Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007751.1 Hibiscus syriacus cultivar Beakdansim tig00110017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1434969
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 3 of 6
Found at i:505419 original size:14 final size:15
Alignment explanation
Indices: 505326--505425 Score: 60
Period size: 15 Copynumber: 6.3 Consensus size: 15
505316 TAAGGTTATT
* *
505326 TATTATAAAATAATT
1 TATTTTAAAATAATA
* *
505341 TATTATAAAATAATT
1 TATTTTAAAATAATA
505356 TATTTTAAAATAA-A
1 TATTTTAAAATAATA
*
505370 TTATTATAAAATATGGATTGA
1 -TATTTTAAAATA---A-T-A
505391 TTTATTTTAAAATAATA
1 --TATTTTAAAATAATA
*
505408 TATTTT-AAATAATT
1 TATTTTAAAATAATA
505422 TATT
1 TATT
505426 AGTATAGATT
Statistics
Matches: 72, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
14 11 0.15
15 44 0.61
17 1 0.01
18 2 0.03
19 1 0.01
21 1 0.01
22 12 0.17
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TATTTTAAAATAATA
Found at i:505444 original size:22 final size:22
Alignment explanation
Indices: 505428--505524 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
505418 AATTTATTAG
505428 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
505450 TATGGATTGATTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
*
505474 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
*
505504 TATGGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
505525 TAATTTATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
22 27 0.45
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 4 0.07
28 6 0.10
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.12
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:505455 original size:69 final size:67
Alignment explanation
Indices: 505323--505480 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 67
505313 TAATAAGGTT
*
505323 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
505388 TG
66 TG
* * * * * * *
505390 ATTTATTTTAAAATAATATATT-TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAAATTATTATAAAATATG
505454 GATTG
63 GATTG
505459 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
505481 GTATGGATTG
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
66 13 0.17
67 20 0.26
68 12 0.15
69 33 0.42
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
TG
Found at i:505471 original size:54 final size:54
Alignment explanation
Indices: 505408--505573 Score: 323
Period size: 54 Copynumber: 3.1 Consensus size: 54
505398 TAAAATAATA
*
505408 TATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
505462 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
505516 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
505570 TATT
1 TATT
505574 ATTGTAGTTG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
Found at i:505598 original size:134 final size:134
Alignment explanation
Indices: 505450--505707 Score: 498
Period size: 134 Copynumber: 1.9 Consensus size: 134
505440 TATTTTAAAA
*
505450 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
*
505515 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
505580 GTTG
131 GTTG
505584 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
505649 TTATTTTAAATAATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
66 TTATTTTAAATAATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
505708 TTAAATAATT
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 122 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTTTAAATAATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
GTTG
Found at i:505610 original size:188 final size:188
Alignment explanation
Indices: 505408--505761 Score: 681
Period size: 188 Copynumber: 1.9 Consensus size: 188
505398 TAAAATAATA
*
505408 TATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATA
1 TATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATA
*
505473 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA
66 ATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA
505538 TGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATT
131 TGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATT
*
505596 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATA
1 TATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATA
505661 ATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA
66 ATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA
505726 TGGATTGATTTATTTTAAAATATGGATTGATTTATT
131 TGGATTGATTTATTTTAAAATATGGATTGATTTATT
505762 TTAAATAATT
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 163 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (188 bp):
TATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATA
ATTTAATAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTA
TGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATT
Found at i:505641 original size:22 final size:22
Alignment explanation
Indices: 505616--505712 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
505606 AATTTATTAG
505616 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
505638 TATGAATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* *
505662 TTTAATAGTATGGATTGATTTATTTTAAAA
1 --T-AT-GGATTGA-T---TTATTTTAAAA
505692 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
505713 TAATTTATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
22 27 0.45
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 4 0.07
28 6 0.10
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:505658 original size:54 final size:54
Alignment explanation
Indices: 505584--505815 Score: 437
Period size: 54 Copynumber: 4.3 Consensus size: 54
505574 ATTGTAGTTG
505584 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
505638 TATGAATTGATTTATTTTAAATAATTTAATAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
505692 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
505746 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
505800 TATGAATTGATTTATT
1 TATGGATTGATTTATT
505816 ATTGTAGTTG
Statistics
Matches: 173, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 173 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:505710 original size:242 final size:234
Alignment explanation
Indices: 505381--505838 Score: 808
Period size: 242 Copynumber: 1.9 Consensus size: 234
505371 TATTATAAAA
*
505381 TATGGATTGATTTATTTTAAAATAATATATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
1 TATGGATTGATTTATTTTAAAATAATATATTTTAAATAATTTAATAGTATAGATTGATTTATTTT
505446 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
66 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
*
505511 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTAT
131 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTAT
505576 TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
196 TGTAGTTGTATGGATT-ATTTATTTTAAATAATTTATTAG
*
505616 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTAATAGTATGGATTGAT
1 TATGGATTGATTTATTTT-AAA-AT-AA-T-A--TATTTTAAATAATTTAATAGTATAGATTGAT
505681 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
59 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
505746 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
124 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
*
505811 TTATTATTGTAGTTGTATGTATTATTTA
189 TTATTATTGTAGTTGTATGGATTATTTA
505839 AATTTCAGTA
Statistics
Matches: 212, Mismatches: 4, Indels: 8
0.95 0.02 0.04
Matches are distributed among these distances:
235 18 0.08
236 3 0.01
237 2 0.01
238 2 0.01
239 1 0.00
240 1 0.00
241 5 0.02
242 180 0.85
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (234 bp):
TATGGATTGATTTATTTTAAAATAATATATTTTAAATAATTTAATAGTATAGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTAT
TGTAGTTGTATGGATTATTTATTTTAAATAATTTATTAG
Found at i:505749 original size:22 final size:22
Alignment explanation
Indices: 505724--505766 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
505714 AATTTATTAG
505724 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
505746 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
505767 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:507886 original size:43 final size:43
Alignment explanation
Indices: 507839--508005 Score: 212
Period size: 43 Copynumber: 3.9 Consensus size: 43
507829 CATATAGTGG
* * **
507839 CGTTTGTCTTTACAAACGCTGCTATTGAATGTGTATTTAGCGG
1 CGTTTTTCTTTACAAACGCCGCTATTGAATGTGTATTTAGCAA
**
507882 CGTTTTTCTTTACAAACGCCGCTATTGTCTGTGTATTTAGCAA
1 CGTTTTTCTTTACAAACGCCGCTATTGAATGTGTATTTAGCAA
** *
507925 TATTTTTCTTTACAAACGCCGCTATTG-A-CTGTATTTAGCAA
1 CGTTTTTCTTTACAAACGCCGCTATTGAATGTGTATTTAGCAA
* * *
507966 CGTTATTCTTTACAAACGCCGCTATTGACTGTATATTTAG
1 CGTTTTTCTTTACAAACGCCGCTATTGAATGTGTATTTAG
508006 TGACATTTGT
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 36 0.34
43 70 0.66
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (43 bp):
CGTTTTTCTTTACAAACGCCGCTATTGAATGTGTATTTAGCAA
Found at i:507981 original size:84 final size:86
Alignment explanation
Indices: 507845--508005 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 86
507835 GTGGCGTTTG
* * ** * *
507845 TCTTTACAAACGCTGCTATTGAATGTGTATTTAGCGGCGTTTTTCTTTACAAACGCCGCTATTGT
1 TCTTTACAAACGCCGCTATTGAATCTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGA
*
507910 CTGTGTATTTAGCAATATTTT
66 CTGTATATTTAGCAATATTTT
507931 TCTTTACAAACGCCGCTATTG-A-CTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGA
1 TCTTTACAAACGCCGCTATTGAATCTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGA
507994 CTGTATATTTAG
66 CTGTATATTTAG
508006 TGACATTTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 47 0.69
85 1 0.01
86 20 0.29
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (86 bp):
TCTTTACAAACGCCGCTATTGAATCTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGA
CTGTATATTTAGCAATATTTT
Found at i:508026 original size:84 final size:86
Alignment explanation
Indices: 507852--508030 Score: 218
Period size: 84 Copynumber: 2.1 Consensus size: 86
507842 TTGTCTTTAC
* * ** * * *
507852 AAACGCTGCTATTGAATGTGTATTTAGCGGCGTTTTTCTTTACAAACGCCGCTATTGTCTGTGTA
1 AAACGCCGCTATTGAATCTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGACTGTATA
* * ** *
507917 TTTAGCAATATTTTTCTTTAC
66 TTTAGCAACATTTGTAATTAA
507938 AAACGCCGCTATTG-A-CTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGACTGTATA
1 AAACGCCGCTATTGAATCTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGACTGTATA
**
508001 TTTAGTGACATTTGTAATTAA
66 TTTAGCAACATTTGTAATTAA
508022 AAACGCCGC
1 AAACGCCGC
508031 AAATAAGCCC
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 65 0.82
85 1 0.01
86 13 0.16
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (86 bp):
AAACGCCGCTATTGAATCTGTATTTAGCAACGTTATTCTTTACAAACGCCGCTATTGACTGTATA
TTTAGCAACATTTGTAATTAA
Found at i:509396 original size:21 final size:21
Alignment explanation
Indices: 509370--509411 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
509360 AAGCTTAAAT
*
509370 GTGTTATAGCCGGCAGCACCG
1 GTGTTATAGCCGACAGCACCG
509391 GTGTTATAGCCGACAGCACCG
1 GTGTTATAGCCGACAGCACCG
509412 AGCCTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (21 bp):
GTGTTATAGCCGACAGCACCG
Found at i:510769 original size:22 final size:22
Alignment explanation
Indices: 510755--510806 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
510745 ATTTTTGATA
510755 AATTTAATGTTTATTTTATAAT
1 AATTTAATGTTTATTTTATAAT
510777 AATTTAATGTTTATTTTATAAT
1 AATTTAATGTTTATTTTATAAT
510799 AATTTAAT
1 AATTTAAT
510807 AAAATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
AATTTAATGTTTATTTTATAAT
Found at i:510812 original size:10 final size:11
Alignment explanation
Indices: 510767--510831 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
510757 TTTAATGTTT
*
510767 ATTTTATAATA
1 ATTTAATAATA
** *
510778 ATTTAATGTTT
1 ATTTAATAATA
*
510789 ATTTTATAATA
1 ATTTAATAATA
510800 ATTTAATAA-A
1 ATTTAATAATA
*
510810 ATTTAATAATC
1 ATTTAATAATA
510821 A-TTAATAATA
1 ATTTAATAATA
510831 A
1 A
510832 ATTGATTAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 19 0.45
11 23 0.55
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
ATTTAATAATA
Found at i:511392 original size:123 final size:123
Alignment explanation
Indices: 511224--511535 Score: 378
Period size: 123 Copynumber: 2.5 Consensus size: 123
511214 TTGTAAACTT
* ** *
511224 GCGGCATTTGTAAACACAAACGCCACTAAAACACGAGTCTATAGCGGTGTTTGTATAAAAACGCC
1 GCGGCGTTTGT-AACA-AAACGCCACTAAAGTACGAGTCTTTAGCGGTGTTTGTATAAAAACGCC
* *
511289 ACTAAA-TCATGAGTCTATAGCGACGTTTGTA-AAAAATGCCACTAAATCACGAGTCTATA
64 ACTAAAGT-ACGAGTCTATAGCGACGTTTGTATAAAAACGCCACTAAATCACGAGTCTATA
* * * *
511348 GCGGCGTTTGTAACAAACACGCCACTAAAGTATGAGTTTTTAGCGGCGATTGTATAAAAACGCCA
1 GCGGCGTTTGTAACAAA-ACGCCACTAAAGTACGAGTCTTTAGCGGTGTTTGTATAAAAACGCCA
* * *
511413 CTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAATCATGAGTCTATA
65 CTAAAGTACGAGTCTATAGCGACGTTTGTATAAAAACGCCACTAAATCACGAGTCTATA
** * * * *
511472 GCGGCGTTTGTATA-AAAACGCCGTTATAGTAGGAGTCTTTAGCAGTGTTTGTTCTAAAAACGCC
1 GCGGCGTTTGTA-ACAAAACGCCACTAAAGTACGAGTCTTTAGCGGTGTTTG-TATAAAAACGCC
511536 GCTACAAACG
Statistics
Matches: 161, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
122 2 0.01
123 95 0.59
124 63 0.39
125 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (123 bp):
GCGGCGTTTGTAACAAAACGCCACTAAAGTACGAGTCTTTAGCGGTGTTTGTATAAAAACGCCAC
TAAAGTACGAGTCTATAGCGACGTTTGTATAAAAACGCCACTAAATCACGAGTCTATA
Found at i:511452 original size:82 final size:82
Alignment explanation
Indices: 511241--511535 Score: 364
Period size: 82 Copynumber: 3.6 Consensus size: 82
511231 TTGTAAACAC
** *
511241 AAACGCCACTAAAACACGAGTCTATAGCGGTGTTTGTATAAAAACGCCACTAAATCATGAGTCTA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATCATGAGTCTA
*
511306 TAGCGACGTTTGTA-AA
66 TAGCGGCGTTTGTATAA
*
511322 AAATGCCACTAAA-TCACGAGTCTATAGCGGCGTTTGTA-ACAAACACGCCACTAAAGT-ATGAG
1 AAACGCCACTAAAGT-ACGAGTCTATAGCGGCGTTTGTATA-AAA-ACGCCACTAAA-TCATGAG
* * *
511384 TTTTTAGCGGCGATTGTATAA
62 TCTATAGCGGCGTTTGTATAA
*
511405 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAATCATGAGTCTA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATCATGAGTCTA
511470 TAGCGGCGTTTGTATAA
66 TAGCGGCGTTTGTATAA
** * * * * * *
511487 AAACGCCGTTATAGTAGGAGTCTTTAGCAGTGTTTGTTCTAAAAACGCC
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTG-TATAAAAACGCC
511536 GCTACAAACG
Statistics
Matches: 186, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
80 1 0.01
81 38 0.20
82 94 0.51
83 51 0.27
84 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (82 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATCATGAGTCTA
TAGCGGCGTTTGTATAA
Found at i:511509 original size:41 final size:41
Alignment explanation
Indices: 511241--511493 Score: 343
Period size: 41 Copynumber: 6.2 Consensus size: 41
511231 TTGTAAACAC
* * *
511241 AAACGCCACTAAAACACGAGTCTATAGCGGTGTTTGTATAA
1 AAACGCCACTAAATCATGAGTCTATAGCGGCGTTTGTATAA
*
511282 AAACGCCACTAAATCATGAGTCTATAGCGACGTTTGTA-AA
1 AAACGCCACTAAATCATGAGTCTATAGCGGCGTTTGTATAA
* *
511322 AAATGCCACTAAATCACGAGTCTATAGCGGCGTTTGTA-ACA
1 AAACGCCACTAAATCATGAGTCTATAGCGGCGTTTGTATA-A
* * *
511363 AACACGCCACTAAAGT-ATGAGTTTTTAGCGGCGATTGTATAA
1 AA-ACGCCACTAAA-TCATGAGTCTATAGCGGCGTTTGTATAA
* *
511405 AAACGCCACTAAAGT-ACGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAA-TCATGAGTCTATAGCGGCGTTTGTATAA
511446 AAACGCCACTAAATCATGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAATCATGAGTCTATAGCGGCGTTTGTATAA
511487 AAACGCC
1 AAACGCC
511494 GTTATAGTAG
Statistics
Matches: 190, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
40 39 0.21
41 117 0.62
42 32 0.17
43 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAATCATGAGTCTATAGCGGCGTTTGTATAA
Found at i:511522 original size:41 final size:40
Alignment explanation
Indices: 511241--511535 Score: 279
Period size: 41 Copynumber: 7.2 Consensus size: 40
511231 TTGTAAACAC
** * *
511241 AAACGCCACTAAAACACGAGTCTATAGCGGTGTTTGTATAA
1 AAACGCCACT-AAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * * *
511282 AAACGCCACTAAATCATGAGTCTATAGCGACGTTTGTA-AA
1 AAACGCCACTAAGT-ACGAGTCTTTAGCGGCGTTTGTATAA
* * *
511322 AAATGCCACTAAATCACGAGTCTATAGCGGCGTTTGTA-ACA
1 AAACGCCACTAAGT-ACGAGTCTTTAGCGGCGTTTGTATA-A
* * *
511363 AACACGCCACTAAAGTATGAGTTTTTAGCGGCGATTGTATAA
1 AA-ACGCCACT-AAGTACGAGTCTTTAGCGGCGTTTGTATAA
511405 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACT-AAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * *
511446 AAACGCCACTAAATCATGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAGT-ACGAGTCTTTAGCGGCGTTTGTATAA
** * * * *
511487 AAACGCCGTTATAGTAGGAGTCTTTAGCAGTGTTTGTTCTAA
1 AAACGCCACTA-AGTACGAGTCTTTAGCGGCGTTTG-TATAA
511529 AAACGCC
1 AAACGCC
511536 GCTACAAACG
Statistics
Matches: 219, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
40 44 0.20
41 129 0.59
42 42 0.19
43 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (40 bp):
AAACGCCACTAAGTACGAGTCTTTAGCGGCGTTTGTATAA
Found at i:530959 original size:33 final size:33
Alignment explanation
Indices: 530917--530985 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
530907 GTGATCACAT
*
530917 TTTGTCCAACCGAGTCGTGAACATGACCCATGG
1 TTTGTCCAACCGAGTCATGAACATGACCCATGG
*
530950 TTTGTCCAACCGAGTCATGAACATGACCTATGG
1 TTTGTCCAACCGAGTCATGAACATGACCCATGG
530983 TTT
1 TTT
530986 AATTTGGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (33 bp):
TTTGTCCAACCGAGTCATGAACATGACCCATGG
Found at i:532294 original size:17 final size:18
Alignment explanation
Indices: 532273--532323 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
532263 TTATATTTTT
*
532273 TTAAAAAATATATGAAAA
1 TTAAAAAATATATCAAAA
* *
532291 -TAAATAAT-TTTCAAAA
1 TTAAAAAATATATCAAAA
*
532307 TTAAAAAATATTTCAAA
1 TTAAAAAATATATCAAA
532324 GTTTTTAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 6 0.22
17 14 0.52
18 7 0.26
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAAAATATATCAAAA
Found at i:534314 original size:19 final size:19
Alignment explanation
Indices: 534265--534321 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
534255 CTAGACCAAG
*
534265 AGTATCGATACTTATGTAAA
1 AGTATCGATACTT-TATAAA
* * *
534285 AGTTTCAATACTTTATATA
1 AGTATCGATACTTTATAAA
534304 AGTATCGATACTTT-TAAA
1 AGTATCGATACTTTATAAA
534322 CATTCTGTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 3 0.10
19 16 0.53
20 11 0.37
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (19 bp):
AGTATCGATACTTTATAAA
Found at i:536739 original size:22 final size:22
Alignment explanation
Indices: 536705--536748 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
536695 TTAATTATTT
536705 AAAAAATTAAAT-AAAAATATA
1 AAAAAATTAAATAAAAAATATA
*
536726 AAAAATATTTAATAAAAAATATA
1 AAAAA-ATTAAATAAAAAATATA
536749 TTTTTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 6 0.30
23 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAATTAAATAAAAAATATA
Found at i:544779 original size:16 final size:16
Alignment explanation
Indices: 544758--544788 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
544748 AATATTGAAA
*
544758 CTCGAACTCGAAAATG
1 CTCGAACTCAAAAATG
544774 CTCGAACTCAAAAAT
1 CTCGAACTCAAAAAT
544789 ATTTTAAAAG
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:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (16 bp):
CTCGAACTCAAAAATG
Found at i:560509 original size:45 final size:45
Alignment explanation
Indices: 560193--560507 Score: 450
Period size: 45 Copynumber: 7.0 Consensus size: 45
560183 CTCTTGAGCA
* *
560193 GCTCTATAACTGGGTTCGATAGAAGCAGCTCTAGAGCTTGGATCC
1 GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
* * * *
560238 GCTCTATAATTGGATTCGATGGAAGCAGCTCTAGAGCTTGGATCT
1 GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
* **
560283 GCTCTATAATTGGGTTCGATGGAAGCAACTCTAGAGCTTGGATCC
1 GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
* * * *
560328 GCTCTAAAACTGGGTTCGATGGATGCAGGCCTAGAGGTTGGATCC
1 GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
*
560373 GCTCTATAATTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
1 GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
* * *
560418 ACTCTATAACTGGGTTCAATGGAAGCAGGTCGAGAGCTTGGATCC
1 GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
* * *
560463 ACTCTATAACTGGGTTCAATGGAAGCAGGTCGAGAGCTTGGATCC
1 GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
560508 ACAGAACTCG
Statistics
Matches: 247, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 247 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (45 bp):
GCTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCC
Found at i:566529 original size:6 final size:6
Alignment explanation
Indices: 566518--566567 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
566508 AGACACGTAT
566518 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
566566 GA
1 GA
566568 GTCGAGACGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.34, C:0.48, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:567390 original size:21 final size:21
Alignment explanation
Indices: 567166--567384 Score: 325
Period size: 21 Copynumber: 10.5 Consensus size: 21
567156 TGCGATTTTG
*
567166 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
* *
567187 GACTATCGCAACAAATTTGGA
1 GACTATCGCAACGAACTTGGA
* * *
567208 GACTATCGCAATGAATTTGAA
1 GACTATCGCAACGAACTTGGA
*
567229 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
* *
567250 GACTATTGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
567271 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
567292 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
567313 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
*
567334 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
567355 GACTATCGCAACGAACTT-G-
1 GACTATCGCAACGAACTTGGA
567374 GACTATCGCAA
1 GACTATCGCAA
567385 TGCGAATATG
Statistics
Matches: 183, Mismatches: 15, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
19 11 0.06
20 1 0.01
21 171 0.93
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (21 bp):
GACTATCGCAACGAACTTGGA
Found at i:567647 original size:43 final size:43
Alignment explanation
Indices: 567586--567671 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
567576 TTAAAATAAT
567586 ATGAAGTGTTGCATGTCAAAGCAAGGACTGTAGATTGATTACA
1 ATGAAGTGTTGCATGTCAAAGCAAGGACTGTAGATTGATTACA
567629 ATGAAGTGTTGCATGTCAAAGCAAGGACTGTAGATTGATTACA
1 ATGAAGTGTTGCATGTCAAAGCAAGGACTGTAGATTGATTACA
567672 GTAACTCGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (43 bp):
ATGAAGTGTTGCATGTCAAAGCAAGGACTGTAGATTGATTACA
Found at i:572512 original size:38 final size:40
Alignment explanation
Indices: 572466--572561 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 40
572456 AACTCATAAG
* * *
572466 TTTA-GTTTTCGTTTCATTTTAGTACCT-ACTGTTAAAA-
1 TTTATGTTTTTGTTTCATTTTAATACCTCACCGTTAAAAC
*
572503 TTTATGTTTTTGTTTCTTTTTAATACCTCACCGTTAAAAC
1 TTTATGTTTTTGTTTCATTTTAATACCTCACCGTTAAAAC
*
572543 TTT-TGTTTTTATTTCATTT
1 TTTATGTTTTTGTTTCATTT
572562 AATTTTTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 4 0.08
38 20 0.40
39 23 0.46
40 3 0.06
ACGTcount: A:0.21, C:0.14, G:0.08, T:0.57
Consensus pattern (40 bp):
TTTATGTTTTTGTTTCATTTTAATACCTCACCGTTAAAAC
Found at i:578728 original size:11 final size:10
Alignment explanation
Indices: 578697--578771 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 10
578687 TATATATATG
578697 TATAATAAAA
1 TATAATAAAA
*
578707 TAAAATAAAAA
1 TATAAT-AAAA
578718 TATACATAAAA
1 TATA-ATAAAA
*
578729 TATATATATATA
1 TATA-ATA-AAA
578741 TATATATAAATA
1 TATA-ATAAA-A
* *
578753 AAGGAATAAAA
1 TA-TAATAAAA
578764 TATAATAA
1 TATAATAA
578772 TAATGAAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
10 10 0.20
11 21 0.41
12 19 0.37
13 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (10 bp):
TATAATAAAA
Found at i:578761 original size:52 final size:48
Alignment explanation
Indices: 578681--578791 Score: 127
Period size: 52 Copynumber: 2.2 Consensus size: 48
578671 TGATTATATG
*
578681 TATATATATATATATGTATAATAAAATAAAATAAAA-ATATACAT-AAAA
1 TATATATATATATATATATAATAAAATAAAATAAAATA-ATA-ATGAAAA
*
578729 TATATATATATATATATATAAATAAAGGAATAAAATATAATAATAATGAAAA
1 TATATATATATATATATAT-AAT-AA--AATAAAATAAAATAATAATGAAAA
578781 TATAGTATATA
1 TATA-TATATA
578792 ATAATAGTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
48 18 0.33
49 3 0.06
50 2 0.04
51 2 0.04
52 22 0.41
53 7 0.13
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (48 bp):
TATATATATATATATATATAATAAAATAAAATAAAATAATAATGAAAA
Found at i:580661 original size:105 final size:105
Alignment explanation
Indices: 580539--581204 Score: 1278
Period size: 105 Copynumber: 6.3 Consensus size: 105
580529 TGTTCAGAGC
*
580539 CCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
* *
580604 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGATT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
580644 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
*
580709 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
580749 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
*
580814 GGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGTAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
580854 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
580919 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
580959 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
581024 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
581064 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
*
581129 GGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGTAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
581169 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
581205 GGTGAAACCT
Statistics
Matches: 555, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 555 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.35
Consensus pattern (105 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGT
Found at i:591464 original size:10 final size:10
Alignment explanation
Indices: 591439--591472 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
591429 AACGTTAGTA
*
591439 AAATAGAAAT
1 AAATAAAAAT
*
591449 AGATAAAAAT
1 AAATAAAAAT
591459 AAATAAAAAT
1 AAATAAAAAT
591469 AAAT
1 AAAT
591473 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:593094 original size:2 final size:2
Alignment explanation
Indices: 593087--593123 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
593077 TATACATAAA
593087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
593124 AATAAAGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:599452 original size:24 final size:24
Alignment explanation
Indices: 599362--599452 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
599352 TCAAATTTGA
* * * *
599362 ATTCTGTTATTATACCTGACCTGA
1 ATTCTGATATGATACTTGACCTGG
* *
599386 ATTCTGATATGATA-TTGGCATGG
1 ATTCTGATATGATACTTGACCTGG
* * *
599409 ATTCTGATCTGAGACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
599433 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
599453 TTGAATTATG
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 17 0.33
24 35 0.67
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:603037 original size:30 final size:29
Alignment explanation
Indices: 602995--603119 Score: 89
Period size: 27 Copynumber: 4.3 Consensus size: 29
602985 AAATATATTT
*
602995 AAATAT-TTTTATTAATA-ATTTAATATAA
1 AAATATATATTATTAATATATTTAAT-TAA
**
603023 AATATATATATTATTCTTATATTTAATTAA
1 AA-ATATATATTATTAATATATTTAATTAA
**
603053 AAATAT-T-TTATTCTTAT-TTTAAATTAA
1 AAATATATATTATTAATATATTT-AATTAA
* * *
603080 AAATATATTTTATTATTATCTTTAACTTTTAA
1 AAATATATATTATTAATATATTTAA---TTAA
603112 AAATATAT
1 AAATATAT
603120 TAAAATATCT
Statistics
Matches: 83, Mismatches: 4, Indels: 16
0.81 0.04 0.16
Matches are distributed among these distances:
26 3 0.04
27 22 0.27
28 4 0.05
29 19 0.23
30 16 0.19
31 7 0.08
32 12 0.14
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
AAATATATATTATTAATATATTTAATTAA
Found at i:603058 original size:27 final size:26
Alignment explanation
Indices: 603028--603121 Score: 98
Period size: 27 Copynumber: 3.3 Consensus size: 26
603018 TATAAAATAT
603028 ATATATTATTCTTATATTTAATTAAAA
1 ATATATTATTCTTAT-TTTAATTAAAA
*
603055 ATATTTTATTCTTATTTTAAATTAAAA
1 ATATATTATTCTTATTTT-AATTAAAA
*
603082 ATATATTTTATTATTATCTTTAACTTTTAAAA
1 ATATA--TTATTCTTAT-TTTAA---TTAAAA
603114 ATATATTA
1 ATATATTA
603122 AAATATCTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
26 3 0.05
27 26 0.46
29 11 0.19
30 6 0.11
32 11 0.19
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATATTATTCTTATTTTAATTAAAA
Found at i:603112 original size:32 final size:29
Alignment explanation
Indices: 602995--603120 Score: 109
Period size: 29 Copynumber: 4.3 Consensus size: 29
602985 AAATATATTT
* *
602995 AAATAT-TTTTATTAATAATTT-AATATAA
1 AAATATATTTTATTATTATTTTAAAT-TAA
* *
603023 AATATATATATTATTCTTATATTT-AATT-A
1 AA-ATATATTTTATTATTAT-TTTAAATTAA
*
603052 AAA-ATATTTTATTCTTATTTTAAATTAA
1 AAATATATTTTATTATTATTTTAAATTAA
*
603080 AAATATATTTTATTATTATCTTTAACTTTTAA
1 AAATATATTTTATTATTAT-TTTAA--ATTAA
603112 AAATATATT
1 AAATATATT
603121 AAAATATCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 14
0.80 0.07 0.14
Matches are distributed among these distances:
26 3 0.04
27 18 0.22
28 7 0.09
29 21 0.26
30 14 0.17
31 6 0.07
32 13 0.16
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTATTATTTTAAATTAA
Found at i:603263 original size:98 final size:95
Alignment explanation
Indices: 603160--603335 Score: 253
Period size: 95 Copynumber: 1.8 Consensus size: 95
603150 ATTAAGAATA
* *
603160 AAATATATTTTAAGTTAAGATATTTTAAAAATATATTTTTTAAAATTAAGATAAAAATAAAATAT
1 AAATATATTTTAAGTTAAGATATTTT--AAATATATATTTT-AAATGAAGATAAAAATAAAATAT
603225 ATACTTTTATATTAAATTATTAATAAAATTTTT
63 ATACTTTTATATTAAATTATTAATAAAATTTTT
* * ** *
603258 AAATATGTTTTAAGTTAAGATATTTTAAATATATATTTTAAATGATGATAAAGGTAAAGTATATA
1 AAATATATTTTAAGTTAAGATATTTTAAATATATATTTTAAATGAAGATAAAAATAAAATATATA
*
603323 TTTTTATATTAAA
66 CTTTTATATTAAA
603336 AATAAAATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
95 33 0.47
96 12 0.17
98 25 0.36
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (95 bp):
AAATATATTTTAAGTTAAGATATTTTAAATATATATTTTAAATGAAGATAAAAATAAAATATATA
CTTTTATATTAAATTATTAATAAAATTTTT
Found at i:603380 original size:25 final size:25
Alignment explanation
Indices: 603330--603395 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
603320 ATATTTTTAT
*
603330 ATTAAAAATAAAATATATTTAATAA
1 ATTAAAAATAAAATAAATTTAATAA
* *
603355 ATTAAGAA-AAAATAAATTATATTAA
1 ATTAAAAATAAAATAAATT-TAATAA
603380 ATATATTAAAATAAAA
1 AT-TA--AAAATAAAA
603396 GATATTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 9 0.28
25 14 0.44
26 2 0.06
28 3 0.09
29 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
ATTAAAAATAAAATAAATTTAATAA
Found at i:603395 original size:29 final size:29
Alignment explanation
Indices: 603333--603388 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
603323 TTTTTATATT
*
603333 AAAAATAAAATATATTTAATAAATTAAGA
1 AAAAATAAAATATATTAAATAAATTAAGA
* *
603362 AAAAATAAATTATATTAAATATATTAA
1 AAAAATAAAATATATTAAATAAATTAA
603389 AATAAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAATAAAATATATTAAATAAATTAAGA
Found at i:603423 original size:53 final size:55
Alignment explanation
Indices: 603327--603433 Score: 123
Period size: 54 Copynumber: 2.0 Consensus size: 55
603317 TATATATTTT
*
603327 TATATTAAAAATAAAATATATTTAATAAATTAAGAAAAAATAAATTAT-ATTAAA
1 TATATTAAAAATAAAATATATTTAATAAATTAAGAAAAAATAAAATATGATTAAA
* * * *
603381 TATATT-AAAATAAAAGATATTTTTAA-AATTTAAG-ATATATAAAATATGATTAA
1 TATATTAAAAAT-AAA-ATATATTTAATAAATTAAGAAAAAATAAAATATGATTAA
603434 TTTTTAAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
53 15 0.33
54 21 0.47
55 9 0.20
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (55 bp):
TATATTAAAAATAAAATATATTTAATAAATTAAGAAAAAATAAAATATGATTAAA
Found at i:613442 original size:18 final size:18
Alignment explanation
Indices: 613419--613479 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
613409 AAATGTTTAC
*
613419 AGTTATCAGATGATTTTT
1 AGTTATCATATGATTTTT
*
613437 AGTTATCATAT-ATTTAT
1 AGTTATCATATGATTTTT
* *
613454 AGATATCATATG-TTTTAC
1 AGTTATCATATGATTTT-T
613472 AGTTATCA
1 AGTTATCA
613480 AACATAGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 18 0.51
18 17 0.49
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (18 bp):
AGTTATCATATGATTTTT
Found at i:620294 original size:47 final size:49
Alignment explanation
Indices: 620238--620345 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 49
620228 AGCGCGGATT
* * *
620238 AGGTACCGCG-CTGTACCTTTA-CTG-TATAATTTTATATAGCGCGAGGC
1 AGGTACCGCGAC-ATACCTTTATCTGACATAATTTTATATAGCGAGAGGC
*
620285 AGGTACCGCGACATACCTTTATTCCTGACATAATTTTATATAGCGAGGGGC
1 AGGTACCGCGACATACCTTTA-T-CTGACATAATTTTATATAGCGAGAGGC
620336 AGGTACCGCG
1 AGGTACCGCG
620346 TTTAGTATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
47 18 0.35
48 1 0.02
50 3 0.06
51 30 0.58
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (49 bp):
AGGTACCGCGACATACCTTTATCTGACATAATTTTATATAGCGAGAGGC
Found at i:621666 original size:322 final size:322
Alignment explanation
Indices: 621081--621727 Score: 1258
Period size: 322 Copynumber: 2.0 Consensus size: 322
621071 TTCAGACGCC
621081 GCTATTGAGATGTATGTACATTTTGTTCAAGTGCGTGCTGTTTGGGGTCAATCATTAAGCTCCCA
1 GCTATTGAGATGTATGTACATTTTGTTCAAGTGCGTGCTGTTTGGGGTCAATCATTAAGCTCCCA
621146 CTATGGGCTGACTGAACAAGTTGATCAAGTTGACAGCCCGATGACAGTAATGTGTAATGCTTTTA
66 CTATGGGCTGACTGAACAAGTTGATCAAGTTGACAGCCCGATGACAGTAATGTGTAATGCTTTTA
621211 ATGCCATAATGGAGAGACATTCATCCGCAACTCCTTACGATATGTACCGAGGTAGGTCGACGAAC
131 ATGCCATAATGGAGAGACATTCATCCGCAACTCCTTACGATATGTACCGAGGTAGGTCGACGAAC
621276 AATCCGTATGGCAATATCGCGTCCAGTTCAAGGGGAAGGAATTCATCTGCAAATCCCTTTGACCT
196 AATCCGTATGGCAATATCGCGTCCAGTTCAAGGGGAAGGAATTCATCTGCAAATCCCTTTGACCT
621341 TAATATGGAGATGCCATCAATGCAACAATCTGTGCAGTTTCCATTTGACGCGATGGCTTCAA
261 TAATATGGAGATGCCATCAATGCAACAATCTGTGCAGTTTCCATTTGACGCGATGGCTTCAA
621403 GCTATTGAGATGTATGTACATTTTGTTCAAGTGCGTGCTGTTTGGGGTCAATCATTAAGCTCCCA
1 GCTATTGAGATGTATGTACATTTTGTTCAAGTGCGTGCTGTTTGGGGTCAATCATTAAGCTCCCA
621468 CTATGGGCTGACTGAACAAGTTGATCAAGTTGACAGCCCGATGACAGTAATGTGTAATGCTTTTA
66 CTATGGGCTGACTGAACAAGTTGATCAAGTTGACAGCCCGATGACAGTAATGTGTAATGCTTTTA
621533 ATGCCATAATGGAGAGACATTCATCCGCAACTCCTTACGATATGTACCGAGGTAGGTCGACGAAC
131 ATGCCATAATGGAGAGACATTCATCCGCAACTCCTTACGATATGTACCGAGGTAGGTCGACGAAC
* *
621598 AATCCGTATGGCAATATCGCGTCCAGTTCAAGGGGAAGGCATTCATCTGTAAATCCCTTTGACCT
196 AATCCGTATGGCAATATCGCGTCCAGTTCAAGGGGAAGGAATTCATCTGCAAATCCCTTTGACCT
* *
621663 TAATATGGAGATGCCATCGATGCAACCATCTGTGCAGTTTCCATTTGACGCGATGGCTTCAA
261 TAATATGGAGATGCCATCAATGCAACAATCTGTGCAGTTTCCATTTGACGCGATGGCTTCAA
621725 GCT
1 GCT
621728 CTAGGGGAAG
Statistics
Matches: 321, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
322 321 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (322 bp):
GCTATTGAGATGTATGTACATTTTGTTCAAGTGCGTGCTGTTTGGGGTCAATCATTAAGCTCCCA
CTATGGGCTGACTGAACAAGTTGATCAAGTTGACAGCCCGATGACAGTAATGTGTAATGCTTTTA
ATGCCATAATGGAGAGACATTCATCCGCAACTCCTTACGATATGTACCGAGGTAGGTCGACGAAC
AATCCGTATGGCAATATCGCGTCCAGTTCAAGGGGAAGGAATTCATCTGCAAATCCCTTTGACCT
TAATATGGAGATGCCATCAATGCAACAATCTGTGCAGTTTCCATTTGACGCGATGGCTTCAA
Found at i:624621 original size:64 final size:63
Alignment explanation
Indices: 624536--624695 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
624526 TTGTTTAAGG
* * * *
624536 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAACTAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAAT-GCATTTT
624599 A
63 A
* * *
624600 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATGCATTTTA
* *
624664 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT
624696 ACATTCATGA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 74 0.89
65 6 0.07
66 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATGCATTTTA
Found at i:625205 original size:17 final size:19
Alignment explanation
Indices: 625183--625218 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
625173 AATTTACATG
625183 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
625200 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
625219 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:625455 original size:30 final size:30
Alignment explanation
Indices: 625415--625503 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
625405 TATAGACAGT
* * *
625415 TTACCTAGGTTCTTTGGGACCTATGGATAG
1 TTACCGAGGTTCTTTGTGACCTCTGGATAG
* *
625445 TTGCCGAGGTTCTTTATGACCTCTGGATAG
1 TTACCGAGGTTCTTTGTGACCTCTGGATAG
* *
625475 TTACCG-GGGTCTGTGTGACCTCTGGATAG
1 TTACCGAGGTTCTTTGTGACCTCTGGATAG
625504 GTCCTTCGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 20 0.40
30 30 0.60
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (30 bp):
TTACCGAGGTTCTTTGTGACCTCTGGATAG
Found at i:625498 original size:29 final size:30
Alignment explanation
Indices: 625432--625503 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
625422 GGTTCTTTGG
* * * *
625432 GACCTATGGATAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTACCGAGGGTCTGTAT
*
625462 GACCTCTGGATAGTTACCG-GGGTCTGTGT
1 GACCTCTGGATAGTTACCGAGGGTCTGTAT
625491 GACCTCTGGATAG
1 GACCTCTGGATAG
625504 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTGTAT
Found at i:627108 original size:110 final size:111
Alignment explanation
Indices: 626914--627134 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
626904 ATTACAAAAA
* * * *
626914 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
626979 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
627025 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
627089 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
627135 ATGATTTCCA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 70 0.68
111 33 0.32
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:646116 original size:28 final size:28
Alignment explanation
Indices: 646080--646154 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 28
646070 TTTTTTCATC
646080 TAAGTACCTAAAGTATATTTGGTCAAAA
1 TAAGTACCTAAAGTATATTTGGTCAAAA
* *
646108 TAAGTACCTAAACTTGTCTTTTTGGTCAAAA
1 TAAGTACCTAAA---GTATATTTGGTCAAAA
646139 TAAGTACCTAAAGTAT
1 TAAGTACCTAAAGTAT
646155 TCAATTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 15 0.37
31 26 0.63
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (28 bp):
TAAGTACCTAAAGTATATTTGGTCAAAA
Found at i:651800 original size:21 final size:19
Alignment explanation
Indices: 651758--651794 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
651748 CCGATTTTAA
651758 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
651777 AAAATGTGTTGCGATAGT
1 AAAATGTGTTGCGATAGT
651795 GATAAATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:655179 original size:22 final size:22
Alignment explanation
Indices: 655151--655244 Score: 115
Period size: 22 Copynumber: 4.4 Consensus size: 22
655141 TTGCATTTCG
655151 CGTTGCGATAGTCTACAATTGT
1 CGTTGCGATAGTCTACAATTGT
* *
655173 CGTTGCGAT--TTTCCGAATT-T
1 CGTTGCGATAGTCTAC-AATTGT
*
655193 -GTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAATTGT
*
655214 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAATTGT
655236 CGTTGCGAT
1 CGTTGCGAT
655245 TTTCCAAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.13
20 7 0.11
21 8 0.13
22 39 0.63
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAATTGT
Found at i:655365 original size:5 final size:5
Alignment explanation
Indices: 655355--655396 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
655345 CACGACCACA
655355 ACCCG ACCCG ACCCG ACCACG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACC-CG ACCCG ACCCG ACCCG ACCCG A
655397 GACGGACAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.24, C:0.57, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:655373 original size:21 final size:21
Alignment explanation
Indices: 655347--655393 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
655337 CGTATTACCA
655347 CGACCACAACCCGACCCGACC
1 CGACCACAACCCGACCCGACC
*
655368 CGACCACGACCCGACCCGACC
1 CGACCACAACCCGACCCGACC
655389 CGACC
1 CGACC
655394 CGAGACGGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.57, G:0.17, T:0.00
Consensus pattern (21 bp):
CGACCACAACCCGACCCGACC
Found at i:655377 original size:16 final size:15
Alignment explanation
Indices: 655355--655396 Score: 75
Period size: 16 Copynumber: 2.7 Consensus size: 15
655345 CACGACCACA
655355 ACCCGACCCGACCCG
1 ACCCGACCCGACCCG
655370 ACCACGACCCGACCCG
1 ACC-CGACCCGACCCG
655386 ACCCGACCCGA
1 ACCCGACCCGA
655397 GACGGACAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.24, C:0.57, G:0.19, T:0.00
Consensus pattern (15 bp):
ACCCGACCCGACCCG
Found at i:656052 original size:20 final size:20
Alignment explanation
Indices: 656027--656144 Score: 119
Period size: 20 Copynumber: 5.8 Consensus size: 20
656017 ACTGTAGACT
656027 ATCGCAACGCGAAATGGAAC
1 ATCGCAACGCGAAATGGAAC
** **
656047 ATCGCAACGCGATTTTCAAC
1 ATCGCAACGCGAAATGGAAC
* *
656067 TATCGCAACGTGAAATGGAAA
1 -ATCGCAACGCGAAATGGAAC
*
656088 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAC
** **
656108 ATCGCAACGCGATTTTCAAC
1 ATCGCAACGCGAAATGGAAC
656128 TATCGCAACGCGAAATG
1 -ATCGCAACGCGAAATG
656145 CAACGCGAAT
Statistics
Matches: 77, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
20 50 0.65
21 27 0.35
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAC
Found at i:656175 original size:61 final size:61
Alignment explanation
Indices: 656027--656144 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 61
656017 ACTGTAGACT
* *
656027 ATCGCAACGCGAAATGGAACATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
656088 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
656145 CAACGCGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:658457 original size:15 final size:16
Alignment explanation
Indices: 658437--658470 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
658427 AGATATCCAT
658437 CAATCA-ACATCAATA
1 CAATCACACATCAATA
*
658452 CAATCACACATGAATA
1 CAATCACACATCAATA
658468 CAA
1 CAA
658471 ATATGCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (16 bp):
CAATCACACATCAATA
Found at i:666363 original size:30 final size:29
Alignment explanation
Indices: 666329--666408 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
666319 GTTCACAAAC
666329 AATAAATAAACGAACACGAACATCATCAAG
1 AATAAATAAACGAACACGAACAT-ATCAAG
* * *
666359 AATAAATAAATGAACATGTACACATATTAAG
1 AATAAATAAACGAACACG-A-ACATATCAAG
*
666390 AAT--TTAAACGAACACGAAC
1 AATAAATAAACGAACACGAAC
666409 CAAACATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 10 0.24
30 16 0.38
31 9 0.21
32 4 0.10
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (29 bp):
AATAAATAAACGAACACGAACATATCAAG
Found at i:668847 original size:114 final size:115
Alignment explanation
Indices: 668641--668855 Score: 306
Period size: 114 Copynumber: 1.9 Consensus size: 115
668631 AGCAGGTACC
* * * *
668641 TTTTTGTCTTAGTTAGCCATTACCTTGGTTTTATTGTACTTTTGAGGAATCAAATTATCATCTAG
1 TTTTTGTCTTAGTGAGCCATTACCTCGATTTTATTGCACTTTTGAGGAATCAAATTATCATCTAG
* *
668706 TTTCCTTTGGCATATCAAAGATAACTACTACTTTTTTCAAAATTATTACA
66 CTCCCTTTGGCATATCAAAGATAACTACTACTTTTTTCAAAATTATTACA
* * * ** *
668756 TTTTTGTCTTAGTGAGCCCTTTCGTCGATTTTATTGCAC-TTTGAGTTATCAAATTATCATCTTG
1 TTTTTGTCTTAGTGAGCCATTACCTCGATTTTATTGCACTTTTGAGGAATCAAATTATCATCTAG
*
668820 CTCCCTTTGGCATATCAAAGATTACTACTACTTTTT
66 CTCCCTTTGGCATATCAAAGATAACTACTACTTTTT
668856 CAACAGTCAC
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
114 55 0.63
115 32 0.37
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (115 bp):
TTTTTGTCTTAGTGAGCCATTACCTCGATTTTATTGCACTTTTGAGGAATCAAATTATCATCTAG
CTCCCTTTGGCATATCAAAGATAACTACTACTTTTTTCAAAATTATTACA
Found at i:679593 original size:21 final size:20
Alignment explanation
Indices: 679507--679664 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
679497 AAATGACCAA
**
679507 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
679526 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
679546 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
679566 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
679587 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
679608 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
679628 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
679650 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
679665 ACACATAAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.16
20 40 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:679655 original size:20 final size:20
Alignment explanation
Indices: 679567--679683 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
679557 ATCAGTTTCC
* *
679567 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
679587 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
679607 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
679628 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
679650 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
679669 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
679684 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:679693 original size:20 final size:20
Alignment explanation
Indices: 679651--679860 Score: 219
Period size: 20 Copynumber: 10.5 Consensus size: 20
679641 GCGAATATTA
* *
679651 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
679671 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
679691 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
679711 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
679731 AAATCGCAATGCGTATCTGT
1 AAATCGCAACGCGTATCCGT
*
679751 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
679771 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
679791 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
679811 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
679831 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
679851 AAATCACAAC
1 AAATCGCAAC
679861 ACTGAAATTT
Statistics
Matches: 161, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 158 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:680580 original size:24 final size:23
Alignment explanation
Indices: 680541--680586 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
680531 AAATTTGGTC
680541 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
680565 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
680587 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:680778 original size:12 final size:12
Alignment explanation
Indices: 680761--680785 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
680751 ATATAATCCT
680761 GAAGAAGAAAAA
1 GAAGAAGAAAAA
680773 GAAGAAGAAAAA
1 GAAGAAGAAAAA
680785 G
1 G
680786 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:683131 original size:34 final size:33
Alignment explanation
Indices: 683063--683291 Score: 322
Period size: 33 Copynumber: 6.9 Consensus size: 33
683053 CGGAAATTAC
683063 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
683096 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
683130 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
683163 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* * * * *
683196 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A
683228 GAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 -AATCGCAACGAGAGAATCGCAATGCGAAATGAA
683262 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAAT
683292 TATAAACGCA
Statistics
Matches: 173, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
31 7 0.04
32 8 0.05
33 114 0.66
34 36 0.21
35 8 0.05
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:683265 original size:47 final size:47
Alignment explanation
Indices: 683130--683283 Score: 254
Period size: 47 Copynumber: 3.2 Consensus size: 47
683120 CGGAAATGAA
683130 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
683177 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
683229 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
683276 AATCGCAA
1 AATCGCAA
683284 TGCGAAATTA
Statistics
Matches: 100, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
47 51 0.51
48 1 0.01
49 2 0.02
50 2 0.02
51 1 0.01
52 43 0.43
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (47 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:683467 original size:14 final size:14
Alignment explanation
Indices: 683448--683484 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
683438 CATCAATTAC
683448 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
683462 ACAAATCATCTTTT
1 ACAAATCAACTTTT
683476 ACAAATCAA
1 ACAAATCAA
683485 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:685458 original size:14 final size:14
Alignment explanation
Indices: 685439--685495 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
685429 GCGAAATGAA
*
685439 AATCGCAACGACAG
1 AATCGCAACGAAAG
685453 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
685470 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
685486 AATCGCAACG
1 AATCGCAACG
685496 CTAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:685466 original size:33 final size:33
Alignment explanation
Indices: 685420--685512 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
685410 GCGAAACCAA
*
685420 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
685453 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
685486 AATCGCAACGCTAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
685513 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:685477 original size:19 final size:19
Alignment explanation
Indices: 685383--685517 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
685373 TAGTTTACTT
* *
685383 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
685403 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
685422 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
685441 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
685455 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
685474 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
*
685488 TCGCAACGCTAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
685507 TCGCAATGCGA
1 TCGCAACGCGA
685518 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 10 0.11
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:685535 original size:19 final size:19
Alignment explanation
Indices: 685513--685589 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
685503 AAAATCGCAA
685513 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
685532 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
685546 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
685565 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
685585 TGCGA
1 TGCGA
685590 AAGTAAACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
14 11 0.23
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 20 0.42
20 13 0.27
ACGTcount: A:0.09, C:0.16, G:0.30, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:685753 original size:93 final size:93
Alignment explanation
Indices: 685637--686105 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
685627 ATGGATTGCA
685637 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
685701 TAGCATAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
685729 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
685794 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
685822 TTACTTTCAACCAAAAGACAAAACAAAGATAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
685887 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
685915 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
685980 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
686008 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
686073 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
686101 TTACT
1 TTACT
686106 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 368 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:687849 original size:19 final size:19
Alignment explanation
Indices: 687825--687908 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
687815 GCAACGAGAG
*
687825 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
687844 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
687863 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
687877 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
687896 AATCGCAATGCGA
1 AATCGCAACGCGA
687909 TTTTGGTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.71
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:687865 original size:52 final size:52
Alignment explanation
Indices: 687803--687908 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
687793 TCTTTTGGTT
*
687803 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGACAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGC
*
687855 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGC
687907 GA
1 GA
687909 TTTTGGTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (52 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:687952 original size:33 final size:33
Alignment explanation
Indices: 687904--687984 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
687894 AAAATCGCAA
**
687904 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
687937 TGCGATTTTCATTTCGCGTTGCGATTTTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
687970 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
687985 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:687977 original size:14 final size:14
Alignment explanation
Indices: 687915--687979 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 14
687905 GCGATTTTGG
*
687915 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
*
687929 TCTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
687943 TTTCATTTCGCGTTGCGAT
1 TTTC---T--CGTTGCGAT
687962 TTTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
687976 TTTC
1 TTTC
687980 ATTTCTCTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 28 0.65
16 1 0.02
17 1 0.02
19 13 0.30
ACGTcount: A:0.08, C:0.23, G:0.22, T:0.48
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:687990 original size:21 final size:21
Alignment explanation
Indices: 687960--688036 Score: 104
Period size: 21 Copynumber: 3.8 Consensus size: 21
687950 TCGCGTTGCG
687960 ATTT-TCTCGTTGCGATTTTC
1 ATTTCTCTCGTTGCGATTTTC
***
687980 ATTTCTCTCGTTGCGACAGTC
1 ATTTCTCTCGTTGCGATTTTC
688001 A-TTCTCTCGTTGCGATTTTC
1 ATTTCTCTCGTTGCGATTTTC
*
688021 ATTTATCTCGTTGCGA
1 ATTTCTCTCGTTGCGA
688037 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 21 0.44
21 27 0.56
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (21 bp):
ATTTCTCTCGTTGCGATTTTC
Found at i:688158 original size:33 final size:33
Alignment explanation
Indices: 688116--688186 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
688106 AATACTAACT
*
688116 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
688149 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
688182 TGAAA
1 TGAAA
688187 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:688421 original size:22 final size:22
Alignment explanation
Indices: 688369--688422 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
688359 TGGTTGTGAG
**
688369 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
688391 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
688413 GGATTTCTTC
1 GGATTTCTTC
688423 ACCGTAGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:688595 original size:20 final size:20
Alignment explanation
Indices: 688570--688763 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
688560 CTTTAAATAT
688570 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
688590 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
688612 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
688631 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
** **
688651 CGTATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
688671 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
688691 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
688711 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
688731 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
688751 CGCGTTGCGATTT
1 CGCGTTGCGATTT
688764 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:688757 original size:60 final size:60
Alignment explanation
Indices: 688570--688763 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
688560 CTTTAAATAT
**
688570 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* ** *** *
688631 CGCGTTGCGATATACGGATACGTATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
688691 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
688751 CGCGTTGCGATTT
1 CGCGTTGCGATTT
688764 TGGAAAATCG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 83 0.75
61 27 0.25
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:688780 original size:21 final size:21
Alignment explanation
Indices: 688750--688832 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
688740 ATTTTCATAT
*
688750 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
688771 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
688792 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
688813 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
688833 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:688823 original size:42 final size:43
Alignment explanation
Indices: 688730--688828 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
688720 ATTTATGTGT
* *
688730 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
688771 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
688813 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
688829 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:689869 original size:31 final size:32
Alignment explanation
Indices: 689813--689873 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
689803 ATAAAAAATA
* *
689813 AATTTGAAAGTTAGAGTGATTAAATTAAAAGT
1 AATTTAAAAGTTAGAGTAATTAAATTAAAAGT
689845 AATTTAAAAGTTA-AGTAATTAAATTAAAA
1 AATTTAAAAGTTAGAGTAATTAAATTAAAA
689874 AAAATTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (32 bp):
AATTTAAAAGTTAGAGTAATTAAATTAAAAGT
Found at i:690628 original size:67 final size:67
Alignment explanation
Indices: 690538--690668 Score: 226
Period size: 67 Copynumber: 2.0 Consensus size: 67
690528 AATTTTCCCC
*
690538 TGAAAAGACCAAGCAACTATAAGATCATAACGCATCATGGATGAGTATAAGATATGATCCGGCTT
1 TGAAAAGACCAAGCAACTATAAGATCATAACGCATCATGAATGAGTATAAGATATGATCCGGCTT
690603 AT
66 AT
* * *
690605 TGAAAAGACCAAGCAGCTGTAAGATCATAAGGCATCATGAATGAGTATAAGATATGATCCGGCT
1 TGAAAAGACCAAGCAACTATAAGATCATAACGCATCATGAATGAGTATAAGATATGATCCGGCT
690669 AAATAAGCCG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (67 bp):
TGAAAAGACCAAGCAACTATAAGATCATAACGCATCATGAATGAGTATAAGATATGATCCGGCTT
AT
Found at i:694398 original size:19 final size:20
Alignment explanation
Indices: 694361--694399 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
694351 TTTATTTTTT
694361 AAATTTATAATATAAATTAA
1 AAATTTATAATATAAATTAA
694381 AAATATTAT-ATA-AAATTAA
1 AAAT-TTATAATATAAATTAA
694400 TATATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTATAATATAAATTAA
Found at i:695108 original size:29 final size:26
Alignment explanation
Indices: 695064--695119 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 26
695054 TATATCTTAT
695064 GAAAAAAATAAAATTTAGATACTAAC
1 GAAAAAAATAAAATTTAGATACTAAC
*
695090 GAAATAAAAGTAATAATTTAGGTACTAAC
1 GAAA-AAAA-TAA-AATTTAGATACTAAC
695119 G
1 G
695120 TGCAATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 3 0.12
29 15 0.58
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (26 bp):
GAAAAAAATAAAATTTAGATACTAAC
Found at i:696464 original size:21 final size:21
Alignment explanation
Indices: 696440--696500 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
696430 AACTTTGAAA
696440 AAATGATTTTCAAAGTTTGGT
1 AAATGATTTTCAAAGTTTGGT
**
696461 AAATG--TTTC----TTT-AA
1 AAATGATTTTCAAAGTTTGGT
696475 AAATGATTTTCAAAGTTTGGT
1 AAATGATTTTCAAAGTTTGGT
696496 AAATG
1 AAATG
696501 TTTCTTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 4 0.14
19 4 0.14
20 3 0.10
21 10 0.34
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (21 bp):
AAATGATTTTCAAAGTTTGGT
Found at i:696477 original size:35 final size:35
Alignment explanation
Indices: 696438--696553 Score: 178
Period size: 35 Copynumber: 3.3 Consensus size: 35
696428 CCAACTTTGA
696438 AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
1 AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
696473 AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
1 AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
* * * *
696508 GAAAAATAGTTTTTCAAAGTTTGGTAGATGTTTGTTG
1 -AAAAAT-GATTTTCAAAGTTTGGTAAATGTTTCTTT
696545 AAAAATGAT
1 AAAAATGAT
696554 AATGGGATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
35 37 0.50
36 12 0.16
37 25 0.34
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.43
Consensus pattern (35 bp):
AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
Found at i:701077 original size:36 final size:36
Alignment explanation
Indices: 701037--701105 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 36
701027 ATTAAAATGG
*
701037 TTTTC-AAGTTTGGTAAATGTTTCTTTGAAAAATAGT
1 TTTTCAAAGTTTGGTAAATGTTT-GTTGAAAAATAGT
*
701073 TTTTCAAAGTTTGGTAGATGTTTGTTGAAAAAT
1 TTTTCAAAGTTTGGTAAATGTTTGTTGAAAAAT
701106 GATAATGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 14 0.47
37 16 0.53
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.46
Consensus pattern (36 bp):
TTTTCAAAGTTTGGTAAATGTTTGTTGAAAAATAGT
Found at i:712407 original size:2 final size:2
Alignment explanation
Indices: 712402--712441 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
712392 AAAAAAAAAA
712402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
712442 CATAAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:713934 original size:25 final size:26
Alignment explanation
Indices: 713901--713951 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
713891 ATTGTAGAAA
* * *
713901 TTCATCCCCTAACATTAAATTTTACG
1 TTCACCCCCTAACATAAAATCTTACG
713927 TTCACCCCCTAACATAAAATCTTAC
1 TTCACCCCCTAACATAAAATCTTAC
713952 ATTTATTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (26 bp):
TTCACCCCCTAACATAAAATCTTACG
Found at i:717466 original size:10 final size:10
Alignment explanation
Indices: 717451--717477 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
717441 CGCACGCACG
717451 CACGCACACA
1 CACGCACACA
717461 CACGCACACA
1 CACGCACACA
717471 CACGCAC
1 CACGCAC
717478 GTAGGCCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.52, G:0.11, T:0.00
Consensus pattern (10 bp):
CACGCACACA
Found at i:717567 original size:16 final size:16
Alignment explanation
Indices: 717546--717578 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
717536 TAAAAAATAA
717546 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
717562 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
717578 A
1 A
717579 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:717658 original size:10 final size:10
Alignment explanation
Indices: 717643--717701 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
717633 CATTTAATAA
717643 ATAAACGAAC
1 ATAAACGAAC
717653 ATAAACGAAC
1 ATAAACGAAC
** *
717663 ACGAAC-ATAA
1 ATAAACGA-AC
717673 ATGAACACGAAC
1 AT-AA-ACGAAC
717685 ATAAACGAAC
1 ATAAACGAAC
717695 ATAAACG
1 ATAAACG
717702 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 1 0.03
10 29 0.74
11 3 0.08
12 5 0.13
13 1 0.03
ACGTcount: A:0.58, C:0.20, G:0.12, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:717668 original size:16 final size:16
Alignment explanation
Indices: 717647--717695 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
717637 TAATAAATAA
717647 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
717663 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
717679 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
717695 A
1 A
717696 TAAACGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:718461 original size:14 final size:14
Alignment explanation
Indices: 718444--718489 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
718434 AATGAACATA
718444 AACGAACATAATCG
1 AACGAACATAATCG
* *
718458 AACGAACATAACCA
1 AACGAACATAATCG
718472 AACGAACATAATCG
1 AACGAACATAATCG
718486 AACG
1 AACG
718490 TTCACGAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.52, C:0.24, G:0.13, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:718464 original size:24 final size:25
Alignment explanation
Indices: 718424--718489 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 25
718414 GATTGTGTTA
*
718424 AACATAAAT-GAATGAACAT-AAACG
1 AACAT-AATCGAACGAACATAAAACG
718448 AACATAATCGAACGAACATAACCAAACG
1 AACATAATCGAACGAACAT-A--AAACG
718476 AACATAATCGAACG
1 AACATAATCGAACG
718490 TTCACGAACG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 3 0.08
24 14 0.39
28 19 0.53
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.14
Consensus pattern (25 bp):
AACATAATCGAACGAACATAAAACG
Found at i:718678 original size:12 final size:12
Alignment explanation
Indices: 718661--719061 Score: 321
Period size: 12 Copynumber: 34.2 Consensus size: 12
718651 TTACAAGCCT
718661 ACACGCACACAC
1 ACACGCACACAC
718673 ACACG--CACAC
1 ACACGCACACAC
* **
718683 GCACGTGCACAC
1 ACACGCACACAC
* *
718695 GCACG--CACGC
1 ACACGCACACAC
718705 ACACGCACACAC
1 ACACGCACACAC
*
718717 ACGCGCACACAC
1 ACACGCACACAC
* * *
718729 ACACGCGCGCGCGC
1 ACA--CGCACACAC
718743 ACACGCACACAC
1 ACACGCACACAC
*
718755 ACACGCACGCACGC
1 ACACGCA--CACAC
* *
718769 GCGCGCACACAC
1 ACACGCACACAC
718781 ACACGCACACAC
1 ACACGCACACAC
718793 ACACGCGCACACAC
1 ACA--CGCACACAC
* *
718807 ACGCGCACATAC
1 ACACGCACACAC
718819 ACACGCACACAC
1 ACACGCACACAC
718831 ACACGCACACAC
1 ACACGCACACAC
*
718843 ACACGCACGCAC
1 ACACGCACACAC
*
718855 ACACGCATACAC
1 ACACGCACACAC
718867 ACACGCACACAC
1 ACACGCACACAC
* *
718879 ACGCGCGCACAC
1 ACACGCACACAC
* * *
718891 ACGCACACACGC
1 ACACGCACACAC
* * *
718903 ACACGCGCGCGC
1 ACACGCACACAC
*
718915 ACA--CACACGC
1 ACACGCACACAC
*
718925 ACACG--CACGC
1 ACACGCACACAC
718935 ACACGCACACAC
1 ACACGCACACAC
718947 ACACG--CACAC
1 ACACGCACACAC
718957 ACA--CACACAC
1 ACACGCACACAC
* * *
718967 GCACGCGCACAT
1 ACACGCACACAC
718979 ACACGCACACAC
1 ACACGCACACAC
* *
718991 ACGCACACACAC
1 ACACGCACACAC
*
719003 ACACGCATACAC
1 ACACGCACACAC
719015 ACACG--CACAC
1 ACACGCACACAC
*
719025 GCACGCACACAC
1 ACACGCACACAC
*
719037 GCACG--CACAC
1 ACACGCACACAC
*
719047 ACGCGCACACAC
1 ACACGCACACAC
719059 ACA
1 ACA
719062 TAAATATAAC
Statistics
Matches: 313, Mismatches: 54, Indels: 44
0.76 0.13 0.11
Matches are distributed among these distances:
10 66 0.21
12 218 0.70
14 29 0.09
ACGTcount: A:0.35, C:0.49, G:0.15, T:0.01
Consensus pattern (12 bp):
ACACGCACACAC
Found at i:718714 original size:38 final size:38
Alignment explanation
Indices: 718662--719061 Score: 367
Period size: 38 Copynumber: 10.5 Consensus size: 38
718652 TACAAGCCTA
* * ***
718662 CACGCACACACACACGCACACGCACGTGCACACGCACG
1 CACGCACACGCACACACACACGCACACACACACGCACG
* *
718700 CACGCACACGCACACACACGCGCACACACACACGCGCG
1 CACGCACACGCACACACACACGCACACACACACGCACG
* * * * * *
718738 CGCGCACACGCACACACACACGCACGCACGCGCGCGCA
1 CACGCACACGCACACACACACGCACACACACACGCACG
* * * *
718776 CACACACACGCACACACACACGCGCACACACACGCGCA
1 CACGCACACGCACACACACACGCACACACACACGCACG
**
718814 CATACACACGCACACACACACGCACACACACACGCACG
1 CACGCACACGCACACACACACGCACACACACACGCACG
* * *
718852 CA--CACACGCATACACACACGCACACACACGCGCGCACA
1 CACGCACACGCACACACACACGCACACACA--CACGCACG
* * * * *
718890 CACGCACACACGCACACGCGCGCGCACACACACGCACACG
1 CACG--CACACGCACACACACACGCACACACACACGCACG
*
718930 CACGCACACGCACACACACACGCACACACACACACACG
1 CACGCACACGCACACACACACGCACACACACACGCACG
* * * * * * *
718968 CACGCGCA--CATACACGCACACACACGCACACACACA
1 CACGCACACGCACACACACACGCACACACACACGCACG
* * * *
719004 CACGCATACACACACGCACACGCACGCACACACGCACG
1 CACGCACACGCACACACACACGCACACACACACGCACG
* *
719042 CACACACGCGCACACACACA
1 CACGCACACGCACACACACA
719062 TAAATATAAC
Statistics
Matches: 297, Mismatches: 57, Indels: 16
0.80 0.15 0.04
Matches are distributed among these distances:
36 54 0.18
38 211 0.71
40 10 0.03
42 22 0.07
ACGTcount: A:0.35, C:0.49, G:0.15, T:0.01
Consensus pattern (38 bp):
CACGCACACGCACACACACACGCACACACACACGCACG
Found at i:719060 original size:26 final size:26
Alignment explanation
Indices: 718690--719061 Score: 306
Period size: 26 Copynumber: 14.2 Consensus size: 26
718680 CACGCACGTG
*
718690 CACACGCACGCACGCACACGCACACA
1 CACACGCACGCACACACACGCACACA
* * * * * *
718716 CACGCGCACACACACACGCGCGCGCG
1 CACACGCACGCACACACACGCACACA
*
718742 CACACGCA--CACACACACGCACGCA
1 CACACGCACGCACACACACGCACACA
* * * *
718766 CGCGCGCGCACACACACACGCACACA
1 CACACGCACGCACACACACGCACACA
* * * *
718792 CACACGCGCACACACACGCGCACATA
1 CACACGCACGCACACACACGCACACA
718818 CACACGCA--CACACACACGCACACA
1 CACACGCACGCACACACACGCACACA
*
718842 CACACGCACG--CACACACGCATACA
1 CACACGCACGCACACACACGCACACA
* * *
718866 CACACGCACACACACGCGCGCACACA
1 CACACGCACGCACACACACGCACACA
* * * * *
718892 CGCACACACGCACACGCGCGCGCACA
1 CACACGCACGCACACACACGCACACA
*
718918 CACACGCACACGCACGCACACGCACACA
1 CACACG--CACGCACACACACGCACACA
* * *
718946 CACACGCACACACACACACACGCACGCG
1 CACACG--CACGCACACACACGCACACA
**
718974 CACATACACGCACACACACGCACACACA
1 CACACGCACGCACACACACG--CACACA
* *
719002 CACACGCATACACACACGCACACGCACGCA
1 CACACGC--ACGCACA--CACACGCACACA
*
719032 CACACGCACGCACACACGCGCACACA
1 CACACGCACGCACACACACGCACACA
719058 CACA
1 CACA
719062 TAAATATAAC
Statistics
Matches: 279, Mismatches: 53, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
24 62 0.22
26 134 0.48
28 59 0.21
30 18 0.06
32 6 0.02
ACGTcount: A:0.35, C:0.49, G:0.15, T:0.01
Consensus pattern (26 bp):
CACACGCACGCACACACACGCACACA
Found at i:720210 original size:19 final size:19
Alignment explanation
Indices: 720186--720225 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
720176 TTTCAAAGCG
720186 AAAAAAAA-AGATTTTTATT
1 AAAAAAAACA-ATTTTTATT
*
720205 AAAAAAAACAATTTTTTTT
1 AAAAAAAACAATTTTTATT
720224 AA
1 AA
720226 CCTAGCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAAAAACAATTTTTATT
Found at i:724569 original size:27 final size:27
Alignment explanation
Indices: 724500--724576 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
724490 AACAAGAGCG
*
724500 GCAGTTGGAACTTCAACGACAGCAGCA
1 GCAGTTGGAACTTCAGCGACAGCAGCA
*
724527 GAAGTTGGAACTTCAGCGACAGCAGCA
1 GCAGTTGGAACTTCAGCGACAGCAGCA
*
724554 GCAGTTGGAACTTCAGCGGCAGC
1 GCAGTTGGAACTTCAGCGACAGC
724577 TGGAACTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.30, T:0.16
Consensus pattern (27 bp):
GCAGTTGGAACTTCAGCGACAGCAGCA
Found at i:724575 original size:18 final size:18
Alignment explanation
Indices: 724549--724594 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
724539 TCAGCGACAG
* *
724549 CAGCAGCAGTTGGAACTT
1 CAGCGGCAGCTGGAACTT
724567 CAGCGGCAGCTGGAACTT
1 CAGCGGCAGCTGGAACTT
724585 CAGCGGCAGC
1 CAGCGGCAGC
724595 GGCAACATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.28, G:0.33, T:0.15
Consensus pattern (18 bp):
CAGCGGCAGCTGGAACTT
Found at i:724594 original size:24 final size:24
Alignment explanation
Indices: 724591--724703 Score: 154
Period size: 24 Copynumber: 4.7 Consensus size: 24
724581 ACTTCAGCGG
* *
724591 CAGCGGCAACATCAGCTGGAACTA
1 CAGCGGCAGCAGCAGCTGGAACTA
724615 CAGCGGCAGCAGCAGCTGGAACTA
1 CAGCGGCAGCAGCAGCTGGAACTA
* *
724639 CAGCGGCATCAGCAGTTGGAACTA
1 CAGCGGCAGCAGCAGCTGGAACTA
* * * *
724663 CAGAGGCAGCATCAGATGGAACTC
1 CAGCGGCAGCAGCAGCTGGAACTA
724687 CAGCGGCAGCAGCAGCT
1 CAGCGGCAGCAGCAGCT
724704 TCGCCACCAT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.30, C:0.28, G:0.30, T:0.12
Consensus pattern (24 bp):
CAGCGGCAGCAGCAGCTGGAACTA
Found at i:724605 original size:18 final size:18
Alignment explanation
Indices: 724549--724606 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
724539 TCAGCGACAG
* * *
724549 CAGCAGCAGTTGGAACTT
1 CAGCGGCAGCTGGAACAT
*
724567 CAGCGGCAGCTGGAACTT
1 CAGCGGCAGCTGGAACAT
724585 CAGCGGCAGC-GGCAACAT
1 CAGCGGCAGCTGG-AACAT
724603 CAGC
1 CAGC
724607 TGGAACTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 2 0.06
18 34 0.94
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (18 bp):
CAGCGGCAGCTGGAACAT
Found at i:734984 original size:16 final size:16
Alignment explanation
Indices: 734956--734998 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
734946 TTTATCTCGT
*
734956 AAAATTATAAATAGTTA
1 AAAAATATAAATA-TTA
*
734973 ATAAAT-TAAATATTA
1 AAAAATATAAATATTA
734988 AAAAATATAAA
1 AAAAATATAAA
734999 ATAATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAAATATAAATATTA
Found at i:740040 original size:17 final size:17
Alignment explanation
Indices: 740009--740041 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
739999 AAATATCATT
740009 TTATTATTTATTTTAAA
1 TTATTATTTATTTTAAA
740026 TTATT-TTTATATTTAA
1 TTATTATTTAT-TTTAA
740042 TAATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTTTAAA
Found at i:740736 original size:22 final size:22
Alignment explanation
Indices: 740672--740736 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
740662 TTTTAAGCCC
* *
740672 TTTTAAATTTAATAAAAAATATTA
1 TTTTATATTTAAT-AATAA-ATTA
**
740696 TTTTATTATTT-ATTTTAAATTA
1 TTTTA-TATTTAATAATAAATTA
740718 TTTTATATTTAATAATAAA
1 TTTTATATTTAATAATAAA
740737 AATGTTTGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 5 0.15
22 15 0.45
23 2 0.06
24 7 0.21
25 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTATATTTAATAATAAATTA
Found at i:740739 original size:24 final size:24
Alignment explanation
Indices: 740672--740739 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
740662 TTTTAAGCCC
*
740672 TTTTAAATTTAATAA-AAAATATTA
1 TTTTATATTTAATAATAAAA-ATTA
**
740696 TTTTATTATTT-AT--TTTAAATTA
1 TTTTA-TATTTAATAATAAAAATTA
740718 TTTTATATTTAATAATAAAAAT
1 TTTTATATTTAATAATAAAAAT
740740 GTTTGTCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
21 5 0.15
22 11 0.32
23 2 0.06
24 12 0.35
25 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTATATTTAATAATAAAAATTA
Found at i:741105 original size:697 final size:695
Alignment explanation
Indices: 739932--741326 Score: 2572
Period size: 697 Copynumber: 2.0 Consensus size: 695
739922 ATAAAAATAA
739932 TTTCAAAGGTTGACGGTGGTTGATGGTGAACGATGATTATTTTAAGCCCTTTTAAATTTAATAAT
1 TTTCAAAGGTTGACGGTGGTTGATGGTGAACGATGATTATTTTAAGCCCTTTTAAATTTAATAAT
739997 AAAAATATCATTTTATTATTTATTTTAAATTATTTTTATATTTAATAATAAAAATGTTTGTCATA
66 AAAAATATCATTTTATTATTTATTTTAAATTATTTTTATATTTAATAATAAAAATGTTTGTCATA
740062 CAATAATAATAATAAAATAATAAATAGTGGTCAAAACAAAAATAATTCGAAAGTTCGTAAATAAA
131 CAATAATAATAATAAAATAATAAATAGTGGTCAAAACAAAAATAATTCGAAAGTTCGTAAATAAA
* *
740127 TTTAAAAAATTAAAAGTATAATGAATAAAATAAGAACGAGAGTAAAGTTCAGTGAAGAATAGTGT
196 TTAAAAAAATTAAAAATATAATGAATAAAATAAGAACGAGAGTAAAGTTCAGTGAAGAATAGTGT
740192 AATAATTTACCCTTCTATAATAGAATAGATAAACATGATATATATATATATATCACATTACATAT
261 AATAATTTACCCTTCTATAATAGAATAGATAAACATGATATATATATATATATCACATTACATAT
*
740257 TAATTAATATTTAGAGTGAAACATGACATTAACCCTATTAACAAGCATACTAATTCATTTTATGA
326 TAATTAATATTTAGAGTGAAACATGACATTAACCCTATTAACAAGCATAATAATTCATTTTATGA
740322 GATAATATTTAATAGCAATGTGAGTTTCATTTTCATGAAGACAAGATTCCAAAGTTGGATTTCTT
391 GATAATATTTAATAGCAATGTGAGTTTCATTTTCATGAAGACAAGATTCCAAAGTTGGATTTCTT
*
740387 ATTCCAAACAAACCAGAAAAACAAAAAAAAAAGGTACATATCTATAGGTGAAAGATGAAGAATCT
456 ATTCCAAACAAACCAGAAAAAC-AAAAAAAAAGGTACATATCCATAGGTGAAAGATGAAGAATCT
740452 AGGATAAGTTACATGTTTAGTACTTAAACTATCAGTTTTAATTTA-TTTAGTACCT-AACTTTTA
520 AGGATAAGTTACATGTTTAGTACTTAAACTATCAGTTTTAATTTATTTTAGTACCTAAACTTTTA
*
740515 TTCTTTCAAAATCATACTTAAAATTTAG-TTTTGTTTCATTTTAGTACATGTCGTTT-AAACTTT
585 TTCTTTCAAAATCATAATTAAAATTTAGTTTTTGTTTCATTTTAGTACATGTCGTTTAAAACTTT
740578 ACTTTTTGTTTCATTTTAGTAACTCGTTCAAAATTTAACGTTAA-T
650 ACTTTTTGTTTCATTTTAGTAACTCGTTCAAAATTTAACGTTAAGT
740623 TTTCAAAGGTTGACGGTGGTTGATGGTGAACGATGATTATTTTAAGCCCTTTTAAATTTAAT-A-
1 TTTCAAAGGTTGACGGTGGTTGATGGTGAACGATGATTATTTTAAGCCCTTTTAAATTTAATAAT
*
740686 AAAAATATTATTTTATTATTTATTTTAAATTA-TTTTATATTTAATAATAAAAATGTTTGTCATA
66 AAAAATATCATTTTATTATTTATTTTAAATTATTTTTATATTTAATAATAAAAATGTTTGTCATA
740750 CAATAATAATAATAATAAATAATAAATAGTGGTCAAAACAAAAATAATTCGAAAGTTCGTAAATA
131 CAATAATAATAAT-A-AAATAATAAATAGTGGTCAAAACAAAAATAATTCGAAAGTTCGTAAATA
740815 AATTAAAAAAAATTAAAAATATAATGAATAAAATAAGAACGAGAGTAAAGTTCAGTGAAGAATAG
194 AATT-AAAAAAATTAAAAATATAATGAATAAAATAAGAACGAGAGTAAAGTTCAGTGAAGAATAG
740880 TGTAATAATTTACCCTTCTATAATAGAAATAGATAAACATGATATATATATATATATATATCACA
258 TGTAATAATTTACCCTTCTATAATAG-AATAGATAAACATG----ATATATATATATATATCACA
*
740945 TTACATATTAAATTAATATTTAGAGTGAAACATGATATTAACCCTATTAACAAGCATAATAATTC
318 TTACATATT-AATTAATATTTAGAGTGAAACATGACATTAACCCTATTAACAAGCATAATAATTC
741010 ATTTTATGAGATAATATTTAATAGCAATGTGAGTTTCATTTTCATGAAGACAAGATTCCAAAGTT
382 ATTTTATGAGATAATATTTAATAGCAATGTGAGTTTCATTTTCATGAAGACAAGATTCCAAAGTT
741075 GGATTTCTTATTCCAAACAAACCAGAAAAACAAAAAAAAAGGTACATATCCATAGGTGAAAGATG
447 GGATTTCTTATTCCAAACAAACCAGAAAAACAAAAAAAAAGGTACATATCCATAGGTGAAAGATG
741140 AAGAATCTAGGATAAGTTACATGTTTAGTACTTAAACTATCAGTTTTAATTTATTTTAGTACCTA
512 AAGAATCTAGGATAAGTTACATGTTTAGTACTTAAACTATCAGTTTTAATTTATTTTAGTACCTA
*
741205 AACTTTTATTCTTTCAAAATCATAATTAAAATTTAGTTTTTGTTTCATTTTAGTACCTGTCGTTT
577 AACTTTTATTCTTTCAAAATCATAATTAAAATTTAGTTTTTGTTTCATTTTAGTACATGTCGTTT
741270 AAAACTTTACTTTTTGTTTCATTTTAGTAACTCGTTCAAAATTTAACGTTAAGT
642 AAAACTTTACTTTTTGTTTCATTTTAGTAACTCGTTCAAAATTTAACGTTAAGT
741324 TTT
1 TTT
741327 AAAAAGATTG
Statistics
Matches: 682, Mismatches: 8, Indels: 18
0.96 0.01 0.03
Matches are distributed among these distances:
688 45 0.07
689 32 0.05
690 54 0.08
691 146 0.21
692 14 0.02
696 115 0.17
697 159 0.23
698 35 0.05
699 27 0.04
700 51 0.07
701 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (695 bp):
TTTCAAAGGTTGACGGTGGTTGATGGTGAACGATGATTATTTTAAGCCCTTTTAAATTTAATAAT
AAAAATATCATTTTATTATTTATTTTAAATTATTTTTATATTTAATAATAAAAATGTTTGTCATA
CAATAATAATAATAAAATAATAAATAGTGGTCAAAACAAAAATAATTCGAAAGTTCGTAAATAAA
TTAAAAAAATTAAAAATATAATGAATAAAATAAGAACGAGAGTAAAGTTCAGTGAAGAATAGTGT
AATAATTTACCCTTCTATAATAGAATAGATAAACATGATATATATATATATATCACATTACATAT
TAATTAATATTTAGAGTGAAACATGACATTAACCCTATTAACAAGCATAATAATTCATTTTATGA
GATAATATTTAATAGCAATGTGAGTTTCATTTTCATGAAGACAAGATTCCAAAGTTGGATTTCTT
ATTCCAAACAAACCAGAAAAACAAAAAAAAAGGTACATATCCATAGGTGAAAGATGAAGAATCTA
GGATAAGTTACATGTTTAGTACTTAAACTATCAGTTTTAATTTATTTTAGTACCTAAACTTTTAT
TCTTTCAAAATCATAATTAAAATTTAGTTTTTGTTTCATTTTAGTACATGTCGTTTAAAACTTTA
CTTTTTGTTTCATTTTAGTAACTCGTTCAAAATTTAACGTTAAGT
Found at i:741273 original size:38 final size:36
Alignment explanation
Indices: 741230--741314 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 36
741220 AAAATCATAA
* *
741230 TTAAAATTTAGTTTTTGTTTCATTTTAGTACCTGTCGT
1 TTAAAATTTACTTTTTGTTTCATTTTAGTAAC--TCGT
741268 TTAAAACTTTACTTTTTGTTTCATTTTAGTAACTCGT
1 TTAAAA-TTTACTTTTTGTTTCATTTTAGTAACTCGT
*
741305 TCAAAATTTA
1 TTAAAATTTA
741315 ACGTTAAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 4 0.09
37 9 0.21
38 6 0.14
39 24 0.56
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (36 bp):
TTAAAATTTACTTTTTGTTTCATTTTAGTAACTCGT
Found at i:746242 original size:20 final size:22
Alignment explanation
Indices: 746211--746255 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
746201 AGTTAACACG
746211 TTTAGTACCTAAATTATCA-GT
1 TTTAGTACCTAAATTATCAGGT
*
746232 TTTAGTA-CTAAATTTTCAGGT
1 TTTAGTACCTAAATTATCAGGT
746253 TTT
1 TTT
746256 TCAAAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (22 bp):
TTTAGTACCTAAATTATCAGGT
Found at i:746751 original size:17 final size:16
Alignment explanation
Indices: 746711--746741 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
746701 TCAGCTAGTG
746711 AGTCGGGTCAATTTTC
1 AGTCGGGTCAATTTTC
*
746727 AGTTGGGTCAATTTT
1 AGTCGGGTCAATTTT
746742 TGGGTCGGGT
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:0.19, C:0.13, G:0.26, T:0.42
Consensus pattern (16 bp):
AGTCGGGTCAATTTTC
Found at i:750067 original size:60 final size:59
Alignment explanation
Indices: 749983--750124 Score: 167
Period size: 60 Copynumber: 2.4 Consensus size: 59
749973 CATGTCCTTC
* * *
749983 AATTATGACTTCATTCTAAGTTAGTCCCTAAACTTTTAAGTATTCCAATTTCATCTCAA
1 AATTATGACTTCATTATAAATTAGTCCCTAAACTTTTAAGCATTCCAATTTCATCTCAA
* * * * *
750042 AATTATGACTATCATTATAAATTAGTCCTTAAACTTTTAAGCATTTCATTTTCATCCCTA
1 AATTATGACT-TCATTATAAATTAGTCCCTAAACTTTTAAGCATTCCAATTTCATCTCAA
* **
750102 AACTATGATCTTCAAAATAAATT
1 AATTATGA-CTTCATTATAAATT
750125 GGTCTCCAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 10 0.14
60 58 0.83
61 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (59 bp):
AATTATGACTTCATTATAAATTAGTCCCTAAACTTTTAAGCATTCCAATTTCATCTCAA
Found at i:767930 original size:26 final size:27
Alignment explanation
Indices: 767901--767968 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
767891 TAACCTGGAA
**
767901 ACAATTAATAGTTT-AACGTGA-TCAAT
1 ACAATTAATAGTTTCAACGCAACT-AAT
*
767927 ACAATTAATAGTTTCCACGCAACTAAT
1 ACAATTAATAGTTTCAACGCAACTAAT
767954 ACAATTAATAGTTTC
1 ACAATTAATAGTTTC
767969 CCACATATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.38
27 22 0.59
28 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (27 bp):
ACAATTAATAGTTTCAACGCAACTAAT
Found at i:772545 original size:138 final size:136
Alignment explanation
Indices: 772297--772679 Score: 457
Period size: 138 Copynumber: 2.8 Consensus size: 136
772287 TGAACTTTTA
* * * * *
772297 AATTTGGGGAATATTCGATTTGGCCCTCGCTTTAATGTTCGAGGGTCCATTTCAATTATTCAATT
1 AATTTAGGAAATATTCGATTTGGCCCTCGC-TTAATG-TCGAGGGCCCATTTCGATTATTCGATT
* * * *
772362 CAATAATTGATTAAACTCAATTATGATTAATATTAGAGCCTCCATTTTAGGATTAATTTCACTTT
64 CAATAATTGGTTAAAATCAATTAAGATTAATATTAGAGCCTCCATTTTAGGATTAATCTCACTTT
772427 AGTCCCTT
129 AGTCCCTT
* *
772435 AATTTAGGAAATATTCGATTTGGCCCTCGTCTTAATGTCAAAGGGCCCATTTCGATTATTTGATT
1 AATTTAGGAAATATTCGATTTGGCCCTCG-CTTAATGTC-GAGGGCCCATTTCGATTATTCGATT
* *
772500 CAATAATTGGTTAAAATCAATTAGGATTAATATTAGAGCCTCCATTTTAGGCTTAATCTCACTTT
64 CAATAATTGGTTAAAATCAATTAAGATTAATATTAGAGCCTCCATTTTAGGATTAATCTCACTTT
*
772565 AGTCTCTT
129 AGTCCCTT
* * * * * * *
772573 AATTTA-GAGATTAATCAATTTGGTCCTCGCCTTAATGCCTGA-GGCTTCATTTTGATTATTCGA
1 AATTTAGGA-AATATTCGATTTGGCCCTCG-CTTAATGTC-GAGGGC-CCATTTCGATTATTCGA
*
772636 TTCAATAATTTGTTAAAA-CATGATTAAGATTAATATTAGAGCCT
62 TTCAATAATTGGTTAAAATCA--ATTAAGATTAATATTAGAGCCT
772680 ATAAATTTTA
Statistics
Matches: 213, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
137 9 0.04
138 182 0.85
139 22 0.10
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (136 bp):
AATTTAGGAAATATTCGATTTGGCCCTCGCTTAATGTCGAGGGCCCATTTCGATTATTCGATTCA
ATAATTGGTTAAAATCAATTAAGATTAATATTAGAGCCTCCATTTTAGGATTAATCTCACTTTAG
TCCCTT
Done.