCAAAT
* *
1774628 TTATAGTATAACTCAAGGCGAGAAACGTTATCTATCAAAAAAACCTTTGAGTTTGATTCCATTCA
1 TTACAGTATAACTCAAGGCGAGAAACGTTATCTATCAAAAAAACCTTCGAGTTTGATTCCATTCA
* *
1774693 GCTCAAGGACACATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAGCAAAAAAA
66 GCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCA-CAAAAAAA
* * *
1774758 CCTTCGAGTTCGATTACATTGAACTCAAGGGCATATCAAAT
130 CCTTCGAGTTCGATTACATTCAACTCAAGGACAGATCAAAT
* * **
1774799 TTACAGTATAACTTAAGGTGAGAAGGGTTATCTATCAATAAAAACCTTCGAGTTTGATTCCATTC
1 TTACAGTATAACTCAAGGCGAGAAACGTTATCTATCAA-AAAAACCTTCGAGTTTGATTCCATTC
* * * *
1774864 AGCTCAAGGGCATGTCAAATTTACAGCATAGCTCAAGGCGAGAAAGGCTATCTGTCAACAAAAAA
65 AGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTC-ACAAAAAA
1774929 TTGTGGAGTC
Statistics
Matches: 258, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
168 14 0.05
169 87 0.34
170 1 0.00
171 73 0.28
172 82 0.32
173 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (170 bp):
TTACAGTATAACTCAAGGCGAGAAACGTTATCTATCAAAAAAACCTTCGAGTTTGATTCCATTCA
GCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCACAAAAAAAC
CTTCGAGTTCGATTACATTCAACTCAAGGACAGATCAAAT
Found at i:1775523 original size:2 final size:2
Alignment explanation
Indices: 1775518--1775556 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1775508 ATTTTATTTT
1775518 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1775557 GTTTGCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1775662 original size:36 final size:36
Alignment explanation
Indices: 1775542--1775812 Score: 244
Period size: 36 Copynumber: 7.6 Consensus size: 36
1775532 TATATATATA
* *
1775542 TATATATATATTATAG-TTTGCAAATGATTTTTGAAAAAAT
1 TATATA-ATA-TATAGTTTTG-AAAT-CTTTTTG-AAAACT
* **
1775582 ATATATAATATATAGTTTTTGAAAACATTTTAAAAAACT
1 -TATATAATATATAG-TTTTGAAATC-TTTTTGAAAACT
*
1775621 TATATAGTATATAGTTTTGAAATCTTTTTGAAAACT
1 TATATAATATATAGTTTTGAAATCTTTTTGAAAACT
*
1775657 TATATAATATATAGTTTTGAAATCATTTTGAAAACT
1 TATATAATATATAGTTTTGAAATCTTTTTGAAAACT
* *
1775693 TATAT-A-ATATA----T-ACA--TTTTTGAAAACA
1 TATATAATATATAGTTTTGAAATCTTTTTGAAAACT
* * *
1775720 TATATAATATATAGTTTTAAAATATTTTTGAAAACA
1 TATATAATATATAGTTTTGAAATCTTTTTGAAAACT
*
1775756 TATATAATATATAG-TTT-AAAACAATTTTTGAAAA-T
1 TATATAATATATAGTTTTGAAATC--TTTTTGAAAACT
1775791 TATATAATATATAGTTTTGAAA
1 TATATAATATATAGTTTTGAAA
1775813 AAAATATTTA
Statistics
Matches: 196, Mismatches: 18, Indels: 36
0.78 0.07 0.14
Matches are distributed among these distances:
27 15 0.08
28 1 0.01
29 7 0.04
30 1 0.01
33 1 0.01
34 10 0.05
35 18 0.09
36 88 0.45
37 12 0.06
38 13 0.07
39 10 0.05
40 10 0.05
41 10 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTGAAATCTTTTTGAAAACT
Found at i:1775716 original size:63 final size:63
Alignment explanation
Indices: 1775645--1775768 Score: 205
Period size: 63 Copynumber: 2.0 Consensus size: 63
1775635 TTTTGAAATC
* * *
1775645 TTTTTGAAAACTTATATAATATATAGTTTTGAAATCA-TTTTGAAAACTTATATAATATATACA
1 TTTTTGAAAACATATATAATATATAGTTTTAAAAT-ATTTTTGAAAACATATATAATATATACA
1775708 TTTTTGAAAACATATATAATATATAGTTTTAAAATATTTTTGAAAACATATATAATATATA
1 TTTTTGAAAACATATATAATATATAGTTTTAAAATATTTTTGAAAACATATATAATATATA
1775769 GTTTAAAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 1 0.02
63 56 0.98
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (63 bp):
TTTTTGAAAACATATATAATATATAGTTTTAAAATATTTTTGAAAACATATATAATATATACA
Found at i:1775718 original size:99 final size:98
Alignment explanation
Indices: 1775606--1775819 Score: 283
Period size: 99 Copynumber: 2.2 Consensus size: 98
1775596 GTTTTTGAAA
* * * * *
1775606 ACATTTTAAAAAACTTATATAGTATATAGTTTTGAAATCTTTTTGAAAACTTATATAATATATAG
1 ACATTTTAAAAAACATATATAATATATAGTTTTAAAATATTTTTGAAAACATATATAATATATAG
*
1775671 TTTTGAAATC-A-TTTTGAAAACTTATATAATATAT
66 -TTT-AAAACAATTTTTGAAAA-TTATATAATATAT
**
1775705 ACATTTTTGAAAACATATATAATATATAGTTTTAAAATATTTTTGAAAACATATATAATATATAG
1 ACATTTTAAAAAACATATATAATATATAGTTTTAAAATATTTTTGAAAACATATATAATATATAG
1775770 TTTAAAACAATTTTTGAAAATTATATAATATAT
66 TTTAAAACAATTTTTGAAAATTATATAATATAT
*
1775803 A-GTTTTGAAAAAA-ATAT
1 ACATTTT-AAAAAACATAT
1775820 TTAAAAAAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
97 12 0.12
98 22 0.22
99 67 0.66
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (98 bp):
ACATTTTAAAAAACATATATAATATATAGTTTTAAAATATTTTTGAAAACATATATAATATATAG
TTTAAAACAATTTTTGAAAATTATATAATATAT
Found at i:1775737 original size:25 final size:26
Alignment explanation
Indices: 1775682--1775741 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
1775672 TTTGAAATCA
* *
1775682 TTTTGAAAACTTATATAATATATACAT
1 TTTTGAAAACATATATAATATATA-AG
1775709 TTTTGAAAACATATATAATATAT-AG
1 TTTTGAAAACATATATAATATATAAG
1775734 TTTT-AAAA
1 TTTTGAAAA
1775742 TATTTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 4 0.13
25 5 0.16
27 22 0.71
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (26 bp):
TTTTGAAAACATATATAATATATAAG
Found at i:1775861 original size:35 final size:34
Alignment explanation
Indices: 1775576--1775890 Score: 211
Period size: 36 Copynumber: 9.0 Consensus size: 34
1775566 TGATTTTTGA
*
1775576 AAAAATATATATAATATATAGTTTTTGAAAACATTTT
1 AAAAA-ATATATAATATATAG-TTTT-AAAATATTTT
* * *
1775613 AAAAAACTTATATAGTATATAGTTTTGAAATCTTTTT
1 AAAAAA--TATATAATATATAGTTTTAAAAT-ATTTT
** *
1775650 GAAAACTTATATAATATATAGTTTTGAAATCATTTT
1 -AAAAAATATATAATATATAGTTTTAAAAT-ATTTT
* * * *
1775686 GAAAACT-TAT-ATA-ATA--TAT-ACAT-TTTT
1 AAAAAATATATAATATATAGTTTTAAAATATTTT
*
1775713 GAAAACATATATAATATATAGTTTTAAAATATTTTT
1 -AAAAAATATATAATATATAGTTTTAAAATA-TTTT
* *
1775749 GAAAACATATATAATATATAG-TTTAAAACAATTTTT
1 -AAAAAATATATAATATATAGTTTTAAAA-TA-TTTT
* * *
1775785 GAAAATTATATAATATATAGTTTTGAAAAAAATATTTAA
1 AAAAAATATATAATATATAGTTTT----AAAATATTT-T
*
1775824 AAAAAATATATAATATATAGTTTTAAAATA-TTG
1 AAAAAATATATAATATATAGTTTTAAAATATTTT
1775857 AAAAAATATAT--TATATAGTTTTTAAAAATATTTT
1 AAAAAATATATAATATATAG-TTTT-AAAATATTTT
1775891 TTATATATAA
Statistics
Matches: 227, Mismatches: 28, Indels: 49
0.75 0.09 0.16
Matches are distributed among these distances:
27 4 0.02
28 4 0.02
29 6 0.03
30 5 0.02
31 10 0.04
32 7 0.03
33 22 0.10
34 10 0.04
35 34 0.15
36 65 0.29
37 13 0.06
38 20 0.09
39 23 0.10
40 4 0.02
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (34 bp):
AAAAAATATATAATATATAGTTTTAAAATATTTT
Found at i:1775911 original size:3 final size:3
Alignment explanation
Indices: 1775903--1775961 Score: 68
Period size: 3 Copynumber: 19.3 Consensus size: 3
1775893 ATATATAATA
*
1775903 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT T-T TATT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT
1775949 T-T TATT TAT TAT T
1 TAT TA-T TAT TAT T
1775962 TTTTTGTTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
2 4 0.08
3 36 0.72
4 10 0.20
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1775920 original size:12 final size:11
Alignment explanation
Indices: 1775903--1775963 Score: 77
Period size: 12 Copynumber: 5.1 Consensus size: 11
1775893 ATATATAATA
1775903 TATTATTATTGT
1 TATTATTATT-T
1775915 TATTATTATTAT
1 TATTATTATT-T
1775927 TATTATTATTT
1 TATTATTATTT
1775938 TATTTATTTATTT
1 TA-TTA-TTATTT
1775951 TATTTATTATTT
1 TA-TTATTATTT
1775963 T
1 T
1775964 TTTGTTTGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
11 3 0.07
12 31 0.67
13 12 0.26
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:1776766 original size:10 final size:10
Alignment explanation
Indices: 1776741--1776773 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1776731 ACAATTCTGG
1776741 AAAATG-GAA
1 AAAATGAGAA
1776750 AAAATGAGAA
1 AAAATGAGAA
*
1776760 GAAATGAGAA
1 AAAATGAGAA
1776770 AAAA
1 AAAA
1776774 AACCTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (10 bp):
AAAATGAGAA
Found at i:1777135 original size:22 final size:20
Alignment explanation
Indices: 1777110--1777174 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 20
1777100 AATTTAACAC
1777110 TTTTTACTTTATTTTATTATT-
1 TTTTTACTTT-TTTTATT-TTG
1777131 TTTTTACACTTTTTTTATTTTG
1 TTTTT--ACTTTTTTTATTTTG
*
1777153 TTTTT--GTTTTTT-TTTTG
1 TTTTTACTTTTTTTATTTTG
1777170 TTTTT
1 TTTTT
1777175 TTCCTCTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 10 0.25
18 6 0.15
21 7 0.17
22 12 0.30
23 5 0.12
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTTACTTTTTTTATTTTG
Found at i:1777162 original size:17 final size:17
Alignment explanation
Indices: 1777142--1777174 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1777132 TTTTACACTT
1777142 TTTTTATTTTGTTTTTG
1 TTTTTATTTTGTTTTTG
*
1777159 TTTTTTTTTTGTTTTT
1 TTTTTATTTTGTTTTT
1777175 TTCCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTATTTTGTTTTTG
Found at i:1778717 original size:22 final size:22
Alignment explanation
Indices: 1778689--1778739 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1778679 TCAACCGGTC
*
1778689 GAACCGGTTCGACCGGTCGGAA
1 GAACCGGTCCGACCGGTCGGAA
1778711 GAACCGGTCCGACCGGTCGGAA
1 GAACCGGTCCGACCGGTCGGAA
1778733 GAACCGG
1 GAACCGG
1778740 ACGACGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.29, G:0.37, T:0.10
Consensus pattern (22 bp):
GAACCGGTCCGACCGGTCGGAA
Found at i:1790373 original size:90 final size:90
Alignment explanation
Indices: 1790220--1790397 Score: 295
Period size: 90 Copynumber: 2.0 Consensus size: 90
1790210 CCTAACACAC
*
1790220 CCTTTTATAGCTAAGTTACCCTAATCATATTAGGGTATTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTATTTATTATTTCAAATTAATTAAATCTAT
*
1790285 ATTTAATTAATTGAAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* **
1790310 CCTTTTATATCCAAGTTATTCTAATCATATTAGGG-ATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTA-TTTATTATTTCAAATTAATTAAATCTA
1790374 TATTTAATTAATTGAAATTAAATA
65 TATTTAATTAATTGAAATTAAATA
1790398 TTCGGGATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 1 0.01
90 81 0.99
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTATTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:1794100 original size:21 final size:21
Alignment explanation
Indices: 1794049--1794102 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1794039 TGTACATTCT
*
1794049 GCAGCTTTTTCAGATGGCACC
1 GCAGCTATTTCAGATGGCACC
* *
1794070 GCA-ATCATTTCAGATGGCATC
1 GCAGCT-ATTTCAGATGGCACC
1794091 GCAGCTATTTCA
1 GCAGCTATTTCA
1794103 TATGCCACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (21 bp):
GCAGCTATTTCAGATGGCACC
Found at i:1794687 original size:17 final size:18
Alignment explanation
Indices: 1794665--1794703 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
1794655 ATTGTTCGAA
1794665 TTGTTTTTATTATTT-AG
1 TTGTTTTTATTATTTGAG
*
1794682 TTGTTTTTATTTTTTGAG
1 TTGTTTTTATTATTTGAG
1794700 TTGT
1 TTGT
1794704 ATCATTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (18 bp):
TTGTTTTTATTATTTGAG
Found at i:1800766 original size:20 final size:20
Alignment explanation
Indices: 1800741--1800781 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1800731 ATTTTACTGT
1800741 GGGAGTTGTGCTTGGGCAAC
1 GGGAGTTGTGCTTGGGCAAC
1800761 GGGAGTTGTGCTTGGGCAAC
1 GGGAGTTGTGCTTGGGCAAC
1800781 G
1 G
1800782 TAAAGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.46, T:0.24
Consensus pattern (20 bp):
GGGAGTTGTGCTTGGGCAAC
Found at i:1803695 original size:20 final size:20
Alignment explanation
Indices: 1803670--1803712 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1803660 TCTAAGAGCT
1803670 CATTTAGGACCACATAGATG
1 CATTTAGGACCACATAGATG
* * *
1803690 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCACATAGATG
1803710 CAT
1 CAT
1803713 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (20 bp):
CATTTAGGACCACATAGATG
Found at i:1811257 original size:21 final size:21
Alignment explanation
Indices: 1811191--1811294 Score: 115
Period size: 21 Copynumber: 4.9 Consensus size: 21
1811181 TTGTACATAA
*
1811191 TGCATCGATACACTA-GACA-G
1 TGCATCGATACACCATGA-AGG
* * *
1811211 TGCATCGATGCATCCCTTGAATG
1 TGCATCGATACA--CCATGAAGG
1811234 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCATGAAGG
1811255 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCATGAAGG
1811276 TGCA-CTGATACACCATGAA
1 TGCATC-GATACACCATGAA
1811295 CGTACACTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.16
21 45 0.62
22 2 0.03
23 14 0.19
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (21 bp):
TGCATCGATACACCATGAAGG
Found at i:1811302 original size:21 final size:21
Alignment explanation
Indices: 1811240--1811305 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
1811230 AATGTGCATC
1811240 GATACACCATGAAGGTGCA-T
1 GATACACCATGAAGGTGCACT
1811260 CGATACACCATGAAGGTGCACT
1 -GATACACCATGAAGGTGCACT
* *
1811282 GATACACCATGAACGTACACT
1 GATACACCATGAAGGTGCACT
1811303 GAT
1 GAT
1811306 GCACTCTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (21 bp):
GATACACCATGAAGGTGCACT
Found at i:1811759 original size:9 final size:9
Alignment explanation
Indices: 1811745--1811774 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1811735 TTGAAATTCG
1811745 AAATAAAAA
1 AAATAAAAA
1811754 AAATAAAAAA
1 AAAT-AAAAA
1811764 AAATAAAAA
1 AAATAAAAA
1811773 AA
1 AA
1811775 TTATTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAATAAAAA
Found at i:1811764 original size:10 final size:10
Alignment explanation
Indices: 1811745--1811774 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1811735 TTGAAATTCG
1811745 AAAT-AAAAA
1 AAATAAAAAA
1811754 AAATAAAAAA
1 AAATAAAAAA
1811764 AAATAAAAAA
1 AAATAAAAAA
1811774 A
1 A
1811775 TTATTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:1813309 original size:16 final size:15
Alignment explanation
Indices: 1813288--1813332 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
1813278 ATGTTTTTGA
1813288 TTGGATGTTTGAATG
1 TTGGATGTTTGAATG
* *
1813303 TTTGGATATTATGGATG
1 -TTGGATGTT-TGAATG
1813320 TTGGATGTTTGAA
1 TTGGATGTTTGAA
1813333 CTTAATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.12
16 16 0.67
17 5 0.21
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (15 bp):
TTGGATGTTTGAATG
Found at i:1814016 original size:64 final size:65
Alignment explanation
Indices: 1813934--1814075 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 65
1813924 CCATCTAATT
* ** * ** * *
1813934 CATCGATGCAC-CCTTGAATAATTTGTATTTCGAATGTGTTTTGTGTACAGATGCACA-AGGCAT
1 CATCGATGCACTCCTTGAATAATTTGAACATCAAATGCATTTTATGTACAGATGCACAGA-CCAT
1813997 G
65 G
* *
1813998 CATCGATGCACTCC-TGAATATTTTGAACATCAAATGCATTTTATGTACCGATGCACAGACCATG
1 CATCGATGCACTCCTTGAATAATTTGAACATCAAATGCATTTTATGTACAGATGCACAGACCATG
1814062 CATCGATGCACTCC
1 CATCGATGCACTCC
1814076 AGGCTCATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
64 63 0.95
65 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (65 bp):
CATCGATGCACTCCTTGAATAATTTGAACATCAAATGCATTTTATGTACAGATGCACAGACCATG
Found at i:1814087 original size:64 final size:65
Alignment explanation
Indices: 1813972--1814107 Score: 161
Period size: 64 Copynumber: 2.1 Consensus size: 65
1813962 TTCGAATGTG
* * *
1813972 TTTTGTGTACAGATGCACAAGGCATGCATCGATGCACTCCTGAATATTTTG-AACATCAAATGCA
1 TTTTATGTACAGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATCAAATGCA
* ** *
1814036 TTTTATGTACCGATGCAC-AGACCATGCATCGATGCACTCCAGGCTCA-TTTGAAACATCGAATG
1 TTTTATGTACAGATGCACAAG-CCATGCATCGATGCACTCCAGAAT-ATTTTGAAACATCAAATG
*
1814099 TA
64 CA
1814101 TTTTATG
1 TTTTATG
1814108 CATCGATTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
63 2 0.03
64 40 0.66
65 19 0.31
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (65 bp):
TTTTATGTACAGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATCAAATGCA
Found at i:1820305 original size:59 final size:58
Alignment explanation
Indices: 1820241--1820354 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 58
1820231 GTTTGAGGAT
* *
1820241 TAATTTAAAAT-GAGTGAAAAGTTTGGAGATTAAATTAAAATATTTAAAAGTTTAATATC
1 TAATTTAAAATAGAGTGAAAA-TTTAGAGA-TAAATTAAAATATTTAAAAATTTAATATC
* *
1820300 TAATTTAAAATAAGAGTTATAATTTAGAGATAAATTAAAATATTTAAAAATTTAA
1 TAATTTAAAAT-AGAGTGAAAATTTAGAGATAAATTAAAATATTTAAAAATTTAA
1820355 CGATGAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 35 0.71
60 7 0.14
61 7 0.14
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.38
Consensus pattern (58 bp):
TAATTTAAAATAGAGTGAAAATTTAGAGATAAATTAAAATATTTAAAAATTTAATATC
Found at i:1820368 original size:59 final size:60
Alignment explanation
Indices: 1820266--1820388 Score: 151
Period size: 59 Copynumber: 2.1 Consensus size: 60
1820256 GAAAAGTTTG
* * * ** * * *
1820266 GAGATTAAATTAAAATATTTAAAAGTTTAATATCTAATTTAAAATAAGAGTTATAATTTA
1 GAGATTAAATTAAAATATTTAAAAATTTAAGATCGAAACTAAAATAAAAGTAACAATTTA
1820326 GAGA-TAAATTAAAATATTTAAAAATTTAACGAT-GAAACTAAAATAAAAGTAACAATTTA
1 GAGATTAAATTAAAATATTTAAAAATTTAA-GATCGAAACTAAAATAAAAGTAACAATTTA
1820385 GAGA
1 GAGA
1820389 CGTGATATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 48 0.89
60 6 0.11
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (60 bp):
GAGATTAAATTAAAATATTTAAAAATTTAAGATCGAAACTAAAATAAAAGTAACAATTTA
Found at i:1820547 original size:20 final size:20
Alignment explanation
Indices: 1820522--1820569 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
1820512 GACCAACAAA
1820522 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
1820542 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
1820562 TTCGCAAC
1 TTCGCAAC
1820570 TTAGTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:1820679 original size:21 final size:21
Alignment explanation
Indices: 1820654--1820694 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1820644 TCGTAACGTG
1820654 AATTTGTAATTCGCAACACAT
1 AATTTGTAATTCGCAACACAT
1820675 AATTTGTAATTCGCAACACA
1 AATTTGTAATTCGCAACACA
1820695 GAGTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (21 bp):
AATTTGTAATTCGCAACACAT
Found at i:1820706 original size:19 final size:20
Alignment explanation
Indices: 1820682--1820729 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 20
1820672 CATAATTTGT
1820682 AATTCGCAACACAG-AGTCA
1 AATTCGCAACACAGAAGTCA
1820701 AATTCGCAACACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
1820721 AATTCGCAA
1 AATTCGCAA
1820730 AGCATGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.44, C:0.25, G:0.15, T:0.17
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:1821333 original size:20 final size:20
Alignment explanation
Indices: 1821299--1821364 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
1821289 AATCGCAACA
*
1821299 CGATTTT-AGTTTCGCGTTG
1 CGATTTTCATTTTCGCGTTG
*
1821318 CGATTTTCATTTTCGCGTTA
1 CGATTTTCATTTTCGCGTTG
1821338 CGATTTTCATTTTCGCGTTG
1 CGATTTTCATTTTCGCGTTG
1821358 CGGATTT
1 C-GATTT
1821365 AAGTTTCAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
19 7 0.17
20 30 0.71
21 5 0.12
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.48
Consensus pattern (20 bp):
CGATTTTCATTTTCGCGTTG
Found at i:1822911 original size:21 final size:21
Alignment explanation
Indices: 1822868--1822916 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1822858 GTTAGGGGAG
*
1822868 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
* *
1822889 TTGCGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
1822910 TTACGTG
1 TTACGTG
1822917 TCGATAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.35, T:0.35
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:1823370 original size:21 final size:21
Alignment explanation
Indices: 1823331--1823447 Score: 130
Period size: 21 Copynumber: 5.6 Consensus size: 21
1823321 TTCACTTGTC
* *
1823331 ATCGTTCAAGAGTCTCCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
*
1823352 ATTGTTCAAGAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
*
1823372 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
* *
1823394 ACCATTCAAGAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
* *
1823414 CATCGTTCAAGAGGTCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
1823436 ATCGTTCAAGAG
1 ATCGTTCAAGAG
1823448 CCCGATTCAC
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
20 3 0.04
21 75 0.94
22 2 0.03
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:1823376 original size:42 final size:41
Alignment explanation
Indices: 1823329--1823447 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 41
1823319 GATTCACTTG
* *
1823329 TCATCGTTCAAGAGTCTCCTCCTATTGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGTC-CCTCCCATCGTTCAAGAGGCCCCTC
* * *
1823371 TCATCGTTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGA-GTCCCTCCCATCGTTCAAGAGGCCCCTC
1823413 TCATCGTTCAAGAGGTCCCTCCCATCGTTCAAGAG
1 TCATCGTTCAAGA-GTCCCTCCCATCGTTCAAGAG
1823448 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 66 0.97
43 2 0.03
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (41 bp):
TCATCGTTCAAGAGTCCCTCCCATCGTTCAAGAGGCCCCTC
Found at i:1823577 original size:23 final size:23
Alignment explanation
Indices: 1823547--1823593 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1823537 ACCGGCCAGT
*
1823547 ACCATTCCTCAGCACGAGAGGAG
1 ACCATTCCTCAGCACGAGACGAG
1823570 ACCATTCCTCAGCACGAGACGAG
1 ACCATTCCTCAGCACGAGACGAG
1823593 A
1 A
1823594 ACACTACCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (23 bp):
ACCATTCCTCAGCACGAGACGAG
Found at i:1824958 original size:20 final size:20
Alignment explanation
Indices: 1824933--1824978 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1824923 AAGGTACACT
*
1824933 TTCGCAAATCGAAAATCAAA
1 TTCGCAAAGCGAAAATCAAA
* *
1824953 TTCGCAACGCGAAAGTCAAA
1 TTCGCAAAGCGAAAATCAAA
1824973 TTCGCA
1 TTCGCA
1824979 TTGCGAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (20 bp):
TTCGCAAAGCGAAAATCAAA
Found at i:1825207 original size:106 final size:107
Alignment explanation
Indices: 1825059--1825252 Score: 363
Period size: 106 Copynumber: 1.8 Consensus size: 107
1825049 CGCGAATTTG
1825059 ACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACAT-AAAATACACATAATA
1 ACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAAATACACATAATA
1825123 CAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAA
66 CAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAA
*
1825165 ACTCAAGTTACTAATGCATGTTTAACTGAAAATGTATGCATTCACACATAAAAATACACATAATA
1 ACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAAATACACATAATA
*
1825230 CAATGTTTGCATTTAAAAATCAC
66 CAACGTTTGCATTTAAAAATCAC
1825253 CTAAGTTAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 48 0.56
107 37 0.44
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (107 bp):
ACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAAATACACATAATA
CAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAA
Found at i:1825304 original size:6 final size:6
Alignment explanation
Indices: 1825295--1825341 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
1825285 TTGTGATTGA
** **
1825295 GATTTT GATTTT GATTGG GATTTT GATTTT GATTGC GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
1825342 CCTTTTGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.57
Consensus pattern (6 bp):
GATTTT
Found at i:1825311 original size:18 final size:18
Alignment explanation
Indices: 1825288--1825341 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
1825278 AAGCCGGTTG
1825288 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
1825306 TGATTGGGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
1825324 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
1825342 CCTTTTGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.19, C:0.02, G:0.24, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:1827606 original size:24 final size:24
Alignment explanation
Indices: 1827572--1827649 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
1827562 CTGAAACATC
* *
1827572 ATCAAAATCCGAGCATTGACCAAG
1 ATCAAAGTCCGAGTATTGACCAAG
1827596 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAGTCCGAGTATTGACCAAG
* *
1827620 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAGTCCGAGTATTGACCAAG
1827644 ATCAAA
1 ATCAAA
1827650 TTTCGAATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
ATCAAAGTCCGAGTATTGACCAAG
Found at i:1828593 original size:18 final size:18
Alignment explanation
Indices: 1828570--1828621 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
1828560 AAAACATTTG
1828570 TGTTGCGAAAATAAAAGC
1 TGTTGCGAAAATAAAAGC
*
1828588 TGTTGCGAAAATAAAAGT
1 TGTTGCGAAAATAAAAGC
*
1828606 TGTTGCGAAATTAAAA
1 TGTTGCGAAAATAAAA
1828622 TTCGTGTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (18 bp):
TGTTGCGAAAATAAAAGC
Found at i:1828631 original size:20 final size:20
Alignment explanation
Indices: 1828569--1828774 Score: 81
Period size: 20 Copynumber: 10.4 Consensus size: 20
1828559 CAAAACATTT
* *
1828569 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAATTAAAATTC
* *
1828588 -TGTTGCGAAAATAAAAGT-
1 GTGTTGCGAAATTAAAATTC
1828606 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
1828625 GTGTTGCG-AATTCGAAAA-TC
1 GTGTTGCGAAATT--AAAATTC
* ** *
1828645 GAGTTGCGAAAACAAAATCC
1 GTGTTGCGAAATTAAAATTC
* * *
1828665 GTATTGCG-ATTTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
* * *
1828685 TTGTTGCGAAAATGAAACTT-
1 GTGTTGCG-AAATTAAAATTC
* *
1828705 GTGTTGTGAAA-AAGAAATTC
1 GTGTTGCGAAATTA-AAATTC
* *
1828725 GCGTTGCG-AATTGAAATTC
1 GTGTTGCGAAATTAAAATTC
* * *
1828744 TGTATTGCGAATTTAGAAAATC
1 -GTGTTGCGAAATTA-AAATTC
*
1828766 GCGTTGCGA
1 GTGTTGCGA
1828775 GAAAGAAATT
Statistics
Matches: 136, Mismatches: 35, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
18 33 0.24
19 25 0.18
20 51 0.38
21 19 0.14
22 8 0.06
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:1828655 original size:40 final size:40
Alignment explanation
Indices: 1828607--1828832 Score: 133
Period size: 40 Copynumber: 5.6 Consensus size: 40
1828597 AATAAAAGTT
*
1828607 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAAATTAAAATTCGTGTTGCGAATTAGAAAATCGA
** * * * **
1828647 GTTGCGAAAACAAAATCCGTATTGCGATTTAGAAAATCTT
1 GTTGCGAAATTAAAATTCGTGTTGCGAATTAGAAAATCGA
* * * ** * *
1828687 GTTGCGAAAATGAAACTT-GTGTTGTGAAAAAGAAATTCGC
1 GTTGCG-AAATTAAAATTCGTGTTGCGAATTAGAAAATCGA
* * *
1828727 GTTGCG-AATTGAAATTCTGTATTGCGAATTTAGAAAATCGC
1 GTTGCGAAATTAAAATTC-GTGTTGCGAA-TTAGAAAATCGA
* *
1828768 GTTGCGAGAA--AGAAATTCGCGTTGCG-ATTGCAGAAACT-GA
1 GTTGCGA-AATTA-AAATTCGTGTTGCGAATT--AGAAAATCGA
* *
1828808 GTTGCGAATTTGAAAACT-GTGTTGC
1 GTTGCGAAATT-AAAATTCGTGTTGC
1828833 AAAATTGGAG
Statistics
Matches: 138, Mismatches: 36, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
38 7 0.05
39 3 0.02
40 81 0.59
41 38 0.28
42 7 0.05
43 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (40 bp):
GTTGCGAAATTAAAATTCGTGTTGCGAATTAGAAAATCGA
Found at i:1828709 original size:80 final size:81
Alignment explanation
Indices: 1828605--1828815 Score: 198
Period size: 80 Copynumber: 2.6 Consensus size: 81
1828595 AAAATAAAAG
* *
1828605 TTGTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAACAAAATCCGTATT
1 TTGTTGCGAAAATGAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAACAAAATCCGTATT
1828670 GCG-ATTTAGAAAATC
66 GCGAATTTAGAAAATC
* *** * * *** * *
1828685 TTGTTGCGAAAATGAAACTT-GTGTTGTGAAAAAGAAATTCGCGTTGCGAATTGAAATTCTGTAT
1 TTGTTGCGAAAATGAAA-TTCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAACAAAATCCGTAT
1828749 TGCGAATTTAGAAAATC
65 TGCGAATTTAGAAAATC
** * *
1828766 GCGTTGCGAGAAA-GAAATTCGCGTTGCG-ATTGCAGAAACT-GAGTTGCGAA
1 TTGTTGCGA-AAATGAAATTCGTGTTGCGAATT-C-GAAAATCGAGTTGCGAA
1828816 TTTGAAAACT
Statistics
Matches: 103, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
80 55 0.53
81 40 0.39
82 8 0.08
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (81 bp):
TTGTTGCGAAAATGAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAAAACAAAATCCGTATT
GCGAATTTAGAAAATC
Found at i:1830068 original size:20 final size:21
Alignment explanation
Indices: 1830028--1830068 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1830018 TTTTCGAAAA
*
1830028 ATATTTTCTGTAAAATGAATT
1 ATATTTTCTGAAAAATGAATT
1830049 ATATTTTCTGAAAAAT-AATT
1 ATATTTTCTGAAAAATGAATT
1830069 TTGAGAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (21 bp):
ATATTTTCTGAAAAATGAATT
Found at i:1830218 original size:22 final size:21
Alignment explanation
Indices: 1830193--1830241 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
1830183 TATTATTATT
1830193 TTTAAAATATTAAAATAATTTA
1 TTTAAAATATTAAAAT-ATTTA
* * *
1830215 TTTATTATTATTAAAATATTTT
1 TTTA-AAATATTAAAATATTTA
1830237 TTTAA
1 TTTAA
1830242 TAATTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAAAATATTAAAATATTTA
Found at i:1830388 original size:23 final size:23
Alignment explanation
Indices: 1830339--1830389 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1830329 GTGTTATATT
**
1830339 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
1830362 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
1830385 ATATT
1 ATATT
1830390 AAAATATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Done.