Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 59 of 130
Found at i:12533672 original size:16 final size:16
Alignment explanation
Indices: 12533648--12533678 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12533638 TTTTTAGTAA
12533648 AAATAAAAAATAAAAC
1 AAATAAAAAATAAAAC
*
12533664 AAATCAAAAATAAAA
1 AAATAAAAAATAAAA
12533679 AGCAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (16 bp):
AAATAAAAAATAAAAC
Found at i:12533685 original size:23 final size:22
Alignment explanation
Indices: 12533646--12533689 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
12533636 CATTTTTAGT
*
12533646 AAAAATAAAAAATAAAACAAATC
1 AAAAATAAAAAACAAAA-AAATC
*
12533669 AAAAATAAAAAGCAAAAAAAT
1 AAAAATAAAAAACAAAAAAAT
12533690 TCACACACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (22 bp):
AAAAATAAAAAACAAAAAAATC
Found at i:12539878 original size:3 final size:3
Alignment explanation
Indices: 12539870--12539894 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12539860 TAATTTAAAT
12539870 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
12539895 ATTTTCATAT
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:12542819 original size:20 final size:19
Alignment explanation
Indices: 12542796--12542842 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
12542786 TTATTTACTA
12542796 ATATATATTATATTAATAG
1 ATATATATTATATTAATAG
12542815 -TATATTATT-TATTAATAG
1 ATATA-TATTATATTAATAG
12542833 AT-TATATTAT
1 ATATATATTAT
12542843 TATTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
ATATATATTATATTAATAG
Found at i:12542843 original size:20 final size:19
Alignment explanation
Indices: 12542796--12542845 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
12542786 TTATTTACTA
12542796 ATATATATTATATTAATAGT
1 ATAT-TATTATATTAATAGT
12542816 ATATTATT-TATTAATAGATT
1 ATATTATTATATTAATAG--T
12542836 ATATTATTAT
1 ATATTATTAT
12542846 TTATTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 13 0.48
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (19 bp):
ATATTATTATATTAATAGT
Found at i:12542858 original size:16 final size:17
Alignment explanation
Indices: 12542834--12542884 Score: 68
Period size: 16 Copynumber: 2.9 Consensus size: 17
12542824 TATTAATAGA
12542834 TTATATTATTATTTATT
1 TTATATTATTATTTATT
12542851 TTAT-TTATTATTTATT
1 TTATATTATTATTTATT
*
12542867 TAATATAATATTATTTAT
1 T--TATATTATTATTTAT
12542885 AAGTAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 13 0.43
17 4 0.13
18 3 0.10
19 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATTATTATTTATT
Found at i:12545270 original size:15 final size:16
Alignment explanation
Indices: 12545244--12545273 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12545234 TCTTGTAAAT
12545244 TCTCTCAAATTCTTCA
1 TCTCTCAAATTCTTCA
12545260 TCTCT-AAATTCTTC
1 TCTCTCAAATTCTTC
12545274 TTTAGTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (16 bp):
TCTCTCAAATTCTTCA
Found at i:12548141 original size:323 final size:320
Alignment explanation
Indices: 12547466--12548518 Score: 1024
Period size: 323 Copynumber: 3.3 Consensus size: 320
12547456 CCATTTAGAT
** * * * * * *
12547466 AAATTTAATATCATGCATTTAAGCTATCTAAACTTTTAAAACAAAAATAAAACAATAAATTTATA
1 AAATTTAATATCATATAATTGAGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTTACA
* * * * * *
12547531 TTTTTTCCCTGTGATAACATAAAAAGTCATAAAAACATATAAACTATAACATTTTCACACATATC
66 TTTTTACCCTTTGATGACACAAAAAGTCATAAAAACACATAAACCATAACATTTTCACACATATC
** * * * * *
12547596 AAGGGTGACAACCAAGTTCAACCATTTCA-ATGAGTTTAACATCATGTATTCGAGTTATCTAAAT
131 AAGCATGGCAACCAAGTTCAACCATTTTACA--AGTTTAATATCATGTATTCGAGCTATCTAAAC
* * *
12547660 TCTTAAAACATAAATATAACAACAAATTTACAATTTTCCCTTTAACGGCATAAAATGTCCTAAAA
194 TATTAAAACAAAAATATAACAACAAATTTACAATTTTCCCTTTAACGGCATAAAAAGTCCTAAAA
* * * * * * *
12547725 ACATATAAATCGTAACATTTTTACACATATCAAGTGTAGCAACCGAGTTCAACCATTCGAAC
259 ACATATAAATCATAACATTTTCACACAAAACAAGTGTAGCAACCAACTTCAACAATTCGAAC
* *
12547787 AAATTTAATATCATGTAATTGAGCTATCTAAACTATTAAAACATAAATATAACAAAAAATTTACA
1 AAATTTAATATCATATAATTGAGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTTACA
* * * * * *
12547852 TTTTTACCCTTTGATGGCACAATAAGTCTTGAAAACACATAGACCATAACATCTTCACACATATC
66 TTTTTACCCTTTGATGACACAAAAAGTCATAAAAACACATAAACCATAACATTTTCACACATATC
* * * *
12547917 AAGCATGGCAGCCAAGTTCAACCATTTTGGACAAGTTTAATATCAAGTGTTGGAGCTATCTAAAC
131 AAGCATGGCAACCAAGTTCAACCATTTT--ACAAGTTTAATATCATGTATTCGAGCTATCTAAAC
* * * * *
12547982 TATTAAAACAAAAATATAATAGCAAATTTGC-ATTGTTGCCTTTTAATGGCATAAAAAGTCCTAA
194 TATTAAAACAAAAATATAACAACAAATTTACAATT-TT-CCCTTTAACGGCATAAAAAGTCCTAA
* * * * *
12548046 AAACATATAAA-CTATAACATTTTCACACAAAACAAGTGTGGCAGCTAACTTCAACAATTTGGAC
257 AAACATATAAATC-ATAACATTTTCACACAAAACAAGTGTAGCAACCAACTTCAACAATTCGAAC
* * * * ** *
12548110 AAGTTTAATATTATAT-ATTAGAGCTATCTAAACTATTAAATCAAAAATATAATAGCAATTTTAC
1 AAATTTAATATCATATAATT-GAGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTTAC
* * * *
12548174 ATTTTTGCCCTTTAATGACACAAAAAGTCATAAAAACACATAAATCATAACATTTTCACATATAT
65 ATTTTTACCCTTTGATGACACAAAAAGTCATAAAAACACATAAACCATAACATTTTCACACATAT
* *
12548239 CAAGCATGGCAACCAACTTCAACCATTCTTACAAGTTTAATATCATGTATTCAAGCTATCTAAAC
130 CAAGCATGGCAACCAAGTTCAACCATT-TTACAAGTTTAATATCATGTATTCGAGCTATCTAAAC
* * * * * * * ** *
12548304 TATTAAAATAAAAATATAACATA-AAATTCATATTTTTACCCTCTAATGGAACCAAAAGTCTTAA
194 TATTAAAACAAAAATATAACA-ACAAATTTACAATTTT-CCCTTTAACGGCATAAAAAGTCCTAA
* * * * * ** * * * *
12548368 AAACACATAAACCGTAACA-TTT-ACACATATCAAGCATGGTAACCAAGTTCAACCATTCGAAC
257 AAACATATAAATCATAACATTTTCACACAAAACAAGTGTAGCAACCAACTTCAACAATTCGAAC
* * * * * * * * * ** *
12548430 AAGTTTAATATCATAT-ATTCAAGTTGTATAAACTTTTAAAATAAAAATATAGCTATGAATTTAT
1 AAATTTAATATCATATAATT-GAGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTTAC
* * *
12548494 ATTTTTAACCTTTTATGCCACAAAA
65 ATTTTTACCCTTTGATGACACAAAA
12548519 GTTCTTAAAT
Statistics
Matches: 597, Mismatches: 124, Indels: 23
0.80 0.17 0.03
Matches are distributed among these distances:
320 97 0.16
321 139 0.23
322 150 0.25
323 208 0.35
324 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.31
Consensus pattern (320 bp):
AAATTTAATATCATATAATTGAGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTTACA
TTTTTACCCTTTGATGACACAAAAAGTCATAAAAACACATAAACCATAACATTTTCACACATATC
AAGCATGGCAACCAAGTTCAACCATTTTACAAGTTTAATATCATGTATTCGAGCTATCTAAACTA
TTAAAACAAAAATATAACAACAAATTTACAATTTTCCCTTTAACGGCATAAAAAGTCCTAAAAAC
ATATAAATCATAACATTTTCACACAAAACAAGTGTAGCAACCAACTTCAACAATTCGAAC
Found at i:12548157 original size:161 final size:161
Alignment explanation
Indices: 12547419--12548480 Score: 1007
Period size: 161 Copynumber: 6.6 Consensus size: 161
12547409 CTTTCAATAG
* * ** * *
12547419 CATTTTTACACATAACAAATGTGGCAACCAAGTTTAACCATTTAGATA-AA-TTTAATATCATGC
1 CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCATTT-GA-ACAAGTTTAATATCATGT
* * * * * * *
12547482 ATTTA-AGCTATCTAAACTTTTAAAACAAAAATAAAACAATAAATTTATATTTTTTCCCTGTGAT
64 A-TTAGAGCTATCTAAACTATTAAAACAAAAATATAACAACAAATTTACATTTTTGCCCTTTAAT
**
12547546 AACATAAAAAGTCATAAAAACATATAAACTATAA
128 GGCATAAAAAGTCATAAAAACATATAAACTATAA
* * * ** *
12547580 CATTTTCACACATATCAAGGGTGACAACCAAGTTCAACCATTTCAATGAGTTTAACATCATGTAT
1 CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCATTTGAACAAGTTTAATATCATGTAT
* * * * * * *
12547645 TCGAGTTATCTAAATTCTTAAAACATAAATATAACAACAAATTTACAATTTT-CCCTTTAACGGC
66 TAGAGCTATCTAAACTATTAAAACAAAAATATAACAACAAATTTACATTTTTGCCCTTTAATGGC
* * *
12547709 ATAAAATGTCCTAAAAACATATAAA-TCGTAA
131 ATAAAAAGTCATAAAAACATATAAACT-ATAA
* * * * * *
12547740 CATTTTTACACATATCAAGTGTAGCAACCGAGTTCAACCATTCGAACAAATTTAATATCATGTAA
1 CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCATTTGAACAAGTTTAATATCATGT-A
* * * *
12547805 TT-GAGCTATCTAAACTATTAAAACATAAATATAACAAAAAATTTACATTTTTACCCTTTGATGG
65 TTAGAGCTATCTAAACTATTAAAACAAAAATATAACAACAAATTTACATTTTTGCCCTTTAATGG
* * * * * * *
12547869 CACAATAAGTCTTGAAAACACATAGACCATAA
130 CATAAAAAGTCATAAAAACATATAAACTATAA
* * * * * *
12547901 CATCTTCACACATATCAAGCATGGCAGCCAAGTTCAACCATTTTGGACAAGTTTAATATCAAGTG
1 CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCA-TTTGAACAAGTTTAATATCATGTA
* * * * * *
12547966 TTGGAGCTATCTAAACTATTAAAACAAAAATATAATAGCAAATTTGCATTGTTGCCTTTTAATGG
65 TTAGAGCTATCTAAACTATTAAAACAAAAATATAACAACAAATTTACATTTTTGCCCTTTAATGG
*
12548031 CATAAAAAGTCCTAAAAACATATAAACTATAA
130 CATAAAAAGTCATAAAAACATATAAACTATAA
* * * * * * * * * *
12548063 CATTTTCACACAAAACAAGTGTGGCAGCTAACTTCAACAATTTGGACAAGTTTAATATTATATAT
1 CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCATTTGAACAAGTTTAATATCATGTAT
* * * * *
12548128 TAGAGCTATCTAAACTATTAAATCAAAAATATAATAGCAATTTTACATTTTTGCCCTTTAATGAC
66 TAGAGCTATCTAAACTATTAAAACAAAAATATAACAACAAATTTACATTTTTGCCCTTTAATGGC
* *
12548193 ACAAAAAGTCATAAAAACACATAAA-TCATAA
131 ATAAAAAGTCATAAAAACATATAAACT-ATAA
* * * *
12548224 CATTTTCACATATATCAAGCATGGCAACCAACTTCAACCATTCT-TACAAGTTTAATATCATGTA
1 CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCATT-TGAACAAGTTTAATATCATGTA
* * * * *
12548288 TTCA-AGCTATCTAAACTATTAAAATAAAAATATAACATA-AAATTCATATTTTTACCCTCTAAT
65 TT-AGAGCTATCTAAACTATTAAAACAAAAATATAACA-ACAAATTTACATTTTTGCCCTTTAAT
* ** * * **
12548351 GGAACCAAAAGTCTTAAAAACACATAAACCGTAA
128 GGCATAAAAAGTCATAAAAACATATAAACTATAA
* * * *
12548385 CA-TTT-ACACATATCAAGCATGGTAACCAAGTTCAACCATTCGAACAAGTTTAATATCATATAT
1 CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCATTTGAACAAGTTTAATATCATGTAT
* * * * *
12548448 TCA-AGTTGTATAAACTTTTAAAATAAAAATATA
66 T-AGAGCTATCTAAACTATTAAAACAAAAATATA
12548481 GCTATGAATT
Statistics
Matches: 746, Mismatches: 140, Indels: 32
0.81 0.15 0.03
Matches are distributed among these distances:
159 82 0.11
160 138 0.18
161 395 0.53
162 131 0.18
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (161 bp):
CATTTTCACACATATCAAGCGTGGCAACCAAGTTCAACCATTTGAACAAGTTTAATATCATGTAT
TAGAGCTATCTAAACTATTAAAACAAAAATATAACAACAAATTTACATTTTTGCCCTTTAATGGC
ATAAAAAGTCATAAAAACATATAAACTATAA
Found at i:12548376 original size:484 final size:480
Alignment explanation
Indices: 12547548--12548442 Score: 1191
Period size: 484 Copynumber: 1.9 Consensus size: 480
12547538 CCTGTGATAA
* * *
12547548 CATAAAAAGTCATAAAAACATATAAACTATAACATTTTCACACATATCAAGGGTGACAACCAAGT
1 CATAAAAAGTCATAAAAACATATAAACTATAACATTTTCACACAAAACAAGGGTGACAACCAACT
* ** * * * * * *
12547613 TCAACCATTTCAATGAGTTTAACATCATGTATTCGAGTTATCTAAATTCTTAAAACATAAATATA
66 TCAACAATTTCAACAAGTTTAACATCATATATTAGAGCTATCTAAACTATTAAAACAAAAATATA
* * * * * *
12547678 ACAACAAATTTACAATTTTCCCTTTAACGGCATAAAATGTCCTAAAAACATATAAATCGTAACAT
131 ACAACAAATTTACAATTTTCCCTTTAACGACACAAAAAGTCATAAAAACACATAAATCATAACAT
* ** * * *
12547743 TTTTACACATATCAAGTGTAGCAACCGAGTTCAACCATTCGAACAAATTTAATATCATGTAATTG
196 TTTCACACATATCAAGCATAGCAACCAACTTCAACCATTCGAACAAATTTAATATCATGTAATTA
* * * * *
12547808 AGCTATCTAAACTATTAAAACATAAATATAACAAAAAATTTACATTTTTACCCTTTGATGGCACA
261 AGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTCACATTTTTACCCTCTAATGGAACA
* * *
12547873 ATAAGTCTTGAAAACACATAGACCATAACATCTTCACACATATCAAGCATGGCAGCCAAGTTCAA
326 ATAAGTCTTAAAAACACATAAACCATAACAT-TT-ACACATATCAAGCATGGCAACCAAGTTCAA
* *
12547938 CCATTTTGGACAAGTTTAATATCAAGTGTTGGAGCTATCTAAACTATTAAAACAAAAATATAATA
389 CCA-TTCGAACAAGTTTAATATCAAGTGTTGGAGCTATCTAAACTATTAAAACAAAAATATAATA
12548003 GCAAATTTGCATTGTTGCCTTTTAATGG
453 GCAAATTTGCATTGTTGCCTTTTAATGG
* * * * *
12548031 CATAAAAAGTCCTAAAAACATATAAACTATAACATTTTCACACAAAACAAGTGTGGCAGCTAACT
1 CATAAAAAGTCATAAAAACATATAAACTATAACATTTTCACACAAAACAAGGGTGACAACCAACT
** * * *
12548096 TCAACAATTTGGACAAGTTTAATATTATATATTAGAGCTATCTAAACTATTAAATCAAAAATATA
66 TCAACAATTTCAACAAGTTTAACATCATATATTAGAGCTATCTAAACTATTAAAACAAAAATATA
* * * * *
12548161 ATAGCAATTTTACATTTTTGCCCTTTAATGACACAAAAAGTCATAAAAACACATAAATCATAACA
131 ACAACAAATTTACAATTTT-CCCTTTAACGACACAAAAAGTCATAAAAACACATAAATCATAACA
* * ** *
12548226 TTTTCACATATATCAAGCATGGCAACCAACTTCAACCATTCTTACAAGTTTAATATCATGT-ATT
195 TTTTCACACATATCAAGCATAGCAACCAACTTCAACCATTCGAACAAATTTAATATCATGTAATT
* * *
12548290 CAAGCTATCTAAACTATTAAAATAAAAATATAACATAAAATTCATATTTTTACCCTCTAATGGAA
260 -AAGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTCACATTTTTACCCTCTAATGGAA
* *
12548355 CCAA-AAGTCTTAAAAACACATAAACCGTAACATTTACACATATCAAGCATGGTAACCAAGTTCA
324 -CAATAAGTCTTAAAAACACATAAACCATAACATTTACACATATCAAGCATGGCAACCAAGTTCA
12548419 ACCATTCGAACAAGTTTAATATCA
388 ACCATTCGAACAAGTTTAATATCA
12548443 TATATTCAAG
Statistics
Matches: 350, Mismatches: 59, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
481 18 0.05
482 31 0.09
483 128 0.37
484 170 0.49
485 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (480 bp):
CATAAAAAGTCATAAAAACATATAAACTATAACATTTTCACACAAAACAAGGGTGACAACCAACT
TCAACAATTTCAACAAGTTTAACATCATATATTAGAGCTATCTAAACTATTAAAACAAAAATATA
ACAACAAATTTACAATTTTCCCTTTAACGACACAAAAAGTCATAAAAACACATAAATCATAACAT
TTTCACACATATCAAGCATAGCAACCAACTTCAACCATTCGAACAAATTTAATATCATGTAATTA
AGCTATCTAAACTATTAAAACAAAAATATAACAAAAAATTCACATTTTTACCCTCTAATGGAACA
ATAAGTCTTAAAAACACATAAACCATAACATTTACACATATCAAGCATGGCAACCAAGTTCAACC
ATTCGAACAAGTTTAATATCAAGTGTTGGAGCTATCTAAACTATTAAAACAAAAATATAATAGCA
AATTTGCATTGTTGCCTTTTAATGG
Found at i:12556533 original size:17 final size:16
Alignment explanation
Indices: 12556508--12556542 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
12556498 TCCTTATCTA
12556508 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
12556524 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
12556541 TT
1 TT
12556543 CATCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:12566490 original size:6 final size:6
Alignment explanation
Indices: 12566479--12566556 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
12566469 AAAAAGTCTA
* * * *
12566479 ATTTAT A-TT-T ATTTAT TTTTAT CTTTAT ATTTAT GTTTAT TTATTATT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT-TTA-T
* *
12566527 ATTTTAT ATTT-T ATTTGT ATTTAT CTTTAT
1 A-TTTAT ATTTAT ATTTAT ATTTAT ATTTAT
12566557 TTTTTTATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
4 2 0.03
5 9 0.16
6 37 0.64
7 5 0.09
8 4 0.07
9 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (6 bp):
ATTTAT
Found at i:12566508 original size:22 final size:22
Alignment explanation
Indices: 12566480--12566565 Score: 77
Period size: 22 Copynumber: 3.7 Consensus size: 22
12566470 AAAAGTCTAA
12566480 TTTATATTTATTTATTTTTATC
1 TTTATATTTATTTATTTTTATC
*
12566502 TTTATATTTATGTTTATTTATTATTAT
1 TTTATATTTA--TTTATTT-TTA-T-C
* *
12566529 TTTATATTTTATTTGTATTTATC
1 TTTATA-TTTATTTATTTTTATC
12566552 TTTAT-TTT-TTTATT
1 TTTATATTTATTTATT
12566566 ATTGTTTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
20 4 0.08
21 3 0.06
22 10 0.19
23 5 0.10
24 8 0.15
25 6 0.12
26 6 0.12
27 6 0.12
28 4 0.08
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTATATTTATTTATTTTTATC
Found at i:12566519 original size:28 final size:27
Alignment explanation
Indices: 12566479--12566559 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 27
12566469 AAAAAGTCTA
*
12566479 ATTTATATTTATTTATTTTTATCTTTAT
1 ATTTATGTTTATTTATTTTTAT-TTTAT
*
12566507 ATTTATGTTTATTTATTATTATTTTAT
1 ATTTATGTTTATTTATTTTTATTTTAT
*
12566534 ATTTTAT-TTGTATTTATCTTTATTTT
1 A-TTTATGTT-TATTTATTTTTATTTT
12566560 TTTATTATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.17
28 39 0.83
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (27 bp):
ATTTATGTTTATTTATTTTTATTTTAT
Found at i:12568080 original size:20 final size:20
Alignment explanation
Indices: 12568055--12568093 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12568045 TTTATTTCCC
12568055 TAAAAATAA-AATAATAATAG
1 TAAAAATAATAA-AATAATAG
12568075 TAAAAATAATAAAATAATA
1 TAAAAATAATAAAATAATA
12568094 AAATGATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
TAAAAATAATAAAATAATAG
Found at i:12568128 original size:23 final size:23
Alignment explanation
Indices: 12568085--12568134 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
12568075 TAAAAATAAT
*
12568085 AAAATAATAAAATGATGTAAGGA
1 AAAATAATAAAATGATGTAAGAA
* *
12568108 AAAATAAATAAGATTAT-TAAGAA
1 AAAAT-AATAAAATGATGTAAGAA
12568131 AAAA
1 AAAA
12568135 AACTTTTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (23 bp):
AAAATAATAAAATGATGTAAGAA
Found at i:12569928 original size:12 final size:11
Alignment explanation
Indices: 12569913--12569966 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 11
12569903 AAATCTATTT
12569913 AAATATCTTAAA
1 AAATAT-TTAAA
12569925 AAATATATTAAA
1 AAATAT-TTAAA
12569937 ATAATATTTAAA
1 A-AATATTTAAA
12569949 AAATTAAATTTAAA
1 AAA-T--ATTTAAA
12569963 AAAT
1 AAAT
12569967 CGATAAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
11 2 0.05
12 19 0.51
13 6 0.16
14 10 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATTTAAA
Found at i:12569951 original size:14 final size:14
Alignment explanation
Indices: 12569914--12569966 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
12569904 AATCTATTTA
12569914 AATATCTTAAAAAAT
1 AATAT-TTAAAAAAT
12569929 -ATA-TT--AAAAT
1 AATATTTAAAAAAT
12569939 AATATTTAAAAAATT
1 AATATTTAAAAAA-T
12569954 AA-ATTTAAAAAAT
1 AATATTTAAAAAAT
12569967 CGATAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
10 5 0.15
11 3 0.09
12 4 0.12
13 1 0.03
14 17 0.52
15 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATTTAAAAAAT
Found at i:12570493 original size:9 final size:9
Alignment explanation
Indices: 12570479--12570504 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
12570469 AAATAGAGAC
12570479 TATATTATT
1 TATATTATT
12570488 TATATTATT
1 TATATTATT
12570497 TATATTAT
1 TATATTAT
12570505 AATTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATATTATT
Found at i:12576132 original size:13 final size:12
Alignment explanation
Indices: 12576111--12576135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12576101 AAGAACTATG
12576111 AAAAATTTTTTT
1 AAAAATTTTTTT
12576123 AAAAATTTTTTT
1 AAAAATTTTTTT
12576135 A
1 A
12576136 TTTTTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAAAATTTTTTT
Found at i:12578207 original size:20 final size:20
Alignment explanation
Indices: 12578182--12578263 Score: 78
Period size: 20 Copynumber: 4.1 Consensus size: 20
12578172 GGTTAAGGTG
*
12578182 GGGTTTTGGTTTA-AATTTTA
1 GGGTTTAGGTTTAGAA-TTTA
*
12578202 GGGTTTAGGTTTAGGATTTA
1 GGGTTTAGGTTTAGAATTTA
* * *
12578222 GTGTTTTGGTTTAGGATTTA
1 GGGTTTAGGTTTAGAATTTA
*
12578242 GGGCTTAGGTTTA-AAGTTTA
1 GGGTTTAGGTTTAGAA-TTTA
12578262 GG
1 GG
12578264 TGTAGGGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.02
20 50 0.96
21 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.48
Consensus pattern (20 bp):
GGGTTTAGGTTTAGAATTTA
Found at i:12578208 original size:7 final size:7
Alignment explanation
Indices: 12578198--12578303 Score: 69
Period size: 7 Copynumber: 15.9 Consensus size: 7
12578188 TGGTTTAAAT
12578198 TTTAGGG
1 TTTAGGG
12578205 TTTA-GG
1 TTTAGGG
*
12578211 TTTAGGA
1 TTTAGGG
*
12578218 TTTAGTG
1 TTTAGGG
*
12578225 TTT-TGG
1 TTTAGGG
*
12578231 TTTAGGA
1 TTTAGGG
12578238 TTTAGGG
1 TTTAGGG
*
12578245 CTTA-GG
1 TTTAGGG
**
12578251 TTTAAAG
1 TTTAGGG
12578258 TTTA-GG
1 TTTAGGG
*
12578264 TGTAGGG
1 TTTAGGG
12578271 TTT-GGG
1 TTTAGGG
**
12578277 TTTAGAA
1 TTTAGGG
* *
12578284 TTTAAGA
1 TTTAGGG
12578291 TTTAGGG
1 TTTAGGG
12578298 TTTAGG
1 TTTAGG
12578304 ATTTGAAGTT
Statistics
Matches: 74, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
6 25 0.34
7 49 0.66
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:12578216 original size:13 final size:13
Alignment explanation
Indices: 12578198--12578303 Score: 88
Period size: 13 Copynumber: 8.0 Consensus size: 13
12578188 TGGTTTAAAT
12578198 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
*
12578211 TTTAGGATTTAGTG
1 TTTAGGGTTTAG-G
*
12578225 TTT-TGGTTTAGG
1 TTTAGGGTTTAGG
*
12578237 ATTTAGGGCTTAGG
1 -TTTAGGGTTTAGG
**
12578251 TTTAAAGTTTAGG
1 TTTAGGGTTTAGG
* *
12578264 TGTAGGGTTTGGG
1 TTTAGGGTTTAGG
** *
12578277 TTTAGAATTTAAGA
1 TTTAGGGTTT-AGG
12578291 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
12578304 ATTTGAAGTT
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
12 1 0.01
13 48 0.70
14 20 0.29
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:12578260 original size:27 final size:27
Alignment explanation
Indices: 12578204--12578327 Score: 105
Period size: 27 Copynumber: 4.7 Consensus size: 27
12578194 AAATTTTAGG
* **
12578204 GTTTAGG-TTTAGGATTTAGTGTTT-TG
1 GTTTAGGATTTAGGGTTTAG-GTTTAAA
*
12578230 GTTTAGGATTTAGGGCTTAGGTTTAAA
1 GTTTAGGATTTAGGGTTTAGGTTTAAA
* *
12578257 GTTTAGG-TGTAGGGTTTGGGTTTAGAA
1 GTTTAGGATTTAGGGTTTAGGTTTA-AA
* *
12578284 -TTTAAGATTTAGGGTTTAGGATTTGAA
1 GTTTAGGATTTAGGGTTTAGG-TTTAAA
*
12578311 GTTT-GGATTTGGGGTTT
1 GTTTAGGATTTAGGGTTT
12578328 TTGTATGAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 11
0.77 0.13 0.11
Matches are distributed among these distances:
26 30 0.38
27 43 0.54
28 6 0.08
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (27 bp):
GTTTAGGATTTAGGGTTTAGGTTTAAA
Found at i:12578262 original size:53 final size:54
Alignment explanation
Indices: 12578204--12578314 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 54
12578194 AAATTTTAGG
* * * * *
12578204 GTTTAGGTTTAGGATTTAGTGTTTTG-GTTTAGGATTTAGGGCTTAGG-TTTAAA
1 GTTTAGGTGTAGGATTT-GGGTTTAGAATTTAAGATTTAGGGCTTAGGATTTAAA
* * *
12578257 GTTTAGGTGTAGGGTTTGGGTTTAGAATTTAAGATTTAGGGTTTAGGATTTGAA
1 GTTTAGGTGTAGGATTTGGGTTTAGAATTTAAGATTTAGGGCTTAGGATTTAAA
12578311 GTTT
1 GTTT
12578315 GGATTTGGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
52 6 0.12
53 33 0.69
54 9 0.19
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.46
Consensus pattern (54 bp):
GTTTAGGTGTAGGATTTGGGTTTAGAATTTAAGATTTAGGGCTTAGGATTTAAA
Found at i:12580524 original size:12 final size:12
Alignment explanation
Indices: 12580493--12580541 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
12580483 TTAAGGTTTC
12580493 GGGTTTCATTTA
1 GGGTTTCATTTA
*
12580505 GAGTTTTCATTTA
1 G-GGTTTCATTTA
*
12580518 GGGTTTCATTTG
1 GGGTTTCATTTA
12580530 GGGTTTCGATTT
1 GGGTTTC-ATTT
12580542 GAAGGTTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 17 0.53
13 15 0.47
ACGTcount: A:0.14, C:0.08, G:0.27, T:0.51
Consensus pattern (12 bp):
GGGTTTCATTTA
Found at i:12580541 original size:25 final size:26
Alignment explanation
Indices: 12580493--12580550 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
12580483 TTAAGGTTTC
*
12580493 GGGTTTCATTTAGAGTTTTCATTT-A
1 GGGTTTCATTTAGAGGTTTCATTTGA
*
12580518 GGGTTTCATTT-GGGGTTTCGATTTGA
1 GGGTTTCATTTAGAGGTTTC-ATTTGA
*
12580544 AGGTTTC
1 GGGTTTC
12580551 CTCTCACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 15 0.54
26 7 0.25
ACGTcount: A:0.16, C:0.09, G:0.28, T:0.48
Consensus pattern (26 bp):
GGGTTTCATTTAGAGGTTTCATTTGA
Found at i:12580550 original size:14 final size:12
Alignment explanation
Indices: 12580494--12580550 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
12580484 TAAGGTTTCG
12580494 GGTTTCATTTAGA
1 GGTTTCATTT-GA
*
12580507 GTTTTCATTT-A
1 GGTTTCATTTGA
*
12580518 GGGTTTCATTTGG
1 -GGTTTCATTTGA
12580531 GGTTTCGATTTGAA
1 GGTTTC-ATTTG-A
12580545 GGTTTC
1 GGTTTC
12580551 CTCTCACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 1 0.03
12 15 0.42
13 14 0.39
14 6 0.17
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.49
Consensus pattern (12 bp):
GGTTTCATTTGA
Found at i:12582870 original size:12 final size:11
Alignment explanation
Indices: 12582853--12582926 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 11
12582843 TTTTTTTTGG
12582853 TTTCTTCCTTTT
1 TTTCTT-CTTTT
*
12582865 TTTCTTTCGTTCT
1 TTTC-TTC-TTTT
12582878 TTT-TTCTTTT
1 TTTCTTCTTTT
12582888 TTT-TTC-TTT
1 TTTCTTCTTTT
*
12582897 TTTCTTTCATTT
1 TTTC-TTCTTTT
12582909 TTTCTATC-TTT
1 TTTCT-TCTTTT
12582920 TTTCTTC
1 TTTCTTC
12582927 ACTTTTCTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
9 6 0.11
10 11 0.20
11 15 0.28
12 14 0.26
13 8 0.15
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTCTTCTTTT
Found at i:12582923 original size:19 final size:19
Alignment explanation
Indices: 12582874--12582923 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
12582864 TTTTCTTTCG
*
12582874 TTCTTTTTTCTTT--TTTT
1 TTCTTCTTTCTTTCATTTT
*
12582891 TTCTTTTTTCTTTCATTTT
1 TTCTTCTTTCTTTCATTTT
12582910 TTCTATCTTT-TTTC
1 TTCT-TCTTTCTTTC
12582924 TTCACTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.45
19 12 0.41
20 4 0.14
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTTCTTTCTTTCATTTT
Found at i:12582944 original size:33 final size:33
Alignment explanation
Indices: 12582864--12582936 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
12582854 TTCTTCCTTT
* * **
12582864 TTTTCTTTCGTTCTTTT-T-TCTTTTTTTTTCTT
1 TTTTCTTTCATT-TTTTCTATCTTTTTTCTTCAC
12582896 TTTTCTTTCATTTTTTCTATCTTTTTTCTTCAC
1 TTTTCTTTCATTTTTTCTATCTTTTTTCTTCAC
12582929 TTTTCTTT
1 TTTTCTTT
12582937 TTTTTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.11
32 12 0.34
33 19 0.54
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (33 bp):
TTTTCTTTCATTTTTTCTATCTTTTTTCTTCAC
Found at i:12583420 original size:7 final size:7
Alignment explanation
Indices: 12583404--12583464 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
12583394 CATAACCATT
12583404 TTTTTGTC
1 TTTTT-TC
12583412 TTTTTTC
1 TTTTTTC
12583419 TTTTTTTC
1 -TTTTTTC
*
12583427 CTTTTTC
1 TTTTTTC
*
12583434 CTTTTTC
1 TTTTTTC
12583441 --TTTTC
1 TTTTTTC
*
12583446 TTTTTTT
1 TTTTTTC
*
12583453 TTTTTTG
1 TTTTTTC
12583460 TTTTT
1 TTTTT
12583465 GACATGCCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
5 5 0.11
7 30 0.64
8 12 0.26
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:12583453 original size:22 final size:21
Alignment explanation
Indices: 12583402--12583454 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
12583392 GTCATAACCA
* *
12583402 TTTTTTTGTCTTTTTTCTTTT
1 TTTTTTTTTCCTTTTTCTTTT
*
12583423 TTTCCTTTTTCCTTTTTCTTTT
1 TTT-TTTTTTCCTTTTTCTTTT
12583445 CTTTTTTTTT
1 -TTTTTTTTT
12583455 TTTTGTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTCCTTTTTCTTTT
Found at i:12586498 original size:468 final size:468
Alignment explanation
Indices: 12585622--12586562 Score: 1756
Period size: 468 Copynumber: 2.0 Consensus size: 468
12585612 TTAACCTCAC
* *
12585622 TTTCAAAAATTTTTCAATGAAGTCGTTAAGCTGTCATAAAGTATTGGTATGAAAATTTGATCGCT
1 TTTCAAAAAGTCTTCAATGAAGTCGTTAAGCTGTCATAAAGTATTGGTATGAAAATTTGATCGCT
12585687 AGATGTAATCATTATAAATCGTGAAATTATGGGGTGTCACCACTAATCTTTTTTAAGGTGTGATT
66 AGATGTAATCATTATAAATCGTGAAATTATGGGGTGTCACCACTAATCTTTTTTAAGGTGTGATT
* *
12585752 AGCCTCTTAAAAATTTTATTTTTTTAAAAAATAATAAAATAAATTTAAAGTTTATTAAAAAGATA
131 AGCCTCTTAAAAATTTTATTTTTTAAAAAAATAATAAAATAAATTTAAAATTTATTAAAAAGATA
*
12585817 ATTTTAGTCTATGAAACAGAATTGGGTTTAGGGTTGATTACGTGTAGGAAAATTTAACACTCCCA
196 ATTTTAGTCTACGAAACAGAATTGGGTTTAGGGTTGATTACGTGTAGGAAAATTTAACACTCCCA
12585882 CAATGCTCATAAAATAAGTACCAATTAATCATGTGTAATTTATAATTTTGGATAAAATTAGTTTT
261 CAATGCTCATAAAATAAGTACCAATTAATCATGTGTAATTTATAATTTTGGATAAAATTAGTTTT
12585947 TATATAAAATTTAATTATAATTCCTTTCATTCTTAAGGAATAAAATCAATTAAAATTCTTATTTA
326 TATATAAAATTTAATTATAATTCCTTTCATTCTTAAGGAATAAAATCAATTAAAATTCTTATTTA
*
12586012 GAAATGTTGTAAAAATCTCTAAGTTAAAGAAATACTTTAAAATTTTTCAACATAACGGCAGAATT
391 GAAATGTTGTAAAAATCTCTAAGTTAAAGAAATACCTTAAAATTTTTCAACATAACGGCAGAATT
12586077 CAAAAATAATAAT
456 CAAAAATAATAAT
*
12586090 TTTCAAAAAGTCTTCAATGGAGTCGTTAAGCTGTCATAAAGTATTGGTATGAAAATTTGATCGCT
1 TTTCAAAAAGTCTTCAATGAAGTCGTTAAGCTGTCATAAAGTATTGGTATGAAAATTTGATCGCT
12586155 AGATGTAATCATTATAAATCGTGAAATTATGGGGTGTCACCACTAATCTTTTTTAAGGTGTGATT
66 AGATGTAATCATTATAAATCGTGAAATTATGGGGTGTCACCACTAATCTTTTTTAAGGTGTGATT
*
12586220 AGCCTCTTAAACATTTTATTTTTTAAAAAAATAATAAAATAAATTTAAAATTTATTAAAAAGATA
131 AGCCTCTTAAAAATTTTATTTTTTAAAAAAATAATAAAATAAATTTAAAATTTATTAAAAAGATA
* *
12586285 ATTTTAGTCTACGAAACAGAATTGGGTTTAGGGTTGATTACGTGTAGGAAAATTTAGCACTCTCA
196 ATTTTAGTCTACGAAACAGAATTGGGTTTAGGGTTGATTACGTGTAGGAAAATTTAACACTCCCA
*
12586350 CAATGCTCATAAAATTAGTACCAATTAATCATGTGTAATTTATAATTTTGGATAAAATTAGTTTT
261 CAATGCTCATAAAATAAGTACCAATTAATCATGTGTAATTTATAATTTTGGATAAAATTAGTTTT
12586415 TATATAAAATTTAATTATAATTCCTTTCATTCTTAAGGAATAAAATCAATTAAAATTCTTATTTA
326 TATATAAAATTTAATTATAATTCCTTTCATTCTTAAGGAATAAAATCAATTAAAATTCTTATTTA
*
12586480 GAAATGTTGTAAAAATCTCTAAGTTAAAGAAATACCTTAAAATTTTTCAACATAACGGTAGAATT
391 GAAATGTTGTAAAAATCTCTAAGTTAAAGAAATACCTTAAAATTTTTCAACATAACGGCAGAATT
* *
12586545 CGAAAATAATCAT
456 CAAAAATAATAAT
12586558 TTTCA
1 TTTCA
12586563 TATAAAATTT
Statistics
Matches: 459, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
468 459 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (468 bp):
TTTCAAAAAGTCTTCAATGAAGTCGTTAAGCTGTCATAAAGTATTGGTATGAAAATTTGATCGCT
AGATGTAATCATTATAAATCGTGAAATTATGGGGTGTCACCACTAATCTTTTTTAAGGTGTGATT
AGCCTCTTAAAAATTTTATTTTTTAAAAAAATAATAAAATAAATTTAAAATTTATTAAAAAGATA
ATTTTAGTCTACGAAACAGAATTGGGTTTAGGGTTGATTACGTGTAGGAAAATTTAACACTCCCA
CAATGCTCATAAAATAAGTACCAATTAATCATGTGTAATTTATAATTTTGGATAAAATTAGTTTT
TATATAAAATTTAATTATAATTCCTTTCATTCTTAAGGAATAAAATCAATTAAAATTCTTATTTA
GAAATGTTGTAAAAATCTCTAAGTTAAAGAAATACCTTAAAATTTTTCAACATAACGGCAGAATT
CAAAAATAATAAT
Found at i:12587308 original size:22 final size:21
Alignment explanation
Indices: 12587283--12587324 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
12587273 ATATATTTTT
12587283 ATTATAATAAAATAATTATAAA
1 ATTATAATAAAAT-ATTATAAA
12587305 ATTATAATAAAATATTATAA
1 ATTATAATAAAATATTATAA
12587325 GTGAAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTATAATAAAATATTATAAA
Found at i:12587609 original size:13 final size:13
Alignment explanation
Indices: 12587581--12587616 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
12587571 TGGAAAGTTG
12587581 TTTCAATTTATAAA
1 TTTCAATTT-TAAA
12587595 TTTCAATTTTAAA
1 TTTCAATTTTAAA
12587608 TTT-AATTTT
1 TTTCAATTTT
12587617 TATAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 7 0.32
14 9 0.41
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTCAATTTTAAA
Found at i:12587617 original size:13 final size:13
Alignment explanation
Indices: 12587585--12587627 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
12587575 AAGTTGTTTC
*
12587585 AATTTATAAATTT
1 AATTTTTAAATTT
12587598 CAA-TTTTAAATTT
1 -AATTTTTAAATTT
12587611 AATTTTTATAATTT
1 AATTTTTA-AATTT
12587625 AAT
1 AAT
12587628 AATTTTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 14 0.54
14 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTTAAATTT
Found at i:12587771 original size:11 final size:11
Alignment explanation
Indices: 12587708--12587772 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
12587698 ATATTAATAC
*
12587708 AATTAATTAAAT
1 AATTAA-TAATT
*
12587720 AATTAATTATT
1 AATTAATAATT
12587731 ATATT-ATAATT
1 A-ATTAATAATT
**
12587742 AATTTGTAATT
1 AATTAATAATT
12587753 -ATTGAATAATT
1 AATT-AATAATT
12587764 AATTAATAA
1 AATTAATAA
12587773 ATTTAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 6 0.14
11 25 0.58
12 12 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (11 bp):
AATTAATAATT
Found at i:12590643 original size:64 final size:63
Alignment explanation
Indices: 12590568--12590771 Score: 150
Period size: 64 Copynumber: 3.2 Consensus size: 63
12590558 AATATGGAAC
* *
12590568 GGATTCTTGAAGGCATTTTTGATCGAAAACGCTTTCAATAATCCAATCAATAAATTTTTAGGTG
1 GGATTATTGAAGGCATTTTTG-TCAAAAACGCTTTCAATAATCCAATCAATAAATTTTTAGGTG
* * * * * ** *
12590632 GGATTATTGAAGGTGACTTTTGTTAAAAACACCTTCAATAATCC-ATACAA-AAA-AGTTAGAAT
1 GGATTATTGAAGG-CATTTTTGTCAAAAACGCTTTCAATAATCCAAT-CAATAAATTTTTAG-GT
12590694 -
63 G
* * * * * *
12590694 AGATTCTTTAAAGGCATTTTTGGTCCAAAATGCATTT-AATAATCTACA-CAATAAATTTTTAGG
1 GGATT-ATTGAAGGCATTTTT-GTCAAAAACGC-TTTCAATAATCCA-ATCAATAAATTTTTAGG
12590757 TG
62 TG
12590759 GGATTATTGAAGG
1 GGATTATTGAAGG
12590772 TGATTTTGAT
Statistics
Matches: 102, Mismatches: 27, Indels: 22
0.68 0.18 0.15
Matches are distributed among these distances:
62 13 0.13
63 29 0.28
64 45 0.44
65 15 0.15
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (63 bp):
GGATTATTGAAGGCATTTTTGTCAAAAACGCTTTCAATAATCCAATCAATAAATTTTTAGGTG
Found at i:12590685 original size:127 final size:126
Alignment explanation
Indices: 12590538--12590799 Score: 327
Period size: 127 Copynumber: 2.1 Consensus size: 126
12590528 AAGAAAATAC
* * * * * *
12590538 CCTT-AATAATTCATAGAAAAAATATGGAACGGATTC-TTGAAGGCATTTTTGATCGAAAACGC-
1 CCTTCAATAATCCATAAAAAAAAT-TAGAACAGATTCTTTAAAGGCATTTTTGATCCAAAACGCA
*
12590600 TTTCAATAATCCA-ATCAATAAATTTTTAGGTGGGATTATTGAAGGTGACTTTTG-TTAAAAACA
65 TTT-AATAATCCACA-CAATAAATTTTTAGGTGGGATTATTGAAGGTGA-TTTTGATCAAAAACA
* * * *
12590663 CCTTCAATAATCCATACAAAAAAGTTAGAATAGATTCTTTAAAGGCATTTTTGGTCCAAAATGCA
1 CCTTCAATAATCCATA-AAAAAAATTAGAACAGATTCTTTAAAGGCATTTTTGATCCAAAACGCA
* *
12590728 TTTAATAATCTACACAATAAATTTTTAGGTGGGATTATTGAAGGTGATTTTGATCAAAAATA
65 TTTAATAATCCACACAATAAATTTTTAGGTGGGATTATTGAAGGTGATTTTGATCAAAAACA
12590790 CCTTCAATAA
1 CCTTCAATAA
12590800 CATTTTATTA
Statistics
Matches: 118, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
125 4 0.03
126 24 0.20
127 86 0.73
128 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (126 bp):
CCTTCAATAATCCATAAAAAAAATTAGAACAGATTCTTTAAAGGCATTTTTGATCCAAAACGCAT
TTAATAATCCACACAATAAATTTTTAGGTGGGATTATTGAAGGTGATTTTGATCAAAAACA
Found at i:12590799 original size:64 final size:63
Alignment explanation
Indices: 12590601--12590799 Score: 165
Period size: 64 Copynumber: 3.1 Consensus size: 63
12590591 CGAAAACGCT
* *
12590601 TTCAATAATCCAATCAATAAATTTTTAGGTGGGATTATTGAAGGTGACTTTTGTTAAAAACACC
1 TTCAATAATCCAA-CAATAAATTTTTAGGTGGGATTATTGAAGGTGACTTTTGTCAAAAATACC
** * * * * * * * *
12590665 TTCAATAATCCATACAA-AAA-AGTTAGAAT-AGATTCTTTAAAGG-CATTTTTGGTCCAAAATG
1 TTCAATAATCCA-ACAATAAATTTTTAG-GTGGGATT-ATTGAAGGTGACTTTT-GTCAAAAATA
*
12590726 CA
62 CC
* *
12590728 TTTAATAATCTACACAATAAATTTTTAGGTGGGATTATTGAAGGTGA-TTTTGATCAAAAATACC
1 TTCAATAATCCA-ACAATAAATTTTTAGGTGGGATTATTGAAGGTGACTTTTG-TCAAAAATACC
12590792 TTCAATAA
1 TTCAATAA
12590800 CATTTTATTA
Statistics
Matches: 99, Mismatches: 27, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
62 13 0.13
63 32 0.32
64 44 0.44
65 10 0.10
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (63 bp):
TTCAATAATCCAACAATAAATTTTTAGGTGGGATTATTGAAGGTGACTTTTGTCAAAAATACC
Found at i:12594121 original size:27 final size:27
Alignment explanation
Indices: 12594091--12594144 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12594081 TTCAGCATAC
* * *
12594091 CATTCAACATACCAATATCATATAATA
1 CATTCAACAAAACAATATCATACAATA
*
12594118 CATTCAGCAAAACAATATCATACAATA
1 CATTCAACAAAACAATATCATACAATA
12594145 TCATACAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (27 bp):
CATTCAACAAAACAATATCATACAATA
Found at i:12594144 original size:10 final size:10
Alignment explanation
Indices: 12594129--12594154 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12594119 ATTCAGCAAA
12594129 ACAATATCAT
1 ACAATATCAT
12594139 ACAATATCAT
1 ACAATATCAT
12594149 ACAATA
1 ACAATA
12594155 CCATTAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (10 bp):
ACAATATCAT
Found at i:12595537 original size:417 final size:415
Alignment explanation
Indices: 12594716--12595554 Score: 1306
Period size: 417 Copynumber: 2.0 Consensus size: 415
12594706 GTGCAAAAAT
* * *
12594716 TATTAAAGGCATTTTTAGTAGAAAATTATCTTACTGATATTTTTGTGATAAAAATGGAGGGAATT
1 TATTGAAGGCATTTTTAGTAAAAAATTATCTTACTGATATTTTCGTGATAAAAATGGAGGGAATT
**
12594781 ATTGAAGGCGTATTATGTAGAAAATGCATTCAATAAATTCCTTCAAAAAATCAAAGCAAATTAGT
66 ATTGAAGGCGTATTATGTAGAAAACACATTCAATAAATTCCTTCAAAAAATCAAAGCAAATTAGT
* *
12594846 AAATGTGTTTTTTTGAAAGAAACGCCTTTAATAATCCTCTTAAAATTATTGAAGGTATTTTATAC
131 AAATGTATTTTTTTGAAAGAAACACCTTTAATAATCCTCTTAAAATTATTGAAGGTATTTTATAC
* * *
12594911 TAAAAGATGCCTTTAATAATCCCAAACAATTTTTTAAAAGAAATTATTGAAGGCATTTATTGTCA
196 TAAAAGATGCCTTTAATAATCCCAAACAATTTTTAAAAAGAAATTATTGAAGGCATTTATTCTAA
* ** * *
12594976 AAAAATGCATTCAATAATTATGTATAAAAATTATTGAAGGTGTATAATGCAAAAAAATATCTTTA
261 AAAAATGCATTCAATAATTATGTACAAAAATTATTGAAGGCATATAATGCAAAAAAATACCTTCA
* ** *
12595041 ATAATTTCTTTCAAAAATTAGAATGAATTAGTAAAGGCATTTTTATGGAATAAACGGCTTCAATA
326 ATAATTTCTTTCAAAAACTAGAACAAATTAGTAAAGGCATTTTTATGGAATAAACGCCTTCAATA
* *
12595106 ACCCTTTTAAAATTTTAGTAGTGAAA
391 ACCC-CTTAAAAATTTAGTAGTGAAA
*
12595132 TATTGAAGGCATTTTTAGTAAAAAATTATCTTCACTTATATTTTCGTGATAAAAATGGAGGGAAT
1 TATTGAAGGCATTTTTAGTAAAAAATTATCTT-ACTGATATTTTCGTGATAAAAATGGAGGGAAT
*
12595197 TATTGAAGGCGTATTATGTAGAAAACACATTCAATAAATTCCTTCAAAAAATCAGAGCAAATTAG
65 TATTGAAGGCGTATTATGTAGAAAACACATTCAATAAATTCCTTCAAAAAATCAAAGCAAATTAG
* *
12595262 TAAATGTATTTTTTTGGAAGAAACACCTTTAATAATTCTCTTAAAATTATTGAAGGTATTTTATA
130 TAAATGTATTTTTTTGAAAGAAACACCTTTAATAATCCTCTTAAAATTATTGAAGGTATTTTATA
* *
12595327 CTAAAAGATGCCTTTAATAATCTCAAACAATTTTTAAAAAGAAATTATTGAAGGCGTTTATTCTA
195 CTAAAAGATGCCTTTAATAATCCCAAACAATTTTTAAAAAGAAATTATTGAAGGCATTTATTCTA
* * * * *
12595392 AAAAAATGCCTTTAATAATTCTGTACAAAAATTATTGAAGGCATATAATG-TAAAAAATGCCTTC
260 AAAAAATGCATTCAATAATTATGTACAAAAATTATTGAAGGCATATAATGCAAAAAAATACCTTC
*
12595456 ACCA-AATTTC-TTCAAAAACTAGAACAAATTAGTGAAGGCATTTTTATGGAATAAACGCCTTCA
325 A--ATAATTTCTTTCAAAAACTAGAACAAATTAGTAAAGGCATTTTTATGGAATAAACGCCTTCA
*
12595519 ATAACCTCCTTAAAAATTTGGTAGTGAAA
388 ATAACC-CCTTAAAAATTTAGTAGTGAAA
12595548 TATTGAA
1 TATTGAA
12595555 TGCGTTTTCT
Statistics
Matches: 385, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
416 120 0.31
417 264 0.69
418 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (415 bp):
TATTGAAGGCATTTTTAGTAAAAAATTATCTTACTGATATTTTCGTGATAAAAATGGAGGGAATT
ATTGAAGGCGTATTATGTAGAAAACACATTCAATAAATTCCTTCAAAAAATCAAAGCAAATTAGT
AAATGTATTTTTTTGAAAGAAACACCTTTAATAATCCTCTTAAAATTATTGAAGGTATTTTATAC
TAAAAGATGCCTTTAATAATCCCAAACAATTTTTAAAAAGAAATTATTGAAGGCATTTATTCTAA
AAAAATGCATTCAATAATTATGTACAAAAATTATTGAAGGCATATAATGCAAAAAAATACCTTCA
ATAATTTCTTTCAAAAACTAGAACAAATTAGTAAAGGCATTTTTATGGAATAAACGCCTTCAATA
ACCCCTTAAAAATTTAGTAGTGAAA
Found at i:12595738 original size:188 final size:187
Alignment explanation
Indices: 12595459--12596024 Score: 634
Period size: 188 Copynumber: 3.0 Consensus size: 187
12595449 TGCCTTCACC
* * * * * ** * *
12595459 AAATTTCTTCAAAAACTAGAACAAATTAGTGAAGGCATTTTTATGGAATAAACGCCTTCAATAAC
1 AAATTCCTTGAAAAATTAAAACAAATTAGTGAAGGCATTTTTTTAAAATAAATGCTTTCAATAAC
* * * * * *
12595524 CTCCTTAAAAATTTGGTAGTGAAATATTGAATGCGTTTTCTACTAGAAGACGCCTTTAATAATCT
66 CCCCTTAAAATTTTAGTAGTGAAATATTGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCC
* *
12595589 CAAATAATTTTTAAAAGAAAATTATTGAAGGCGTTTTTTCTCGAAAAGCACCTTCAAT
131 CAAACAATTTTTAAAAGAAAATTATTGAAGGCGTTTTTTCTC-AAAAACACCTTCAAT
* * * ** *
12595647 AAATTCCTTTAAAAATTAAAACGAATTAGTGAATGTGTTTTTTTAAAATAAATGTTTTCAATAAC
1 AAATTCCTTGAAAAATTAAAACAAATTAGTGAAGGCATTTTTTTAAAATAAATGCTTTCAATAAC
* * **
12595712 CCCCTTAAGATTTTAATAGTGAAATATTGAAGGCGTTTTCTACTACAAGACGTTTTTAATAATCC
66 CCCCTTAAAATTTTAGTAGTGAAATATTGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCC
* * * ** * *
12595777 CAAACAATTTTTAATAGAAAATTATTGAAGGCATATAATGT-AAAGAACACTTTCAAT
131 CAAACAATTTTTAAAAGAAAATTATTGAAGGCGTTTTTTCTCAAA-AACACCTTCAAT
* * **
12595834 AAATTTCTTGAAAAATTAGAACAAATTAGTGAAGGCATTTTTTTGGAATAAATGCTTTCAATAAC
1 AAATTCCTTGAAAAATTAAAACAAATTAGTGAAGGCATTTTTTTAAAATAAATGCTTTCAATAAC
* ** * * * *
12595899 CCCTTTAAAATTTTAGTAGTGAAATATTGAAGGTATTTTCTGCTATAAGACACCTTTAATAAACC
66 CCCCTTAAAATTTTAGTAGTGAAATATTGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCC
* *
12595964 CAAACAATTTTTAATAAG-AAATTATTGAAAGTGTTTTTTTCTCAAAAA-ATGCCTTCAAT
131 CAAACAATTTTTAA-AAGAAAATTATTGAAGGCG-TTTTTTCTCAAAAACA--CCTTCAAT
12596023 AA
1 AA
12596025 TTTTGTACAA
Statistics
Matches: 309, Mismatches: 63, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
186 3 0.01
187 146 0.47
188 148 0.48
189 12 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (187 bp):
AAATTCCTTGAAAAATTAAAACAAATTAGTGAAGGCATTTTTTTAAAATAAATGCTTTCAATAAC
CCCCTTAAAATTTTAGTAGTGAAATATTGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCC
CAAACAATTTTTAAAAGAAAATTATTGAAGGCGTTTTTTCTCAAAAACACCTTCAAT
Found at i:12595921 original size:187 final size:185
Alignment explanation
Indices: 12595419--12595992 Score: 684
Period size: 187 Copynumber: 3.1 Consensus size: 185
12595409 ATTCTGTACA
** *
12595419 AAAATTATTGAAGGCATATAATGTAAAAA-ATGCCTTCACCAAATTTCTTCAAAAACTAGAACAA
1 AAAATTATTGAAGGCATATAATGTAAAAACA--CCTTCAATAAATTTCTTCAAAAATTAGAACAA
* * * * *
12595483 ATTAGTGAAGGCATTTTTATGGAATAAACGCCTTCAATAACCTCCTTAAAAATTTGGTAGTGAAA
64 ATTAGTGAAGGCATTTTTTTGGAATAAATGCTTTCAATAACC-CCTTAAAATTTTAGTAGTGAAA
* * * * *
12595548 TATTGAATGCGTTTTCTACTAGAAGACGCCTTTAATAATCTCAAATAATTTTTAAAAG
128 TATTGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCCCAAACAATTTTTAATAG
* * ** * * * * * *
12595606 AAAATTATTGAAGGCGTTTTTTCTCGAAAAGCACCTTCAATAAATTCCTTTAAAAATTAAAACGA
1 AAAATTATTGAAGGCATATAATGT--AAAAACACCTTCAATAAATTTCTTCAAAAATTAGAACAA
* ** ** * * *
12595671 ATTAGTGAATGTGTTTTTTTAAAATAAATGTTTTCAATAACCCCCTTAAGATTTTAATAGTGAAA
64 ATTAGTGAAGGCATTTTTTTGGAATAAATGCTTTCAATAA-CCCCTTAAAATTTTAGTAGTGAAA
**
12595736 TATTGAAGGCGTTTTCTACTACAAGACGTTTTTAATAATCCCAAACAATTTTTAATAG
128 TATTGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCCCAAACAATTTTTAATAG
* *
12595794 AAAATTATTGAAGGCATATAATGTAAAGAACACTTTCAATAAATTTCTTGAAAAATTAGAACAAA
1 AAAATTATTGAAGGCATATAATGTAAA-AACACCTTCAATAAATTTCTTCAAAAATTAGAACAAA
12595859 TTAGTGAAGGCATTTTTTTGGAATAAATGCTTTCAATAACCCCTTTAAAATTTTAGTAGTGAAAT
65 TTAGTGAAGGCATTTTTTTGGAATAAATGCTTTCAATAACCCC-TTAAAATTTTAGTAGTGAAAT
** * * * *
12595924 ATTGAAGGTATTTTCTGCTATAAGACACCTTTAATAAACCCAAACAATTTTTAATA-
129 ATTGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCCCAAACAATTTTTAATAG
12595980 AGAAATTATTGAA
1 A-AAATTATTGAA
12595993 AGTGTTTTTT
Statistics
Matches: 320, Mismatches: 60, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
186 8 0.03
187 161 0.50
188 144 0.45
189 6 0.02
190 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (185 bp):
AAAATTATTGAAGGCATATAATGTAAAAACACCTTCAATAAATTTCTTCAAAAATTAGAACAAAT
TAGTGAAGGCATTTTTTTGGAATAAATGCTTTCAATAACCCCTTAAAATTTTAGTAGTGAAATAT
TGAAGGCGTTTTCTACTACAAGACGCCTTTAATAATCCCAAACAATTTTTAATAG
Found at i:12599394 original size:35 final size:36
Alignment explanation
Indices: 12599346--12599485 Score: 137
Period size: 35 Copynumber: 3.9 Consensus size: 36
12599336 GCTTAATCTC
12599346 AGTCATCCTTTATTTCTTGACTTACGATTTAGTCCT
1 AGTCATCCTTTATTTCTTGACTTACGATTTAGTCCT
* * *
12599382 AGTCAT-CTTTATTTTTTGATTTATGATTTAGT-CT
1 AGTCATCCTTTATTTCTTGACTTACGATTTAGTCCT
* * ** *
12599416 AAGTTATCC-TTA-TTCTCTAACTTGTGATTTAGTGCT
1 -AGTCATCCTTTATTTCT-TGACTTACGATTTAGTCCT
*
12599452 -GATCATCCTTTATTTCTTGACTTACGATTCAGTC
1 AG-TCATCCTTTATTTCTTGACTTACGATTTAGTC
12599486 ATAATTGTCA
Statistics
Matches: 83, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
34 6 0.07
35 49 0.59
36 24 0.29
37 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (36 bp):
AGTCATCCTTTATTTCTTGACTTACGATTTAGTCCT
Found at i:12600413 original size:10 final size:10
Alignment explanation
Indices: 12600398--12600432 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
12600388 TTCGTGATAA
*
12600398 AAAAAAAAAG
1 AAAAAAAAGG
12600408 AAAAAAAAGG
1 AAAAAAAAGG
*
12600418 AAGAAAAAGG
1 AAAAAAAAGG
12600428 AAAAA
1 AAAAA
12600433 GGGCTTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:12601818 original size:17 final size:17
Alignment explanation
Indices: 12601793--12601834 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
12601783 ATAATTATTA
12601793 AATAATAAAAA-TAAAAT
1 AATAATAAAAACT-AAAT
*
12601810 AATAGTAAAAACTAAAT
1 AATAATAAAAACTAAAT
12601827 AATAATAA
1 AATAATAA
12601835 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAATAAAAACTAAAT
Found at i:12601882 original size:37 final size:42
Alignment explanation
Indices: 12601793--12601885 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 42
12601783 ATAATTATTA
*
12601793 AATAATAAA--AATAAAATAATAGTAAAAACTAAATAATAAT
1 AATAATAAATTAATAAAATAAGAGTAAAAACTAAATAATAAT
**
12601833 AATAAT-TTTTAATAAAA-AAGAG-AAAAA-T-AATAAT-AT
1 AATAATAAATTAATAAAATAAGAGTAAAAACTAAATAATAAT
12601869 AATAATAAATTAATAAA
1 AATAATAAATTAATAAA
12601886 TTTTTAGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
36 8 0.18
37 14 0.31
38 1 0.02
39 5 0.11
40 10 0.22
41 7 0.16
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (42 bp):
AATAATAAATTAATAAAATAAGAGTAAAAACTAAATAATAAT
Found at i:12601996 original size:20 final size:20
Alignment explanation
Indices: 12601968--12602065 Score: 90
Period size: 20 Copynumber: 4.9 Consensus size: 20
12601958 TGTAAGTTTT
*
12601968 TAAAGCCTATATGTAAACCC
1 TAAACCCTATATGTAAACCC
* **
12601988 TAAACCCTAAATG-AAACAT
1 TAAACCCTATATGTAAACCC
* *
12602007 TAAACCTTATATGTAGACCCC
1 TAAACCCTATATGTA-AACCC
* *
12602028 TAAACACTATATGTGAACCC
1 TAAACCCTATATGTAAACCC
* *
12602048 TAAACGCTTTATGTAAAC
1 TAAACCCTATATGTAAAC
12602066 TCAAATACTA
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
19 15 0.25
20 31 0.52
21 14 0.23
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (20 bp):
TAAACCCTATATGTAAACCC
Found at i:12602509 original size:5 final size:5
Alignment explanation
Indices: 12602501--12602613 Score: 58
Period size: 5 Copynumber: 22.2 Consensus size: 5
12602491 TATAATATAG
* * * *
12602501 TATTA TATTG TATTA TATTA TTATTA TA-T- TATTA TTATTC TATTA TGGTGTGG
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA T-AT-T-A
* *
12602554 TATTA TATTG TATGA TATTA TATTA TA-T- TATTA TAGTT- TATTA TTATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TTA TATTA -TATTA
12602603 TTATTA T-TTA T
1 -TATTA TATTA T
12602614 TTTTTTCCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
3 4 0.05
4 10 0.12
5 43 0.51
6 24 0.29
7 2 0.02
8 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.08, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:12602613 original size:13 final size:12
Alignment explanation
Indices: 12602554--12602615 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 12
12602544 TATGGTGTGG
12602554 TATTATATTGTAT
1 TATTATATT-TAT
12602567 GATATTATATTATAT
1 --TATTATATT-TAT
12602582 TATTATAGTTTAT
1 TATTATA-TTTAT
12602595 TATTAT-TATTAT
1 TATTATAT-TTAT
12602607 TATT-TATTT
1 TATTATATTT
12602616 TTTTCCTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
11 4 0.09
12 9 0.21
13 16 0.37
14 2 0.05
15 12 0.28
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:12603096 original size:31 final size:29
Alignment explanation
Indices: 12603061--12603119 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
12603051 GATTAAATTT
12603061 TCTAGAAATTTCTAAGGAGTTTTTGGAAAAA
1 TCTAGAAATTTCT-AGG-GTTTTTGGAAAAA
*
12603092 TCTAGAAATTTCTAGGTTTTTTGGAAAA
1 TCTAGAAATTTCTAGGGTTTTTGGAAAA
12603120 TTTGGGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 3 0.11
31 13 0.48
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (29 bp):
TCTAGAAATTTCTAGGGTTTTTGGAAAAA
Found at i:12603441 original size:5 final size:5
Alignment explanation
Indices: 12603431--12603458 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12603421 AAATTTATTT
12603431 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
12603459 CTATATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTGA
Found at i:12606698 original size:39 final size:40
Alignment explanation
Indices: 12606621--12606745 Score: 159
Period size: 39 Copynumber: 3.2 Consensus size: 40
12606611 AAATTTTTTT
**
12606621 TTTTTAAA-TTGTT-TGCC-TTCATTTTGAAAGAATTCTTAA
1 TTTTTAAAGTT-TTGTGCCTTTC-TTTTGAAAGAACCCTTAA
12606660 TTTTTAAAGTTTTGTGCCTTTCTTTTGAAA-AACCCTTAA
1 TTTTTAAAGTTTTGTGCCTTTCTTTTGAAAGAACCCTTAA
* * *
12606699 TTTTTAAAGTTATGTGCCTTTGTTTTGAAAGTACCCTTAA
1 TTTTTAAAGTTTTGTGCCTTTCTTTTGAAAGAACCCTTAA
12606739 TTTTTAA
1 TTTTTAA
12606746 TAATGGATTG
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
39 45 0.58
40 29 0.38
41 3 0.04
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.50
Consensus pattern (40 bp):
TTTTTAAAGTTTTGTGCCTTTCTTTTGAAAGAACCCTTAA
Found at i:12607049 original size:23 final size:23
Alignment explanation
Indices: 12606997--12607050 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
12606987 ATATGCATAT
*
12606997 TTCTTCATTTATTTATCCTTTTA
1 TTCTTTATTTATTTATCCTTTTA
* * *
12607020 TTTTTTATTT-TTTATCTTTATTG
1 TTCTTTATTTATTTATCCTT-TTA
12607043 TTCTTTAT
1 TTCTTTAT
12607051 CCTTAACTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (23 bp):
TTCTTTATTTATTTATCCTTTTA
Found at i:12617837 original size:144 final size:141
Alignment explanation
Indices: 12617671--12618159 Score: 427
Period size: 144 Copynumber: 3.4 Consensus size: 141
12617661 CAAATTTTTG
* * * *
12617671 TGAAACCTTCTAGATCATAATTTTATAAAATTTCA-AGATTTTTGGTGCATTAAAATCATAGCAC
1 TGAAACTTTCAAGATCTTAATTTTATAATATTTCATA-ATTTTTGGTG-ATTAAAATCATAGCA-
* * * **
12617735 TACCCCGAGAAGGATAAAATTATCAAAATACCCTTTTAAAGGTATTTTCATAATTTGG-CTTTTC
63 TACCCCGAGAAGG-TAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTGGCCTTCCC
*
12617799 ATAGCTCGAATTTTCA
127 AT-GCTCGAAATTTCA
* * *
12617815 TGAAACTTTTC-AGAT-TTCAATTTTATAATATTTCATAATTTTTAGTGAGTTTGAAATCATGGC
1 TGAAAC-TTTCAAGATCTT-AATTTTATAATATTTCATAATTTTTGGTGA--TTAAAATCATAGC
* * * ** * *
12617878 A-ACCCCCAGGAAGTGTGAAATTACCAAAATACTCTTATGTGGGTATTTTCGTGATTTGGCCTTC
62 ATACCCCGA-GAAG-GTAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTGGCCTTC
* *
12617942 CCGTGCTTGAAATTTCA
125 CCATGCTCGAAATTTCA
* *
12617959 TGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGTATATCTAAAATCACAGCAG
1 TGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGT-GAT-TAAAATCATAGCA-
* * **
12618024 T-CCTCCGAGAAGGCCAAAATTACCAAAATACCCTTATAAGGGTATTTTTATAATTTAACCTTCC
63 TACC-CCGAGAAGG-TAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTGGCCTTCC
* **
12618088 CGA-GCTTGAAATTTTG
126 C-ATGCTCGAAATTTCA
* * ** * *
12618104 TGAAAGTTCCAA-ATCTTGGTTTTATAATATTTCATGATTTTTGGTGCTTTAAAATC
1 TGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGTG-ATTAAAATC
12618160 CTAAAAATGA
Statistics
Matches: 280, Mismatches: 47, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
143 20 0.07
144 164 0.59
145 93 0.33
146 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (141 bp):
TGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGTGATTAAAATCATAGCATAC
CCCGAGAAGGTAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTGGCCTTCCCATGC
TCGAAATTTCA
Found at i:12618095 original size:145 final size:142
Alignment explanation
Indices: 12617603--12618148 Score: 426
Period size: 144 Copynumber: 3.8 Consensus size: 142
12617593 CCACGGGAAT
* * * * *** *
12617603 GGCC-AAATTACTAAAATACCTTTATAAAGGGTATTTTGATAACTTAACCTT-TTAAG-TTCAAA
1 GGCCAAAATTACCAAAATACCCTTAT-AAGGGTATTTTCATAATTTAACCTTCCCGAGCTTGAAA
** * * * * **
12617665 TTTTTGTGAAACCTTCTAGATCATAATTTTATAAAATTTCA-AGATTTTTGGTGCATTAAAATCA
65 -TTTCATGAAACTTTCAAGATCTTAATTTTATAATATTTCATA-ATTTTTGGTATATTAAAATCA
12617729 TAGCACTACCCCGAGAA
128 TAGCA-T-CCCCGAGAA
** * * * ** * * ** * *
12617746 GGATAAAATTATCAAAATACCCTTTTAAAGGTATTTTCATAATTTGGCTTTTCATAGCTCGAATT
1 GGCCAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTAACCTTCCCGAGCTTGAAAT
* *
12617811 TTCATGAAACTTTTC-AGAT-TTCAATTTTATAATATTTCATAATTTTTAGTGAGT-TTGAAATC
66 TTCATGAAAC-TTTCAAGATCTT-AATTTTATAATATTTCATAATTTTTGGT-A-TATTAAAATC
* * *
12617873 ATGGCAACCCCCAGGAA
127 ATAGCATCCCCGA-GAA
** * ** * * ** *
12617890 GTG-TGAAATTACCAAAATACTCTTATGTGGGTATTTTCGTGATTTGGCCTTCCCGTGCTTGAAA
1 G-GCCAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTAACCTTCCCGAGCTTGAAA
*
12617954 TTTCATGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGTATATCTAAAATCAC
65 TTTCATGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGTATAT-TAAAATCAT
12618019 AGCAGTCCTCCGAGAA
129 AGCA-TCC-CCGAGAA
*
12618035 GGCCAAAATTACCAAAATACCCTTATAAGGGTATTTTTATAATTTAACCTTCCCGAGCTTGAAAT
1 GGCCAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTAACCTTCCCGAGCTTGAAAT
** * * ** *
12618100 TTTGTGAAAGTTCCAA-ATCTTGGTTTTATAATATTTCATGATTTTTGGT
66 TTCATGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGT
12618149 GCTTTAAAAT
Statistics
Matches: 316, Mismatches: 70, Indels: 33
0.75 0.17 0.08
Matches are distributed among these distances:
142 1 0.00
143 33 0.10
144 188 0.59
145 91 0.29
146 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (142 bp):
GGCCAAAATTACCAAAATACCCTTATAAGGGTATTTTCATAATTTAACCTTCCCGAGCTTGAAAT
TTCATGAAACTTTCAAGATCTTAATTTTATAATATTTCATAATTTTTGGTATATTAAAATCATAG
CATCCCCGAGAA
Found at i:12621640 original size:17 final size:17
Alignment explanation
Indices: 12621618--12621650 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12621608 TGTGCTTATC
12621618 ATTTATTTATGATATTG
1 ATTTATTTATGATATTG
12621635 ATTTATTTATGATATT
1 ATTTATTTATGATATT
12621651 TTGATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
ATTTATTTATGATATTG
Found at i:12624959 original size:13 final size:13
Alignment explanation
Indices: 12624941--12624971 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12624931 GGGGCAAGTC
*
12624941 AAAAAAATGAAGA
1 AAAAAAAAGAAGA
12624954 AAAAAAAAGAAGA
1 AAAAAAAAGAAGA
12624967 AAAAA
1 AAAAA
12624972 TGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAAAAAGAAGA
Found at i:12624963 original size:10 final size:10
Alignment explanation
Indices: 12624950--12624988 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12624940 CAAAAAAATG
12624950 AAGAAAAAAA
1 AAGAAAAAAA
12624960 AAGAAGAAAAA
1 AAGAA-AAAAA
* *
12624971 ATGAAAAGAA
1 AAGAAAAAAA
12624981 AAGAAAAA
1 AAGAAAAA
12624989 TGGTTATGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:12624977 original size:16 final size:17
Alignment explanation
Indices: 12624950--12624990 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
12624940 CAAAAAAATG
12624950 AAGAAAAA--AAAAGAA
1 AAGAAAAATGAAAAGAA
*
12624965 GA-AAAAATGAAAAGAA
1 AAGAAAAATGAAAAGAA
12624981 AAGAAAAATG
1 AAGAAAAATG
12624991 GTTATGACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 5 0.24
15 1 0.05
16 8 0.38
17 7 0.33
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (17 bp):
AAGAAAAATGAAAAGAA
Found at i:12626393 original size:67 final size:66
Alignment explanation
Indices: 12626301--12626514 Score: 250
Period size: 67 Copynumber: 3.2 Consensus size: 66
12626291 CTAGGGTATG
** * *
12626301 TAAGCCCAGTTTAGTTAACCTTCAAAGAAATATTTTAGCCTAGATTAGCTAGCCACCAATGAAAT
1 TAAGCCCAGTTTAGTTTGCCTTCAAAGAAAGATTTAAGCCTAGATTAGCTAGCC-CCAATGAAAT
12626366 AT
65 AT
** * * * * *
12626368 TAAATCCAGTTTAGTTTGCCCTCAAAGAAAGATTTAAGCCTAGATTAACTGGCTGCCAATGAAAC
1 TAAGCCCAGTTTAGTTTGCCTTCAAAGAAAGATTTAAGCCTAGATTAGCTAGC-CCCAATGAAAT
12626433 AT
65 AT
* * **
12626435 TAAGCCCAGTTTAG-TTGACCTTTAAAGAAAGATTTAAGCCAAGATTAGCTAGCTCTTAATGAAA
1 TAAGCCCAGTTTAGTTTG-CCTTCAAAGAAAGATTTAAGCCTAGATTAGCTAGC-CCCAATGAAA
12626499 TAT
64 TAT
12626502 TAAGCCCAGTTTA
1 TAAGCCCAGTTTA
12626515 TCTAGCCAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
66 3 0.02
67 120 0.98
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (66 bp):
TAAGCCCAGTTTAGTTTGCCTTCAAAGAAAGATTTAAGCCTAGATTAGCTAGCCCCAATGAAATA
T
Found at i:12626520 original size:33 final size:32
Alignment explanation
Indices: 12626425--12626520 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 32
12626415 ACTGGCTGCC
*
12626425 AATGAAACATTAAGCCCAGTTTAGT-TGACCTTT
1 AATGAAACATTAAGCCCAGTTTA-TCT-AGCTTT
* * * * *
12626458 AAAGAAAGATTTAAGCCAAGATTAGCTAGCTCTT
1 AATGAAACA-TTAAGCCCAGTTTATCTAGCT-TT
*
12626492 AATGAAATATTAAGCCCAGTTTATCTAGC
1 AATGAAACATTAAGCCCAGTTTATCTAGC
12626521 CAAAAAAAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
33 27 0.55
34 22 0.45
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (32 bp):
AATGAAACATTAAGCCCAGTTTATCTAGCTTT
Found at i:12627265 original size:33 final size:33
Alignment explanation
Indices: 12627224--12627335 Score: 111
Period size: 34 Copynumber: 3.4 Consensus size: 33
12627214 ATATGATACA
* * *
12627224 AAAT-TTAAGCCTAAATTAGCTAGCCATCAATG
1 AAATATTAAGCCTAATTTAGCTAGCCTTCAAAG
* * *
12627256 AAATATTAAGCCCAGTTTAGTTAGCCTTCAAAG
1 AAATATTAAGCCTAATTTAGCTAGCCTTCAAAG
*
12627289 AAAATATTAAG-TTCAATTTAGCTAGCCTTCAAAG
1 -AAATATTAAGCCT-AATTTAGCTAGCCTTCAAAG
*
12627323 AAAAATTTAAGCC
1 AAATA-TTAAGCC
12627336 CAGATTAGTT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
32 4 0.06
33 26 0.41
34 33 0.52
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (33 bp):
AAATATTAAGCCTAATTTAGCTAGCCTTCAAAG
Found at i:12627299 original size:34 final size:33
Alignment explanation
Indices: 12627239--12627374 Score: 130
Period size: 34 Copynumber: 4.1 Consensus size: 33
12627229 TAAGCCTAAA
* *
12627239 TTAGCTAGCCATCAATGAAATATTAAGCCCAGT
1 TTAGCTAGCCTTCAAAGAAATATTAAGCCCAGT
* ** *
12627272 TTAGTTAGCCTTCAAAGAAAATATTAAGTTCAAT
1 TTAGCTAGCCTTCAAAG-AAATATTAAGCCCAGT
* *
12627306 TTAGCTAGCCTTCAAAGAAAAATTTAAGCCCAGA
1 TTAGCTAGCCTTCAAAGAAATA-TTAAGCCCAGT
* * ** *
12627340 TTAGTTGGCCTT-ATTGAAATATTTAGCCCAGT
1 TTAGCTAGCCTTCAAAGAAATATTAAGCCCAGT
12627372 TTA
1 TTA
12627375 TCTGACAAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
32 12 0.15
33 24 0.29
34 46 0.56
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (33 bp):
TTAGCTAGCCTTCAAAGAAATATTAAGCCCAGT
Found at i:12627596 original size:24 final size:24
Alignment explanation
Indices: 12627550--12627597 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12627540 TGCACTTGTA
* *
12627550 TAAGACATTTGCATTTACTTCATG
1 TAAGACATTTGCACTTACATCATG
*
12627574 TAAGACATTTGCACTTGCATCATG
1 TAAGACATTTGCACTTACATCATG
12627598 GTATCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (24 bp):
TAAGACATTTGCACTTACATCATG
Found at i:12628059 original size:33 final size:33
Alignment explanation
Indices: 12628021--12628103 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
12628011 AAAGAAAGAT
* *
12628021 TTAAGCTTAGATTAGCTAATCACC-AATGAAATA
1 TTAAGCCTAGATTAGCT-AGCACCTAATGAAATA
*
12628054 TTAAGCCTAGATTAGCTAGCCCCTAATGAAATA
1 TTAAGCCTAGATTAGCTAGCACCTAATGAAATA
* *
12628087 GTAAGCCTAGTTTAGCT
1 TTAAGCCTAGATTAGCT
12628104 GGCCTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 4 0.09
33 40 0.91
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (33 bp):
TTAAGCCTAGATTAGCTAGCACCTAATGAAATA
Found at i:12628129 original size:34 final size:34
Alignment explanation
Indices: 12627987--12628171 Score: 119
Period size: 34 Copynumber: 5.5 Consensus size: 34
12627977 TAATGAAATA
* * **
12627987 TTAAGGCTAGTTTAGCTGGTTTTCAAAGAAAGAT
1 TTAAGCCTAGATTAGCTGGCCTTCAAAGAAAGAT
* *** ** * *
12628021 TTAAGCTTAGATTAGCTAATCACCAATGAAATA-
1 TTAAGCCTAGATTAGCTGGCCTTCAAAGAAAGAT
* * * *
12628054 TTAAGCCTAGATTAGCTAGCC-CCTAATGAAATA-
1 TTAAGCCTAGATTAGCTGGCCTTC-AAAGAAAGAT
* *
12628087 GTAAGCCTAGTTTAGCTGGCCTTCAAAGAAAGAT
1 TTAAGCCTAGATTAGCTGGCCTTCAAAGAAAGAT
* *
12628121 TTAAGCCTA-ATTTATCTGACCTTCAAA-AAATGAT
1 TTAAGCCTAGA-TTAGCTGGCCTTCAAAGAAA-GAT
*
12628155 TTAAGCCCAGATTAGCT
1 TTAAGCCTAGATTAGCT
12628172 AACCCCAAAT
Statistics
Matches: 120, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
32 2 0.02
33 55 0.46
34 62 0.52
35 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (34 bp):
TTAAGCCTAGATTAGCTGGCCTTCAAAGAAAGAT
Found at i:12628312 original size:35 final size:35
Alignment explanation
Indices: 12628270--12628597 Score: 176
Period size: 35 Copynumber: 9.2 Consensus size: 35
12628260 CATTTTGCTT
* *
12628270 TTTCTCAACTTGTGGTGTCGTTCCATCAATATTTA
1 TTTCTCAACTTGTGGTGTCGTTCCATCATTATTCA
* * * * *
12628305 TTTCTCAACTTGCGGTGTTGTTTCGATTATGT-TGTTA
1 TTTCTCAACTTGTGGTGTCG-TTCCATCAT-TAT-TCA
** * **
12628342 TTTCTCAACTT-TCATGTCATTCTGTCATTATTCA
1 TTTCTCAACTTGTGGTGTCGTTCCATCATTATTCA
* * * **
12628376 TTTTTCAGCTTGTGGTGTTGTTCCATGGTTATTCA
1 TTTCTCAACTTGTGGTGTCGTTCCATCATTATTCA
* * * * *
12628411 TTTCTCAATTTATGGTATCGTTCCGATCATTTTGTTA
1 TTTCTCAACTTGTGGTGTCGTTCC-ATCATTAT-TCA
* ** * *
12628448 TTTCTTAACTTACGGTGTCATTCCGTCATTATTCA
1 TTTCTCAACTTGTGGTGTCGTTCCATCATTATTCA
* * * * * *
12628483 TATCTCAACTTATGGTGTCATTTCGTCATTAATCA
1 TTTCTCAACTTGTGGTGTCGTTCCATCATTATTCA
** * * *
12628518 TTT-TCCAACTTGCCGTGTCGTTCTGATCATTTTGTTA
1 TTTCT-CAACTTGTGGTGTCGTTC-CATCATTAT-TCA
* * * **
12628555 TTTCTCAACTTGTGGTATTGTTCCGTCGCTATTCA
1 TTTCTCAACTTGTGGTGTCGTTCCATCATTATTCA
12628590 TTTCTCAA
1 TTTCTCAA
12628598 ATTGCAATGT
Statistics
Matches: 214, Mismatches: 68, Indels: 22
0.70 0.22 0.07
Matches are distributed among these distances:
34 13 0.06
35 115 0.54
36 30 0.14
37 55 0.26
38 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (35 bp):
TTTCTCAACTTGTGGTGTCGTTCCATCATTATTCA
Found at i:12628519 original size:107 final size:106
Alignment explanation
Indices: 12628272--12628565 Score: 250
Period size: 107 Copynumber: 2.8 Consensus size: 106
12628262 TTTTGCTTTT
* * * * * * * * * * * *
12628272 TCTCAACTTGTGGTGTCGTTCCATCAATATTTA-TTTCTCAACTTGCGGTGTTGTTTCGATTATG
1 TCTCAACTTATGGTGTCATTCCATCATTAATCATTTTC-CAACTTACCGTATCGTTCCGATCATT
* * *
12628336 TTGTTATTTCTCAACTTTCATGTCATTCTGTCATTATTCATT
65 TTGTTATTTCTCAACTTACATGTCATTCCGTCATTATTCATA
* * * ** ** * * **
12628378 TTTCAGCTTGTGGTGTTGTTCCATGGTTATTCA-TTTCTCAATTTATGGTATCGTTCCGATCATT
1 TCTCAACTTATGGTGTCATTCCATCATTAATCATTTTC-CAACTTACCGTATCGTTCCGATCATT
* *
12628442 TTGTTATTTCTTAACTTACGGTGTCATTCCGTCATTATTCATA
65 TTGTTATTTCTCAACTTAC-ATGTCATTCCGTCATTATTCATA
* * * * *
12628485 TCTCAACTTATGGTGTCATTTCGTCATTAATCATTTTCCAACTTGCCGTGTCGTTCTGATCATTT
1 TCTCAACTTATGGTGTCATTCCATCATTAATCATTTTCCAACTTACCGTATCGTTCCGATCATTT
12628550 TGTTATTTCTCAACTT
66 TGTTATTTCTCAACTT
12628566 GTGGTATTGT
Statistics
Matches: 149, Mismatches: 37, Indels: 3
0.79 0.20 0.02
Matches are distributed among these distances:
106 66 0.44
107 79 0.53
108 4 0.03
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.48
Consensus pattern (106 bp):
TCTCAACTTATGGTGTCATTCCATCATTAATCATTTTCCAACTTACCGTATCGTTCCGATCATTT
TGTTATTTCTCAACTTACATGTCATTCCGTCATTATTCATA
Found at i:12628695 original size:10 final size:10
Alignment explanation
Indices: 12628682--12628740 Score: 68
Period size: 10 Copynumber: 5.8 Consensus size: 10
12628672 AGAAAAAAAT
12628682 AAAAAAACAC
1 AAAAAAACAC
*
12628692 -AAAAAACAA
1 AAAAAAACAC
12628701 AAACCAAAAC-C
1 AAA--AAAACAC
12628712 TAAAAAAACAC
1 -AAAAAAACAC
12628723 AAAAAAACAC
1 AAAAAAACAC
12628733 AAAAAAAC
1 AAAAAAAC
12628741 CAAGGGTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
9 8 0.19
10 25 0.60
11 1 0.02
12 8 0.19
ACGTcount: A:0.78, C:0.20, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:12635536 original size:58 final size:58
Alignment explanation
Indices: 12635468--12635868 Score: 404
Period size: 58 Copynumber: 6.7 Consensus size: 58
12635458 TGTACAAGAA
* * *
12635468 AAAATTGATACTTTCAATTTTTTTCCAAAAATATTCTTTTGAAAC-TTTAATTTCGAGA
1 AAAATTGATACTTTCAA-CTTTTTCCAAAAATATTTTTTTGAAACTTTTAATTTCGAGG
** * * * * **
12635526 AAAATTGATACTTTCAACTTTCGCTCAAAACCCTTTTTTTTTTGAAAATTTTACTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTC-CAAAA---ATATTTTTTTGAAACTTTTAATTTCGAGG
* * * *
12635588 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTCTTGGAAACTTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTTC-CAAAAATATTTTTTTGAAACTTTTAATTTCGAGG
*
12635646 AAAATTGATATTTTCAAC-TTTTCCTAAAAATA-TTTTTTGAAAACTTTTAATTTCGAGGGG
1 AAAATTGATACTTTCAACTTTTTCC-AAAAATATTTTTTTG-AAACTTTTAATTTCGA--GG
*
12635706 AAAATTGATACTTTCAAC-TTTTCC-TAAATATTTTTTTGAAACTTTTAATTTCGAGGG
1 AAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTTGAAACTTTTAATTTCGA-GG
* *
12635763 AAAATTGATACACTTTCAACTTTTCCCTAAAAATA--TTTTTGAAAACTTTTAATTTCAAGG
1 AAAATTGAT--ACTTTCAACTTTTTCC-AAAAATATTTTTTTG-AAACTTTTAATTTCGAGG
*
12635823 AAAATTGATACTTTCAACTTTTTCTCTAAAAAAATCTTTTTTGAAA
1 AAAATTGATACTTTCAACTTTTTC-C-AAAAATAT-TTTTTTGAAA
12635869 ATTTATTCTT
Statistics
Matches: 289, Mismatches: 34, Indels: 37
0.80 0.09 0.10
Matches are distributed among these distances:
56 1 0.00
57 32 0.11
58 108 0.37
59 25 0.09
60 46 0.16
61 29 0.10
62 48 0.17
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTTGAAACTTTTAATTTCGAGG
Found at i:12635683 original size:120 final size:116
Alignment explanation
Indices: 12635468--12635854 Score: 473
Period size: 120 Copynumber: 3.3 Consensus size: 116
12635458 TGTACAAGAA
**
12635468 AAAATTGATACTTTCAA-TTTTTTTCCAAAAATATTCTTTTGAAAC-TTTAATTTCGAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTC-TTTGAAACTTTTAATTTCGAGAAAAAT
* * * *
12635531 TGATACTTTCAAC-TTTCGCTCAAAACCCTTTTTTTTTTGAAAA-TTTTACTTTTAAGG
64 TGATACTTTCAACTTTTC-CT-AAAA----ATATTTTTTGAAAACTTTTAATTTCAAGG
*
12635588 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTGGAAACTTTTAATTTCGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTGAAACTTTTAATTTCGAGAAAAATTG
* *
12635653 ATATTTTCAACTTTTCCTAAAAATATTTTTTGAAAACTTTTAATTTCGAGGGG
66 ATACTTTCAACTTTTCCTAAAAATATTTTTTGAAAACTTTTAATTTC-A-AGG
* * *
12635706 AAAATTGATACTTTCAACTTTTCCT-AAATAT-TTTTTTGAAACTTTTAATTTCGAGGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTGAAACTTTTAATTTCGA-GAAAAATT
12635769 GATACACTTTCAACTTTTCCCTAAAAATA-TTTTTGAAAACTTTTAATTTCAAGG
65 GAT--ACTTTCAACTTTT-CCTAAAAATATTTTTTGAAAACTTTTAATTTCAAGG
*
12635823 AAAATTGATACTTTCAACTTTTTCTCTAAAAA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAA
12635855 AATCTTTTTT
Statistics
Matches: 238, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
115 12 0.05
116 29 0.12
117 42 0.18
118 28 0.12
119 48 0.20
120 70 0.29
121 9 0.04
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTGAAACTTTTAATTTCGAGAAAAATTG
ATACTTTCAACTTTTCCTAAAAATATTTTTTGAAAACTTTTAATTTCAAGG
Found at i:12635887 original size:177 final size:176
Alignment explanation
Indices: 12635462--12635911 Score: 483
Period size: 177 Copynumber: 2.5 Consensus size: 176
12635452 TGCTTTTGTA
* * * * * * *
12635462 CAAGAAAAAATTGATACTTTCAA-TTTTTTTCCAAAAATATTCTTTTGAAACTTTAATTTCGAGA
1 CAAG-AAAAATTGATACTTTCAACTTTTTCTCTAAAAAAATTTTTTTGAAAATTTAATTTCAAGG
* * *
12635526 AAAATTGATACTTTCAAC-TTTCGCTCAAAACCCTTTTTTTTTTGAAAATTTTACTTTTAAGGAA
65 AAAATTGATACTTTCAACTTTTCGCT-AAAA--C-TATTTTTTTGAAAATTTTAATTTGAAGGAA
*
12635590 AATTGATACTTTCAACTTTTCCTCAAAAATATTCTTGGAAACTTTTAATTT
126 AATTGATACTTTCAACTTTTCCTCAAAAATATTCTTGAAAACTTTTAATTT
* * *
12635641 CGAGAAAAATTGATATTTTCAAC-TTTTC-CTAAAAATA-TTTTTTGAAAACTTTTAATTTCGAG
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCTAAAAAAATTTTTTTGAAAA--TTTAATTTC-A-
* * *
12635703 GGGAAAATTGATACTTTCAACTTTTC-CT-AAA-TATTTTTTTGAAACTTTTAATTTCGAGGGAA
62 AGGAAAATTGATACTTTCAACTTTTCGCTAAAACTATTTTTTTGAAAATTTTAATTT-GAAGGAA
*
12635765 AATTGATACACTTTCAACTTTTCC-CTAAAAATATTTTTGAAAACTTTTAATTT
126 AATTGAT--ACTTTCAACTTTTCCTC-AAAAATATTCTTGAAAACTTTTAATTT
* *
12635818 CAAGGAAAATTGATACTTTCAACTTTTTCTCTAAAAAAATCTTTTTTGAAAATTT-ATTCTTAAG
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCTAAAAAAAT-TTTTTTGAAAATTTAATT-TCAAG
12635882 GAAAATTG-TA-TTTCAACATTTTCGCCTAAA
64 GAAAATTGATACTTTCAAC-TTTTCG-CTAAA
12635912 CATGTTTTTT
Statistics
Matches: 230, Mismatches: 22, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
174 20 0.09
175 19 0.08
176 17 0.07
177 77 0.33
178 44 0.19
179 17 0.07
180 21 0.09
181 15 0.07
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (176 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCTAAAAAAATTTTTTTGAAAATTTAATTTCAAGGA
AAATTGATACTTTCAACTTTTCGCTAAAACTATTTTTTTGAAAATTTTAATTTGAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTCTTGAAAACTTTTAATTT
Found at i:12635963 original size:23 final size:21
Alignment explanation
Indices: 12635937--12635995 Score: 79
Period size: 19 Copynumber: 2.9 Consensus size: 21
12635927 TTTTATTTAA
12635937 AGAAAATAAATAATTAAATAAAT
1 AGAAAATAAATAA-TAAA-AAAT
12635960 AGAAAAT-AATAATAAAAAAT
1 AGAAAATAAATAATAAAAAAT
12635980 -GAAAATAAATAA-AAAA
1 AGAAAATAAATAATAAAA
12635996 TCCGTATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
20 9 0.26
21 4 0.11
22 5 0.14
23 7 0.20
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AGAAAATAAATAATAAAAAAT
Found at i:12635990 original size:17 final size:18
Alignment explanation
Indices: 12635944--12635996 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 18
12635934 TAAAGAAAAT
*
12635944 AAATAATTAAATAAATAGA
1 AAATAAATAAA-AAATAGA
12635963 AAATAATAATAAAAAAT-GA
1 AAAT-A-AATAAAAAATAGA
12635982 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
12635997 CCGTATCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 10 0.32
18 1 0.03
19 10 0.32
20 5 0.16
21 5 0.16
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAAATAGA
Found at i:12636337 original size:21 final size:21
Alignment explanation
Indices: 12636311--12636353 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
12636301 TTCAGCAGAA
*
12636311 CCCTTCTTTCTTCTCTCTCTT
1 CCCTTCTTTCTTCTCTCCCTT
12636332 CCCTTCTTTCTTCTCTCCCTT
1 CCCTTCTTTCTTCTCTCCCTT
12636353 C
1 C
12636354 TCTCTAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (21 bp):
CCCTTCTTTCTTCTCTCCCTT
Found at i:12636876 original size:9 final size:10
Alignment explanation
Indices: 12636862--12636912 Score: 61
Period size: 9 Copynumber: 5.0 Consensus size: 10
12636852 TAGCCCGAAT
12636862 AAATAAA-AA
1 AAATAAATAA
12636871 AAATAAA-AA
1 AAATAAATAA
12636880 AAATCAAATAA
1 AAAT-AAATAA
12636891 AAATATTAATAA
1 AAATA--AATAA
12636903 AAATAAATAA
1 AAATAAATAA
12636913 GATAAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 6 0.16
12 10 0.26
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAAATAA
Found at i:12636877 original size:13 final size:13
Alignment explanation
Indices: 12636859--12636924 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
12636849 CTTTAGCCCG
12636859 AATAAATAAAAA-A
1 AATAAA-AAAAATA
12636872 AATAAAAAAAATCA
1 AATAAAAAAAAT-A
* *
12636886 AAT-AAAAATATT
1 AATAAAAAAAATA
12636898 AATAAAAATAAATA
1 AATAAAAA-AAATA
12636912 AGATAAACAAAAA
1 A-ATAAA-AAAAA
12636925 ATTAACAGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 8 0.19
13 17 0.40
14 8 0.19
15 8 0.19
16 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (13 bp):
AATAAAAAAAATA
Found at i:12636880 original size:8 final size:9
Alignment explanation
Indices: 12636862--12636924 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 9
12636852 TAGCCCGAAT
12636862 AAATAAAAA
1 AAATAAAAA
12636871 AAATAAAAA
1 AAATAAAAA
12636880 AAATCAAATAA
1 AAAT-AAA-AA
12636891 AAATATTAATAA
1 AAATA--AA-AA
*
12636903 AAATAAATA
1 AAATAAAAA
*
12636912 AGATAAACAA
1 AAATAAA-AA
12636922 AAA
1 AAA
12636925 ATTAACAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
9 20 0.44
10 9 0.20
11 6 0.13
12 10 0.22
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (9 bp):
AAATAAAAA
Found at i:12636892 original size:23 final size:22
Alignment explanation
Indices: 12636859--12636912 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
12636849 CTTTAGCCCG
12636859 AATAAATAAAAAAAATAAAAAA
1 AATAAATAAAAAAAATAAAAAA
* * *
12636881 AATCAAATAAAAATATTAATAAA
1 AAT-AAATAAAAAAAATAAAAAA
12636904 AATAAATAA
1 AATAAATAA
12636913 GATAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAAATAAAAAAAATAAAAAA
Found at i:12637070 original size:11 final size:11
Alignment explanation
Indices: 12637049--12637137 Score: 54
Period size: 11 Copynumber: 8.5 Consensus size: 11
12637039 AAATAGTAGT
12637049 AATAAATAATA
1 AATAAATAATA
12637060 AAT-AATAAATA
1 AATAAAT-AATA
*
12637071 CATAAGATAA-A
1 AATAA-ATAATA
12637082 AATAAA-AGA-A
1 AATAAATA-ATA
12637092 AA-AAATATATA
1 AATAAATA-ATA
12637103 AA-AAA-AAT-
1 AATAAATAATA
12637111 AAT-AATAATAA
1 AATAAATAAT-A
12637122 AATAAA-AATA
1 AATAAATAATA
12637132 AATAAA
1 AATAAA
12637138 AATGTAAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
8 4 0.06
9 9 0.14
10 18 0.28
11 26 0.41
12 5 0.08
13 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.02, T:0.21
Consensus pattern (11 bp):
AATAAATAATA
Found at i:12637090 original size:13 final size:14
Alignment explanation
Indices: 12637052--12637115 Score: 64
Period size: 13 Copynumber: 4.6 Consensus size: 14
12637042 TAGTAGTAAT
12637052 AAATAATAA-ATAA
1 AAATAATAAGATAA
12637065 TAAATACATAAGATAA
1 -AAATA-ATAAGATAA
*
12637081 AAATAA-AAGAAAA
1 AAATAATAAGATAA
12637094 AAATATATAA-A-AA
1 AAATA-ATAAGATAA
12637107 AAATAATAA
1 AAATAATAA
12637116 TAATAAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
12 4 0.09
13 18 0.40
14 8 0.18
15 11 0.24
16 4 0.09
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (14 bp):
AAATAATAAGATAA
Found at i:12637105 original size:17 final size:15
Alignment explanation
Indices: 12637082--12637162 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 15
12637072 ATAAGATAAA
12637082 AATAAAAGAAAAAAAT
1 AATAAAA-AAAAAAAT
*
12637098 ATATAAAAAAAATAAT
1 A-ATAAAAAAAAAAAT
12637114 AATAATAAAATAAAAAT
1 AATAA-AAAA-AAAAAT
**
12637131 AAATAAAAATGTAAAAT
1 -AATAAAAA-AAAAAAT
*
12637148 -ACAAAAAAAAAAAT
1 AATAAAAAAAAAAAT
12637162 A
1 A
12637163 GACTTACCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
14 5 0.10
15 10 0.19
16 13 0.25
17 19 0.37
18 5 0.10
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (15 bp):
AATAAAAAAAAAAAT
Found at i:12637126 original size:23 final size:22
Alignment explanation
Indices: 12637100--12637162 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
12637090 AAAAAAATAT
*
12637100 ATAAAAAAAATAATAATAATAAA
1 ATAAAAAAAATAAAAAT-ATAAA
*
12637123 ATAAAAATAAATAAAAATGTAAA
1 ATAAAAA-AAATAAAAATATAAA
*
12637146 ATACAAAAAA-AAAAATA
1 ATAAAAAAAATAAAAATA
12637163 GACTTACCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 6 0.17
22 3 0.09
23 17 0.49
24 9 0.26
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAAAAATAAAAATATAAA
Found at i:12637160 original size:14 final size:13
Alignment explanation
Indices: 12637079--12637162 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
12637069 TACATAAGAT
12637079 AAAAATAAAAGAAAA
1 AAAAAT-AAA-AAAA
12637094 AAATATATAAAAAAA
1 AAA-A-ATAAAAAAA
*
12637109 ATAATAATAATAAAAT
1 A-AA-AATAA-AAAAA
12637125 AAAAATAAATAAAA
1 AAAAATAAA-AAAA
12637139 ATGTAAAATACAAAAAA
1 A---AAAATA-AAAAAA
12637156 AAAAATA
1 AAAAATA
12637163 GACTTACCTA
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
13 1 0.02
14 15 0.26
15 14 0.24
16 13 0.22
17 13 0.22
18 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAAATAAAAAAA
Found at i:12641170 original size:13 final size:13
Alignment explanation
Indices: 12641152--12641177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12641142 AATATTTAAC
12641152 AAAATTTGAGAAA
1 AAAATTTGAGAAA
12641165 AAAATTTGAGAAA
1 AAAATTTGAGAAA
12641178 GCTGCAGGAG
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:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AAAATTTGAGAAA
Found at i:12641575 original size:49 final size:51
Alignment explanation
Indices: 12641474--12641581 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 51
12641464 TTATAGCGAT
* * *
12641474 ATCA-TAATTATTTAATAATTTTAAAATATTATTTTAATTATAGTATTATA
1 ATCATTAATTATTTAATAATCTTAAAATATTATTTTAATTACAATATTATA
*
12641524 ATCATTAATTATTTAATAATCTT-AGAT-TT-TTTTAAATTACAATATTATA
1 ATCATTAATTATTTAATAATCTTAAAATATTATTTT-AATTACAATATTATA
12641573 ATCATTAAT
1 ATCATTAAT
12641582 ATCATGTTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 4 0.08
49 24 0.46
50 7 0.13
51 17 0.33
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (51 bp):
ATCATTAATTATTTAATAATCTTAAAATATTATTTTAATTACAATATTATA
Found at i:12646467 original size:23 final size:23
Alignment explanation
Indices: 12646437--12646485 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
12646427 TTTTTTATGA
* *
12646437 GAATCAATGTATGATAATAAAGT
1 GAATCAATGTATGATAACAAAAT
12646460 GAATCAATGTATGATAACAAAAT
1 GAATCAATGTATGATAACAAAAT
12646483 GAA
1 GAA
12646486 GTATACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (23 bp):
GAATCAATGTATGATAACAAAAT
Found at i:12652783 original size:15 final size:15
Alignment explanation
Indices: 12652763--12652795 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12652753 TATCGACATG
12652763 GATTTAGTGAAAGTA
1 GATTTAGTGAAAGTA
12652778 GATTTAGTGAAAGTA
1 GATTTAGTGAAAGTA
12652793 GAT
1 GAT
12652796 GGTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
GATTTAGTGAAAGTA
Found at i:12657758 original size:24 final size:25
Alignment explanation
Indices: 12657731--12657786 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
12657721 AGTTATATAT
12657731 TTATTTAAGAATTTAACATA-TAAA
1 TTATTTAAGAATTTAACATATTAAA
***
12657755 TTATTTATTCATTTAACATATTAAA
1 TTATTTAAGAATTTAACATATTAAA
12657780 TTATTTA
1 TTATTTA
12657787 TTTATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (25 bp):
TTATTTAAGAATTTAACATATTAAA
Found at i:12657785 original size:25 final size:24
Alignment explanation
Indices: 12657741--12657793 Score: 88
Period size: 25 Copynumber: 2.2 Consensus size: 24
12657731 TTATTTAAGA
12657741 ATTTAACATATAAATTATTTATTC
1 ATTTAACATATAAATTATTTATTC
*
12657765 ATTTAACATATTAAATTATTTATTT
1 ATTTAACATA-TAAATTATTTATTC
12657790 ATTT
1 ATTT
12657794 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTAACATATAAATTATTTATTC
Found at i:12661239 original size:24 final size:24
Alignment explanation
Indices: 12661212--12661262 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
12661202 TTTATTTTTA
*
12661212 TTTTATTTTATATTTTCTTCTTCT
1 TTTTATTTTATATTTTCTTCTCCT
* * * *
12661236 TTTTCTTTTTTCTTTTTTTCTCCT
1 TTTTATTTTATATTTTCTTCTCCT
12661260 TTT
1 TTT
12661263 GACAGCTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTATTTTATATTTTCTTCTCCT
Found at i:12661834 original size:10 final size:12
Alignment explanation
Indices: 12661808--12661839 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12661798 GTTGCTAGAG
12661808 AGAGAGAAAGCC
1 AGAGAGAAAGCC
12661820 AGAGAGAAAG-C
1 AGAGAGAAAGCC
12661831 -GAGAGAAAG
1 AGAGAGAAAG
12661840 AAGAAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.53, C:0.09, G:0.38, T:0.00
Consensus pattern (12 bp):
AGAGAGAAAGCC
Found at i:12662212 original size:21 final size:22
Alignment explanation
Indices: 12662168--12662212 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
12662158 GAAATTTTTT
*
12662168 TTTTGAAATTTTTTATATATTA
1 TTTTGAAATTTTTTATATAATA
12662190 TTTTG-AATTTTATTAT-TAATA
1 TTTTGAAATTTT-TTATATAATA
12662211 TT
1 TT
12662213 CATGCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTGAAATTTTTTATATAATA
Found at i:12663513 original size:17 final size:16
Alignment explanation
Indices: 12663487--12663518 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12663477 AACAAAAAGG
12663487 TAAAAAAAAAATAAAT
1 TAAAAAAAAAATAAAT
12663503 TAAAAACAAAAATAAA
1 TAAAAA-AAAAATAAA
12663519 AAATTCACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAAAAAAAATAAAT
Found at i:12674742 original size:98 final size:97
Alignment explanation
Indices: 12674602--12675161 Score: 476
Period size: 98 Copynumber: 5.9 Consensus size: 97
12674592 TTGAGAACAG
* * *
12674602 ATGAATTTTTAAAGTTATGAAGCCTCTGCTTAGAGGAGCTTTTTCTCAAGATGAATTTTTTAGGT
1 ATGAATTTTTAAAGTTATG-AGCCTCTACTTAGAGGAGCTTTTTCTCAAGATGAATTTTTAAAGT
* * * * *
12674667 TGTTGAGCTTTTACTTAAAGGAGCTTTTTTAAT
65 TGTTGAGCCTCTACTTAGAGAAGCTTTTTTAAA
* * * * *
12674700 ATGAATTTTTAAAGTTATAGAGTCTCTACTTAGAGGAACTTTTTCTTAAGATAAATTTTTAAAAT
1 ATGAATTTTTAAAGTTAT-GAGCCTCTACTTAGAGGAGCTTTTTCTCAAGATGAATTTTTAAAGT
* * *
12674765 TGTTAAGCCTCTGCTTAGAGAAGCTTTTTCTCAAG
65 TGTTGAGCCTCTACTTAGAGAAGCTTTTT-T-AAA
** * *
12674800 ATGAATTTTTAAAGTTACAAAGCCTCTACTTAGAAGAG-TTTTT-TCAAGATG-ATTTCTAAAGT
1 ATGAATTTTTAAAGTTA-TGAGCCTCTACTTAGAGGAGCTTTTTCTCAAGATGAATTTTTAAAGT
*
12674862 TGTTGAGCCTCTACTTAGAGGAGC-TTTTTAAA
65 TGTTGAGCCTCTACTTAGAGAAGCTTTTTTAAA
* * * * * *
12674894 ATGAA--TTCAGAGTTGTGAGGCCTCTACTTAGATGAGCTTTTTCTTAAAATGAATTTTTAAAGT
1 ATGAATTTTTAAAGTTATGA-GCCTCTACTTAGAGGAGCTTTTTCTCAAGATGAATTTTTAAAGT
* * * * *
12674957 TGTGGAGCTTTTGCTTAGAGAAG-TTTTCTCAAA
65 TGTTGAGCCTCTACTTAGAGAAGCTTTT-TTAAA
* * **
12674990 ATAAATTTTTAAAAGTTGTGGAGCCTCTGGTTAGAGGAGC-TTTT-TCAAGAT-AATTTTTAAAG
1 ATGAATTTTT-AAAGTTAT-GAGCCTCTACTTAGAGGAGCTTTTTCTCAAGATGAATTTTTAAAG
* * **
12675052 TTATTGAGCCTCTGCTTAGATG-AGCCATTTT---
64 TTGTTGAGCCTCTACTTAGA-GAAGCTTTTTTAAA
* * *
12675083 AT--ATTTTCAAAAGTTGTTGAGCCTCTACTTAG-GAAGC-TTTT-TCAAGATG-ATTTTTAAAG
1 ATGAATTTT-TAAAGTT-ATGAGCCTCTACTTAGAGGAGCTTTTTCTCAAGATGAATTTTTAAAG
*
12675142 TTGTTGAGCCTCTGCTTAGA
64 TTGTTGAGCCTCTACTTAGA
12675162 TGAGCCATTT
Statistics
Matches: 379, Mismatches: 64, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
90 44 0.12
91 24 0.06
92 24 0.06
93 7 0.02
94 13 0.03
95 32 0.08
96 42 0.11
97 38 0.10
98 90 0.24
99 29 0.08
100 36 0.09
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (97 bp):
ATGAATTTTTAAAGTTATGAGCCTCTACTTAGAGGAGCTTTTTCTCAAGATGAATTTTTAAAGTT
GTTGAGCCTCTACTTAGAGAAGCTTTTTTAAA
Found at i:12674984 original size:48 final size:49
Alignment explanation
Indices: 12674600--12675161 Score: 393
Period size: 50 Copynumber: 11.7 Consensus size: 49
12674590 TTTTGAGAAC
* * * *
12674600 AGATGAATTTTTAAAGTT-ATGAAGCCTCTGCTTAGAGGAGCTTTTTCTCA
1 AGATGAATTTTTAAAGTTGTTG-AGCCTCTACTTAGAGAAGC-TTTTCTTA
* * * * * *
12674650 AGATGAATTTTTTAGGTTGTTGAGCTTTTACTTAAAGGAGCTTTT-TTA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCTTA
* * * *
12674698 ATATGAATTTTTAAAGTTATAGAGTCTCTACTTAGAGGAA-CTTTTTCTTA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGA-GAAGC-TTTTCTTA
* * * * *
12674748 AGATAAATTTTTAAAATTGTTAAGCCTCTGCTTAGAGAAGCTTTTTCTCA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGAAGC-TTTTCTTA
****
12674798 AGATGAATTTTTAAAGTTACAAAGCCTCTACTTAGA-AGAG-TTTT-TTCA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGA-AGCTTTTCTT-A
* *
12674846 AGATG-ATTTCTAAAGTTGTTGAGCCTCTACTTAGAGGAGC-TTT-TTA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCTTA
* * *
12674892 AAATGAA--TTCAGAGTTG-TGAGGCCTCTACTTAGATG-AGCTTTTTCTTA
1 AGATGAATTTTTAAAGTTGTTGA-GCCTCTACTTAGA-GAAGC-TTTTCTTA
* * * * * *
12674940 AAATGAATTTTTAAAGTTGTGGAGCTTTTGCTTAGAGAAG-TTTTCTCA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCTTA
* * * ** * *
12674988 AAATAAATTTTTAAAAGTTGTGGAGCCTCTGGTTAGAGGAGCTTTT-TCA
1 AGATGAATTTTT-AAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCTTA
* * **
12675037 AGAT-AATTTTTAAAGTTATTGAGCCTCTGCTTAGATG-AGCCATT-TT-
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGA-GAAGCTTTTCTTA
* *
12675083 --AT--ATTTTCAAAAGTTGTTGAGCCTCTACTTAG-GAAGCTTTT-TCA
1 AGATGAATTTT-TAAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCTTA
*
12675127 AGATG-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGA
12675162 TGAGCCATTT
Statistics
Matches: 412, Mismatches: 71, Indels: 61
0.76 0.13 0.11
Matches are distributed among these distances:
42 1 0.00
43 11 0.03
44 26 0.06
45 23 0.06
46 30 0.07
47 69 0.17
48 76 0.18
49 45 0.11
50 127 0.31
51 4 0.01
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (49 bp):
AGATGAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCTTA
Found at i:12675106 original size:44 final size:44
Alignment explanation
Indices: 12675048--12675437 Score: 335
Period size: 44 Copynumber: 9.1 Consensus size: 44
12675038 GATAATTTTT
*
12675048 AAAGTTATTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
1 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
* * *
12675092 AAAGTTGTTGAGCCTCTACTTAG--GAAG-CTTTTTCAAGATGATTTT-T
1 AAAGTTGTTGAGCCTCTGCTTAGATG-AGCCATTTT----AT-ATTTTCA
12675138 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
1 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
* * * * * *
12675182 AAAGTTGTTGAACCTCTGCTTAGAGGAGTCTTTTTAAATTTTTA
1 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
* * *
12675226 AAAGTCGTTGAGCCTTTGCTTAGATGAGCCATTTTATATTTTTA
1 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
* ** *
12675270 AAAGTTATTGAGCCTCTATTTAGA-GA---A--GT-T-TTTTC-
1 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
* *
12675305 -AAGTTGTTGAGCCTTTGCTTAGATGAGCCATTTTATAGTTTCA
1 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
* * ** * *
12675348 AAA-TTGTTGAACCTCTGCTTAGAGGAGCTTTTTTAAATTTTTA
1 AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
* * * * *
12675391 AAAGTCGTTGAGCTTCT-ATTGAGATGAGCCTTTTTAAATTTTCA
1 AAAGTTGTTGAGCCTCTGCTT-AGATGAGCCATTTTATATTTTCA
12675435 AAA
1 AAA
12675438 AAATCAAATC
Statistics
Matches: 276, Mismatches: 48, Indels: 44
0.75 0.13 0.12
Matches are distributed among these distances:
34 19 0.07
35 2 0.01
36 4 0.01
37 1 0.00
38 2 0.01
40 2 0.01
41 1 0.00
42 10 0.04
43 46 0.17
44 152 0.55
46 24 0.09
47 7 0.03
48 6 0.02
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (44 bp):
AAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCA
Found at i:12675139 original size:90 final size:90
Alignment explanation
Indices: 12674820--12675437 Score: 469
Period size: 90 Copynumber: 6.9 Consensus size: 90
12674810 AAAGTTACAA
* * * *
12674820 AGCCTCTACTTAGA-AGAGTTTTTTCAAGATGATTTCTAAAGTTGTTGAGCCTCTACTTAGAGGA
1 AGCCTCTACTTAGAGA-AGCTTTTTCAAGAT-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGA
* * * *
12674884 G-CTTTTTAAAATGAATTC-AGAGTTG-TG
64 GCCATTTT-ATAT--TTTCAAAAGTTGTTG
* * * *
12674911 AGGCCTCTACTTAGATG-AGCTTTTTCTTAAAATGAATTTTTAAAGTTGTGGAGCTTTTGCTTAG
1 A-GCCTCTACTTAGA-GAAGCTTTTTC--AAGAT--ATTTTTAAAGTTGTTGAGCCTCTGCTTAG
*** * * *
12674975 A-GAAGTTTTCTCAAAATAAATTTTTAAAAGTTGTGG
60 ATG-AG----C-CATTTTATATTTTCAAAAGTTGTTG
** * *
12675011 AGCCTCTGGTTAGAGGAGCTTTTTCAAGATAATTTTTAAAGTTATTGAGCCTCTGCTTAGATGAG
1 AGCCTCTACTTAGAGAAGCTTTTTCAAGAT-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAG
12675076 CCATTTTATATTTTCAAAAGTTGTTG
65 CCATTTTATATTTTCAAAAGTTGTTG
12675102 AGCCTCTACTTAG-GAAGCTTTTTCAAGATGATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAG
1 AGCCTCTACTTAGAGAAGCTTTTTCAAGAT-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAG
12675166 CCATTTTATATTTTCAAAAGTTGTTG
65 CCATTTTATATTTTCAAAAGTTGTTG
* * * * * *
12675192 AACCTCTGCTTAGAGGAGTCTTTTT-AA-AT-TTTTAAAAGTCGTTGAGCCTTTGCTTAGATGAG
1 AGCCTCTACTTAGAGAAG-CTTTTTCAAGATATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAG
* *
12675254 CCATTTTATATTTTTAAAAGTTATTG
65 CCATTTTATATTTTCAAAAGTTGTTG
* * *
12675280 AGCCTCTA-TT-TAG-AG-------AAG-T-TTTTTCAAGTTGTTGAGCCTTTGCTTAGATGAGC
1 AGCCTCTACTTAGAGAAGCTTTTTCAAGATATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGC
*
12675333 CATTTTATAGTTTCAAAA-TTGTTG
66 CATTTTATATTTTCAAAAGTTGTTG
* * * * * * * *
12675357 AACCTCTGCTTAGAGGAGCTTTTTTAA-AT-TTTTAAAAGTCGTTGAGCTTCT-ATTGAGATGAG
1 AGCCTCTACTTAGAGAAGCTTTTTCAAGATATTTTTAAAGTTGTTGAGCCTCTGCTT-AGATGAG
* *
12675419 CCTTTTTAAATTTTCAAAA
65 CCATTTTATATTTTCAAAA
12675438 AAATCAAATC
Statistics
Matches: 432, Mismatches: 63, Indels: 68
0.77 0.11 0.12
Matches are distributed among these distances:
77 11 0.03
78 52 0.12
79 2 0.00
80 2 0.00
85 2 0.00
86 4 0.01
87 45 0.10
88 60 0.14
90 87 0.20
91 36 0.08
92 28 0.06
94 5 0.01
95 27 0.06
96 29 0.07
97 5 0.01
98 3 0.01
99 26 0.06
100 6 0.01
101 2 0.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (90 bp):
AGCCTCTACTTAGAGAAGCTTTTTCAAGATATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGC
CATTTTATATTTTCAAAAGTTGTTG
Found at i:12675293 original size:88 final size:87
Alignment explanation
Indices: 12674994--12675437 Score: 473
Period size: 90 Copynumber: 5.1 Consensus size: 87
12674984 CTCAAAATAA
* * * * *
12674994 ATTTTTAAAAGTTGTGGAGCCTCTGGTTAGAGGAGCTTTTTCAAGATAATTTTTAAAGTTATTGA
1 ATTTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTT-AA-AT--TTTTAAAAGTTGTTGA
*
12675059 GCCTCTGCTTAGATGAGCCATTTTAT
62 GCCTTTGCTTAGATGAGCCATTTTAT
* * *
12675085 ATTTTCAAAAGTTGTTGAGCCTCTACTTAG-GAAGCTTTTTCAAGATGATTTTTAAAGTTGTTGA
1 ATTTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTT-AA-AT--TTTTAAAAGTTGTTGA
*
12675149 GCCTCTGCTTAGATGAGCCATTTTAT
62 GCCTTTGCTTAGATGAGCCATTTTAT
* *
12675175 ATTTTCAAAAGTTGTTGAACCTCTGCTTAGAGGAGTCTTTTTAAATTTTTAAAAGTCGTTGAGCC
1 ATTTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAG-CTTTTTAAATTTTTAAAAGTTGTTGAGCC
12675240 TTTGCTTAGATGAGCCATTTTAT
65 TTTGCTTAGATGAGCCATTTTAT
* * ** * *
12675263 ATTTTTAAAAGTTATTGAGCCTCTATTTAGAGAAG-----T---TTTTT-CAAGTTGTTGAGCCT
1 ATTTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTAAATTTTTAAAAGTTGTTGAGCCT
12675319 TTGCTTAGATGAGCCATTTTAT
66 TTGCTTAGATGAGCCATTTTAT
* * *
12675341 AGTTTCAAAA-TTGTTGAACCTCTGCTTAGAGGAGCTTTTTTAAATTTTTAAAAGTCGTTGAG-C
1 ATTTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTTAAATTTTTAAAAGTTGTTGAGCC
* * *
12675404 TTCT-ATTGAGATGAGCCTTTTTAA
65 TT-TGCTT-AGATGAGCCATTTTAT
12675428 ATTTTCAAAA
1 ATTTTCAAAA
12675438 AAATCAAATC
Statistics
Matches: 305, Mismatches: 34, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
77 19 0.06
78 43 0.14
79 5 0.02
82 1 0.00
83 1 0.00
86 10 0.03
87 34 0.11
88 68 0.22
90 87 0.29
91 31 0.10
92 6 0.02
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (87 bp):
ATTTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTAAATTTTTAAAAGTTGTTGAGCCT
TTGCTTAGATGAGCCATTTTAT
Found at i:12675380 original size:78 final size:78
Alignment explanation
Indices: 12675227--12675381 Score: 222
Period size: 78 Copynumber: 2.0 Consensus size: 78
12675217 AAATTTTTAA
* * * *
12675227 AAGTCGTTGAGCCTTTGCTTAGATGAGCCATTTTATATTTTTAAAAGTTATTGAGCCTCTATTTA
1 AAGTCGTTGAGCCTTTGCTTAGATGAGCCATTTTATAGTTTCAAAAGTTATTGAACCTCTACTTA
12675292 GAGAAGTTTTTTC
66 GAGAAGTTTTTTC
* * *
12675305 AAGTTGTTGAGCCTTTGCTTAGATGAGCCATTTTATAGTTTCAAAA-TTGTTGAACCTCTGCTTA
1 AAGTCGTTGAGCCTTTGCTTAGATGAGCCATTTTATAGTTTCAAAAGTTATTGAACCTCTACTTA
*
12675369 GAGGAGCTTTTTT
66 GAGAAG-TTTTTT
12675382 AAATTTTTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 19 0.28
78 49 0.72
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (78 bp):
AAGTCGTTGAGCCTTTGCTTAGATGAGCCATTTTATAGTTTCAAAAGTTATTGAACCTCTACTTA
GAGAAGTTTTTTC
Found at i:12675418 original size:165 final size:166
Alignment explanation
Indices: 12675133--12675437 Score: 492
Period size: 165 Copynumber: 1.8 Consensus size: 166
12675123 TTCAAGATGA
*
12675133 TTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATATTTTCAAAAGTTGTTGAACCTC
1 TTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATAGTTTCAAAAGTTGTTGAACCTC
* *
12675198 TGCTTAGAGGAGTCTTTTTAAATTTTTAAAAGTCGTTGAGCCTTTGCTTAGATGAGCCATTTTAT
66 TGCTTAGAGGAGTCTTTTTAAATTTTTAAAAGTCGTTGAGCCTTTGATTAGATGAGCCATTTTAA
*
12675263 ATTTTTAAAAGTTATTGAGCCTCTATTTAGAGAAGT
131 ATTTTCAAAAGTTATTGAGCCTCTATTTAGAGAAGT
* *
12675299 TTTTTCAAGTTGTTGAGCCTTTGCTTAGATGAGCCATTTTATAGTTTCAAAA-TTGTTGAACCTC
1 TTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATAGTTTCAAAAGTTGTTGAACCTC
*
12675363 TGCTTAGAGGAG-CTTTTTTAAATTTTTAAAAGTCGTTGAG-CTTCT-ATTGAGATGAGCCTTTT
66 TGCTTAGAGGAGTC-TTTTTAAATTTTTAAAAGTCGTTGAGCCTT-TGATT-AGATGAGCCATTT
12675425 TAAATTTTCAAAA
128 TAAATTTTCAAAA
12675438 AAATCAAATC
Statistics
Matches: 129, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
164 6 0.05
165 74 0.57
166 49 0.38
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.43
Consensus pattern (166 bp):
TTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCATTTTATAGTTTCAAAAGTTGTTGAACCTC
TGCTTAGAGGAGTCTTTTTAAATTTTTAAAAGTCGTTGAGCCTTTGATTAGATGAGCCATTTTAA
ATTTTCAAAAGTTATTGAGCCTCTATTTAGAGAAGT
Found at i:12675578 original size:4 final size:4
Alignment explanation
Indices: 12675569--12675594 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
12675559 TAGACACAAT
12675569 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
12675595 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:12675604 original size:12 final size:12
Alignment explanation
Indices: 12675589--12675614 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12675579 AATTAATTAA
12675589 TTAATTTTATTT
1 TTAATTTTATTT
12675601 TTAATTTTATTT
1 TTAATTTTATTT
12675613 TT
1 TT
12675615 TTTCCCTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTAATTTTATTT
Found at i:12676502 original size:12 final size:12
Alignment explanation
Indices: 12676485--12676513 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
12676475 GACCAAACTA
12676485 CATTGACCGGAT
1 CATTGACCGGAT
12676497 CATTGACCGGAT
1 CATTGACCGGAT
12676509 CATTG
1 CATTG
12676514 TTCAAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
CATTGACCGGAT
Found at i:12676590 original size:21 final size:21
Alignment explanation
Indices: 12676529--12676590 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
12676519 GTAAAGAAAA
* *
12676529 AAATTTTTTTTTTAATTTTTT
1 AAATTTTTTTATTAATATTTT
* *
12676550 GAATTTTTTTATATATTATTTT
1 AAATTTTTTTAT-TAATATTTT
*
12676572 AAATTTTATTATTAATATT
1 AAATTTTTTTATTAATATT
12676591 CATGCATATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
AAATTTTTTTATTAATATTTT
Found at i:12682471 original size:13 final size:13
Alignment explanation
Indices: 12682453--12682479 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12682443 CTATTCTATC
12682453 AATTTTAATTTTT
1 AATTTTAATTTTT
12682466 AATTTTAATTTTT
1 AATTTTAATTTTT
12682479 A
1 A
12682480 TTTAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTAATTTTT
Found at i:12683184 original size:35 final size:36
Alignment explanation
Indices: 12683145--12683215 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
12683135 TATTTTTCGC
*
12683145 AATAACAAAAAG-AACATTTATTAATGCACACAAAA
1 AATAACAAAAAGAAACATATATTAATGCACACAAAA
*
12683180 AATAACAAAAAGAAACATATATTAATGCATACAAAA
1 AATAACAAAAAGAAACATATATTAATGCACACAAAA
12683216 GATTATTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 12 0.36
36 21 0.64
ACGTcount: A:0.62, C:0.13, G:0.06, T:0.20
Consensus pattern (36 bp):
AATAACAAAAAGAAACATATATTAATGCACACAAAA
Found at i:12683977 original size:20 final size:19
Alignment explanation
Indices: 12683952--12683994 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
12683942 GAACCAAAAG
12683952 TATATAT-TTTTATTAATTTT
1 TATATATATTTTA--AATTTT
12683972 TATATATATTTTAAATTTT
1 TATATATATTTTAAATTTT
12683991 TATA
1 TATA
12683995 AAAAAACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 7 0.32
21 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATATATTTTAAATTTT
Found at i:12685017 original size:21 final size:19
Alignment explanation
Indices: 12684984--12685022 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
12684974 TACCTAGTAT
12684984 TTAAAAAAATAATCTTAAG
1 TTAAAAAAATAATCTTAAG
*
12685003 TTAAATAATAATAATTTTAA
1 TTAAA-AA-AATAATCTTAA
12685023 AATATTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
TTAAAAAAATAATCTTAAG
Found at i:12688563 original size:16 final size:16
Alignment explanation
Indices: 12688544--12688684 Score: 108
Period size: 16 Copynumber: 8.9 Consensus size: 16
12688534 CTGGGTTTCT
12688544 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
12688560 AAAA-TCTTAAAATCC
1 AAAACCCCTAAAATCC
*
12688575 AAAA-CCCTAAAATTC
1 AAAACCCCTAAAATCC
* *
12688590 AAAACCCTTAAAATTC
1 AAAACCCCTAAAATCC
* * *
12688606 AAAATCCCTTAAATTC
1 AAAACCCCTAAAATCC
* *
12688622 -AAACCCTTAAAATCT
1 AAAACCCCTAAAATCC
* * *
12688637 GAAACCCTTAAAATCT
1 AAAACCCCTAAAATCC
* **
12688653 GAAACTTCTAAAATCC
1 AAAACCCCTAAAATCC
12688669 AAAACCCCATAAAATC
1 AAAACCCC-TAAAATC
12688685 TGAAATCCCA
Statistics
Matches: 101, Mismatches: 21, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
15 35 0.35
16 59 0.58
17 7 0.07
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:12688579 original size:31 final size:31
Alignment explanation
Indices: 12688544--12688684 Score: 131
Period size: 31 Copynumber: 4.5 Consensus size: 31
12688534 CTGGGTTTCT
*
12688544 AAAACCCCTAAAATCCAAAATCTTAAAATCC
1 AAAACCCCTAAAATCCAAAACCTTAAAATCC
* *
12688575 AAAA-CCCTAAAATTCAAAACCCTTAAAATTC
1 AAAACCCCTAAAATCCAAAA-CCTTAAAATCC
* * * * *
12688606 AAAATCCCTTAAATTCAAACCCTTAAAATCT
1 AAAACCCCTAAAATCCAAAACCTTAAAATCC
* * ** *
12688637 GAAACCCTTAAAATCTGAAACTTCTAAAATCC
1 AAAACCCCTAAAATCCAAAACCT-TAAAATCC
12688669 AAAACCCCATAAAATC
1 AAAACCCC-TAAAATC
12688685 TGAAATCCCA
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
30 14 0.16
31 40 0.46
32 26 0.30
33 7 0.08
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (31 bp):
AAAACCCCTAAAATCCAAAACCTTAAAATCC
Found at i:12688694 original size:17 final size:16
Alignment explanation
Indices: 12688622--12688694 Score: 67
Period size: 16 Copynumber: 4.4 Consensus size: 16
12688612 CCTTAAATTC
*
12688622 AAACCCTTAAAATCTG
1 AAACCCATAAAATCTG
*
12688638 AAACCCTTAAAATCTG
1 AAACCCATAAAATCTG
* **
12688654 AAACTTC-TAAAATCCA
1 AAAC-CCATAAAATCTG
12688670 AAACCCCATAAAATCTG
1 AAA-CCCATAAAATCTG
12688687 AAATCCCA
1 AAA-CCCA
12688695 AACCTTTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
16 31 0.66
17 16 0.34
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22
Consensus pattern (16 bp):
AAACCCATAAAATCTG
Found at i:12688726 original size:14 final size:15
Alignment explanation
Indices: 12688708--12688750 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
12688698 CTTTAAACTT
12688708 TTAAATCCAAACTCC
1 TTAAATCCAAACTCC
*
12688723 TAAAATCCAAAC-CC
1 TTAAATCCAAACTCC
12688737 TTAAAT-CAAACTCC
1 TTAAATCCAAACTCC
12688751 AAACCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 9 0.36
15 11 0.44
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
TTAAATCCAAACTCC
Found at i:12688800 original size:57 final size:57
Alignment explanation
Indices: 12688654--12688841 Score: 138
Period size: 57 Copynumber: 3.2 Consensus size: 57
12688644 TTAAAATCTG
* *
12688654 AAACTTCTAAAATCCAAAACCCCATAAAATCTGAAA-TCCCAAACCTTTAAACTTTTAAATCC
1 AAACTCCTAAAATCC-AAA-CCC-TAAAATC--AAACT-CCAAACCTTCAAACTTTTAAATCC
* *
12688716 AAACTCCTAAAATCCAAACCCTTAAATCAAACTCCAAACC-TCAAA-TTTTAAAATCG
1 AAACTCCTAAAATCCAAACCCTAAAATCAAACTCCAAACCTTCAAACTTTT-AAATCC
** * * *
12688772 AAAC-CCTAAAATCTCCAAATTCTAAAATCAAAAC-CCTAAACCTTCCATAC-CTTAAAACC
1 AAACTCCTAAAA--TCCAAACCCTAAAATC-AAACTCC-AAACCTT-CAAACTTTTAAATCC
12688831 AAAC-CCTAAAA
1 AAACTCCTAAAA
12688842 CCCTCAAAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
55 11 0.10
56 13 0.12
57 25 0.24
58 10 0.09
59 22 0.21
60 8 0.08
61 3 0.03
62 14 0.13
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (57 bp):
AAACTCCTAAAATCCAAACCCTAAAATCAAACTCCAAACCTTCAAACTTTTAAATCC
Found at i:12700225 original size:12 final size:12
Alignment explanation
Indices: 12700208--12700277 Score: 56
Period size: 12 Copynumber: 6.1 Consensus size: 12
12700198 TATTTTGCTT
12700208 AAAAAAAAAGAA
1 AAAAAAAAAGAA
* *
12700220 AAAAAATATG-A
1 AAAAAAAAAGAA
* *
12700231 AAAAAATACGAA
1 AAAAAAAAAGAA
*
12700243 AAAAAGAAAG--
1 AAAAAAAAAGAA
* *
12700253 AAAAAAATAGAC
1 AAAAAAAAAGAA
12700265 AAAAAAAAAGAA
1 AAAAAAAAAGAA
12700277 A
1 A
12700278 GAAGCAATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
10 8 0.18
11 10 0.22
12 27 0.60
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:12700255 original size:23 final size:21
Alignment explanation
Indices: 12700208--12700277 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 21
12700198 TATTTTGCTT
* *
12700208 AAAAAAAAAGAAAAAAAATATG
1 AAAAAAATAGAAAAAAAA-AAG
12700230 AAAAAAATACGAAAAAAAGAAAG
1 AAAAAAATA-GAAAAAAA-AAAG
12700253 AAAAAAATAGACAAAAAAAAAG
1 AAAAAAATAGA-AAAAAAAAAG
12700275 AAA
1 AAA
12700278 GAAGCAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 17 0.40
23 25 0.58
24 1 0.02
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAAATAGAAAAAAAAAAG
Done.