Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003112.1 Hibiscus syriacus cultivar Beakdansim tig00006507_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: 642031
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:330314 original size:41 final size:41
Alignment explanation
Indices: 330240--330332 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
330230 ATAGTCAGTA
330240 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
330281 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
330322 TCGCATTGCGA
1 TCGCATTGCGA
330333 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:331781 original size:39 final size:38
Alignment explanation
Indices: 331726--331815 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 38
331716 GAAGTATACT
* * *
331726 CAACCTAAAATATTATA-GTTTGATAACATTTTCAATTTG
1 CAACCTAAAATATTATACGTTGGA-AACAATTT-AAGTTG
*
331765 CAACCTAAAATGTTATACGGTTGGAAACAATTTAAGTTG
1 CAACCTAAAATATTATAC-GTTGGAAACAATTTAAGTTG
331804 CAACCTAAAATA
1 CAACCTAAAATA
331816 CCATCAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
39 32 0.73
40 7 0.16
41 5 0.11
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (38 bp):
CAACCTAAAATATTATACGTTGGAAACAATTTAAGTTG
Found at i:332650 original size:3 final size:3
Alignment explanation
Indices: 332642--332747 Score: 115
Period size: 3 Copynumber: 35.3 Consensus size: 3
332632 TCATTTAAAT
** *
332642 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
332690 TTA TAA TAA TAA TAA TAA TTA TTA TTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
332739 TTA TT- TTA T
1 TTA TTA TTA T
332748 AATAAATAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
2 2 0.02
3 86 0.95
4 3 0.03
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:333913 original size:19 final size:20
Alignment explanation
Indices: 333874--333914 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
333864 TTTCGAATTA
* *
333874 TTATCTTTATTTTTAATAAT
1 TTATATTTAGTTTTAATAAT
333894 TTATATTTAGTTTT-ATAAT
1 TTATATTTAGTTTTAATAAT
333913 TT
1 TT
333915 TTGAATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATATTTAGTTTTAATAAT
Found at i:334004 original size:12 final size:12
Alignment explanation
Indices: 333974--334011 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
333964 ATTACTTTTA
333974 TATTTTAATTAT
1 TATTTTAATTAT
**
333986 TGCTTTAATTAT
1 TATTTTAATTAT
333998 TATTTT-ATTAT
1 TATTTTAATTAT
334009 TAT
1 TAT
334012 CTTAGTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:334185 original size:16 final size:17
Alignment explanation
Indices: 334160--334194 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
334150 TTTAGTTTTA
334160 TTTAAAATATTAAA-AT
1 TTTAAAATATTAAATAT
*
334176 TTTAATATATTAAATAT
1 TTTAAAATATTAAATAT
334193 TT
1 TT
334195 ATTAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAATATTAAATAT
Found at i:334201 original size:19 final size:18
Alignment explanation
Indices: 334156--334202 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 18
334146 ATAATTTAGT
*
334156 TTTATTTAAAATATTAAAA
1 TTTA-TTAATATATTAAAA
334175 -TT-TTAATATATTAAATA
1 TTTATTAATATATTAAA-A
334192 TTTATTAATAT
1 TTTATTAATAT
334203 CAAAGAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 12 0.50
17 1 0.04
18 4 0.17
19 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATTAATATATTAAAA
Found at i:334797 original size:15 final size:13
Alignment explanation
Indices: 334777--334814 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
334767 TTTATATGTT
334777 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
334792 TTATTTTATTTCA
1 TTATTTTATTTCA
334805 TTA-TTTATTT
1 TTATTTTATTT
334815 TGTCAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:340969 original size:114 final size:114
Alignment explanation
Indices: 340761--340986 Score: 353
Period size: 114 Copynumber: 2.0 Consensus size: 114
340751 AAATGCCATG
* *
340761 TGCTCATAGTGGAATTAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
340826 TGGTTTGGTATGAACCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGATTCGGTAGGAACCCAAAAACCAATCATTGGAATTGAAAGATGAATT
*
340875 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * *
340940 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGATTCGGTAGGAACCCAAAAACCAATCATTGGAATTGAAAGATGAA
340987 CTGCATGATC
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTCGGTAGGAACCCAAAAACCAATCATTGGAATTGAAAGATGAATT
Found at i:343166 original size:54 final size:54
Alignment explanation
Indices: 343084--343195 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
343074 CAATGATTGA
**
343084 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATG-TGTCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACT-GTCAAATGTTTTAC
** *
343138 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCACTGTTAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTAC
343192 GAAC
1 GAAC
343196 CTGCTATTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (54 bp):
GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTAC
Found at i:344478 original size:76 final size:76
Alignment explanation
Indices: 344242--345193 Score: 1708
Period size: 76 Copynumber: 12.5 Consensus size: 76
344232 CTATTTCCCA
*
344242 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTGCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
344307 AAGCCTTCGGGT
65 AAGCCTTCGGGT
*
344319 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTGCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
344384 AAGCCTTCGGGT
65 AAGCCTTCGGGT
344396 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
344461 AGCCTTAGGGT
66 AGCCTTCGGGT
*
344472 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTGCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
344537 AAGCCTTCGGGT
65 AAGCCTTCGGGT
344549 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
344614 AGCCTTCGGGT
66 AGCCTTCGGGT
** *
344625 CATCTGTAAGTCCTTCAGTGCATGATGTCACCAAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
344690 AATCCTTCGGGT
65 AAGCCTTCGGGT
344702 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
344767 AGCCTTCGAGT
66 AGCCTTCGGGT
*
344778 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
344842 AACCTTCGGGT
66 AGCCTTCGGGT
344853 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
344918 AGCCTTCGGGT
66 AGCCTTCGGGT
344929 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
344994 AGCCTTCGGGT
66 AGCCTTCGGGT
345005 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
345070 AAACCTTCGGGT
65 AAGCCTTCGGGT
345082 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
345147 AAACCTTCGGGT
65 AAGCCTTCGGGT
* *
345159 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
345194 CATTTCCATC
Statistics
Matches: 849, Mismatches: 22, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
75 72 0.08
76 400 0.47
77 377 0.44
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:344494 original size:153 final size:152
Alignment explanation
Indices: 344242--345193 Score: 1708
Period size: 153 Copynumber: 6.2 Consensus size: 152
344232 CTATTTCCCA
*
344242 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTGCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
344307 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTGCGGGAGCTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTT
344372 TTGATGTTTTCAAAGCCTTCGGGT
129 TTGATGTTTTCAAAGCCTTCGGGT
344396 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
344461 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTGCGGGAGCTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
344526 TGATGTTTTCAAAGCCTTCGGGT
130 TGATGTTTTCAAAGCCTTCGGGT
344549 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
** *
344614 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTCACCAAAAAAGCCTTCAGGAGCTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
*
344679 TGATGTTTTCAAATCCTTCGGGT
130 TGATGTTTTCAAAGCCTTCGGGT
344702 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
344767 AGCCTTCGAGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
344832 GATG-TTTCAAAACCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
344853 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
344918 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
344983 GATGTTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
345005 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
345070 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
345135 TGATGTTTTCAAAAACCTTCGGGT
130 TGATGTTTTC-AAAGCCTTCGGGT
* *
345159 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
345194 CATTTCCATC
Statistics
Matches: 774, Mismatches: 21, Indels: 6
0.97 0.03 0.01
Matches are distributed among these distances:
151 148 0.19
152 103 0.13
153 446 0.58
154 77 0.10
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (152 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGT
Found at i:345327 original size:3 final size:3
Alignment explanation
Indices: 345319--345451 Score: 185
Period size: 3 Copynumber: 43.7 Consensus size: 3
345309 TCATTTAAAT
** *
345319 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
345367 TTA TTA GTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
345415 TTTA TTA TTA TTA TTA ATA ATA TATA TTA TTA TTA TT
1 -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
345452 TAATAAATAA
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
3 110 0.95
4 6 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:346776 original size:12 final size:12
Alignment explanation
Indices: 346746--346783 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
346736 ATTACTTTTA
346746 TATTTTAATTAT
1 TATTTTAATTAT
**
346758 TGCTTTAATTAT
1 TATTTTAATTAT
346770 TATTTT-ATTAT
1 TATTTTAATTAT
346781 TAT
1 TAT
346784 CTTAGTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:346804 original size:2 final size:2
Alignment explanation
Indices: 346791--346822 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
346781 TATCTTAGTC
*
346791 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
346823 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:346965 original size:16 final size:16
Alignment explanation
Indices: 346940--346973 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
346930 TTTAGTTTTA
346940 TTTAAAATATTAAAAT
1 TTTAAAATATTAAAAT
* *
346956 TTTAATATATTAATAT
1 TTTAAAATATTAAAAT
346972 TT
1 TT
346974 ATTAATATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAAATATTAAAAT
Found at i:360987 original size:17 final size:16
Alignment explanation
Indices: 360953--360996 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
360943 CTAAAAGTTA
360953 AATATTA-TTTTAAAT
1 AATATTATTTTTAAAT
360968 AAT-TATATTTTTACAAT
1 AATAT-TATTTTTA-AAT
360985 AATATTATTTTT
1 AATATTATTTTT
360997 TTAATCCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.04
15 5 0.20
16 5 0.20
17 13 0.52
18 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTATTTTTAAAT
Found at i:360995 original size:16 final size:15
Alignment explanation
Indices: 360953--360995 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
360943 CTAAAAGTTA
360953 AATATTATTTTAAAT
1 AATATTATTTTAAAT
360968 AAT-TATATTTTTACAAT
1 AATAT-TA-TTTTA-AAT
360985 AATATTATTTT
1 AATATTATTTT
360996 TTTAATCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.04
15 5 0.21
16 9 0.38
17 8 0.33
18 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATTATTTTAAAT
Found at i:362257 original size:17 final size:17
Alignment explanation
Indices: 362218--362274 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
362208 AAAATAAGGA
*
362218 AAAACAGGAAAGAAAAAAG
1 AAAA-AGGAAAG-AAAAAT
362237 AAAAAGGAAAGAAAAAT
1 AAAAAGGAAAGAAAAAT
** *
362254 AAAAATAAAAGAAAGAT
1 AAAAAGGAAAGAAAAAT
362271 AAAA
1 AAAA
362275 TATGGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 23 0.68
18 7 0.21
19 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAAGGAAAGAAAAAT
Found at i:362258 original size:18 final size:18
Alignment explanation
Indices: 362217--362258 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
362207 AAAAATAAGG
362217 AAAAACAGGAAAGAAAAA
1 AAAAACAGGAAAGAAAAA
362235 AGAAAA-AGGAAAGAAAAA
1 A-AAAACAGGAAAGAAAAA
362253 TAAAAA
1 -AAAAA
362259 TAAAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAACAGGAAAGAAAAA
Found at i:363564 original size:12 final size:11
Alignment explanation
Indices: 363542--363583 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
363532 GAAACGGGAA
363542 AAAATAA-AAT
1 AAAATAATAAT
363552 AAAATAAGTAAT
1 AAAATAA-TAAT
363564 AAAAATAATAAT
1 -AAAATAATAAT
363576 AATAATAA
1 AA-AATAA
363584 ATATAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.25
11 2 0.07
12 12 0.43
13 7 0.25
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:363705 original size:34 final size:35
Alignment explanation
Indices: 363662--363730 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
363652 TAAAAAAACA
* *
363662 TTTTAAAAAACTATATAA-TTTTCAAAAATGTTTT
1 TTTTAAAAAACCATACAATTTTTCAAAAATGTTTT
*
363696 TTTTAAAAAACCATACAATTTTTTAAAAATGTTTT
1 TTTTAAAAAACCATACAATTTTTCAAAAATGTTTT
363731 CAAAATTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (35 bp):
TTTTAAAAAACCATACAATTTTTCAAAAATGTTTT
Found at i:363853 original size:37 final size:36
Alignment explanation
Indices: 363716--363971 Score: 221
Period size: 37 Copynumber: 6.9 Consensus size: 36
363706 CCATACAATT
* * * * * *
363716 TTTTAAAAATGTTTTCAAAATTACATATTATATATG
1 TTTTCAAAATGTTTTAAAAACTATATAATATATATA
* * *
363752 CTTTCAAAATGTTTTTCAAAAAATTATATATTATATATTTA
1 TTTTCAAAATG-TTTT--AAAAACTATATA--ATATATATA
*
363793 TTTTCAAAACGTTTTAAAAACTATATAATATATATA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATATA
* * * *
363829 TTTTCAAAAATGTTTTGAAAACTATATATTATATTTC
1 TTTTC-AAAATGTTTTAAAAACTATATAATATATATA
* * *
363866 TTTCCAAAAACGTTTT-AAAACTATATAATATATAAATT
1 TTTTC-AAAATGTTTTAAAAACTATATAATATAT--ATA
* *
363904 TTTTTAAAATGTTTTAAAAACTATAT-AT-CATATA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATATA
* *
363938 TTTTCAAAATGTTTTCAAAATTATATAATATATA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATA
363972 AATAAAAAAT
Statistics
Matches: 179, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
34 25 0.14
35 2 0.01
36 43 0.24
37 55 0.31
38 25 0.14
39 10 0.06
40 4 0.02
41 15 0.08
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTTCAAAATGTTTTAAAAACTATATAATATATATA
Found at i:363985 original size:4 final size:4
Alignment explanation
Indices: 363964--364004 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
363954 AAAATTATAT
*
363964 AATA TATA AATA AA-A AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
364005 ATATGGACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:364296 original size:65 final size:65
Alignment explanation
Indices: 364192--364321 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
364182 TTGGAATTGA
364192 AACCGTAGTCTGGAATTTGAATTAGAACGTGGCTTCTCGTTGCCCAATTGTAATCAACCTCGGTC
1 AACCGTAGTCTGGAATTTGAATTAGAACGTGGCTTCTCGTTGCCCAATTGTAATCAACCTCGGTC
* *
364257 AACCGTAGTCTGGAATTTGAATTGGAACGTGGCTTCTCGTTGCCCAATTGTAGTCAACCTCGGTC
1 AACCGTAGTCTGGAATTTGAATTAGAACGTGGCTTCTCGTTGCCCAATTGTAATCAACCTCGGTC
364322 TTCTTCTCGG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (65 bp):
AACCGTAGTCTGGAATTTGAATTAGAACGTGGCTTCTCGTTGCCCAATTGTAATCAACCTCGGTC
Found at i:364637 original size:84 final size:83
Alignment explanation
Indices: 364419--365389 Score: 1050
Period size: 84 Copynumber: 11.7 Consensus size: 83
364409 AATGAGATCA
* * * **
364419 AACTCGAAAGGTCTTCGTTGACAGATAGCTTTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 AACTCG-AAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * *
364484 CTCGAAGCTGAGTGTAATCG
65 CTTG-AGCTGAGCGTAGTCG
** * * *
364504 AACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCG
1 AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
364566 TTGAGCTGAGCGTAGTCG
66 TTGAGCTGAGCGTAGTCG
* * * * * *
364584 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC
1 AACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* *
364649 GTTGAGCTGAGCGTGGTCG
65 CTTGAGCTGAGCGTAGTCG
* *
364668 AACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * *
364733 CTCGAAGCTGAGTGTAATCG
65 CTTG-AGCTGAGCGTAGTCG
* * * * * * * * *
364753 AACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATATGCCC
1 AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
* * *
364818 TCGAAGCTGAGTGTAATCG
66 TTG-AGCTGAGCGTAGTCG
** * * *
364837 AACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGAGCCG
1 AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
364899 TTGAGCTGAGCGTAGTCG
66 TTGAGCTGAGCGTAGTCG
* * ** * * * * *
364917 AACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
1 AACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * *
364982 CTCGGAGCTGAGTGTAATCG
65 CT-TGAGCTGAGCGTAGTCG
** *
365002 AACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CC
1 AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
*
365063 TTAGAGTTGAGCGTAGTCG
66 TT-GAGCTGAGCGTAGTCG
* *
365082 AACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
*
365147 CTCGAAGCTGAGCGTAGTCG
65 CTTG-AGCTGAGCGTAGTCG
** * * *
365167 AACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCG
1 AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
365229 TTGAGCTGAGCGTAGTCG
66 TTGAGCTGAGCGTAGTCG
* *
365247 AACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTC
1 AACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* *
365312 GTTGAGCTGAGTGTAGTCG
65 CTTGAGCTGAGCGTAGTCG
* * * * * *
365331 AACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
1 AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
365390 TTGTTTAAAA
Statistics
Matches: 748, Mismatches: 117, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
80 93 0.12
81 169 0.23
82 4 0.01
83 41 0.05
84 363 0.49
85 78 0.10
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (83 bp):
AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
TTGAGCTGAGCGTAGTCG
Found at i:364888 original size:249 final size:246
Alignment explanation
Indices: 364419--365389 Score: 1148
Period size: 249 Copynumber: 3.9 Consensus size: 246
364409 AATGAGATCA
* * **
364419 AACTCGAAAGGTCTTCGTTGACAGATAGCTTTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 AACTC-AAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
** * *
364484 CTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATA
65 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATG
*
364549 CTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACC
130 CTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC--TTGTTGGCAGATAACC
* *
364614 CTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCGTTGAGCTGAGCGTGGTCG
193 CTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCG
* *
364668 AACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
1 AACTCAAAGGTC-TTTGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * * *
364733 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
65 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGCT
* * * * * * * *** *
364798 ATGCTGTAGATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-T-TTGGCAGATAG
127 ATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTGTTGGCAGATAA
* *
364861 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGA-GCCGTTGAGCTGAGCGTAGTCG
191 CCCTTCTAGACTTAAGTTATGCTGCAAATGAT-ATGCCGTTGAGCTGAGCGTAGTCG
* * * * * * *
364917 AACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
1 AACTCAAAGGTC-TTTGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* ** *
364982 CTCGGAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
65 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATG
*
365047 CTGCAAATGATGTGCC-TTAGAGTTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAAC
130 CTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTC-TT-GTTGGCAGATAAC
* * * *
365111 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCG
192 CCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTG-AGCTGAGCGTAGTCG
*** * * *
365167 AACTCGGGGGTCTTTG--G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCG
1 AACTCAAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
* * * *
365229 TTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCT
66 TCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCT
* * * * *
365293 ATGCTGCAAATGATGTGTCGTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAA
127 ATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTGTTGGCAGATAA
* *
365358 CCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
191 CCCTTCTAGACTTAAGTTATGCTGCAAATGAT
365390 TTGTTTAAAA
Statistics
Matches: 616, Mismatches: 88, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
245 44 0.07
246 76 0.12
247 3 0.00
248 47 0.08
249 357 0.58
250 29 0.05
251 1 0.00
252 37 0.06
253 22 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (246 bp):
AACTCAAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
TCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGC
TGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGTTGGCAGATAACCCTT
CTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCG
Found at i:364943 original size:165 final size:164
Alignment explanation
Indices: 364450--365389 Score: 1265
Period size: 165 Copynumber: 5.7 Consensus size: 164
364440 CAGATAGCTT
* *
364450 TTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
1 TTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
*
364515 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGCGTA
66 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTA
* *
364580 GTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCC
131 GTCGAACTCAAAGGTC-TTTGGTGGCAGATAACCC
* * * * * ** ***
364615 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCGTTG-AGCTGAGCGTGGTCGAACTCAAAGGT
1 TTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
* * * *
364679 CTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGA
66 C---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGA
* * * *
364744 GTGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCC
126 GCGTAGTCGAACTCAAAGGTCTTTGGTGGCAGATAACCC
* * * * *
364783 TTCTAGCCTTGAGTTATGCTGTAGATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
1 TTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
*
364848 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGAGCCGTTGAGCTGAGCGTA
66 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTA
**
364913 GTCGAACTCAAAGGTCTTTTGGTCACAGATAACCC
131 GTCGAACTCAAAGGTC-TTTGGTGGCAGATAACCC
* * * *
364948 TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGGAGCTGAGTGTAATCGAACTCGGGGGT
1 TTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
*
365013 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTAGAGTTGAGCGT
66 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGT
365077 AGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCC
130 AGTCGAACTCAAAGGTCTTTGG-TGGCAGATAACCC
* * *
365113 TTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGGGGGT
1 TTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
*
365178 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTGAGCGTA
66 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTA
365243 GTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCC
131 GTCGAACTCAAAGGTCTTTGG-TGGCAGATAACCC
* * * * * * **
365278 TTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTG-AGCTGAGTGTAGTCGAACTCGAAGGT
1 TTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
* * * * *
365342 CTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
66 CTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
365390 TTGTTTAAAA
Statistics
Matches: 689, Mismatches: 73, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
164 79 0.11
165 433 0.63
166 4 0.01
167 35 0.05
168 93 0.13
169 45 0.07
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (164 bp):
TTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTA
GTCGAACTCAAAGGTCTTTGGTGGCAGATAACCC
Found at i:369460 original size:17 final size:17
Alignment explanation
Indices: 369421--369477 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
369411 AAAATAAGGA
*
369421 AAAACAGGAAAGAAAAAAG
1 AAAA-AGGAAAG-AAAAAT
369440 AAAAAGGAAAGAAAAAT
1 AAAAAGGAAAGAAAAAT
** *
369457 AAAAATAAAAGAAAGAT
1 AAAAAGGAAAGAAAAAT
369474 AAAA
1 AAAA
369478 TATTGGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 23 0.68
18 7 0.21
19 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAAGGAAAGAAAAAT
Found at i:369461 original size:18 final size:18
Alignment explanation
Indices: 369420--369461 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
369410 AAAAATAAGG
369420 AAAAACAGGAAAGAAAAA
1 AAAAACAGGAAAGAAAAA
369438 AGAAAA-AGGAAAGAAAAA
1 A-AAAACAGGAAAGAAAAA
369456 TAAAAA
1 -AAAAA
369462 TAAAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAACAGGAAAGAAAAA
Found at i:370563 original size:3 final size:3
Alignment explanation
Indices: 370539--370578 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
370529 AACAGGAAAA
370539 AAT AA- AAT AA- AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
370579 ATATAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:370711 original size:34 final size:35
Alignment explanation
Indices: 370660--370725 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
370650 AAAAACATTT
* *
370660 TAAAAAACTATATAA-TTTTCAAAAATGTTTTTTC
1 TAAAAAACCATACAATTTTTCAAAAATGTTTTTTC
*
370694 TAAAAAACCATACAATTTTTTAAAAATGTTTT
1 TAAAAAACCATACAATTTTTCAAAAATGTTTT
370726 CAAAATTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (35 bp):
TAAAAAACCATACAATTTTTCAAAAATGTTTTTTC
Found at i:370848 original size:37 final size:36
Alignment explanation
Indices: 370711--370966 Score: 230
Period size: 37 Copynumber: 6.9 Consensus size: 36
370701 CCATACAATT
* * * * * *
370711 TTTTAAAAATGTTTTCAAAATTACATATTATATATG
1 TTTTCAAAATGTTTTAAAAACTATATAATATATATA
* * *
370747 CTTTCAAAATGTTTTTCAAAAAATTATATATTATATATTTA
1 TTTTCAAAATG-TTTT--AAAAACTATATA--ATATATATA
*
370788 TTTTCAAAACGTTTTAAAAACTATATAATATATATA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATATA
* * * *
370824 TTTTCAAAAATGTTTTGAAAACTATATATTATATTTC
1 TTTTC-AAAATGTTTTAAAAACTATATAATATATATA
* *
370861 TTTTCAAAAACGTTTT-AAAACTATATAATATATAAATT
1 TTTTC-AAAATGTTTTAAAAACTATATAATATAT--ATA
* *
370899 TTTTTAAAATGTTTTAAAAACTATAT-AT-CATATA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATATA
* *
370933 TTTTCAAAATGTTTTCAAAATTATATAATATATA
1 TTTTCAAAATGTTTTAAAAACTATATAATATATA
370967 AATAAAAAAT
Statistics
Matches: 181, Mismatches: 28, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
34 25 0.14
35 2 0.01
36 43 0.24
37 56 0.31
38 26 0.14
39 10 0.06
40 4 0.02
41 15 0.08
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTTCAAAATGTTTTAAAAACTATATAATATATATA
Found at i:370980 original size:4 final size:4
Alignment explanation
Indices: 370959--370991 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
370949 AAAATTATAT
*
370959 AATA TATA AATA AA-A AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
370992 ATATGGACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:371096 original size:2 final size:2
Alignment explanation
Indices: 371016--371080 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
371006 GAGTGTCTAC
371016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
371058 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
371081 ATCAGTGGTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:375867 original size:60 final size:60
Alignment explanation
Indices: 375801--375913 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
375791 TATGGTTCTT
* *
375801 ATTTTAAATTAA-TCTTCAAAGTTTTAAATATTCTAATTCTA-TCCTCAAACTATAAACCTC
1 ATTTTAAATTAATTC-TCAAACTTTTAAACATTCTAATTCTATTCCT-AAACTATAAACCTC
* *
375861 ATTTTAAATTAATTCTCAAACTTTTAAACATTGTAATTTTATTCCTAAACTAT
1 ATTTTAAATTAATTCTCAAACTTTTAAACATTCTAATTCTATTCCTAAACTAT
375914 CGGTATATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
60 41 0.87
61 6 0.13
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (60 bp):
ATTTTAAATTAATTCTCAAACTTTTAAACATTCTAATTCTATTCCTAAACTATAAACCTC
Found at i:376130 original size:44 final size:44
Alignment explanation
Indices: 376050--376133 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
376040 TCCTCAAAAC
* *
376050 CATACTTATAATGGAATTAAGCGGTACTTTGGTTTTTATTGTTG
1 CATACTTATAATGAAATTAAGCGGTACTTTGATTTTTATTGTTG
*
376094 CATACTTATAATGAAATTGAAAG-GTTA-TTTGATTTTTATT
1 CATACTTATAATGAAATT--AAGCGGTACTTTGATTTTTATT
376134 TTTCTTCTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
44 29 0.83
45 3 0.09
46 3 0.09
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (44 bp):
CATACTTATAATGAAATTAAGCGGTACTTTGATTTTTATTGTTG
Found at i:377017 original size:21 final size:21
Alignment explanation
Indices: 376993--377042 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
376983 AGAATTTTTA
376993 TCCTTATGACACACTTTTCTC
1 TCCTTATGACACACTTTTCTC
* *
377014 TCCTCTTGTGACACATTTTTCTC
1 T-C-CTTATGACACACTTTTCTC
377037 T-CTTAT
1 TCCTTAT
377043 TGTGACACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 4 0.17
21 1 0.04
22 1 0.04
23 18 0.75
ACGTcount: A:0.16, C:0.30, G:0.06, T:0.48
Consensus pattern (21 bp):
TCCTTATGACACACTTTTCTC
Found at i:377069 original size:24 final size:23
Alignment explanation
Indices: 376999--377077 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
376989 TTTATCCTTA
*
376999 TGACACACTTTTCTCTCCTCTTG
1 TGACACATTTTTCTCTCCTCTTG
* *
377022 TGACACATTTTTCTCTCTTATTG
1 TGACACATTTTTCTCTCCTCTTG
*
377045 TGACACGTTTTTACTC-CGCTCTTG
1 TGACACATTTTT-CTCTC-CTCTTG
377069 TGACACATT
1 TGACACATT
377078 CCTTATGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 32 0.68
24 15 0.32
ACGTcount: A:0.16, C:0.28, G:0.11, T:0.44
Consensus pattern (23 bp):
TGACACATTTTTCTCTCCTCTTG
Found at i:378087 original size:13 final size:13
Alignment explanation
Indices: 378069--378094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
378059 TATTAAAAGT
378069 TACAAAATGGTCA
1 TACAAAATGGTCA
378082 TACAAAATGGTCA
1 TACAAAATGGTCA
378095 CCCAACTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
TACAAAATGGTCA
Found at i:378437 original size:60 final size:59
Alignment explanation
Indices: 378311--378424 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
378301 ATAGTCATGT
* * * * *
378311 GACCATTTTGTAACTTTTAATAGTCAGAGACTCAACAAAGCAACTGCCTATAGTCGGAA
1 GACCATTTTATAACTTTTAATAGTCAGAGAATCAACAAAACAACTACCTATAATCGGAA
378370 GACCATTTTATAACTTTTAATAGTC-GAAGAATGCAACAAAACAAC-ACTCTATAAT
1 GACCATTTTATAACTTTTAATAGTCAG-AGAAT-CAACAAAACAACTAC-CTATAAT
378425 TGAGGGACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
58 1 0.02
59 29 0.62
60 17 0.36
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.28
Consensus pattern (59 bp):
GACCATTTTATAACTTTTAATAGTCAGAGAATCAACAAAACAACTACCTATAATCGGAA
Found at i:379322 original size:28 final size:30
Alignment explanation
Indices: 379286--379359 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
379276 AATCAAAATG
*
379286 TTAATTATTAAAATATTTA-A-ATTATATTT
1 TTAATTATTAAAATA-TAAGATATTATATTT
*
379315 TTAA-TATTATAATATAAGATATTATATTT
1 TTAATTATTAAAATATAAGATATTATATTT
379344 TT-ATT-TTAATAATATA
1 TTAATTATTAA-AATATA
379360 TACTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 2 0.05
28 14 0.37
29 22 0.58
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TTAATTATTAAAATATAAGATATTATATTT
Found at i:379462 original size:27 final size:27
Alignment explanation
Indices: 379382--379467 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
379372 AATAAAATTT
* *
379382 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
379409 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
379436 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
379465 ATA
1 ATA
379468 GTATAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:379503 original size:23 final size:23
Alignment explanation
Indices: 379475--379525 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
379465 ATAGTATAAT
*
379475 AATATTTTAATAAAGATATTTAA
1 AATATTCTAATAAAGATATTTAA
* * *
379498 AATATTCTAATTAATATTTTTAA
1 AATATTCTAATAAAGATATTTAA
379521 AATAT
1 AATAT
379526 AAAATAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AATATTCTAATAAAGATATTTAA
Found at i:379804 original size:15 final size:15
Alignment explanation
Indices: 379784--379813 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
379774 TCGTAAAACG
*
379784 TTTTCATGAAAATGT
1 TTTTCAGGAAAATGT
379799 TTTTCAGGAAAATGT
1 TTTTCAGGAAAATGT
379814 AATTCATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (15 bp):
TTTTCAGGAAAATGT
Found at i:380154 original size:27 final size:28
Alignment explanation
Indices: 380124--380182 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
380114 TTATTATTTC
380124 TACC-GATTTTGTTATTATTGGGCGCTT
1 TACCGGATTTTGTTATTATTGGGCGCTT
380151 TACCGGATTTTGTTATTATTGGGCGCTT
1 TACCGGATTTTGTTATTATTGGGCGCTT
380179 TACC
1 TACC
380183 AAATTTGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (28 bp):
TACCGGATTTTGTTATTATTGGGCGCTT
Found at i:381004 original size:31 final size:30
Alignment explanation
Indices: 380968--381026 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
380958 CTAAAGGGAT
*
380968 AAAGTATAATTAATAATAGAAAATTAAGAAG
1 AAAGTATAATTAATAATA-AAAAATAAGAAG
*
380999 AAAGTATAGTTAATAATAAAAAATAAGA
1 AAAGTATAATTAATAATAAAAAATAAGA
381027 GGTAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (30 bp):
AAAGTATAATTAATAATAAAAAATAAGAAG
Found at i:381479 original size:60 final size:60
Alignment explanation
Indices: 381393--381561 Score: 196
Period size: 60 Copynumber: 2.8 Consensus size: 60
381383 TATTGGAACA
* * * **
381393 TTCAAAAGTTTGGGGACTAATGTAGAATAAGAGTCATAGTTTGAGGATGAAGTTGGAATG
1 TTCAAAAGTTTGTGGACTAATTTAGAATAAGAGTCATAGTTTGAGGATGAAATTAAAATG
* * * *
381453 TTCAAGAGTTTGTGGACCAATTTAGAATGAGAGTCATAATTT-AGGGATGAAATTAAAATG
1 TTCAAAAGTTTGTGGACTAATTTAGAATAAGAGTCATAGTTTGA-GGATGAAATTAAAATG
* * * * *
381513 TTTAAAAGTTTATGGACTAATTTAAAATAAAAGTCATAGTTTGGGGATG
1 TTCAAAAGTTTGTGGACTAATTTAGAATAAGAGTCATAGTTTGAGGATG
381562 TATGTTGCAA
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 1 0.01
60 88 0.99
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (60 bp):
TTCAAAAGTTTGTGGACTAATTTAGAATAAGAGTCATAGTTTGAGGATGAAATTAAAATG
Found at i:385674 original size:22 final size:22
Alignment explanation
Indices: 385648--385700 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
385638 TGGTGGAGAT
385648 GGTGGTGGCATGCTCTCCCTCC
1 GGTGGTGGCATGCTCTCCCTCC
385670 GGTGGTGGCATGCTCTCCCTCC
1 GGTGGTGGCATGCTCTCCCTCC
*
385692 GATGGTGGC
1 GGTGGTGGC
385701 GGGGGTGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.06, C:0.32, G:0.36, T:0.26
Consensus pattern (22 bp):
GGTGGTGGCATGCTCTCCCTCC
Found at i:392935 original size:20 final size:20
Alignment explanation
Indices: 392912--392956 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
392902 TGGCATGCTG
392912 AAATGTTCTCTAGCATAGAT
1 AAATGTTCTCTAGCATAGAT
*
392932 AAATGTTCTCTAGCCTAGAT
1 AAATGTTCTCTAGCATAGAT
392952 AAATG
1 AAATG
392957 ATCTGCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
AAATGTTCTCTAGCATAGAT
Found at i:402387 original size:14 final size:14
Alignment explanation
Indices: 402368--402394 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
402358 TTGTGCAAAG
402368 TGTATCGATACCCA
1 TGTATCGATACCCA
402382 TGTATCGATACCC
1 TGTATCGATACCC
402395 CCTTTCTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (14 bp):
TGTATCGATACCCA
Found at i:402855 original size:19 final size:18
Alignment explanation
Indices: 402820--402854 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
402810 AAAATCTACA
402820 ACAAATTTCATCAAAAAC
1 ACAAATTTCATCAAAAAC
402838 ACAAGATTTC-TCAAAAA
1 ACAA-ATTTCATCAAAAA
402855 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.54, C:0.20, G:0.03, T:0.23
Consensus pattern (18 bp):
ACAAATTTCATCAAAAAC
Found at i:402864 original size:18 final size:19
Alignment explanation
Indices: 402822--402864 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
402812 AATCTACAAC
* *
402822 AAATTTCATCAAAAACACA
1 AAATTTCATCAAAAAAAAA
*
402841 AGATTTC-TCAAAAAAAAA
1 AAATTTCATCAAAAAAAAA
402859 AAATTT
1 AAATTT
402865 GTTTTCAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATTTCATCAAAAAAAAA
Found at i:404743 original size:13 final size:13
Alignment explanation
Indices: 404722--404756 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
404712 GGGGAGTAAT
*
404722 TTTTCAAAATTG-
1 TTTTCAAAAATGA
404734 TTTTCAAAAATGA
1 TTTTCAAAAATGA
404747 TTTTCAAAAA
1 TTTTCAAAAA
404757 GAAAATCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:406884 original size:20 final size:20
Alignment explanation
Indices: 406855--406897 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
406845 ATTCCACTAC
* *
406855 ATGCAACTATATGCTCTTAA
1 ATGCAACTATATGATCCTAA
*
406875 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
406895 ATG
1 ATG
406898 GGCTCTTAGA
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:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:408046 original size:21 final size:21
Alignment explanation
Indices: 408022--408069 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
408012 TTAAATAAAT
*
408022 AGAAATAATTAATATATTTTA
1 AGAAATAATTAATATATGTTA
* *
408043 AG-AATAATTTATTTATGTTA
1 AGAAATAATTAATATATGTTA
*
408063 AAAAATA
1 AGAAATA
408070 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (21 bp):
AGAAATAATTAATATATGTTA
Found at i:412207 original size:12 final size:11
Alignment explanation
Indices: 412176--412211 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
412166 AAGGATGATG
412176 GATCT-TATTT
1 GATCTATATTT
412186 GATCTATATTT
1 GATCTATATTT
412197 GATCATATATTT
1 GATC-TATATTT
412209 GAT
1 GAT
412212 GAAAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.21
11 9 0.38
12 10 0.42
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (11 bp):
GATCTATATTT
Found at i:412307 original size:4 final size:4
Alignment explanation
Indices: 412298--413971 Score: 3327
Period size: 4 Copynumber: 419.2 Consensus size: 4
412288 ATAAGAACAT
412298 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412346 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412394 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412442 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412490 AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412536 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412583 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412631 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412679 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412727 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412775 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412823 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412871 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412919 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
412967 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413015 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413063 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413111 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413159 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413207 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413255 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413303 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413351 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413399 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413447 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413495 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413543 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413591 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413639 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413687 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413735 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413783 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413831 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413879 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
413927 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
413972 CATCTATATA
Statistics
Matches: 1667, Mismatches: 0, Indels: 6
1.00 0.00 0.00
Matches are distributed among these distances:
2 2 0.00
3 3 0.00
4 1662 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:415241 original size:81 final size:81
Alignment explanation
Indices: 415154--415811 Score: 985
Period size: 81 Copynumber: 8.1 Consensus size: 81
415144 TTTTGCTTAT
* * * * *
415154 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAAGTGAAGAGTTAGGAAGATAG
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
415219 GTATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
* * *
415235 TTCCACAAAACCTTTGATTTTCAAAATCATGTCAAAGATGAGAAGGTGGAGAGTTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
* *
415300 TTATGTTGTTTCATAC
66 GTATGTTGTTCCATAC
* * *
415316 TTCCACAGAACCTCTGATTTTCAAAATCATGACAAAGATGAGAATGTGAAGAGTTTGGAAGATAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
415381 GTATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
* *
415397 TTCCACAGAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAATTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
415462 GTATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
* *
415478 TTCCACATAACCTCT-AGTTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAATTTGGAAGACA
1 TTCCACAAAACCTCTGA-TTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACA
415542 AGTATGTTGTTCCATAC
65 AGTATGTTGTTCCATAC
* * * * * *
415559 TCCCATAAAACCTCTGATTTTCAAAATCATGGCAAAGATAAGAAGGTGAAGAGTTTGGAAAATAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
* *
415624 GTATGGTGTTTCATAC
66 GTATGTTGTTCCATAC
* * * * *
415640 TTACACAAAACCTTTTATTTTTAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
* *
415705 GTATGATGTTCTATAC
66 GTATGTTGTTCCATAC
* * *
415721 TTCCACAAAACCTCTGATTTTTAAAATCATGACATAGATGAGAAGGTAAAGAGTTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
415786 GTATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
415802 TTCCACAAAA
1 TTCCACAAAA
415812 TCAAGCTCTC
Statistics
Matches: 523, Mismatches: 52, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
80 1 0.00
81 521 1.00
82 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (81 bp):
TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAGTTTGGAAGACAA
GTATGTTGTTCCATAC
Found at i:418158 original size:70 final size:71
Alignment explanation
Indices: 418042--418185 Score: 229
Period size: 70 Copynumber: 2.0 Consensus size: 71
418032 GATTGTTTGA
* *
418042 TGGGCGTTTAATTAAAGGATTTAAAAATATAATGGGCCTTTGGTTTTTTCTCCCCAGACATTGAG
1 TGGGCGTTTAATTAAAGGATTTAAAAATATAATGGGCCTTTGGTTTTTGCTCCCCAGACATAGAG
418107 TTATGG
66 TTATGG
* *
418113 TGGGCGTTT-ATATAAAGGATTT-ATAATATAATGGGGCTTTGGTTTTTGCTCCCCAGACATAGA
1 TGGGCGTTTAAT-TAAAGGATTTAAAAATATAATGGGCCTTTGGTTTTTGCTCCCCAGACATAGA
418176 GTTATGG
65 GTTATGG
418183 TGG
1 TGG
418186 TTCTGCGTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
70 49 0.72
71 19 0.28
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.38
Consensus pattern (71 bp):
TGGGCGTTTAATTAAAGGATTTAAAAATATAATGGGCCTTTGGTTTTTGCTCCCCAGACATAGAG
TTATGG
Found at i:418922 original size:81 final size:81
Alignment explanation
Indices: 418667--418902 Score: 366
Period size: 81 Copynumber: 2.9 Consensus size: 81
418657 CTATAAAAAA
* * *
418667 ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGTTGAGAAGGTGAAGAGTTTGGAGG
1 ATACTTCCACAAAACTTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
*
418732 ATAAGTATGATGTTCC
66 ACAAGTATGATGTTCC
* * * *
418748 ATACTTCCACAAAACCTT-TTATTTTTAAAATCATGGTAAAGATGAGAAGGTGAAGTGTTTGGAA
1 ATACTTCCACAAAA-CTTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAA
*
418812 GACAAATATGATGTTCC
65 GACAAGTATGATGTTCC
*
418829 ATACTTCCACAAAACTTCTGATTTTCAAAATAATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
1 ATACTTCCACAAAACTTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
418894 ACAAGTATG
66 ACAAGTATG
418903 CATCTGTCTA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
80 3 0.02
81 133 0.96
82 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (81 bp):
ATACTTCCACAAAACTTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
ACAAGTATGATGTTCC
Found at i:418981 original size:162 final size:161
Alignment explanation
Indices: 418667--418982 Score: 365
Period size: 162 Copynumber: 2.0 Consensus size: 161
418657 CTATAAAAAA
* * *
418667 ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGTTGAGAAGGTGAAGAGTTTGGAGG
1 ATACTTCCACAAAACCTCTGATTTTCAAAATAATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
* * * * * *
418732 ATAAGTATGATGTTCCATACTTCCACAAAACCTTTTATTTTTAAAATCATGGTAAAGATGAGAAG
66 ACAAGTATGATCTTCCATACTTCCACAAAACCTTTGATTCTGAAAACCATGGTAAAGAT-AGAAG
* * *
418797 GTGAAGTGTTTGGAAGACAAATATGATGTTCC
130 GTGAAGAGTCTGGAAAACAAATATGATGTTCC
*
418829 ATACTTCCACAAAACTTCTGATTTTCAAAATAATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
1 ATACTTCCACAAAACCTCTGATTTTCAAAATAATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
* * *
418894 ACAAGTATGCATCTGT-C-TACTTTCAC-AAAGCTTATGATTCTGCAAACCATGCCG-AAAGCA-
66 ACAAGTATG-ATCT-TCCATACTTCCACAAAACCTT-TGATTCTGAAAACCATG--GTAAAG-AT
*
418954 ATGAA-GTGGAGAGTCTGGAAAACAAATAT
125 A-GAAGGTGAAGAGTCTGGAAAACAAATAT
418983 TCCACGGCCT
Statistics
Matches: 130, Mismatches: 17, Indels: 14
0.81 0.11 0.09
Matches are distributed among these distances:
161 6 0.05
162 110 0.85
163 11 0.08
164 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (161 bp):
ATACTTCCACAAAACCTCTGATTTTCAAAATAATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
ACAAGTATGATCTTCCATACTTCCACAAAACCTTTGATTCTGAAAACCATGGTAAAGATAGAAGG
TGAAGAGTCTGGAAAACAAATATGATGTTCC
Found at i:421594 original size:40 final size:40
Alignment explanation
Indices: 421550--421670 Score: 233
Period size: 40 Copynumber: 3.0 Consensus size: 40
421540 GTCCTTTCAA
421550 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
421590 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
*
421630 AGAGTATGTCCCCTTTGATAGTGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
421670 A
1 A
421671 ATGTCCTATT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (40 bp):
AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
Found at i:427151 original size:30 final size:28
Alignment explanation
Indices: 427117--427176 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 28
427107 AAACAACTTA
427117 AAATCCCTCATTTTAATTTC-ATCTTTATCC
1 AAATCCCT-ATTTT--TTTCTATCTTTATCC
*
427147 AAATCTCTATTTTTTTCTTATCTTTATCC
1 AAATCCCTATTTTTTTC-TATCTTTATCC
427176 A
1 A
427177 GATCTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.15
29 16 0.59
30 7 0.26
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (28 bp):
AAATCCCTATTTTTTTCTATCTTTATCC
Found at i:428074 original size:26 final size:26
Alignment explanation
Indices: 428045--428095 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
428035 TCTGACGTGC
*
428045 CAGTTTCTAAAAGGTCCAGTCAGCGA
1 CAGTTTCTAAAAGATCCAGTCAGCGA
* *
428071 CAGTTTCTAGAAGATCTAGTCAGCG
1 CAGTTTCTAAAAGATCCAGTCAGCG
428096 CGCCTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (26 bp):
CAGTTTCTAAAAGATCCAGTCAGCGA
Found at i:428327 original size:13 final size:13
Alignment explanation
Indices: 428305--428351 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
428295 CTTTCTTTTC
*
428305 TTTTCCTTTTAAG
1 TTTTCATTTTAAG
*
428318 TTTTCATTTTTA-
1 TTTTCATTTTAAG
428330 TTTT-ATTTTAAG
1 TTTTCATTTTAAG
*
428342 TTTTTATTTT
1 TTTTCATTTT
428352 TTTAATGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 6 0.21
12 8 0.28
13 15 0.52
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTAAG
Found at i:433634 original size:16 final size:16
Alignment explanation
Indices: 433610--433669 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
433600 GAAACAACCC
*
433610 ATTTTATTTTATTTTT
1 ATTTCATTTTATTTTT
*
433626 ATTTCATTTAATTTTT
1 ATTTCATTTTATTTTT
* *
433642 -TGTAATTTTATTTTT
1 ATTTCATTTTATTTTT
433657 AATTTC-TTTTATT
1 -ATTTCATTTTATT
433670 GGGTACTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 12 0.34
16 21 0.60
17 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTCATTTTATTTTT
Found at i:435550 original size:19 final size:18
Alignment explanation
Indices: 435516--435558 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
435506 TTGGCATTGT
435516 GAAAATAAAATAATGAAA
1 GAAAATAAAATAATGAAA
435534 GAAAAGTAAAA-AGATGAAA
1 GAAAA-TAAAATA-ATGAAA
435553 GAAAAT
1 GAAAAT
435559 TAGAACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (18 bp):
GAAAATAAAATAATGAAA
Found at i:436381 original size:9 final size:9
Alignment explanation
Indices: 436360--436418 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
436350 CATATTTCCC
436360 TTTTTTTCA
1 TTTTTTTCA
436369 --TTTTTCA
1 TTTTTTTCA
436376 TTTTTTTCA
1 TTTTTTTCA
436385 TTTTTTTC-
1 TTTTTTTCA
*
436393 TTTCATTTT-T
1 TTT--TTTTCA
436403 TTGTTTTTCA
1 TT-TTTTTCA
436413 TTTTTT
1 TTTTTT
436419 AAAATTCTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
7 7 0.17
8 3 0.07
9 23 0.55
10 8 0.19
11 1 0.02
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:436396 original size:13 final size:12
Alignment explanation
Indices: 436376--436418 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
436366 TCATTTTTCA
436376 TTTTTTTCATTT
1 TTTTTTTCATTT
436388 TTTTCTTTCATTTTT
1 TTTT-TTTCA--TTT
436403 TTGTTTTTCATTT
1 TT-TTTTTCATTT
436416 TTT
1 TTT
436419 AAAATTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
15 10 0.37
16 2 0.07
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTTTTCATTT
Found at i:438570 original size:16 final size:16
Alignment explanation
Indices: 438549--438589 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
438539 CATTAATTTG
438549 AAGATTAAACTCTTAC
1 AAGATTAAACTCTTAC
438565 AAGATTAAACTCTTAC
1 AAGATTAAACTCTTAC
*
438581 AAGAGTAAA
1 AAGATTAAA
438590 ATCCATTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (16 bp):
AAGATTAAACTCTTAC
Found at i:443150 original size:18 final size:17
Alignment explanation
Indices: 443127--443167 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
443117 TTATCATTGT
443127 GAAAAGAAAATAATGAAA
1 GAAAAGAAAAT-ATGAAA
* *
443145 GAAAAGTACATATGAAA
1 GAAAAGAAAATATGAAA
443162 GAAAAG
1 GAAAAG
443168 TAGAAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.66, C:0.02, G:0.20, T:0.12
Consensus pattern (17 bp):
GAAAAGAAAATATGAAA
Found at i:445263 original size:6 final size:6
Alignment explanation
Indices: 445252--445284 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
445242 CTTCCATCCA
445252 TTCTGT TTCTGT TTCTGT TTCTGT TTCTGT TTC
1 TTCTGT TTCTGT TTCTGT TTCTGT TTCTGT TTC
445285 ACTGATCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.67
Consensus pattern (6 bp):
TTCTGT
Found at i:448227 original size:201 final size:201
Alignment explanation
Indices: 447882--448278 Score: 785
Period size: 201 Copynumber: 2.0 Consensus size: 201
447872 GATTACTGTA
*
447882 TATTTAAAATTAGAAATTTTGAGTTCGATCTTTATTTCAATTCCTCTAACATGATTGTCTTTCAT
1 TATTTAAAATTAAAAATTTTGAGTTCGATCTTTATTTCAATTCCTCTAACATGATTGTCTTTCAT
447947 CTTTGTTATGAGCTGAGATATGTGTCACCTTCAACTAAGGCGATCATCTGCTTCTGAGAATGTCA
66 CTTTGTTATGAGCTGAGATATGTGTCACCTTCAACTAAGGCGATCATCTGCTTCTGAGAATGTCA
448012 TAATGAAGCGTTAGAAGTTCTGTCCTCTGGTCCTTATGATCTCTCGGACTGTTTGCTTTTTAAGA
131 TAATGAAGCGTTAGAAGTTCTGTCCTCTGGTCCTTATGATCTCTCGGACTGTTTGCTTTTTAAGA
448077 ATTACG
196 ATTACG
448083 TATTTAAAATTAAAAATTTTGAGTTCGATCTTTATTTCAATTCCTCTAACATGATTGTCTTTCAT
1 TATTTAAAATTAAAAATTTTGAGTTCGATCTTTATTTCAATTCCTCTAACATGATTGTCTTTCAT
448148 CTTTGTTATGAGCTGAGATATGTGTCACCTTCAACTAAGGCGATCATCTGCTTCTGAGAATGTCA
66 CTTTGTTATGAGCTGAGATATGTGTCACCTTCAACTAAGGCGATCATCTGCTTCTGAGAATGTCA
448213 TAATGAAGCGTTAGAAGTTCTGTCCTCTGGTCCTTATGATCTCTCGGACTGTTTGCTTTTTAAGA
131 TAATGAAGCGTTAGAAGTTCTGTCCTCTGGTCCTTATGATCTCTCGGACTGTTTGCTTTTTAAGA
448278 A
196 A
448279 ATGCTTTATT
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 195 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (201 bp):
TATTTAAAATTAAAAATTTTGAGTTCGATCTTTATTTCAATTCCTCTAACATGATTGTCTTTCAT
CTTTGTTATGAGCTGAGATATGTGTCACCTTCAACTAAGGCGATCATCTGCTTCTGAGAATGTCA
TAATGAAGCGTTAGAAGTTCTGTCCTCTGGTCCTTATGATCTCTCGGACTGTTTGCTTTTTAAGA
ATTACG
Found at i:448949 original size:53 final size:53
Alignment explanation
Indices: 448869--448986 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
448859 TTCAAGACGT
448869 CATCTAAACATTTACGTCTTGAACCCTTCTTTTATTAATTTTTCCCTATCACA
1 CATCTAAACATTTACGTCTTGAACCCTTCTTTTATTAATTTTTCCCTATCACA
448922 CATCTAAACATTTACGTCTTGAACCCTTCTTTTATTAATTTTTCCCTATCACA
1 CATCTAAACATTTACGTCTTGAACCCTTCTTTTATTAATTTTTCCCTATCACA
*
448975 CAT-TAAAGATTT
1 CATCTAAACATTT
448987 CAGAAACCAT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 8 0.12
53 56 0.88
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.43
Consensus pattern (53 bp):
CATCTAAACATTTACGTCTTGAACCCTTCTTTTATTAATTTTTCCCTATCACA
Found at i:449339 original size:8 final size:8
Alignment explanation
Indices: 449319--449402 Score: 52
Period size: 8 Copynumber: 10.6 Consensus size: 8
449309 TTTGATCGGT
449319 TTTCTTT-
1 TTTCTTTC
449326 TTTCTTTC
1 TTTCTTTC
449334 TTTCTTTAC
1 TTTCTTT-C
*
449343 ATT-TTTC
1 TTTCTTTC
449350 TATT-TTTC
1 T-TTCTTTC
* * *
449358 TCTATTTT
1 TTTCTTTC
449366 TTTCTTT-
1 TTTCTTTC
449373 TTT-TTTC
1 TTTCTTTC
449380 TTTTCTTTTC
1 -TTTC-TTTC
*
449390 TTTCTTTT
1 TTTCTTTC
449398 TTTCT
1 TTTCT
449403 CTTTTTTCCC
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
6 3 0.05
7 12 0.19
8 36 0.58
9 7 0.11
10 4 0.06
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTCTTTC
Found at i:449349 original size:20 final size:18
Alignment explanation
Indices: 449324--449410 Score: 58
Period size: 20 Copynumber: 4.7 Consensus size: 18
449314 TCGGTTTTCT
449324 TTTTTCTTTCTTTCTTTAC
1 TTTTTCTTT-TTTCTTTAC
* *
449343 ATTTTTCTATTTTTCTCTATT
1 -TTTTTCT-TTTTTCTTTA-C
449364 TTTTTCTTTTTT-TTT-C
1 TTTTTCTTTTTTCTTTAC
449380 -TTTTCTTTTCTTTCTTT--
1 TTTTTC-TTT-TTTCTTTAC
449397 TTTTCTCTTTTTTC
1 TTTT-TCTTTTTTC
449411 CCTCTTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
15 5 0.09
16 3 0.05
17 7 0.12
18 11 0.20
19 7 0.12
20 21 0.38
21 2 0.04
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTTTCTTTAC
Found at i:449363 original size:10 final size:9
Alignment explanation
Indices: 449344--449410 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
449334 TTTCTTTACA
449344 TTTTTCTAT
1 TTTTTCTAT
449353 TTTTCTCTATT
1 TTTT-TCTA-T
449364 TTTTTCT-T
1 TTTTTCTAT
449372 TTTTT-T-T
1 TTTTTCTAT
*
449379 CTTTTCT-T
1 TTTTTCTAT
449387 TTCTTTCT-T
1 TT-TTTCTAT
*
449396 TTTTTCTCT
1 TTTTTCTAT
449405 TTTTTC
1 TTTTTC
449411 CCTCTTTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
7 6 0.12
8 14 0.27
9 19 0.37
10 7 0.14
11 5 0.10
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTAT
Found at i:449378 original size:5 final size:5
Alignment explanation
Indices: 449365--449407 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
449355 TTCTCTATTT
*
449365 TTTTC TTTTT TTTTC TTTTC TTTTC -TTTC TTTT- TTTCTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT-TC TTTT
449408 TTCCCTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 7 0.21
5 23 0.70
6 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:449408 original size:31 final size:31
Alignment explanation
Indices: 449352--449440 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 31
449342 CATTTTTCTA
* * * * * *
449352 TTTTTCTCTATTTTTTTCTTTTTTTTTCTTT
1 TTTTTCTTTCTTTTTTTCTCTTTTTTCCCTC
449383 TCTTTTCTTTCTTTTTTTCTCTTTTTTCCCTC
1 T-TTTTCTTTCTTTTTTTCTCTTTTTTCCCTC
* *
449415 TTTTTGTTTCATTTTTTCTCTTTTTT
1 TTTTTCTTTCTTTTTTTCTCTTTTTT
449441 GTTTGTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 24 0.49
32 25 0.51
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (31 bp):
TTTTTCTTTCTTTTTTTCTCTTTTTTCCCTC
Found at i:449437 original size:55 final size:53
Alignment explanation
Indices: 449318--449438 Score: 131
Period size: 55 Copynumber: 2.2 Consensus size: 53
449308 ATTTGATCGG
* *
449318 TTTTCTTTTTTCTTTCTTTCTTTACATTTTTCTATTTTTCTCTATTTTTTTCTTT
1 TTTTCTCTTTTCTTTCTTTCTTT--ATTTTTCTATTTTTCTCTATTTTTTTCATT
*
449373 TTTTTTCTTTTCTTTTCTTTCTTT-TTTTCTCT-TTTTTCCCTCT-TTTTGTTTCATT
1 TTTTCTCTTTTC-TTTCTTTCTTTATTTT-TCTATTTTT--CTCTATTTT-TTTCATT
449428 TTTTCTCTTTT
1 TTTTCTCTTTT
449439 TTGTTTGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
53 9 0.16
54 7 0.12
55 30 0.53
56 11 0.19
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (53 bp):
TTTTCTCTTTTCTTTCTTTCTTTATTTTTCTATTTTTCTCTATTTTTTTCATT
Found at i:449439 original size:10 final size:10
Alignment explanation
Indices: 449344--449440 Score: 81
Period size: 10 Copynumber: 9.4 Consensus size: 10
449334 TTTCTTTACA
*
449344 TTTTTCTATT
1 TTTTTCTCTT
* *
449354 TTTCTCTATT
1 TTTTTCTCTT
*
449364 TTTTTCTTTT
1 TTTTTCTCTT
449374 TTTTTCT-TT
1 TTTTTCTCTT
449383 TCTTTTCTTTCTT
1 T-TTTTC--TCTT
449396 TTTTTCTCTT
1 TTTTTCTCTT
*
449406 TTTTCCCTCTT
1 TTTT-TCTCTT
*
449417 TTTGTT-TCAT
1 TTT-TTCTCTT
449427 TTTTTCTCTT
1 TTTTTCTCTT
449437 TTTT
1 TTTT
449441 GTTTGTTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
9 5 0.07
10 50 0.68
11 8 0.11
12 7 0.10
13 3 0.04
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:449450 original size:20 final size:22
Alignment explanation
Indices: 449392--449444 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
449382 TTCTTTTCTT
449392 TCTTTTT-TTCTC-TTTTTTCCC
1 TCTTTTTGTT-TCATTTTTTCCC
*
449413 TCTTTTTGTTTCATTTTTTCTC
1 TCTTTTTGTTTCATTTTTTCCC
449435 T-TTTTTGTTT
1 TCTTTTTGTTT
449445 GTTTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (22 bp):
TCTTTTTGTTTCATTTTTTCCC
Found at i:449450 original size:31 final size:31
Alignment explanation
Indices: 449363--449450 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
449353 TTTTCTCTAT
* *
449363 TTTTTTCTTTTTTTTTCTTT-TCTTTTCTTTCT
1 TTTTTTC-TCTTTTTTCTTTCT-TTTTCTTTCA
** *
449395 TTTTTTCTCTTTTTTCCCTCTTTTTGTTTCA
1 TTTTTTCTCTTTTTTCTTTCTTTTTCTTTCA
* *
449426 TTTTTTCTCTTTTTTGTTTGTTTTT
1 TTTTTTCTCTTTTTTCTTTCTTTTT
449451 ATTTTCTTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
31 38 0.83
32 8 0.17
ACGTcount: A:0.01, C:0.16, G:0.03, T:0.80
Consensus pattern (31 bp):
TTTTTTCTCTTTTTTCTTTCTTTTTCTTTCA
Found at i:455399 original size:12 final size:13
Alignment explanation
Indices: 455382--455410 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
455372 TTAATTGCGA
455382 AAAATTAAAA-TT
1 AAAATTAAAATTT
455394 AAAATTAAAATTT
1 AAAATTAAAATTT
455407 AAAA
1 AAAA
455411 GAACTCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:455928 original size:3 final size:3
Alignment explanation
Indices: 455920--455944 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
455910 ATATATATAT
455920 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
455945 CAACAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:455985 original size:41 final size:40
Alignment explanation
Indices: 455901--455993 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 40
455891 TAATTTAATT
455901 TAAT-AAA-AAATATATATATATAATAATAATAATAATAA
1 TAATAAAACAAATATATATATATAATAATAATAATAATAA
* *
455939 TAATAACAACAAATATATATATATATATATTAGATTA-AATAA
1 TAATAA-AACAAATATATATATATA-ATAATA-ATAATAATAA
*
455981 -AATAAAATAAATA
1 TAATAAAACAAATA
455994 AAGAAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
38 4 0.09
39 1 0.02
40 9 0.19
41 20 0.43
42 10 0.21
43 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (40 bp):
TAATAAAACAAATATATATATATAATAATAATAATAATAA
Found at i:456303 original size:11 final size:11
Alignment explanation
Indices: 456289--456332 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
456279 AGATATGGAA
456289 AGAGCGAGAAG
1 AGAGCGAGAAG
456300 AGA--GAG-A-
1 AGAGCGAGAAG
456307 AGAGCGAGAAG
1 AGAGCGAGAAG
*
456318 AGAGAGAGAAG
1 AGAGCGAGAAG
456329 AGAG
1 AGAG
456333 AGAACTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
7 3 0.11
8 1 0.04
9 6 0.21
10 1 0.04
11 17 0.61
ACGTcount: A:0.50, C:0.05, G:0.45, T:0.00
Consensus pattern (11 bp):
AGAGCGAGAAG
Found at i:456306 original size:9 final size:9
Alignment explanation
Indices: 456288--456336 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
456278 GAGATATGGA
*
456288 AAGAGCGAG
1 AAGAGAGAG
456297 AAGAGAGAG
1 AAGAGAGAG
*
456306 AAGAGCGAG
1 AAGAGAGAG
456315 AAGAGAGAGAG
1 -A-AGAGAGAG
456326 AAGAGAGAG
1 AAGAGAGAG
456335 AA
1 AA
456337 CTCTCTAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 26 0.74
10 2 0.06
11 7 0.20
ACGTcount: A:0.53, C:0.04, G:0.43, T:0.00
Consensus pattern (9 bp):
AAGAGAGAG
Found at i:456311 original size:18 final size:18
Alignment explanation
Indices: 456288--456324 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
456278 GAGATATGGA
456288 AAGAGCGAGAAGAGAGAG
1 AAGAGCGAGAAGAGAGAG
456306 AAGAGCGAGAAGAGAGAG
1 AAGAGCGAGAAGAGAGAG
456324 A
1 A
456325 GAAGAGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.43, T:0.00
Consensus pattern (18 bp):
AAGAGCGAGAAGAGAGAG
Found at i:456333 original size:11 final size:11
Alignment explanation
Indices: 456298--456335 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
456288 AAGAGCGAGA
456298 AGAGAGAG-A-
1 AGAGAGAGAAG
*
456307 AGAGCGAGAAG
1 AGAGAGAGAAG
456318 AGAGAGAGAAG
1 AGAGAGAGAAG
456329 AGAGAGA
1 AGAGAGA
456336 ACTCTCTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 17 0.68
ACGTcount: A:0.53, C:0.03, G:0.45, T:0.00
Consensus pattern (11 bp):
AGAGAGAGAAG
Found at i:456333 original size:18 final size:18
Alignment explanation
Indices: 456288--456336 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
456278 GAGATATGGA
*
456288 AAGAGCGAGAAGAGAGAG
1 AAGAGAGAGAAGAGAGAG
*
456306 AAGAGCGAGAAGAGAGAGAG
1 AAGAGAGAG-A-AGAGAGAG
456326 AAGAGAGAGAA
1 AAGAGAGAGAA
456337 CTCTCTAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.36
19 2 0.07
20 16 0.57
ACGTcount: A:0.53, C:0.04, G:0.43, T:0.00
Consensus pattern (18 bp):
AAGAGAGAGAAGAGAGAG
Found at i:456903 original size:85 final size:85
Alignment explanation
Indices: 456814--457235 Score: 594
Period size: 85 Copynumber: 5.0 Consensus size: 85
456804 AGATATGCAG
* * * * * *
456814 TAAATTTGACATGCCCTTGAGCTGAATGAAATCGAACTTGAAGGTATTTGTTGATAGATAACCCT
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
** * *
456879 TCTCATCTTAAGTTATGCTA
66 TCTCGCCTTGAGCTATGCTA
* * *
456899 TAAATTTGACATACCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAAATAACCCT
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
* *
456964 TATCGCCTTGAGCTATGCTG
66 TCTCGCCTTGAGCTATGCTA
* *
456984 TAAATTTGATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCT
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
*
457049 TCTCGCCTTGAGCTATGCTG
66 TCTCGCCTTGAGCTATGCTA
* * *
457069 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTTGAAGGTCTTTGTTGATAGATAGCCCT
1 TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
457134 TCTCGCCTTGAGCTATGCTA
66 TCTCGCCTTGAGCTATGCTA
* * * *
457154 -AATATTTGATATACCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGCTGAAATATAACCC
1 TAA-ATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
*
457218 TTCTCACCTTGAGCTATG
65 TTCTCGCCTTGAGCTATG
457236 ATGTAATAGG
Statistics
Matches: 306, Mismatches: 30, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
84 2 0.01
85 304 0.99
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (85 bp):
TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
TCTCGCCTTGAGCTATGCTA
Found at i:461597 original size:16 final size:16
Alignment explanation
Indices: 461556--461598 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
461546 AAAAGTCAAA
*
461556 AAAAAAGTTAAAAAAG
1 AAAAAAGTTGAAAAAG
*
461572 AAAAAAGTTGAAAAGG
1 AAAAAAGTTGAAAAAG
*
461588 GAAAAAGTTGA
1 AAAAAAGTTGA
461599 GCCATGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (16 bp):
AAAAAAGTTGAAAAAG
Found at i:463665 original size:85 final size:85
Alignment explanation
Indices: 463177--463668 Score: 608
Period size: 85 Copynumber: 5.8 Consensus size: 85
463167 GTCATCGAGG
* * * * * ** ** * * *
463177 TGAATGAAATCGAACTCGACAGTTTTTTGTTGATAGATATCTTTTCTCAACTTAAGATATGTTGT
1 TGAATGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT
* * *
463242 AAATTTGAAATG-CTCTAGAGT
65 AAATTTGATATGCCT-TTGAGC
* * * * * * * * *
463263 TGAATGAAATCGAACTCAAAGGTATTTATTGACAGATAGCCCTTCTCTCTTTAACCTATGCTATA
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
* * *
463328 AAATTGACATGCCTTTGAGT
66 AATTTGATATGCCTTTGAGC
* * *
463348 TGAATGTAATCGAACTCTAAGGTCTTTGTTGACATATAGCCCTTCTCTCCTTGAGCTATGCTGTA
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
463413 AATTTGATATGCCTTTGAGC
66 AATTTGATATGCCTTTGAGC
* * * *
463433 TGAATGTAATAGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGTTATA
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
463498 AATTTGATATGCCTTTGAGC
66 AATTTGATATGCCTTTGAGC
* * *
463518 TGAATGTAATCGAATTTGAAGGTCTGTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
463583 AATTTGATATGCCTTTGAGC
66 AATTTGATATGCCTTTGAGC
* *
463603 TGAATGTAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTA
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
463668 A
66 A
463669 TAGGCTGGGA
Statistics
Matches: 356, Mismatches: 49, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
85 336 0.94
86 20 0.06
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (85 bp):
TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTA
AATTTGATATGCCTTTGAGC
Found at i:467939 original size:22 final size:21
Alignment explanation
Indices: 467911--467958 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
467901 GATTACAAAA
*
467911 ATAAAAATAAA-TAAATAAAT
1 ATAAAAAAAAATTAAATAAAT
*
467931 ATGAAAAAAAAATTAATTAAAT
1 AT-AAAAAAAAATTAAATAAAT
467953 ATAAAA
1 ATAAAA
467959 TCAAGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 12 0.50
22 10 0.42
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (21 bp):
ATAAAAAAAAATTAAATAAAT
Found at i:468366 original size:40 final size:37
Alignment explanation
Indices: 468273--468386 Score: 90
Period size: 37 Copynumber: 3.0 Consensus size: 37
468263 AAAAAGAAAT
*
468273 AAACATAAAAACATAAAAATATATATAAATAAATATTA
1 AAACATAAAAA-ATAAAAATATATATAAATAAATATAA
* *
468311 AGA-ATAAATTGAATAAAAATTCATATATATAAT-AATAATAA
1 AAACATAAA--AAATAAAAA-T-ATATATA-AATAAAT-ATAA
* * *
468352 AAACATAAAAAAT-AATATATATATATATATATATA
1 AAACATAAAAAATAAAAATATATATAAATAAATATA
468387 GATTAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
36 5 0.08
37 14 0.23
38 10 0.17
39 5 0.08
40 13 0.22
41 8 0.13
42 5 0.08
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (37 bp):
AAACATAAAAAATAAAAATATATATAAATAAATATAA
Found at i:472860 original size:61 final size:60
Alignment explanation
Indices: 472785--472946 Score: 222
Period size: 60 Copynumber: 2.7 Consensus size: 60
472775 GTATATATGT
*
472785 ATAGTTT-GGGATGAAATTGAAATATTAAATAAGTTTAGGGACTAATTTAGAATGA-AAGTC
1 ATAGTTTAGGGATGAAATTGAAATATTTAA-AAGTTTAGGGACTAATTTAGAATGATAA-TC
* *
472845 ATAGTTTAGGGATGAAAATGAAATTTTTAAAAGTTT-GGAGACTAATTTAGAATGATAATC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTAGG-GACTAATTTAGAATGATAATC
* * *
472905 ATAGTTTAAGGATAAAATTGAAACATTTAAAAGTTTAGGGAC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTAGGGAC
472947 CAGTTTAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
59 2 0.02
60 65 0.72
61 23 0.26
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (60 bp):
ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTAGGGACTAATTTAGAATGATAATC
Found at i:474720 original size:21 final size:21
Alignment explanation
Indices: 474696--474761 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 21
474686 TGACTATTCA
474696 AATTAAAATAATTTTTTATTT
1 AATTAAAATAATTTTTTATTT
* *
474717 AATTTATATAA--TTTTATTT
1 AATTAAAATAATTTTTTATTT
*
474736 AATAAAAATAATGATTTTATATTT
1 AATTAAAATAAT--TTTT-TATTT
474760 AA
1 AA
474762 AATAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 16 0.46
21 9 0.26
23 3 0.09
24 7 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTAAAATAATTTTTTATTT
Found at i:480909 original size:23 final size:23
Alignment explanation
Indices: 480862--480909 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
480852 AATGACAAAT
**
480862 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
480885 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
480908 TA
1 TA
480910 AATTAATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:480966 original size:23 final size:23
Alignment explanation
Indices: 480940--480999 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
480930 ATCAAGCACA
* *
480940 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
480963 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
480986 ATAATAAAATAGGT
1 ATAACATAATAGGT
481000 TAATTACTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:480980 original size:87 final size:87
Alignment explanation
Indices: 480834--481074 Score: 365
Period size: 87 Copynumber: 2.8 Consensus size: 87
480824 TCATTTAACC
* * *
480834 GGAAATATTATCAAGTAAAATGACAAATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTAT
480899 ATAATAAAATAAATTAATTACT
66 ATAATAAAATAAATTAATTACT
* * *
480921 GGAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTAT
**
480986 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAAATTAATTACT
** * * *
481008 GGAAATATTATCAAGTACAATAACATATTAAATAACGCTTATATAATGTAATAGGTAACACTTAT
1 GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTAT
481073 AT
66 AT
481075 TGACCTATTC
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 138 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (87 bp):
GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTAT
ATAATAAAATAAATTAATTACT
Found at i:481419 original size:198 final size:199
Alignment explanation
Indices: 481125--481748 Score: 884
Period size: 198 Copynumber: 3.1 Consensus size: 199
481115 ACATTGCAAA
* * *
481125 TATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGAAA
1 TATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACA
*
481188 CTTTATGCGTGCACCTCGA-TGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGT
65 CTTTATGCGTGCACCTC-ATTAGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGT
* *
481252 GTCGATACATTATGTACACATATTTTCTCATAAAACCGATATATTTCTACCGGATACATTGTAAA
129 GTCGATACATTATGTAGACCTATTTTCTCATAAAACCGATATATTTCTACCGGATACATTGTAAA
481317 TTTACC
194 TTTACC
* * * *
481323 TATTGCATTGTAATTATCGGTTTGGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACAT
1 TATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACAC
* *
481387 TTTATGTGTGCACCTCATTAGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGT
66 TTTATGCGTGCACCTCATTAGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGT
* * *
481452 CGATACATTGTGTAGACCTATTTTCTCATAAAA-CAATATATTTCTACC-AAGTACATTGTAAAT
131 CGATACATTATGTAGACCTATTTTCTCATAAAACCGATATATTTCTACCGGA-TACATTGTAAAT
481515 TTACC
195 TTACC
* *
481520 TATTACATTGTAATTATCGGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACAC
1 TATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACAC
* * * **** *
481585 TTTATGCGTGCACATCATTTGGCATTCATTCTGGACAAAATGTATCGACA-TTTTTTAAATTTGT
66 TTTATGCGTGCACCTCATTAGGCATTCATTCTGGA-AAAAAGTATCGACACAAACTTAAA-ATGT
* * * * *
481649 GTCGATACATTATGTAGACCTATTCTCTCATAAAACTGATATATTTATACTGGTTACATTGTAAA
129 GTCGATACATTATGTAGACCTATTTTCTCATAAAACCGATATATTTCTACCGGATACATTGTAAA
481714 TTTACC
194 TTTACC
481720 TATTACATTATAATTATCGGTTTCGATGT
1 TATTACATTATAATTATCGGTTTCGATGT
481749 AACATATGTG
Statistics
Matches: 379, Mismatches: 38, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
196 4 0.01
197 73 0.19
198 197 0.52
199 49 0.13
200 56 0.15
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (199 bp):
TATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACAC
TTTATGCGTGCACCTCATTAGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGT
CGATACATTATGTAGACCTATTTTCTCATAAAACCGATATATTTCTACCGGATACATTGTAAATT
TACC
Found at i:481883 original size:30 final size:31
Alignment explanation
Indices: 481849--481933 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 31
481839 TTATAATAAA
*
481849 TAAT-AAATATAATTTATAATAA-TTTTATTT
1 TAATAAAATATAA-TAATAATAATTTTTATTT
*
481879 TAATAAAATATAATAATCATAATTTTTA-TT
1 TAATAAAATATAATAATAATAATTTTTATTT
481909 T-ATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
481934 AATAATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.23
30 22 0.46
31 15 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTTATTT
Found at i:481892 original size:40 final size:41
Alignment explanation
Indices: 481810--481903 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 41
481800 TTCCCTCATT
* *
481810 ATAATATAATTAATGATATATTATTATTATTATAATAAATA
1 ATAATATAATTTATAATATATTATTATTATTATAATAAATA
481851 ATAAATATAATTTATAATA-ATT-TTATT-TTAATAA-AATATA
1 AT-AATATAATTTATAATATATTATTATTATT-ATAATAA-ATA
481891 ATAATCATAATTT
1 ATAAT-ATAATTT
481904 TTATTTATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
39 7 0.15
40 21 0.45
41 5 0.11
42 14 0.30
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (41 bp):
ATAATATAATTTATAATATATTATTATTATTATAATAAATA
Found at i:481941 original size:14 final size:14
Alignment explanation
Indices: 481860--481945 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
481850 AATAAATATA
**
481860 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
481875 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
481888 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * *
481902 -TTTTATTTATAAA
1 ATTTTAATAATAAT
*
481915 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
481929 ATTTTAATAATAAT
1 ATTTTAATAATAAT
481943 ATT
1 ATT
481946 GACATAAATA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
13 18 0.34
14 30 0.57
15 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:482093 original size:2 final size:2
Alignment explanation
Indices: 482086--482126 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
482076 ATATTGTAAT
482086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
482127 TTTTATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:482353 original size:21 final size:21
Alignment explanation
Indices: 482314--482354 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
482304 CAGTAAAAAT
* *
482314 TACCTAAAACATTATTATTTC
1 TACCTAAAACATCAATATTTC
482335 TACCTAAAACATCAATATTT
1 TACCTAAAACATCAATATTT
482355 TTTAACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTC
Found at i:482645 original size:31 final size:30
Alignment explanation
Indices: 482608--482698 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 30
482598 TAAAAAATAA
*
482608 AAAATATAATTTATAATAATTTTATT-TTAAT
1 AAAATATAA-TAATAATAATTTT-TTATTAAT
* *
482639 AAAATATAATAATCATAATTTTTTATTTAT
1 AAAATATAATAATAATAATTTTTTATTAAT
* *
482669 AAAAT-T-ATAGAT-ATAATATTTTAATAAT
1 AAAATATAATA-ATAATAATTTTTTATTAAT
482697 AA
1 AA
482699 TATTTACATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 18 0.35
29 5 0.10
30 20 0.38
31 9 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AAAATATAATAATAATAATTTTTTATTAAT
Found at i:482698 original size:14 final size:14
Alignment explanation
Indices: 482616--482717 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
482606 AAAAAATATA
**
482616 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
482631 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
482644 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
482658 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
482672 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
482686 ATTTTAATAATAAT
1 ATTTTAATAATAAT
482700 A-TTTACATAAATAAT
1 ATTTTA-AT-AATAAT
482715 ATT
1 ATT
482718 AAATAAATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
13 14 0.22
14 38 0.58
15 12 0.18
16 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:482698 original size:28 final size:28
Alignment explanation
Indices: 482630--482698 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
482620 ATAATAATTT
*
482630 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
482657 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
482685 TATTTTAATAATAA
1 TATTTTAATAATAA
482699 TATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:482723 original size:14 final size:15
Alignment explanation
Indices: 482681--482725 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
482671 AATTATAGAT
*
482681 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
482695 ATAATATTTACATAA
1 ATAATATTTAAATAA
482710 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
482724 AT
1 AT
482726 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:483074 original size:23 final size:23
Alignment explanation
Indices: 483036--483085 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
483026 ACCTATTTTA
*
483036 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
** *
483059 TTATATAAGCTTTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
483082 TTAT
1 TTAT
483086 TGTGCTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:483151 original size:87 final size:87
Alignment explanation
Indices: 483020--483337 Score: 528
Period size: 87 Copynumber: 3.7 Consensus size: 87
483010 ACAAATTAAA
* * **
483020 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCTTTACCTAATATGTTA
1 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
*
483085 TTGTGCTTAATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
*
483107 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
*
483172 TTGTGCTTGATAATGTTTTCAG
66 TTGTGCTTGATAATGTTTCCAG
* * *
483194 TAATTAACATTTTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACTTAATATATTA
1 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
*
483259 TTGTGCTTGATAATATTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
*
483281 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
1 TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
483338 TTACATTATA
Statistics
Matches: 216, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 216 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
TAATTAACATATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
TTGTGCTTGATAATGTTTCCAG
Found at i:483172 original size:23 final size:23
Alignment explanation
Indices: 483122--483166 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
483112 AACATATTTT
*
483122 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
483145 ATTATATAAGCGGTACCTAATA
1 ATTATATAAGCGCTACCTAATA
483167 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:483258 original size:23 final size:23
Alignment explanation
Indices: 483208--483259 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
483198 TAACATTTTT
*
483208 TATTATATAAGCGCTACCTATTA
1 TATTATATAAGCGCTACCTAATA
* *
483231 CATTATATAAGCGCTACTTAATA
1 TATTATATAAGCGCTACCTAATA
483254 TATTAT
1 TATTAT
483260 TGTGCTTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
TATTATATAAGCGCTACCTAATA
Found at i:483313 original size:23 final size:23
Alignment explanation
Indices: 483287--483389 Score: 179
Period size: 23 Copynumber: 4.5 Consensus size: 23
483277 CCAGTAATTA
**
483287 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
483310 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
483333 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
483356 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
483379 ACATATTACAT
1 ACCTATTACAT
483390 CATAGTTTTA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:486354 original size:8 final size:8
Alignment explanation
Indices: 486341--486445 Score: 52
Period size: 8 Copynumber: 14.4 Consensus size: 8
486331 AAATTAGTAA
486341 TAATGATT
1 TAATGATT
486349 TAATGA-T
1 TAATGATT
*
486356 TAACT-A-C
1 TAA-TGATT
486363 TAATGATT
1 TAATGATT
* *
486371 TAATAATA
1 TAATGATT
486379 TAATGA-T
1 TAATGATT
486386 T--TGATT
1 TAATGATT
* *
486392 TAATAATA
1 TAATGATT
486400 TAATGA-T
1 TAATGATT
486407 T--TGATT
1 TAATGATT
*
486413 TAATGTTT
1 TAATGATT
*
486421 TAATGATG
1 TAATGATT
*
486429 TAAT-A-A
1 TAATGATT
486435 TAATGATT
1 TAATGATT
486443 TAA
1 TAA
486446 CTCAATAATT
Statistics
Matches: 71, Mismatches: 15, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
5 6 0.08
6 9 0.13
7 13 0.18
8 43 0.61
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (8 bp):
TAATGATT
Found at i:486427 original size:21 final size:21
Alignment explanation
Indices: 486366--486416 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
486356 TAACTACTAA
486366 TGATTTAATAATATAATGATT
1 TGATTTAATAATATAATGATT
486387 TGATTTAATAATATAATGATT
1 TGATTTAATAATATAATGATT
486408 TGATTTAAT
1 TGATTTAAT
486417 GTTTTAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
TGATTTAATAATATAATGATT
Found at i:488631 original size:32 final size:32
Alignment explanation
Indices: 488566--488651 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
488556 TATTGGTGGC
* * *
488566 TGAAGAAGACGCCGAGACATCCCCCTCCCATG
1 TGAAGAAGACGCCGAGAAATCCACCTCCAATG
*
488598 TGAAGAAGACGTCGAGAAATCCAACC-CCAATG
1 TGAAGAAGACGCCGAGAAATCC-ACCTCCAATG
* * *
488630 TGAGGAAGACACCAAGAAATCC
1 TGAAGAAGACGCCGAGAAATCC
488652 TTGAATGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
32 43 0.96
33 2 0.04
ACGTcount: A:0.37, C:0.29, G:0.22, T:0.12
Consensus pattern (32 bp):
TGAAGAAGACGCCGAGAAATCCACCTCCAATG
Done.