Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 25 of 410
Found at i:6393269 original size:9 final size:9
Alignment explanation
Indices: 6393255--6393490 Score: 260
Period size: 9 Copynumber: 26.4 Consensus size: 9
6393245 GATTTATGTA
*
6393255 TTATGTAAG
1 TTATATAAG
*
6393264 TTATGTAAG
1 TTATATAAG
*
6393273 TTATAT-AT
1 TTATATAAG
*
6393281 TTATCTAAG
1 TTATATAAG
6393290 TTATATAAG
1 TTATATAAG
*
6393299 TTATGTAAG
1 TTATATAAG
* *
6393308 TTATGTATG
1 TTATATAAG
6393317 TTATATAAG
1 TTATATAAG
*
6393326 TTATGTAAG
1 TTATATAAG
*
6393335 TTATATATG
1 TTATATAAG
*
6393344 TTATATATG
1 TTATATAAG
6393353 TTATATAAG
1 TTATATAAG
*
6393362 TTATGTAAG
1 TTATATAAG
*
6393371 TTATATATG
1 TTATATAAG
6393380 TTATATAAG
1 TTATATAAG
* *
6393389 TTATGTATG
1 TTATATAAG
6393398 TTATATAAG
1 TTATATAAG
*
6393407 TTATGTAAG
1 TTATATAAG
* *
6393416 TTATGTATG
1 TTATATAAG
6393425 TTATATAAG
1 TTATATAAG
* *
6393434 TTATGTATG
1 TTATATAAG
6393443 TTATATAAG
1 TTATATAAG
*
6393452 TTATGTAAG
1 TTATATAAG
*
6393461 TTATAT-AT
1 TTATATAAG
*
6393469 TTATCTAAG
1 TTATATAAG
6393478 TTATATAAG
1 TTATATAAG
6393487 TTAT
1 TTAT
6393491 GTACGTTTTG
Statistics
Matches: 190, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
8 12 0.06
9 178 0.94
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (9 bp):
TTATATAAG
Found at i:6393319 original size:27 final size:27
Alignment explanation
Indices: 6393255--6393518 Score: 307
Period size: 27 Copynumber: 9.9 Consensus size: 27
6393245 GATTTATGTA
* * *
6393255 TTATGTAAGTTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAGTTATGTAAG
*
6393281 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
6393308 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * * *
6393335 TTATATATGTTATATATGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
6393362 TTATGTAAGTTATATATGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
6393389 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
6393416 TTATGTATGTTATATAAGTTATGTATG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * * *
6393443 TTATATAAGTTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
6393469 TTATCTAAGTTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
6393496 TTTTGTAAGCTATATAAATTATG
1 TTATGTAAGTTATATAAGTTATG
6393519 ATATCAAATA
Statistics
Matches: 206, Mismatches: 30, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
26 42 0.20
27 164 0.80
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:6393643 original size:15 final size:15
Alignment explanation
Indices: 6393623--6393678 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
6393613 AAGTAGCGGG
6393623 ATTAAATAATATTTA
1 ATTAAATAATATTTA
6393638 ATTAAATAATATTT-
1 ATTAAATAATATTTA
6393652 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
6393667 ATTAAATAATAT
1 ATTAAATAATAT
6393679 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:6393887 original size:24 final size:23
Alignment explanation
Indices: 6393855--6393922 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 23
6393845 ACTTAAATGG
6393855 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGA-GATAATATTTGTGA
6393879 TAAAACGGAGAATAATATTTGTGA
1 TAAAACGGAG-ATAATATTTGTGA
*
6393903 TAAAACGGATGAGAATATTT
1 TAAAACGGA-GATAATATTT
6393923 CAATAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (23 bp):
TAAAACGGAGATAATATTTGTGA
Found at i:6395053 original size:504 final size:508
Alignment explanation
Indices: 6394014--6395863 Score: 3473
Period size: 504 Copynumber: 3.6 Consensus size: 508
6394004 GAAACATCTC
* *
6394014 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTATACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
* * *
6394079 CAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
6394144 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
131 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
*
6394209 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAATTATA
196 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTAT-
6394274 AAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTA
260 -AAA--TA-T-ATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTA
6394339 TAACTTTTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATGAAAAAATAG
320 TAACTTTTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATGAAAAAATAG
6394404 TAATTTGAATATAATAATATCAAAAAAGCATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAA
385 TAATTTGAATATAATAATATCAAAAAAGCATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAA
6394469 ATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
450 ATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
6394528 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
6394593 CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
66 CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
6394658 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
131 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
6394723 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTAT-
196 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTATA
6394787 AA-A-A-ACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTATAACTT
261 AATATATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTATAACTT
6394849 TTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATGAAAAAATAGTAATTT
326 TTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATGAAAAAATAGTAATTT
6394914 GAATATAATAATATCAAAAAAGCATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAG
391 GAATATAATAATATCAAAAAAGCATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAG
6394979 GTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
456 GTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
6395032 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
6395097 CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
66 CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
6395162 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
131 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
6395227 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTAT-
196 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTATA
6395291 AA-A-A-ACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTATAACTT
261 AATATATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTATAACTT
6395353 TTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATGAAAAAATAGTAATTT
326 TTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATGAAAAAATAGTAATTT
6395418 GAATATAATAATATCAAAAAAGCATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAG
391 GAATATAATAATATCAAAAAAGCATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAG
6395483 GTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
456 GTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
*
6395536 TTTGAATTTTTTAATATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
6395601 CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
66 CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
6395666 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
131 AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
6395731 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTATA
196 AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTAT-
6395796 AAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTA
260 -AAA--TA-T-ATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTA
6395861 TAA
320 TAA
6395864 TGTAACACCC
Statistics
Matches: 1319, Mismatches: 7, Indels: 20
0.98 0.01 0.01
Matches are distributed among these distances:
504 1003 0.76
505 1 0.00
507 2 0.00
508 1 0.00
510 1 0.00
511 2 0.00
513 1 0.00
514 308 0.23
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (508 bp):
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTA
CAGCTCGATAGAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTATAAAATATTTAA
AATAAGGTTGGAGAGAATGTCAGCTATTGTTGTAATTCTAATGGACAAGCAAGCAACACGGTAAT
AAAATTAATTCATACCTATTCATACTTAAGTTGAATCGAATAATAATTAAGTTGAACCAATTATA
AATATATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAAGTAGTTATAACTT
TTAAAGAAATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATGAAAAAATAGTAATTT
GAATATAATAATATCAAAAAAGCATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAG
GTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
Found at i:6398544 original size:26 final size:26
Alignment explanation
Indices: 6398508--6398643 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
6398498 CATGATATTC
6398508 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6398534 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6398560 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6398586 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6398612 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6398638 TTATCA
1 TTATCA
6398644 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6404260 original size:72 final size:72
Alignment explanation
Indices: 6404184--6404327 Score: 200
Period size: 72 Copynumber: 2.0 Consensus size: 72
6404174 CGTTTTTTTT
* *
6404184 TTAAAAACGCCGGTACTC-CCTAAAAACCCTATAAAAACGACACCGTTTTCGTTAAACTGCTATA
1 TTAAAAACGCCGCTACTCTCCTAAAAACCCAATAAAAACGACACCGTTTTCGTT-AACTGCTATA
6404248 TTTTTTGC
65 TTTTTTGC
* * * ** *
6404256 TTAAAAACGCCGCTACTCTCCTAAATATCCAATTAAAACGACGTCGTTTTCGTTAACTGCTATGT
1 TTAAAAACGCCGCTACTCTCCTAAAAACCCAATAAAAACGACACCGTTTTCGTTAACTGCTATAT
6404321 TTTTTGC
66 TTTTTGC
6404328 GGCGTTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 34 0.54
73 29 0.46
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (72 bp):
TTAAAAACGCCGCTACTCTCCTAAAAACCCAATAAAAACGACACCGTTTTCGTTAACTGCTATAT
TTTTTGC
Found at i:6405367 original size:41 final size:41
Alignment explanation
Indices: 6405151--6405366 Score: 289
Period size: 41 Copynumber: 5.3 Consensus size: 41
6405141 TTATATGACT
*
6405151 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCGGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCGGGTC
*
6405192 TTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCGGGTC
6405233 TTTAGCGGCGTTTTACC-AAAGCGCCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCGGGTC
* * * *
6405273 TTTAGCGGCGTTTTA-TAAAAGCGCCGCTAATGTTC-TGTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCGGGTC
* * * *
6405312 TTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTC-TGTT
1 TTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCGGGTC
6405353 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
6405367 TCGTAAGACG
Statistics
Matches: 162, Mismatches: 9, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
39 16 0.10
40 55 0.34
41 86 0.53
42 5 0.03
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCGGGTC
Found at i:6405378 original size:40 final size:39
Alignment explanation
Indices: 6405151--6405391 Score: 223
Period size: 41 Copynumber: 6.0 Consensus size: 39
6405141 TTATATGACT
* * * *
6405151 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCGGGTC
1 TTTAGCGGCGTTTTTCTAAAA-CGCCGCTAATGCTC-TGTC
* * * *
6405192 TTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTTCTAAAA-CGCCGCTAATGCTC-TGTC
* * * *
6405233 TTTAGCGGCGTTTTACCAAAGCGCCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTTCTAAAACGCCGCTAATGCTC-TGTC
* * *
6405273 TTTAGCGGCG-TTTTATAAAAGCGCCGCTAATGTTCTGTT
1 TTTAGCGGCGTTTTTCTAAAA-CGCCGCTAATGCTCTGTC
* *
6405312 TTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTCTGTT
1 TTTAGCGGCG-TTTTT-CTAAAACGCCGCTAATGCTCTGTC
* *
6405353 TTTAGCGGCGTTTTTCGTAAGACGCCGCTATTGCTCTGT
1 TTTAGCGGCGTTTTTC-TAAAACGCCGCTAATGCTCTGT
6405392 GTTTGACAAT
Statistics
Matches: 180, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
39 19 0.11
40 68 0.38
41 88 0.49
42 5 0.03
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (39 bp):
TTTAGCGGCGTTTTTCTAAAACGCCGCTAATGCTCTGTC
Found at i:6405391 original size:81 final size:79
Alignment explanation
Indices: 6405151--6405366 Score: 281
Period size: 81 Copynumber: 2.7 Consensus size: 79
6405141 TTATATGACT
* * *
6405151 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCGGGTCTTTAGCGACGTTTTACCAAAAGCG
1 TTTAGCGGCGTTTTACCAAAA-CGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTA-TAAAAGCG
*
6405216 CCGCTAATGCTCGGGTC
64 CCGCTAATGCTC-TGTC
*
6405233 TTTAGCGGCGTTTTACCAAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTATAAAAGCGCC
1 TTTAGCGGCGTTTTACCAAAACGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTATAAAAGCGCC
* *
6405298 GCTAATGTTCTGTT
66 GCTAATGCTCTGTC
* * * *
6405312 TTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTC-TGTTTTTAGCGGCGTTTT
1 TTTAGCGGCG--TTTTACCAAAACGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTT
6405367 TCGTAAGACG
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 12 0.10
80 34 0.28
81 54 0.45
82 20 0.17
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (79 bp):
TTTAGCGGCGTTTTACCAAAACGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTATAAAAGCGCC
GCTAATGCTCTGTC
Found at i:6405585 original size:11 final size:12
Alignment explanation
Indices: 6405516--6405590 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 12
6405506 AGTTTAAGTA
6405516 TATTCTAAAT-AT
1 TATT-TAAATAAT
*
6405528 TAATTAAATAAT
1 TATTTAAATAAT
*
6405540 GTATTTTAATAAT
1 -TATTTAAATAAT
6405553 TGATTCTAATTATAAT
1 T-ATT-TAA--ATAAT
6405569 TATTTAAATAA-
1 TATTTAAATAAT
*
6405580 TATTTATATAA
1 TATTTAAATAA
6405591 ATATATTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
11 15 0.29
12 10 0.19
13 13 0.25
14 5 0.10
15 3 0.06
16 6 0.12
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTTAAATAAT
Found at i:6417660 original size:17 final size:18
Alignment explanation
Indices: 6417632--6417665 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6417622 AATTTCTATT
6417632 CAATTTATATCCTAATTC
1 CAATTTATATCCTAATTC
6417650 CAATTTA-ATCCTAATT
1 CAATTTATATCCTAATT
6417666 AACTCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTATATCCTAATTC
Found at i:6418111 original size:14 final size:15
Alignment explanation
Indices: 6418087--6418115 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6418077 GAATGGCTTC
6418087 TGCTATTCTTTCTTT
1 TGCTATTCTTTCTTT
6418102 TGCT-TTCTTTCTTT
1 TGCTATTCTTTCTTT
6418116 ATTTCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (15 bp):
TGCTATTCTTTCTTT
Found at i:6418148 original size:2 final size:2
Alignment explanation
Indices: 6418141--6418171 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6418131 TATCTTTTAC
6418141 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 A
6418172 AGTTAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6418822 original size:20 final size:19
Alignment explanation
Indices: 6418776--6418822 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
6418766 GCCCTTTTTT
*
6418776 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
6418796 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
6418816 CCTAATT
1 CCTAATT
6418823 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:6428389 original size:14 final size:14
Alignment explanation
Indices: 6428370--6428396 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6428360 AGTCAAATAG
6428370 TAAATAAAATAAAT
1 TAAATAAAATAAAT
6428384 TAAATAAAATAAA
1 TAAATAAAATAAA
6428397 ACCATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAATAAAT
Found at i:6429330 original size:43 final size:42
Alignment explanation
Indices: 6429282--6429404 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
6429272 GTGATTTCGG
* *
6429282 GTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTACGT
1 GTAAGACCATGTCTGGGACATT-GCATTGATATGAGATAACAT
* * * ** *
6429325 GTAAGACCCTGTTTGGGACAGATGCATCAATATGTGATAACAT
1 GTAAGACCATGTCTGGGACA-TTGCATTGATATGAGATAACAT
* * *
6429368 GTAAGACCATATCTGGGATATTGCATTG-TATGTGATA
1 GTAAGACCATGTCTGGGACATTGCATTGATATGAGATA
6429405 TATGTGTTTC
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
41 9 0.14
42 5 0.08
43 49 0.77
44 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACATTGCATTGATATGAGATAACAT
Found at i:6431262 original size:26 final size:26
Alignment explanation
Indices: 6431233--6431342 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
6431223 TGATACAAAT
6431233 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6431259 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6431285 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6431311 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6431337 TGATAA
1 TGATAA
6431343 GAATTTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6433370 original size:136 final size:136
Alignment explanation
Indices: 6433125--6433546 Score: 754
Period size: 136 Copynumber: 3.1 Consensus size: 136
6433115 GAGTAGTCTC
* * *
6433125 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATATATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
6433190 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6433255 ACTGTTA
130 ACTGTTA
6433262 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
6433327 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
6433392 CTGTTA
131 CTGTTA
6433398 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
6433463 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
6433528 CTGTTA
131 CTGTTA
**
6433534 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6433547 AGGCCCAATA
Statistics
Matches: 276, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 256 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:6434759 original size:26 final size:26
Alignment explanation
Indices: 6434723--6434806 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6434713 TGATACAAAT
6434723 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6434749 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6434775 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6434801 TGATAA
1 TGATAA
6434807 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:6436826 original size:137 final size:137
Alignment explanation
Indices: 6436580--6437003 Score: 758
Period size: 137 Copynumber: 3.1 Consensus size: 137
6436570 GAGTAGTCTC
* *
6436580 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCATAC
* *
6436645 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6436710 ACTGTTA
131 ACTGTTA
6436717 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCATAC
*
6436782 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6436847 ACTGTTA
131 ACTGTTA
6436854 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
6436919 TATTATCTGAATAAGGGGCTAAGGCCCATTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6436984 ACTGTTA
131 ACTGTTA
**
6436991 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6437004 AGGCCCAATA
Statistics
Matches: 276, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 276 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:6438108 original size:20 final size:20
Alignment explanation
Indices: 6438085--6438122 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6438075 TTTTTGTAAT
*
6438085 ATTTTTTTGTAATATTTTTA
1 ATTTTTTTGCAATATTTTTA
6438105 ATTTTTTTGCAATATTTT
1 ATTTTTTTGCAATATTTT
6438123 GCTCTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTTTTTGCAATATTTTTA
Found at i:6438122 original size:13 final size:13
Alignment explanation
Indices: 6438074--6438103 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6438064 TCTTTTTTCA
6438074 TTTTTTGTAATAT
1 TTTTTTGTAATAT
6438087 TTTTTTGTAATAT
1 TTTTTTGTAATAT
6438100 TTTT
1 TTTT
6438104 AATTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTTTTGTAATAT
Found at i:6439329 original size:19 final size:19
Alignment explanation
Indices: 6439282--6439330 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
6439272 TCTTCTTTTT
* *
6439282 TTTTTTTTCTTTGTTCTCC
1 TTTTATTTCTTTATTCTCC
*
6439301 TTTTAATTCTTTATTC-CC
1 TTTTATTTCTTTATTCTCC
6439319 TTTATATTTCTT
1 TTT-TATTTCTT
6439331 ATTAAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.10, C:0.18, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTATTTCTTTATTCTCC
Found at i:6439757 original size:17 final size:16
Alignment explanation
Indices: 6439710--6439758 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
6439700 TCACTTAAAA
6439710 AATTTT-ATTTTTTTAT
1 AATTTTAATTTTTTT-T
**
6439726 AATTTTAATGATTTTT
1 AATTTTAATTTTTTTT
6439742 AGATTTTAATTTTTTTT
1 A-ATTTTAATTTTTTTT
6439759 TTAATTTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
AATTTTAATTTTTTTT
Found at i:6443058 original size:29 final size:29
Alignment explanation
Indices: 6443003--6443058 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
6442993 GTAAACCATA
*
6443003 AAATTTTTAAGAGGTCAAAGTTGAATTAC
1 AAATTTTTAAGAGGTCAAAGTTAAATTAC
*
6443032 AAATTTTTAAGATGTCAAA-TATAAATT
1 AAATTTTTAAGAGGTCAAAGT-TAAATT
6443059 TTATCACGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (29 bp):
AAATTTTTAAGAGGTCAAAGTTAAATTAC
Found at i:6448011 original size:13 final size:13
Alignment explanation
Indices: 6447993--6448018 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6447983 GTTTTTAACT
6447993 TAAAAAATAAAAA
1 TAAAAAATAAAAA
6448006 TAAAAAATAAAAA
1 TAAAAAATAAAAA
6448019 AACTGATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:6452874 original size:25 final size:25
Alignment explanation
Indices: 6452840--6452892 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
6452830 TTTTTGGAGA
*
6452840 AAAAAGGAGAGAGATTAGAATACAAG
1 AAAAAGGAGAG-GATTACAATACAAG
* *
6452866 AAAAA-GAGAGGCTTTCAATACAAG
1 AAAAAGGAGAGGATTACAATACAAG
6452890 AAA
1 AAA
6452893 TACACGAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 5 0.21
26 5 0.21
ACGTcount: A:0.57, C:0.08, G:0.23, T:0.13
Consensus pattern (25 bp):
AAAAAGGAGAGGATTACAATACAAG
Found at i:6453253 original size:21 final size:21
Alignment explanation
Indices: 6453229--6453268 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6453219 TGTTTCTATT
* *
6453229 ATTATTTTTTTCGTTATTTCC
1 ATTATTATTATCGTTATTTCC
6453250 ATTATTATTATCGTTATTT
1 ATTATTATTATCGTTATTT
6453269 TCTATTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.65
Consensus pattern (21 bp):
ATTATTATTATCGTTATTTCC
Found at i:6453341 original size:33 final size:31
Alignment explanation
Indices: 6453297--6453373 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
6453287 TCGTTTGTTT
* *
6453297 ATTATTATTATTATTTTTAACACTATTATCATC
1 ATTA-TATTATTATTTTTAA-AATATTATCACC
*
6453330 ATTATA-T-TTATTTTTTAAAATATTATTACC
1 ATTATATTATTA-TTTTTAAAATATTATCACC
6453360 ATTATATTATTATT
1 ATTATATTATTATT
6453374 ATTACTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 18 0.47
31 11 0.29
32 5 0.13
33 4 0.11
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTATATTATTATTTTTAAAATATTATCACC
Found at i:6453389 original size:17 final size:20
Alignment explanation
Indices: 6453350--6453392 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6453340 TTTTTTAAAA
6453350 TATTATTACCATTATATTAT
1 TATTATTACCATTATATTAT
* * *
6453370 TATTATTACTATTTTTTTAT
1 TATTATTACCATTATATTAT
6453390 TAT
1 TAT
6453393 CCGTCCTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATTACCATTATATTAT
Found at i:6453716 original size:125 final size:128
Alignment explanation
Indices: 6453552--6453806 Score: 331
Period size: 125 Copynumber: 2.0 Consensus size: 128
6453542 ATTTTTCAAG
* *
6453552 TAAAGGCAATATTTGGTACTTGAAAATTCGAGAAATCGTGTCCTAACGTACTGGATTTTG-GTTT
1 TAAAGGCAATATTTGGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTGGATTTCGAGTTT
* *
6453616 TTCGTTTGATCTAAGTAACCGATTATCC-TTTT-AAATTAAAATACATGAGTTTTAAATAAAA
66 TTCGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
* * * * *
6453677 TAAAGGCAATATTCT-GTA-TTTAGAAATTCGAGTAGTCGTGCCCTAACGTACTGGGTTTCGATT
1 TAAAGGCAATATT-TGGTACTTGA-AAATTCGAGAAATCGTGCCCTAACGTACTGGATTTCGAGT
* ** * *
6453740 TTTTTGTTTGATCTAAATATTCGAATATCCTTTTTAAAATTTAAATACATGAGTTTTAAATGAAA
64 TTTTCGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
6453805 TA
1 TA
6453807 GAAGACAAGC
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
124 3 0.03
125 48 0.43
126 27 0.24
127 4 0.04
128 29 0.26
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (128 bp):
TAAAGGCAATATTTGGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTGGATTTCGAGTTT
TTCGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
Found at i:6453834 original size:126 final size:125
Alignment explanation
Indices: 6453587--6453858 Score: 282
Period size: 126 Copynumber: 2.2 Consensus size: 125
6453577 ATTCGAGAAA
* * *
6453587 TCGTGTCCTAACGTACTGGATTTTGGTTTTTCGTTTGATCTAAGTAACCGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTGGATTTCGGTTTTTCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
* * * * *
6453652 TAAAATACATGAGTTTTAAATAAAATAAAGGCAATATTCTGTATTTAGAAATTCGA-GTAG
66 TAAAATACATGAGTTTTAAATAAAATAAAGACAATACTCTATATCTAGAAAGTCGAGGT-G
* * * * **
6453712 TCGTGCCCTAACGTACTGGGTTTCGATTTTTTTGTTTGATCTAAATATTCGAATATCCTTTTTAA
1 TCGTGTCCTAACGTACTGGATTTCG-GTTTTTCGTTTGATCTAAATAACCGAATATCC-TTTT-A
* * * * *
6453777 AATTTAAATACATGAGTTTTAAATGAAATAGAAGACAA-GCTC-ATA-CTCGAAGGTCGAGGTG
63 AATTAAAATACATGAGTTTTAAATAAAATA-AAGACAATACTCTATATCTAGAAAGTCGAGGTG
* *
6453838 TTGTGTCCTAACATACTGGAT
1 TCGTGTCCTAACGTACTGGAT
6453859 ATAACATTTT
Statistics
Matches: 119, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
125 22 0.18
126 52 0.44
127 8 0.07
128 31 0.26
129 6 0.05
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTGGATTTCGGTTTTTCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
TAAAATACATGAGTTTTAAATAAAATAAAGACAATACTCTATATCTAGAAAGTCGAGGTG
Found at i:6454938 original size:14 final size:14
Alignment explanation
Indices: 6454919--6454956 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
6454909 GTTTGCCAGT
*
6454919 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
6454933 AAAATGATTTCTGG
1 AAAATGATTTCCGG
6454947 AAAATGATTT
1 AAAATGATTT
6454957 ATTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:6455320 original size:2 final size:2
Alignment explanation
Indices: 6455313--6455338 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6455303 TACTCATGTC
6455313 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6455339 TAATATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6460039 original size:46 final size:46
Alignment explanation
Indices: 6459987--6460253 Score: 329
Period size: 46 Copynumber: 5.8 Consensus size: 46
6459977 AGTGTGCTCT
* *
6459987 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
6460033 CTGATATGAAATGTGTAAGACCATGGTTGAAATATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
6460079 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6460125 CTGACATGAAATGAGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
6460171 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
6460218 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
6460254 TTATGACATC
Statistics
Matches: 196, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 155 0.79
47 41 0.21
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6460148 original size:92 final size:92
Alignment explanation
Indices: 6459988--6460253 Score: 363
Period size: 92 Copynumber: 2.9 Consensus size: 92
6459978 GTGTGCTCTC
* ** * * *
6459988 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAAA
* *
6460053 CCATGGTTGAAATATACCATGACAACG
66 CCATGGTTGAAAGATACCATGACAACA
*
6460080 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGACATGAAATGAGTAAAA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAAA
*
6460145 CCATGGTTGAAAGATACCATGGCAACA
66 CCATGGTTGAAAGATACCATGACAACA
*** * *
6460172 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAGTAA
*
6460236 AACCATAGTTGAAAGATA
64 AACCATGGTTGAAAGATA
6460254 TTATGACATC
Statistics
Matches: 155, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
92 87 0.56
93 68 0.44
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAAA
CCATGGTTGAAAGATACCATGACAACA
Found at i:6461422 original size:12 final size:12
Alignment explanation
Indices: 6461371--6461437 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
6461361 TTTCATTAAA
6461371 TAAAA-AAAT-T
1 TAAAATAAATAT
*
6461381 TAAAATATAATAAA
1 TAAAATA-AAT-AT
* *
6461395 TCAAATACAT-T
1 TAAAATAAATAT
6461406 TAAAATAAATAT
1 TAAAATAAATAT
* *
6461418 TAAAACAAGTAT
1 TAAAATAAATAT
6461430 TAAAATAA
1 TAAAATAA
6461438 GAAACAAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 5 0.12
11 9 0.21
12 21 0.49
13 2 0.05
14 6 0.14
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (12 bp):
TAAAATAAATAT
Found at i:6461551 original size:34 final size:33
Alignment explanation
Indices: 6461482--6461551 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
6461472 AACAATACAC
* * *
6461482 AAATTGAAAATATAATAAAAAGTGATTATATTA
1 AAATTGAAAATAAAATAAAAAGTGATTAAAATA
*
6461515 AAATTGAAAATAAAATGTAAATA-TGATTAAAATA
1 AAATTGAAAATAAAA--TAAAAAGTGATTAAAATA
6461549 AAA
1 AAA
6461552 AATATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 14 0.45
34 12 0.39
35 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (33 bp):
AAATTGAAAATAAAATAAAAAGTGATTAAAATA
Found at i:6470916 original size:28 final size:27
Alignment explanation
Indices: 6470879--6470933 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6470869 AAATTATACA
* * *
6470879 TTTAATCACTCAACTATAAAAATTTTAT
1 TTTAAGCACTCAA-AATAAAAAATTTAT
*
6470907 TTTAAGCACTTAAAATAAAAAATTTAT
1 TTTAAGCACTCAAAATAAAAAATTTAT
6470934 AATTTAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTAAGCACTCAAAATAAAAAATTTAT
Found at i:6477739 original size:35 final size:35
Alignment explanation
Indices: 6477688--6477755 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
6477678 GATCGAATGT
* *
6477688 CTAACCTCATGGTTAAGGGATATGATAAACAACAA
1 CTAACCTCATGATTAAGGGATAAGATAAACAACAA
6477723 CTAACCTCATGATTAAGGGATAAGATAAACAAC
1 CTAACCTCATGATTAAGGGATAAGATAAACAAC
6477756 CATTCACACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (35 bp):
CTAACCTCATGATTAAGGGATAAGATAAACAACAA
Found at i:6478336 original size:19 final size:20
Alignment explanation
Indices: 6478306--6478346 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
6478296 AGAATGAAGA
6478306 TATTCAATTCTTTTCATTTT
1 TATTCAATTCTTTTCATTTT
6478326 TATTC-ATTCTTTTCATTTT
1 TATTCAATTCTTTTCATTTT
6478345 TA
1 TA
6478347 AATATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTCAATTCTTTTCATTTT
Found at i:6478611 original size:27 final size:27
Alignment explanation
Indices: 6478580--6478633 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6478570 GTCTCTCTAA
* *
6478580 AAAAAATTCAAAATAAATTTTAAAATTC
1 AAAATATTCAAAA-AAATTTCAAAATTC
* *
6478608 AAAATATTTATAAAAATTTCAAAATT
1 AAAATATTCAAAAAAATTTCAAAATT
6478634 TATATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAATATTCAAAAAAATTTCAAAATTC
Found at i:6478623 original size:19 final size:19
Alignment explanation
Indices: 6478581--6478632 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
6478571 TCTCTCTAAA
6478581 AAAAATTCAAAATAAATTTT
1 AAAAATTCAAAAT-AATTTT
6478601 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
6478619 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
6478633 TTATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.14
18 1 0.03
19 16 0.55
20 8 0.28
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:6480920 original size:116 final size:116
Alignment explanation
Indices: 6480750--6480971 Score: 428
Period size: 116 Copynumber: 1.9 Consensus size: 116
6480740 GTTCCTTTTA
6480750 TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
1 TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
6480815 ACTAGTTTGCCTTGAGTTCTTTGCTGA-TGCACTTGCAGTGCACTATTGTCT
66 ACTAGTTTGCCTTGAGTTCTTTGCT-ATTGCACTTGCAGTGCACTATTGTCT
6480866 TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
1 TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
6480931 ACTAGTTTGCCTTGAGTTCTTTGCTATTGCACTTGCAGTGC
66 ACTAGTTTGCCTTGAGTTCTTTGCTATTGCACTTGCAGTGC
6480972 GCTAAGCCTT
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
115 1 0.01
116 104 0.99
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.42
Consensus pattern (116 bp):
TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
ACTAGTTTGCCTTGAGTTCTTTGCTATTGCACTTGCAGTGCACTATTGTCT
Found at i:6486713 original size:26 final size:27
Alignment explanation
Indices: 6486642--6486718 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
6486632 AAATATTAAT
6486642 AAAATATTATAAAGAAATTAGAAATGATAGA
1 AAAATA-TAT-AA-AAATTA-AAATGATAGA
*
6486673 AAATTATATCAAAAATTAAAATGATA-A
1 AAAATATAT-AAAAATTAAAATGATAGA
6486700 AAGAATATATAAAAATTAA
1 AA-AATATATAAAAATTAA
6486719 TAAAAAAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.29
28 14 0.33
29 6 0.14
30 5 0.12
31 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATATATAAAAATTAAAATGATAGA
Found at i:6486978 original size:20 final size:21
Alignment explanation
Indices: 6486941--6486985 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6486931 GCAGTAATTT
*
6486941 TTATTAAGAAGTT-TTAAATA
1 TTATTAAGAAGTTCTAAAATA
6486961 TTATTAA-AAGTTACTAAAATA
1 TTATTAAGAAGTT-CTAAAATA
6486982 TTAT
1 TTAT
6486986 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
TTATTAAGAAGTTCTAAAATA
Found at i:6488998 original size:16 final size:15
Alignment explanation
Indices: 6488977--6489006 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6488967 AATCATTACG
6488977 TTTTTTCTTTCTTTTC
1 TTTTTTCTTT-TTTTC
6488993 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
6489007 AAAATTGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:6490048 original size:112 final size:112
Alignment explanation
Indices: 6489907--6490114 Score: 346
Period size: 112 Copynumber: 1.9 Consensus size: 112
6489897 TTTGGGACCT
* * *
6489907 ATATATACATAAGTTTCGTGTTTATATAAATACGTAATTATAAACAAAATC-TGAAGTTTGCGAT
1 ATATATACATAAGTTTCGTGTTTATATAAATACATAATTATAAACAAAA-CATCAAGTCTGCGAT
6489971 TTATTTATTTATTCTACTCAATAATTTTATAAAATATATATTAATGGG
65 TTATTTATTTATTCTACTCAATAATTTTATAAAATATATATTAATGGG
* *
6490019 ATATATACATAATTTTCGTGTTTATATAAATACATAATTATAAATAAAACATCAAGTCTGCGATT
1 ATATATACATAAGTTTCGTGTTTATATAAATACATAATTATAAACAAAACATCAAGTCTGCGATT
*
6490084 TATTTATTTATTTTACTCAATAATTTTATAA
66 TATTTATTTATTCTACTCAATAATTTTATAA
6490115 TAAAAAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
111 1 0.01
112 88 0.99
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (112 bp):
ATATATACATAAGTTTCGTGTTTATATAAATACATAATTATAAACAAAACATCAAGTCTGCGATT
TATTTATTTATTCTACTCAATAATTTTATAAAATATATATTAATGGG
Found at i:6492552 original size:11 final size:11
Alignment explanation
Indices: 6492530--6492572 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
6492520 TCTTTCAATA
*
6492530 TTCTCCCAAAT
1 TTCTCTCAAAT
*
6492541 TCCTCTCAAAT
1 TTCTCTCAAAT
*
6492552 TTCTCTTAAAT
1 TTCTCTCAAAT
6492563 TTCTCTCAAA
1 TTCTCTCAAA
6492573 ACTCTCGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:6492578 original size:22 final size:23
Alignment explanation
Indices: 6492537--6492583 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
6492527 ATATTCTCCC
**
6492537 AAATTCCTCTCAAATTTCTC-TT
1 AAATTCCTCTCAAAACTCTCGTT
*
6492559 AAATTTCTCTCAAAACTCTCGTT
1 AAATTCCTCTCAAAACTCTCGTT
6492582 AA
1 AA
6492584 TTTTTTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATTCCTCTCAAAACTCTCGTT
Found at i:6494390 original size:18 final size:18
Alignment explanation
Indices: 6494367--6494409 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6494357 TGCCAGGTAC
*
6494367 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
6494385 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
6494403 GTTTCCT
1 GTATCCT
6494410 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:6494996 original size:115 final size:116
Alignment explanation
Indices: 6494794--6495175 Score: 649
Period size: 116 Copynumber: 3.3 Consensus size: 116
6494784 TATTTGTACA
* *
6494794 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATATAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
6494859 TGTAATTTACTTTTATATTTTTAATAAAAT-GAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
*
6494909 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTATTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
6494974 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
* * *
6495025 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
6495090 TATAATTTACTTTTATATTTTTAATAAAATAAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
* *
6495141 AATATTTTGAATATTTTTATATTATTTAATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
6495176 AAAATATAAA
Statistics
Matches: 252, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
115 91 0.36
116 161 0.64
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
Found at i:6498420 original size:126 final size:125
Alignment explanation
Indices: 6498190--6498727 Score: 796
Period size: 126 Copynumber: 4.3 Consensus size: 125
6498180 GCCCAAGTTA
* * * *
6498190 TTTCAGAAACCACTGTAGCAAAAAAGCGTCCACATGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
6498255 TGCATCCTACTTGAAGCATTTTTTACACTATTT-ATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTACTTGAAGC-GTTTTTACACTATTTGA-GCAGACACGTCTTCTCAAAATTATTT
* * * *
6498316 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
6498381 TACATCCTACTTGAAGCGTTTTTACCACTATTTGAGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTACTTGAAGCGTTTTTA-CACTATTTGAGCAGACACGTCTTCTCAAAATTATTT
* * *
6498442 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGTTTCTTTCAGTACTTTTGCT-AACA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAA-A
*
6498506 ATGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCA-CAGACACGTCTTCTCAAAATTATTT
65 ATGCATCCTACTTGAAGCG-TTTTTACACTATTTG-AGCAGACACGTCTTCTCAAAATTATTT
* *
6498568 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * *
6498633 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACATGTCTTCTCAAATTTA-TT
66 TGCATCCTACTTGAAGCGTTTTT-ACACTATTTGAGCAGACACGTCTTCTCAAAATTATTT
*
6498693 TTTCAGAGACTACTGCAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
6498728 AGAAGCTTTT
Statistics
Matches: 377, Mismatches: 27, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
125 48 0.13
126 320 0.85
127 9 0.02
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (125 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTACTTGAAGCGTTTTTACACTATTTGAGCAGACACGTCTTCTCAAAATTATTT
Found at i:6498831 original size:15 final size:15
Alignment explanation
Indices: 6498811--6498840 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6498801 TTTCTTAAAT
6498811 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
6498826 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
6498841 TCTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:6498982 original size:95 final size:98
Alignment explanation
Indices: 6498815--6499019 Score: 285
Period size: 95 Copynumber: 2.1 Consensus size: 98
6498805 TTAAATACCC
* * **
6498815 TAAAACCCTAAACCCTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAA
*
6498880 ACCCTAAACCCTAATTTATTTAA-TTTTTTCCT
66 ACACTAAACCCTAATTTATTTAATTTTTTTCCT
* *
6498912 TAAAACCATAAACACT-AAA-CCATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAAC
1 TAAAACCCTAAACACTAAAATCC-TAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAAC
*
6498973 AAACACTAAACCTTAATTTATTTAATTTTTTTCCT
64 AAACACTAAACCCTAATTTATTTAATTTTTTTCCT
6499008 TAAAACCCTAAA
1 TAAAACCCTAAA
6499020 ATTTAAAAAC
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
94 3 0.03
95 48 0.50
96 31 0.32
97 14 0.15
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.40
Consensus pattern (98 bp):
TAAAACCCTAAACACTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAA
ACACTAAACCCTAATTTATTTAATTTTTTTCCT
Found at i:6499030 original size:16 final size:17
Alignment explanation
Indices: 6499009--6499050 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
6498999 TTTTTTCCTT
6499009 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCTA
*
6499025 AAAA-CCTAAAATTCTC
1 AAAACCCTAAAATTCTA
6499041 AAAACCCTAA
1 AAAACCCTAA
6499051 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 9 0.39
16 9 0.39
17 5 0.22
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAACCCTAAAATTCTA
Found at i:6499439 original size:16 final size:16
Alignment explanation
Indices: 6499418--6499450 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6499408 AATAGAACAT
6499418 GAAAACAAAATTAAGG
1 GAAAACAAAATTAAGG
6499434 GAAAACAAAATTAAGG
1 GAAAACAAAATTAAGG
6499450 G
1 G
6499451 CTAAATTGAT
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:0.61, C:0.06, G:0.21, T:0.12
Consensus pattern (16 bp):
GAAAACAAAATTAAGG
Found at i:6500262 original size:27 final size:28
Alignment explanation
Indices: 6500232--6500294 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
6500222 AACAATGACT
6500232 ATATAAAAACTTTTAATAAATA-AAAA-A
1 ATATAAAAA-TTTTAATAAATATAAAATA
*
6500259 ATATATAAAATTTTATTAAATATTAAAATA
1 ATATA-AAAATTTTAATAAATA-TAAAATA
6500289 ATATAA
1 ATATAA
6500295 TATAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 16 0.52
28 4 0.13
29 5 0.16
30 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATAAAAATTTTAATAAATATAAAATA
Found at i:6500306 original size:33 final size:32
Alignment explanation
Indices: 6500250--6500323 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
6500240 ACTTTTAATA
**
6500250 AATAAAAAA-AT-ATATAAAATTTTATTAAAT
1 AATAAAAAATATAATATAAAATTTTAAAAAAT
* *
6500280 ATTAAAATAATATAATATAAATTTTTAAAAAAT
1 AATAAAA-AATATAATATAAAATTTTAAAAAAT
6500313 AATAAAAAATA
1 AATAAAAAATA
6500324 ATACGAGTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 6 0.17
31 2 0.06
32 6 0.17
33 22 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (32 bp):
AATAAAAAATATAATATAAAATTTTAAAAAAT
Found at i:6500325 original size:30 final size:30
Alignment explanation
Indices: 6500232--6500326 Score: 88
Period size: 33 Copynumber: 3.1 Consensus size: 30
6500222 AACAATGACT
6500232 ATATAAAAACTTTTAATAAAT-A-AAAAAAT-
1 ATAT-AAAA-TTTTAATAAATAATAAAAAATA
* *
6500261 ATATAAAATTTTATTAAATATTAAAATAATATA
1 ATATAAAATTTTAATAAATAAT-AAA-AA-ATA
* *
6500294 ATATAAATTTTTAAAAAATAATAAAAAATA
1 ATATAAAATTTTAATAAATAATAAAAAATA
6500324 ATA
1 ATA
6500327 CGAGTGGGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
27 10 0.19
28 4 0.07
29 4 0.07
30 9 0.17
31 4 0.07
32 5 0.09
33 18 0.33
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (30 bp):
ATATAAAATTTTAATAAATAATAAAAAATA
Found at i:6500730 original size:30 final size:31
Alignment explanation
Indices: 6500694--6500755 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
6500684 TTATTTTATC
*
6500694 GTTAA-TTTTCTTATTATTTTAAAGGCATTT
1 GTTAATTTTTATTATTATTTTAAAGGCATTT
*
6500724 GTTAATTTTTATTATTATTTTAGAGGCATTT
1 GTTAATTTTTATTATTATTTTAAAGGCATTT
6500755 G
1 G
6500756 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (31 bp):
GTTAATTTTTATTATTATTTTAAAGGCATTT
Found at i:6505203 original size:29 final size:29
Alignment explanation
Indices: 6505161--6505216 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
6505151 TAAAAAAAGG
6505161 TTGAAACTAATACATTCTTGACAAATTAA
1 TTGAAACTAATACATTCTTGACAAATTAA
*
6505190 TTGAAATTAATACATTCTTGACAAATT
1 TTGAAACTAATACATTCTTGACAAATT
6505217 TAACTTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (29 bp):
TTGAAACTAATACATTCTTGACAAATTAA
Found at i:6507630 original size:18 final size:18
Alignment explanation
Indices: 6507596--6507652 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 18
6507586 ATCATAAGAT
* *
6507596 TCAA-AAATTTCACTATA
1 TCAATAAATTTAAATATA
6507613 TCAATAAATTTAAATATACATA
1 TCAATAAATTT-AA-AT--ATA
6507635 TCAATAAATTTAAATATA
1 TCAATAAATTTAAATATA
6507653 CTTTTGCATC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 4 0.12
18 9 0.27
19 1 0.03
20 3 0.09
21 2 0.06
22 14 0.42
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TCAATAAATTTAAATATA
Found at i:6507635 original size:22 final size:22
Alignment explanation
Indices: 6507610--6507653 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6507600 AAATTTCACT
6507610 ATATCAATAAATTTAAATATAC
1 ATATCAATAAATTTAAATATAC
6507632 ATATCAATAAATTTAAATATAC
1 ATATCAATAAATTTAAATATAC
6507654 TTTTGCATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATCAATAAATTTAAATATAC
Found at i:6508963 original size:18 final size:18
Alignment explanation
Indices: 6508942--6508976 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6508932 TTTTTGTGTG
6508942 TGTTGG-TGTTTTGTATTT
1 TGTTGGTTGTTTT-TATTT
6508960 TGTTGGTTGTTTTTATT
1 TGTTGGTTGTTTTTATT
6508977 CAAATTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.69
Consensus pattern (18 bp):
TGTTGGTTGTTTTTATTT
Found at i:6513047 original size:2 final size:2
Alignment explanation
Indices: 6513040--6513242 Score: 290
Period size: 2 Copynumber: 104.0 Consensus size: 2
6513030 CGTATGGATA
*
6513040 TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
6513082 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -C CC TC TC T- TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
6513122 -C CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
6513163 TC TC TC TC TC TC TC TC TC TC -C TC CC CC TC -C CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
6513203 TC TC TC TC TC TC TC CC TT TC TC TC TC TC TC TC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6513243 CCTTTAAGAC
Statistics
Matches: 183, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
1 5 0.03
2 178 0.97
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
TC
Found at i:6514185 original size:16 final size:17
Alignment explanation
Indices: 6514148--6514188 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6514138 ATATAAGTAA
6514148 ACATTATT-TTATTATT
1 ACATTATTATTATTATT
* *
6514164 AAATTATTATTA-TGTT
1 ACATTATTATTATTATT
6514180 ACATTATTA
1 ACATTATTA
6514189 AAATAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (17 bp):
ACATTATTATTATTATT
Found at i:6514209 original size:17 final size:17
Alignment explanation
Indices: 6514187--6514220 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6514177 GTTACATTAT
6514187 TAAAATAAAACATAAAA
1 TAAAATAAAACATAAAA
6514204 TAAAATAAAACATAAAA
1 TAAAATAAAACATAAAA
6514221 AAAGAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAAAACATAAAA
Found at i:6515427 original size:23 final size:23
Alignment explanation
Indices: 6515400--6515446 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6515390 GAATGATAAA
6515400 ACAATTCTAAATGGATAATAGGT
1 ACAATTCTAAATGGATAATAGGT
6515423 ACAATTCTAAATGGATAATAGGT
1 ACAATTCTAAATGGATAATAGGT
6515446 A
1 A
6515447 GGGAAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
ACAATTCTAAATGGATAATAGGT
Found at i:6516923 original size:44 final size:44
Alignment explanation
Indices: 6516856--6517080 Score: 157
Period size: 44 Copynumber: 5.1 Consensus size: 44
6516846 TCAACCTGTC
* * * *
6516856 CCACTGCAATTTTAAGGAAATAAGATCTGTAACTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATCTGTAACTTTAATCTACT
* * ** * * *
6516900 CTACTGCAACTTCAGGGAGATAAGATCGGTGTCTTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATCTGTAACTTTAATCTACT
* * * * * *
6516944 CCATTGCAACTTCAAGGAGATAAGA-CTTGTAATTTTAACCTGCC
1 CCACTGCAACTTCAGGGAGATAAGATC-TGTAACTTTAATCTACT
* * * * ** *
6516988 CCACTGTAACTTCAGGGAGATGAGGTTTGTGGCTTTAGTCTACT
1 CCACTGCAACTTCAGGGAGATAAGATCTGTAACTTTAATCTACT
* * * * *
6517032 CCACTGCAAATT-AGGGAGACAAGATTTGTCATTTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATCTGTAACTTT-AATCTACT
6517076 CCACT
1 CCACT
6517081 AATGCCTAAG
Statistics
Matches: 134, Mismatches: 44, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
43 18 0.13
44 116 0.87
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATCTGTAACTTTAATCTACT
Found at i:6517080 original size:88 final size:88
Alignment explanation
Indices: 6516856--6517080 Score: 211
Period size: 88 Copynumber: 2.6 Consensus size: 88
6516846 TCAACCTGTC
* * * * * *
6516856 CCACTGCAATTTTAAGGAAATAAGA-TCTGTAACTTTAATCTACTCTACTGCAACTTCAGGGAGA
1 CCACTGCAAATTCAAGGAGACAAGACT-TGTAATTTTAATCTACTCCACTGCAACTTCAGGGAGA
* *
6516920 TAAGATCGGTGTCTTCAGTCTGCT
65 TAAGATCGGTGGCTTCAGTCTACT
* * * * * * *
6516944 CCATTGCAACTTCAAGGAGATAAGACTTGTAATTTTAACCTGCCCCACTGTAACTTCAGGGAGAT
1 CCACTGCAAATTCAAGGAGACAAGACTTGTAATTTTAATCTACTCCACTGCAACTTCAGGGAGAT
* * ** *
6517009 GAGGTTTGTGGCTTTAGTCTACT
66 AAGATCGGTGGCTTCAGTCTACT
* * *
6517032 CCACTGCAAATT-AGGGAGACAAGATTTGTCATTTTCAATCTACTCCACT
1 CCACTGCAAATTCAAGGAGACAAGACTTGTAATTTT-AATCTACTCCACT
6517081 AATGCCTAAG
Statistics
Matches: 109, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
87 19 0.17
88 89 0.82
89 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
CCACTGCAAATTCAAGGAGACAAGACTTGTAATTTTAATCTACTCCACTGCAACTTCAGGGAGAT
AAGATCGGTGGCTTCAGTCTACT
Found at i:6517186 original size:130 final size:130
Alignment explanation
Indices: 6517001--6517278 Score: 367
Period size: 130 Copynumber: 2.1 Consensus size: 130
6516991 CTGTAACTTC
* * * * * * * *
6517001 AGGGAGATGAGGTTTGTGGCTTTAGTCTACTCCACTGCAAATTAGGGAGACAAGATTTGTCATTT
1 AGGGAGAT-AGGATGGTGGCTTAAATCTACTCCACTACAAATTAGGGAGACAAGATTCGCCATCT
*
6517066 TCAATCTACTCCACTAATGCCTAAGGATACAAGATCTACAATCTTCAGCCTACTCCACTACTGCT
65 TCAATCTACTCCACTAATGCCTAAGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCT
6517131 T
130 T
* * * *
6517132 AGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTACTTAGGGAGATAAGATTCGCCATCTT
1 AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACAAATTAGGGAGACAAGATTCGCCATCTT
* * * * * *
6517197 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTT
66 CAATCTACTCCACTAATGCCTAAGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTT
*
6517262 AGGGAGATAAGATGGTG
1 AGGGAGATAGGATGGTG
6517279 ACGAGTTATG
Statistics
Matches: 127, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
130 119 0.94
131 8 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (130 bp):
AGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACAAATTAGGGAGACAAGATTCGCCATCTT
CAATCTACTCCACTAATGCCTAAGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTT
Found at i:6517211 original size:44 final size:44
Alignment explanation
Indices: 6517069--6517274 Score: 145
Period size: 44 Copynumber: 4.7 Consensus size: 44
6517059 GTCATTTTCA
* * * * * *
6517069 ATCTACTCCACTAATGCCTAAGGATACAAGA-TCTACAATCTTC
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTACAATCTTC
* * * ** * **
6517112 AGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC--T-TAA
1 A-TCTGCTCCACTACTGCTTAGGGAGATAAGATTCT-ACAATCTTC
* * *
6517155 ATCTGCTCCACTACTACTTAGGGAGATAAGATTC-GCCATCTTC
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTACAATCTTC
* *
6517198 GATCTGCTCCACTACTGCTTAGGGAGACAAGA-TCTATAATCTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTACAATCTTC
* *
6517242 AGCCTACTCCACTACTGCTTAGGGAGATAAGAT
1 A-TCTGCTCCACTACTGCTTAGGGAGATAAGAT
6517275 GGTGACGAGT
Statistics
Matches: 125, Mismatches: 28, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.02
42 28 0.22
43 7 0.06
44 86 0.69
45 1 0.01
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATTCTACAATCTTC
Found at i:6527630 original size:23 final size:23
Alignment explanation
Indices: 6527603--6527649 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6527593 GAATGATAAA
6527603 ACAATTCTAAATGGATAATAGGT
1 ACAATTCTAAATGGATAATAGGT
6527626 ACAATTCTAAATGGATAATAGGT
1 ACAATTCTAAATGGATAATAGGT
6527649 A
1 A
6527650 GGGAAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
ACAATTCTAAATGGATAATAGGT
Found at i:6529658 original size:26 final size:26
Alignment explanation
Indices: 6529621--6529756 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
6529611 TGATACAAAT
* *
6529621 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6529647 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
6529673 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6529699 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6529725 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6529751 TGATAA
1 TGATAA
6529757 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6531272 original size:26 final size:26
Alignment explanation
Indices: 6531242--6531294 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6531232 TTTATAGTTT
6531242 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6531268 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6531294 T
1 T
6531295 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6531824 original size:136 final size:137
Alignment explanation
Indices: 6531542--6531816 Score: 507
Period size: 136 Copynumber: 2.0 Consensus size: 137
6531532 GAGTAGTCTC
*
6531542 CCCAAATGGGCTTGCATATATTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATAGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
6531607 TGTTATCTGAGTAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGTCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6531672 ACTGTTA
131 ACTGTTA
6531679 CCCAAATGGGCTTGCATAT-GTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATAGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
6531743 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACT
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6531808 ACTGTTA
131 ACTGTTA
6531815 CC
1 CC
6531817 TGAATGGGTT
Statistics
Matches: 134, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 115 0.86
137 19 0.14
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATAGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:6534810 original size:66 final size:66
Alignment explanation
Indices: 6534726--6534904 Score: 178
Period size: 66 Copynumber: 2.7 Consensus size: 66
6534716 GTTTAGTAAC
* * * * *
6534726 TTGAGAAGACTCGATATCTTGTTCAGGAGCTTAGGAAGACTCGGTATCTCGTTTAGGATCTTGAG
1 TTGAGAAGACTTGATATCTTGTTCAGGAGATTAGGAAGACTCGGTATCACGTTCAGGAGCTTGAG
6534791 A
66 A
* ** * * * * * *
6534792 TTGAGAAGACTTGTTATCTCATTCAAGAGTTTGGGAAGACTCGATGTCACGTTCAGGAGCTTGGG
1 TTGAGAAGACTTGATATCTTGTTCAGGAGATTAGGAAGACTCGGTATCACGTTCAGGAGCTTGAG
6534857 A
66 A
* * * ** *
6534858 TTTAGAATACCTGATATCTTGTTCAGGAGATTAAAAAGATTCGGTAT
1 TTGAGAAGACTTGATATCTTGTTCAGGAGATTAGGAAGACTCGGTAT
6534905 TTGATTTTTC
Statistics
Matches: 86, Mismatches: 27, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
66 86 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (66 bp):
TTGAGAAGACTTGATATCTTGTTCAGGAGATTAGGAAGACTCGGTATCACGTTCAGGAGCTTGAG
A
Found at i:6538820 original size:28 final size:27
Alignment explanation
Indices: 6538779--6538834 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
6538769 TTTATTTTTA
6538779 TTTTTAAAAATATTTAAA-ATACTATATT
1 TTTTTAAAAATA-TTAAACATAC-ATATT
* *
6538807 TTTTTAATATTATTAAACATACATATT
1 TTTTTAAAAATATTAAACATACATATT
6538834 T
1 T
6538835 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTTAAAAATATTAAACATACATATT
Found at i:6538909 original size:16 final size:16
Alignment explanation
Indices: 6538887--6538923 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
6538877 AATTTTGTTT
6538887 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
6538904 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
6538919 TAATA
1 TAATA
6538924 TTATTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:6538966 original size:15 final size:15
Alignment explanation
Indices: 6538946--6539002 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
6538936 ATTCAATATT
6538946 AATATTTTAATAATA
1 AATATTTTAATAATA
*
6538961 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
6538980 ACTATATTAATAATA
1 AATATTTTAATAATA
6538995 AATATTTT
1 AATATTTT
6539003 GTAATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 9 0.28
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:6539360 original size:31 final size:34
Alignment explanation
Indices: 6539324--6539395 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 34
6539314 CAACTTTTAT
* *
6539324 AAAATATTTTTA-ATAAATTTA-TCAAACAAC-A
1 AAAATATTTTTACACAAATTCATTCAAACAACAA
*
6539355 AAAATA-TTTTACACAAATTCATTCAAACACCAA
1 AAAATATTTTTACACAAATTCATTCAAACAACAA
6539388 AAAATATT
1 AAAATATT
6539396 AAAATTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 5 0.15
31 13 0.38
32 8 0.24
33 7 0.21
34 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (34 bp):
AAAATATTTTTACACAAATTCATTCAAACAACAA
Found at i:6539432 original size:14 final size:13
Alignment explanation
Indices: 6539413--6539481 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 13
6539403 TCAGAAAAAC
6539413 AAATCATTTTCTAA
1 AAATCATTTTC-AA
*
6539427 AAATCATTTTACGA
1 AAATCATTTT-CAA
* *
6539441 AAGTTATTTTCCAA
1 AAATCATTTT-CAA
*
6539455 AAATCATTTTACGA
1 AAATCATTTT-CAA
*
6539469 AAATTATTTTCAA
1 AAATCATTTTCAA
6539482 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
13 2 0.05
14 40 0.93
15 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.41
Consensus pattern (13 bp):
AAATCATTTTCAA
Found at i:6539450 original size:28 final size:28
Alignment explanation
Indices: 6539413--6539479 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
6539403 TCAGAAAAAC
* *
6539413 AAATCATTTTCTAAAAATCATTTTACGA
1 AAATTATTTTCCAAAAATCATTTTACGA
*
6539441 AAGTTATTTTCCAAAAATCATTTTACGA
1 AAATTATTTTCCAAAAATCATTTTACGA
6539469 AAATTATTTTC
1 AAATTATTTTC
6539480 AATGAAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (28 bp):
AAATTATTTTCCAAAAATCATTTTACGA
Found at i:6553246 original size:2 final size:2
Alignment explanation
Indices: 6553235--6553288 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
6553225 TACCTTCTTT
6553235 TA TA TA -A TA TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
6553277 TA TA TA TA -A TA T
1 TA TA TA TA TA TA T
6553289 GTTTCTCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.04
2 45 0.92
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6553492 original size:14 final size:14
Alignment explanation
Indices: 6553473--6553500 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6553463 TTTTAAAAAG
6553473 TAAAAATATATTTA
1 TAAAAATATATTTA
6553487 TAAAAATATATTTA
1 TAAAAATATATTTA
6553501 CCCTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAAATATATTTA
Found at i:6554883 original size:14 final size:14
Alignment explanation
Indices: 6554860--6554889 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6554850 TTTTAATCTG
6554860 TTCTTCTTCTTTTT
1 TTCTTCTTCTTTTT
*
6554874 TTCTTTTTCTTTTT
1 TTCTTCTTCTTTTT
6554888 TT
1 TT
6554890 AATTTCTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTCTTCTTTTT
Found at i:6558464 original size:3 final size:3
Alignment explanation
Indices: 6558456--6558486 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6558446 AGTAGAACTT
6558456 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6558487 GGCCCAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6561072 original size:86 final size:86
Alignment explanation
Indices: 6560978--6561149 Score: 236
Period size: 86 Copynumber: 2.0 Consensus size: 86
6560968 TTAGGGTTTT
* * *
6560978 AATTTTTTTTGTAGTATTATTTATTTGTATGTTTGTCACTTAATTAGTATAAAAAACTAAATAAA
1 AATTTTTTTTGTAGTATTATTTATCTGTATGCTTCTCACTTAATTAGTATAAAAAACTAAATAAA
*
6561043 TACTGAAATGATATATTTGAG
66 TACTAAAATGATATATTTGAG
* * * * *
6561064 AATTTTTTTTGTATTATTATTTATCTGTATGCTTCTTACTTAATTATTATAAAAAATTAATTAAA
1 AATTTTTTTTGTAGTATTATTTATCTGTATGCTTCTCACTTAATTAGTATAAAAAACTAAATAAA
* * *
6561129 TATTAAAATGGTATGTTTGAG
66 TACTAAAATGATATATTTGAG
6561150 GTTTTTAGGG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (86 bp):
AATTTTTTTTGTAGTATTATTTATCTGTATGCTTCTCACTTAATTAGTATAAAAAACTAAATAAA
TACTAAAATGATATATTTGAG
Found at i:6562397 original size:21 final size:21
Alignment explanation
Indices: 6562371--6562413 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6562361 ATGCAAATTT
*
6562371 CGAAACTTTACCAAGTAGTGC
1 CGAAACTTTACCAAATAGTGC
6562392 CGAAACTTTACCAAATAGTGC
1 CGAAACTTTACCAAATAGTGC
6562413 C
1 C
6562414 ACTGAGCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (21 bp):
CGAAACTTTACCAAATAGTGC
Found at i:6564720 original size:35 final size:35
Alignment explanation
Indices: 6564673--6564742 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
6564663 TTATATAATT
* *
6564673 CATGTACGTACCTGTATCATTTAACATCAAACTCA
1 CATGTACATACCTATATCATTTAACATCAAACTCA
6564708 CATGTACATACCTATATCATTTAACATCAAACTCA
1 CATGTACATACCTATATCATTTAACATCAAACTCA
6564743 TACACATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (35 bp):
CATGTACATACCTATATCATTTAACATCAAACTCA
Found at i:6565836 original size:21 final size:21
Alignment explanation
Indices: 6565812--6565853 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6565802 GAGTACAATT
6565812 ATCATAATTAAACGGAGTTAA
1 ATCATAATTAAACGGAGTTAA
*
6565833 ATCATAATTAAGCGGAGTTAA
1 ATCATAATTAAACGGAGTTAA
6565854 TTGCGAGGCT
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:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
ATCATAATTAAACGGAGTTAA
Found at i:6566807 original size:17 final size:17
Alignment explanation
Indices: 6566785--6566819 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6566775 ATCACAAATT
*
6566785 AATGAAATTCAAAATAA
1 AATGAAATTAAAAATAA
6566802 AATGAAATTAAAAATAA
1 AATGAAATTAAAAATAA
6566819 A
1 A
6566820 CACATGCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (17 bp):
AATGAAATTAAAAATAA
Found at i:6570784 original size:30 final size:30
Alignment explanation
Indices: 6570750--6570823 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
6570740 AGTTAGCTAT
6570750 TACAACCATTCAACAAAACACAAAAATTAC
1 TACAACCATTCAACAAAACACAAAAATTAC
* * * **
6570780 TACAACAATTCAAGAAAACACACAAATTGT
1 TACAACCATTCAACAAAACACAAAAATTAC
*
6570810 TACAATCATTCAAC
1 TACAACCATTCAAC
6570824 TCAAAGTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.20
Consensus pattern (30 bp):
TACAACCATTCAACAAAACACAAAAATTAC
Found at i:6571596 original size:31 final size:31
Alignment explanation
Indices: 6571552--6571610 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6571542 AGAAATAGAT
* *
6571552 ACATGTGGCAAAGAGAGTAATTTTTTAGCAA
1 ACATGTGACAAAGAAAGTAATTTTTTAGCAA
*
6571583 ACATGTGATAAAGAAAGTAATTTTTTAG
1 ACATGTGACAAAGAAAGTAATTTTTTAG
6571611 TAAATATGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (31 bp):
ACATGTGACAAAGAAAGTAATTTTTTAGCAA
Found at i:6577620 original size:21 final size:21
Alignment explanation
Indices: 6577596--6577635 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6577586 ATCTTTTCTA
*
6577596 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGACAAAACTATT
6577617 AAGTTAAAAGACAAAACTA
1 AAGTTAAAAGACAAAACTA
6577636 CGTTGTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGACAAAACTATT
Found at i:6578281 original size:20 final size:19
Alignment explanation
Indices: 6578248--6578326 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 19
6578238 TCTTAACAAA
*
6578248 AATTATAAATAATTCAAAAT
1 AATTTTAAA-AATTCAAAAT
*
6578268 AATTTTCAAAAATTTAAAAT
1 AATTTT-AAAAATTCAAAAT
*
6578288 AATTTTTAAAATTCAAAAT
1 AATTTTAAAAATTCAAAAT
6578307 -ATTTATAAAAATTCCAAAAT
1 AATTT-TAAAAATT-CAAAAT
6578327 TTATATATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.08
19 18 0.35
20 26 0.51
21 3 0.06
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTTTAAAAATTCAAAAT
Found at i:6578333 original size:20 final size:19
Alignment explanation
Indices: 6578250--6578331 Score: 80
Period size: 19 Copynumber: 4.3 Consensus size: 19
6578240 TTAACAAAAA
6578250 TTATAAATAATTCAAAATAAT
1 TTATAAA-AATTCAAAAT-AT
*
6578271 TT-TCAAAAATTTAAAATAAT
1 TTAT-AAAAATTCAAAAT-AT
*
6578291 TT-TTAAAATTCAAAATAT
1 TTATAAAAATTCAAAATAT
*
6578309 TTATAAAAATTCCAAA-AT
1 TTATAAAAATTCAAAATAT
6578327 TTATA
1 TTATA
6578332 TATTTTTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
18 11 0.20
19 22 0.41
20 16 0.30
21 5 0.09
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
TTATAAAAATTCAAAATAT
Found at i:6578363 original size:17 final size:18
Alignment explanation
Indices: 6578333--6578369 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6578323 AAATTTATAT
6578333 ATTTTTTTAAAAATTCTAA
1 ATTTTTTT-AAAATTCTAA
6578352 ATTTTTTT-AAATTCTAA
1 ATTTTTTTAAAATTCTAA
6578369 A
1 A
6578370 AAATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTTTAAAATTCTAA
Found at i:6578601 original size:23 final size:23
Alignment explanation
Indices: 6578558--6578603 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6578548 TATAACAAGA
**
6578558 TTTTAATTTAACATGTTTAATTT
1 TTTTAATTTAACATGAATAATTT
6578581 TTTTAATTTAAC-TCGAATAATTT
1 TTTTAATTTAACAT-GAATAATTT
6578604 CACTTGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTAATTTAACATGAATAATTT
Found at i:6583623 original size:12 final size:12
Alignment explanation
Indices: 6583606--6583643 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6583596 TATGAGAGTG
*
6583606 GAAAAAGAAAGT
1 GAAAAAGAAAGA
6583618 GAAAAAGAAAGA
1 GAAAAAGAAAGA
*
6583630 G-AAAAGAAAAA
1 GAAAAAGAAAGA
6583641 GAA
1 GAA
6583644 TTGTGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (12 bp):
GAAAAAGAAAGA
Found at i:6584768 original size:21 final size:20
Alignment explanation
Indices: 6584727--6584774 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
6584717 ATCAGCTCAC
6584727 TTGAGCTTGTTTCAACTCGT
1 TTGAGCTTGTTTCAACTCGT
* *
6584747 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTTG-TTTCAACTCGT
*
6584768 TTCAGCT
1 TTGAGCT
6584775 CATTCCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.46
Consensus pattern (20 bp):
TTGAGCTTGTTTCAACTCGT
Found at i:6598414 original size:18 final size:19
Alignment explanation
Indices: 6598391--6598451 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
6598381 ACTTTTCTTA
6598391 TTTACTTTCCCTCAAAA-T
1 TTTACTTTCCCTCAAAACT
6598409 TTTAC--TCCC-CAAAACTT
1 TTTACTTTCCCTCAAAAC-T
*
6598426 TTTA-TTTCCTTCATAAACT
1 TTTACTTTCCCTCA-AAACT
6598445 TTTACTT
1 TTTACTT
6598452 CTCACCTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
15 5 0.14
16 4 0.11
17 5 0.14
18 8 0.23
19 7 0.20
20 6 0.17
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTACTTTCCCTCAAAACT
Found at i:6600009 original size:55 final size:55
Alignment explanation
Indices: 6599925--6600036 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
6599915 TCAACTTGCT
6599925 AAGGAGCTGGAGAATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
1 AAGGAGCTGGAGAATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
*
6599980 AAGGAGCTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
1 AAGGAGCTGGAGAATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
6600035 AA
1 AA
6600037 ACTCCCCAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (55 bp):
AAGGAGCTGGAGAATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
Found at i:6600830 original size:29 final size:29
Alignment explanation
Indices: 6600797--6600865 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
6600787 AATTCCCAAT
6600797 GAACAAGTTCTTCATCGTGAACACTCAAC
1 GAACAAGTTCTTCATCGTGAACACTCAAC
*
6600826 GAACAAATTCTTCATCGTGAACACTCAAC
1 GAACAAGTTCTTCATCGTGAACACTCAAC
6600855 GAACAAGTTCT
1 GAACAAGTTCT
6600866 CCACCTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (29 bp):
GAACAAGTTCTTCATCGTGAACACTCAAC
Found at i:6603353 original size:45 final size:45
Alignment explanation
Indices: 6603289--6603501 Score: 257
Period size: 45 Copynumber: 4.6 Consensus size: 45
6603279 GTTGGTGCCG
*
6603289 ATGCCATGTCCCAGACATGGTCATACACTGACACATATCAAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
*
6603334 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
* * * * ** * *
6603379 ATTCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTGTCGGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACA--TATC-AAGCCA
* * *
6603428 ATGCCATGTCCCAGGCATGGTCTTACACTGACACATATTAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
6603473 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
6603502 AGCTCACATA
Statistics
Matches: 141, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
44 10 0.07
45 92 0.65
46 5 0.04
48 6 0.04
49 18 0.13
50 10 0.07
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
Found at i:6603447 original size:94 final size:95
Alignment explanation
Indices: 6603334--6603506 Score: 294
Period size: 94 Copynumber: 1.8 Consensus size: 95
6603324 TATCAAGCCA
* *
6603334 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTAATTCCATGTCCCAGACAT-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGG
6603398 TCTTACACTAGCTCTCATCTGTCGGTGTCG
66 TCTTACACTAGCTCTCATCTGTCGGTGTCG
* * *
6603428 ATGCCATGTCCCAGGCATGGTCTTACACTGACACATATTAAGCCGATGCCATGTCCCAGACATGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGG
6603493 TCTTACACTAGCTC
66 TCTTACACTAGCTC
6603507 ACATAACAGC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
94 58 0.79
95 15 0.21
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGG
TCTTACACTAGCTCTCATCTGTCGGTGTCG
Found at i:6603447 original size:139 final size:140
Alignment explanation
Indices: 6603242--6603501 Score: 432
Period size: 139 Copynumber: 1.9 Consensus size: 140
6603232 AAGGCCGATG
* * *
6603242 CCATGTCCTAGACATGGTCATACACTAGCTTTCATCTGTTGGTGCCGATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCATACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGACAT
6603307 GGTCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATAT
66 GGTCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATAT
6603372 CAAGCTAATT
131 CAAGCTAATT
* * *
6603382 CCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTGTCGGTGTCGATGCCATGTCCCAGGCAT
1 CCATGTCCCAGACATGGTCATACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGACAT
* * *
6603446 GGTCTTACACTGACACATATTAAGCCGATGCCATGTCCCAGACATGGTCTTACACT
66 GGTCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACT
6603502 AGCTCACATA
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
139 97 0.87
140 14 0.13
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (140 bp):
CCATGTCCCAGACATGGTCATACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGACAT
GGTCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATAT
CAAGCTAATT
Found at i:6605519 original size:18 final size:18
Alignment explanation
Indices: 6605491--6605554 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
6605481 GAACAATTAT
* *
6605491 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
6605509 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
*
6605527 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
6605545 TTATTCAGTA
1 TTATTCAGTA
6605555 TCAATCAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:6605560 original size:18 final size:18
Alignment explanation
Indices: 6605505--6605561 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
6605495 TTAGTAATAG
* *
6605505 TCAGTTATTCGGTAACAA
1 TCAGTTATTCAGTATCAA
* *
6605523 TCAATTATTCAATAAT-AA
1 TCAGTTATTCAGT-ATCAA
6605541 TCAGTTATTCAGTATCAA
1 TCAGTTATTCAGTATCAA
6605559 TCA
1 TCA
6605562 ATTGATCGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.90
19 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (18 bp):
TCAGTTATTCAGTATCAA
Found at i:6605634 original size:19 final size:18
Alignment explanation
Indices: 6605590--6605636 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
6605580 AACAGTCAAC
6605590 TATTCAGTAAAAATAAAA
1 TATTCAGTAAAAATAAAA
* * *
6605608 TATACAGTAACAATTAAAT
1 TATTCAGTAA-AAATAAAA
6605627 TATTCAGTAA
1 TATTCAGTAA
6605637 TAGTCGATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (18 bp):
TATTCAGTAAAAATAAAA
Found at i:6605812 original size:53 final size:52
Alignment explanation
Indices: 6605750--6605868 Score: 142
Period size: 47 Copynumber: 2.3 Consensus size: 52
6605740 TCGGCCGAAG
*
6605750 TCGGAACAGTAACAATAACAGTACGATACACAGAGTACCTCATCGAAACAAA-
1 TCGGAACAGTAAC-ATAACAGTACGATACACAGAGTACCTCATCGAAAAAAAT
*
6605802 TCTGGAACAG-----TAACAGTACGGTACACAGAGTACCTCATCGAAAAAAAT
1 TC-GGAACAGTAACATAACAGTACGATACACAGAGTACCTCATCGAAAAAAAT
*
6605850 TCGAAACAGTAACAGTAAC
1 TCGGAACAGTAACA-TAAC
6605869 GGTAACAGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
47 41 0.73
48 2 0.04
52 2 0.04
53 11 0.20
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.17
Consensus pattern (52 bp):
TCGGAACAGTAACATAACAGTACGATACACAGAGTACCTCATCGAAAAAAAT
Found at i:6605818 original size:47 final size:47
Alignment explanation
Indices: 6605760--6605866 Score: 162
Period size: 47 Copynumber: 2.3 Consensus size: 47
6605750 TCGGAACAGT
* * *
6605760 AACAATAACAGTACGATACACAGAGTACCTCATCGAAACAAA-TCTGG
1 AACAGTAACAGTACGATACACAGAGTACCTCATCGAAAAAAATTC-GA
*
6605807 AACAGTAACAGTACGGTACACAGAGTACCTCATCGAAAAAAATTCGA
1 AACAGTAACAGTACGATACACAGAGTACCTCATCGAAAAAAATTCGA
6605854 AACAGTAACAGTA
1 AACAGTAACAGTA
6605867 ACGGTAACAG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 53 0.96
48 2 0.04
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.17
Consensus pattern (47 bp):
AACAGTAACAGTACGATACACAGAGTACCTCATCGAAAAAAATTCGA
Found at i:6606425 original size:2 final size:2
Alignment explanation
Indices: 6606420--6606469 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
6606410 ATGCACACAC
*
6606420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6606462 A- AT AT AT A
1 AT AT AT AT A
6606470 ATTCAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6607283 original size:2 final size:2
Alignment explanation
Indices: 6607276--6607313 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6607266 TACTTTGTTT
6607276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6607314 TATTTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6608645 original size:20 final size:22
Alignment explanation
Indices: 6608622--6608662 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
6608612 TTGTAAATTG
*
6608622 AAAGTTTA-TGATAGA-AAATA
1 AAAGGTTATTGATAGAGAAATA
6608642 AAAGGTTATTGATAGAGAAAT
1 AAAGGTTATTGATAGAGAAAT
6608663 CACTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (22 bp):
AAAGGTTATTGATAGAGAAATA
Found at i:6609457 original size:33 final size:33
Alignment explanation
Indices: 6609415--6609649 Score: 91
Period size: 33 Copynumber: 7.4 Consensus size: 33
6609405 GATCTCATTA
6609415 TGAAAAGGAAATGTACACCTTGTGTGTACCATG
1 TGAAAAGGAAATGTACACCTTGTGTGTACCATG
* *
6609448 TGAAAAGG-AA--TA-A-CTTCG-G-CTATCGAATG
1 TGAAAAGGAAATGTACACCTT-GTGTGTA-C-CATG
* * * * **
6609477 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
1 TGAAAAGGAAATGTACACCTTGTGTGTACCATG
** * *
6609510 TGAAAAGGCTATGTACACTTTGTGTGTAAC-T-
1 TGAAAAGGAAATGTACACCTTGTGTGTACCATG
* *** * ** *
6609541 TGAAACGGTTGTGTAC-CATT-TG-AAACACATT
1 TGAAAAGGAAATGTACACCTTGTGTGTAC-CATG
* * * *
6609572 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
1 TGAAAAGGAAATGTACACCTTGTGTGTACCATG
** *
6609605 TGAAAAGGAAATGTACACCTTAAGTGTACTACTG
1 TGAAAAGGAAATGTACACCTTGTGTGTACCA-TG
6609639 -GAAAAGGAAAT
1 TGAAAAGGAAAT
6609650 ATCCATTGAT
Statistics
Matches: 148, Mismatches: 37, Indels: 34
0.68 0.17 0.16
Matches are distributed among these distances:
27 2 0.01
28 6 0.04
29 16 0.11
30 8 0.05
31 23 0.16
32 7 0.05
33 77 0.52
34 7 0.05
35 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (33 bp):
TGAAAAGGAAATGTACACCTTGTGTGTACCATG
Found at i:6620221 original size:23 final size:23
Alignment explanation
Indices: 6620172--6620274 Score: 127
Period size: 23 Copynumber: 4.4 Consensus size: 23
6620162 AACTCGTAAT
* *
6620172 AGCTTACTGTTCTCATCTCG-CATG
1 AGCTTACTGTT-TCAGCTCGTTA-G
6620196 AGCTTACTGTTTCAGCTCGTTAG
1 AGCTTACTGTTTCAGCTCGTTAG
*
6620219 AGCTTACTGTTTTAGCTCGTTAG
1 AGCTTACTGTTTCAGCTCGTTAG
** *
6620242 AGCTTACTGTTTCAGCTCAATGG
1 AGCTTACTGTTTCAGCTCGTTAG
6620265 AGCTTACTGT
1 AGCTTACTGT
6620275 CCATCAGCTC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
23 59 0.83
24 12 0.17
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.39
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCGTTAG
Found at i:6620289 original size:23 final size:23
Alignment explanation
Indices: 6620195--6620285 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 23
6620185 CATCTCGCAT
* ** *
6620195 GAGCTTACTGTTTCAGCTCGTTA
1 GAGCTTACTGTATCAGCTCAATG
* * ** *
6620218 GAGCTTACTGTTTTAGCTCGTTA
1 GAGCTTACTGTATCAGCTCAATG
*
6620241 GAGCTTACTGTTTCAGCTCAATG
1 GAGCTTACTGTATCAGCTCAATG
6620264 GAGCTTACTGTCCATCAGCTCA
1 GAGCTTACTGT--ATCAGCTCA
6620286 GGAGGTGCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 52 0.87
25 8 0.13
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (23 bp):
GAGCTTACTGTATCAGCTCAATG
Done.