Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 114 of 145
Found at i:38211530 original size:36 final size:36
Alignment explanation
Indices: 38211483--38211557 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
38211473 TTTTAATATT
* * *
38211483 AATATGTGATATGATGTAAGAATATGGTATTGAATA
1 AATATATGATATGATATAAGAATATGATATTGAATA
38211519 AATATATGATATGATATAAGAATATGATATTGAATA
1 AATATATGATATGATATAAGAATATGATATTGAATA
38211555 AAT
1 AAT
38211558 CAAAGAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (36 bp):
AATATATGATATGATATAAGAATATGATATTGAATA
Found at i:38211537 original size:18 final size:19
Alignment explanation
Indices: 38211478--38211557 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 19
38211468 TTGACTTTTA
* *
38211478 ATATTAATATGTGATA-TG
1 ATATAAATATATGATATTG
* *
38211496 ATGTAAGA-ATATGGTATTG
1 ATATAA-ATATATGATATTG
38211515 A-ATAAATATATGATA-TG
1 ATATAAATATATGATATTG
38211532 ATATAAGA-ATATGATATTG
1 ATATAA-ATATATGATATTG
38211551 A-ATAAAT
1 ATATAAAT
38211558 CAAAGAAGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
17 5 0.10
18 36 0.73
19 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (19 bp):
ATATAAATATATGATATTG
Found at i:38211545 original size:13 final size:13
Alignment explanation
Indices: 38211491--38211548 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
38211481 TTAATATGTG
*
38211491 ATATGATGTAAGA
1 ATATGATATAAGA
* *
38211504 ATATGGTAT-TGA
1 ATATGATATAAGA
* *
38211516 ATA-AATATATG-
1 ATATGATATAAGA
38211527 ATATGATATAAGA
1 ATATGATATAAGA
38211540 ATATGATAT
1 ATATGATAT
38211549 TGAATAAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 6 0.17
12 13 0.37
13 16 0.46
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (13 bp):
ATATGATATAAGA
Found at i:38211553 original size:12 final size:13
Alignment explanation
Indices: 38211491--38211554 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 13
38211481 TTAATATGTG
* *
38211491 ATATGATGTAAGA
1 ATATGATATATGA
*
38211504 ATATGGTAT-TGA
1 ATATGATATATGA
*
38211516 ATA-AATATATG-
1 ATATGATATATGA
*
38211527 ATATGATATAAGA
1 ATATGATATATGA
38211540 ATATGATAT-TGA
1 ATATGATATATGA
38211552 ATA
1 ATA
38211555 AATCAAAGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
11 6 0.15
12 18 0.45
13 16 0.40
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (13 bp):
ATATGATATATGA
Found at i:38212203 original size:7 final size:7
Alignment explanation
Indices: 38212191--38212246 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
38212181 TTTTTGCATG
*
38212191 TAAACCT
1 TAAACCC
38212198 TAAACCC
1 TAAACCC
38212205 TAAACCC
1 TAAACCC
* *
38212212 TAAGTCAC
1 TAA-ACCC
* *
38212220 TGACCCC
1 TAAACCC
38212227 TAAACCC
1 TAAACCC
38212234 TAAACCC
1 TAAACCC
38212241 TAAACC
1 TAAACC
38212247 TTAAGCCATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 36 0.90
8 4 0.10
ACGTcount: A:0.39, C:0.39, G:0.04, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:38212231 original size:36 final size:36
Alignment explanation
Indices: 38212191--38212277 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
38212181 TTTTTGCATG
*
38212191 TAAACCTTAAACCCTAAACCCTAAGTCACTGACCCC
1 TAAACCTTAAACCCTAAACCCTAAGCCACTGACCCC
* * *
38212227 TAAACCCTAAACCCTAAACCTTAAGCCATTGACCCC
1 TAAACCTTAAACCCTAAACCCTAAGCCACTGACCCC
38212263 TAAACCTTAAACCCT
1 TAAACCTTAAACCCT
38212278 TAACAAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.37, C:0.38, G:0.05, T:0.21
Consensus pattern (36 bp):
TAAACCTTAAACCCTAAACCCTAAGCCACTGACCCC
Found at i:38212452 original size:21 final size:22
Alignment explanation
Indices: 38212423--38212464 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
38212413 CTTAAATACT
38212423 AAACTTTAAACCCTAAACCCTC
1 AAACTTTAAACCCTAAACCCTC
*
38212445 AAAC-TTAAACTCTAAACCCT
1 AAACTTTAAACCCTAAACCCT
38212465 AAATACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACTTTAAACCCTAAACCCTC
Found at i:38212474 original size:21 final size:20
Alignment explanation
Indices: 38212429--38212495 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
38212419 TACTAAACTT
* *
38212429 TAAACCCTAAACCCTCAAAC
1 TAAACTCTAAACCCTAAAAC
38212449 TTAAACTCTAAACCCTAAATAC
1 -TAAACTCTAAACCCTAAA-AC
*
38212471 TAAA-TCATAAACTCTAAACAC
1 TAAACTC-TAAACCCTAAA-AC
38212492 TAAA
1 TAAA
38212496 AGTAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAACTCTAAACCCTAAAAC
Found at i:38212481 original size:28 final size:28
Alignment explanation
Indices: 38212422--38212495 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
38212412 TCTTAAATAC
* * *
38212422 TAAACTTTAAACCCTAAACCCTCAAACT
1 TAAACTCTAAACCCTAAACACTCAAACA
*
38212450 TAAACTCTAAACCCTAAATACT-AAATCA
1 TAAACTCTAAACCCTAAACACTCAAA-CA
*
38212478 TAAACTCTAAACACTAAA
1 TAAACTCTAAACCCTAAA
38212496 AGTAATTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 3 0.08
28 37 0.93
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (28 bp):
TAAACTCTAAACCCTAAACACTCAAACA
Found at i:38212487 original size:14 final size:14
Alignment explanation
Indices: 38212422--38212489 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
38212412 TCTTAAATAC
* *
38212422 TAAACTTTAAACCC
1 TAAACTCTAAACCA
* *
38212436 TAAACCCTCAAA-CT
1 TAAACTCT-AAACCA
*
38212450 TAAACTCTAAACCC
1 TAAACTCTAAACCA
*
38212464 TAAA-TACTAAATCA
1 TAAACT-CTAAACCA
38212478 TAAACTCTAAAC
1 TAAACTCTAAAC
38212490 ACTAAAAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
13 4 0.10
14 34 0.81
15 4 0.10
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACTCTAAACCA
Found at i:38212514 original size:100 final size:100
Alignment explanation
Indices: 38212399--38212595 Score: 288
Period size: 100 Copynumber: 2.0 Consensus size: 100
38212389 AGGGCCAAAA
* * * * *
38212399 AATTAAAAAATAATCTTAAATACTAAACTTTAAACCCTAAACCCTCAAA-CTTAAACTCTAAACC
1 AATTAAAAAAGAATCTTAAATACTAAAATCTAAACCCTAAACCC-CAAACCTCAAACTCTAAAAC
*
38212463 CTAAATACTAAATCATAAACTCTAAACACTAAAAGT
65 CTAAACACTAAATCATAAACTCTAAACACTAAAAGT
*
38212499 AATTAAAAAAGAATCTTAAATACTAAAATCTATACCCTAAACCCCAAACCTCAAACTCTAAAACC
1 AATTAAAAAAGAATCTTAAATACTAAAATCTAAACCCTAAACCCCAAACCTCAAACTCTAAAACC
* * *
38212564 TAAACACTAAATCGTAAATTCTAAATACTAAA
66 TAAACACTAAATCATAAACTCTAAACACTAAA
38212596 CCAAAAACCC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 4 0.05
100 82 0.95
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (100 bp):
AATTAAAAAAGAATCTTAAATACTAAAATCTAAACCCTAAACCCCAAACCTCAAACTCTAAAACC
TAAACACTAAATCATAAACTCTAAACACTAAAAGT
Found at i:38212542 original size:7 final size:7
Alignment explanation
Indices: 38212532--38212630 Score: 56
Period size: 7 Copynumber: 14.1 Consensus size: 7
38212522 TAAAATCTAT
38212532 ACCCTAA
1 ACCCTAA
*
38212539 ACCCCAA
1 ACCCTAA
38212546 A-CCTCAA
1 ACCCT-AA
*
38212553 ACTCTAA
1 ACCCTAA
*
38212560 AACCTAA
1 ACCCTAA
*
38212567 ACACTAA
1 ACCCTAA
* *
38212574 ATCGTAA
1 ACCCTAA
**
38212581 ATTCTAA
1 ACCCTAA
**
38212588 ATACTAA
1 ACCCTAA
**
38212595 ACCAAAA
1 ACCCTAA
38212602 ACCCTAA
1 ACCCTAA
*
38212609 ATCCTAA
1 ACCCTAA
*
38212616 ACCATAA
1 ACCCTAA
38212623 ACCCTAA
1 ACCCTAA
38212630 A
1 A
38212631 ATAAAACTTA
Statistics
Matches: 67, Mismatches: 23, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
6 2 0.03
7 63 0.94
8 2 0.03
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.18
Consensus pattern (7 bp):
ACCCTAA
Found at i:38212608 original size:21 final size:21
Alignment explanation
Indices: 38212584--38212630 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
38212574 ATCGTAAATT
38212584 CTAAATACTAAACCAAAAACC
1 CTAAATACTAAACCAAAAACC
* *
38212605 CTAAATCCTAAACCATAAACC
1 CTAAATACTAAACCAAAAACC
38212626 CTAAA
1 CTAAA
38212631 ATAAAACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
CTAAATACTAAACCAAAAACC
Found at i:38215156 original size:91 final size:91
Alignment explanation
Indices: 38215001--38215216 Score: 281
Period size: 91 Copynumber: 2.4 Consensus size: 91
38214991 TTTTGGAGGT
* * * * *
38215001 TCTGGCGTGTTTTCAGTTGAAAAGCTTTTATGAGTAATTTAGCGTGTTATCAGGAGAGAATATTT
1 TCTGGCGTGTTATCAGTTGGAAAGCTCTTATGAGAAATTTAGCATGTTATCAGGAGAGAATATTT
*
38215066 AGCCTACGAGCTTTGTACTATGTGCA
66 AGCCTACGAGCTTTGGACTATGTGCA
* * * *
38215092 TCTGGTGTGTTATCGGTTGGAAAGCTCTTATGAGAAATTT-GACATGTTATCGGGGGAGAATATT
1 TCTGGCGTGTTATCAGTTGGAAAGCTCTTATGAGAAATTTAG-CATGTTATCAGGAGAGAATATT
* *
38215156 TAGCCTATGGGCTTTGGACTATGTGCA
65 TAGCCTACGAGCTTTGGACTATGTGCA
* *
38215183 TCTAGCGTGTTATCAGTTGGAATAACTCTTATGA
1 TCTGGCGTGTTATCAGTTGGAA-AGCTCTTATGA
38215217 TCAAACTGGT
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
90 1 0.01
91 96 0.90
92 10 0.09
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.37
Consensus pattern (91 bp):
TCTGGCGTGTTATCAGTTGGAAAGCTCTTATGAGAAATTTAGCATGTTATCAGGAGAGAATATTT
AGCCTACGAGCTTTGGACTATGTGCA
Found at i:38220088 original size:18 final size:17
Alignment explanation
Indices: 38220049--38220090 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
38220039 TAATTTTAAA
*
38220049 ATATATT-TACAAATTC
1 ATATATTATAAAAATTC
*
38220065 AAATATTATAAAAATTAC
1 ATATATTATAAAAATT-C
38220083 ATATATTA
1 ATATATTA
38220091 AACCCCATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATTATAAAAATTC
Found at i:38220585 original size:18 final size:18
Alignment explanation
Indices: 38220519--38220585 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 18
38220509 AAATTATAAA
* *
38220519 AATAAAAATACCAAAATA
1 AATAAAAATATCAAAATT
*
38220537 AAT-CAAA-ATCAAAATT
1 AATAAAAATATCAAAATT
*
38220553 AA-AAAAATATAAAAAGTT
1 AATAAAAATATCAAAA-TT
38220571 AATAAAAAT-TCAAAA
1 AATAAAAATATCAAAA
38220586 AAAAAATTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 12 0.31
17 9 0.23
18 12 0.31
19 6 0.15
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.21
Consensus pattern (18 bp):
AATAAAAATATCAAAATT
Found at i:38222026 original size:25 final size:25
Alignment explanation
Indices: 38221979--38222031 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
38221969 TACATTAATC
*
38221979 AAAGTTTAAGTGGGAAACTAAAAAT
1 AAAGTTTAAGTGGGAAACGAAAAAT
* *
38222004 AAAGTTTAATTGGGAGAA-GAAAAGT
1 AAAGTTTAAGTGGGA-AACGAAAAAT
38222029 AAA
1 AAA
38222032 AAAATACGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAGTTTAAGTGGGAAACGAAAAAT
Found at i:38269943 original size:18 final size:18
Alignment explanation
Indices: 38269920--38269954 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38269910 ATAAAAAAGA
*
38269920 AAAATATTTTTAATAATG
1 AAAATATATTTAATAATG
*
38269938 AAAATATATTTGATAAT
1 AAAATATATTTAATAAT
38269955 TATTATTCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
AAAATATATTTAATAATG
Found at i:38271635 original size:20 final size:20
Alignment explanation
Indices: 38271591--38271628 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38271581 GCGATTCAAT
38271591 ATATATAATAATTATTTAAC
1 ATATATAATAATTATTTAAC
38271611 ATATATAATTAATT-TTTA
1 ATATATAA-TAATTATTTA
38271629 TAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATAATAATTATTTAAC
Found at i:38274548 original size:14 final size:14
Alignment explanation
Indices: 38274513--38274578 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 14
38274503 TCAAAACTCT
* *
38274513 AACCTTAAATCCCG
1 AACCTTAAATCTCA
38274527 AA-CTTAAATCTCA
1 AACCTTAAATCTCA
* *
38274540 AACCTTAAACCTTA
1 AACCTTAAATCTCA
** * *
38274554 AATTTTAAATTTTA
1 AACCTTAAATCTCA
38274568 AACCTTAAATC
1 AACCTTAAATC
38274579 AAGTTTAGGA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
13 11 0.28
14 29 0.73
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (14 bp):
AACCTTAAATCTCA
Found at i:38274555 original size:21 final size:21
Alignment explanation
Indices: 38274529--38274578 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
38274519 AAATCCCGAA
38274529 CTTAAATCTCAAACCTTAAAC
1 CTTAAATCTCAAACCTTAAAC
* * **
38274550 CTTAAATTTTAAATTTTAAAC
1 CTTAAATCTCAAACCTTAAAC
38274571 CTTAAATC
1 CTTAAATC
38274579 AAGTTTAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (21 bp):
CTTAAATCTCAAACCTTAAAC
Found at i:38278093 original size:10 final size:10
Alignment explanation
Indices: 38278078--38278112 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
38278068 TGAAATGAAA
38278078 TAGAAAATTT
1 TAGAAAATTT
*
38278088 TAGAAAAATT
1 TAGAAAATTT
38278098 TA-AAAATTT
1 TAGAAAATTT
38278107 TAGAAA
1 TAGAAA
38278113 CAAAGGTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (10 bp):
TAGAAAATTT
Found at i:38285248 original size:20 final size:20
Alignment explanation
Indices: 38285201--38285249 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
38285191 TTATAAAAAA
* **
38285201 TAAAAAAATTATTAAAATTT
1 TAAAAAAATCATTAAAATCG
**
38285221 TATTAAAATCATTAAAATCG
1 TAAAAAAATCATTAAAATCG
38285241 TAAAAAAAT
1 TAAAAAAAT
38285250 TATAAAATGT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAAAAATCATTAAAATCG
Found at i:38285558 original size:19 final size:18
Alignment explanation
Indices: 38285536--38285665 Score: 74
Period size: 19 Copynumber: 7.2 Consensus size: 18
38285526 TTTTGTTGCA
38285536 TTTTATTATTTTTATAATT
1 TTTTATTATTTTTATAA-T
* **
38285555 TTTTATAATTTTTACGA-
1 TTTTATTATTTTTATAAT
* *
38285572 TTTTATAATTTTTAATAAA
1 TTTTATTATTTTT-ATAAT
* *
38285591 TTTTAGATATTTTTAATAAAA
1 TTTTA-TTATTTTT-AT-AAT
* * *
38285612 TTTAATCATTTTTATAAC
1 TTTTATTATTTTTATAAT
38285630 TTTTATTAATTTTTAT--T
1 TTTTATT-ATTTTTATAAT
38285647 TTTTA-TA-TTTTAT-AT
1 TTTTATTATTTTTATAAT
38285662 TTTT
1 TTTT
38285666 TTGCCTCATC
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
14 6 0.07
15 6 0.07
16 1 0.01
17 18 0.20
18 9 0.10
19 29 0.32
20 15 0.16
21 7 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATTATTTTTATAAT
Found at i:38285604 original size:20 final size:20
Alignment explanation
Indices: 38285579--38285644 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
38285569 CGATTTTATA
38285579 ATTTTTAATAAATTTTAGAT-
1 ATTTTTAATAAATTTTA-ATC
*
38285599 ATTTTTAATAAAATTTAATC
1 ATTTTTAATAAATTTTAATC
* * *
38285619 ATTTTT-ATAACTTTTATTA
1 ATTTTTAATAAATTTTAATC
38285638 ATTTTTA
1 ATTTTTA
38285645 TTTTTTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTAATAAATTTTAATC
Found at i:38285612 original size:21 final size:19
Alignment explanation
Indices: 38285571--38285615 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
38285561 AATTTTTACG
*
38285571 ATTTTATAATTTTTAATAA
1 ATTTTAGAATTTTTAATAA
38285590 ATTTTAGATATTTTTAATAA
1 ATTTTAGA-ATTTTTAATAA
*
38285610 AATTTA
1 ATTTTA
38285616 ATCATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTTAGAATTTTTAATAA
Found at i:38285645 original size:10 final size:9
Alignment explanation
Indices: 38285536--38285665 Score: 83
Period size: 9 Copynumber: 14.4 Consensus size: 9
38285526 TTTTGTTGCA
*
38285536 TTTTATTAT
1 TTTTATAAT
38285545 TTTTATAATT
1 TTTTATAA-T
38285555 TTTTATAAT
1 TTTTATAAT
**
38285564 TTTTACGA-
1 TTTTATAAT
38285572 TTTTATAAT
1 TTTTATAAT
*
38285581 TTTTAATAAA
1 TTTT-ATAAT
*
38285591 TTTTAGATAT
1 TTTTATA-AT
*
38285601 TTTTAATAAAA
1 TTTT-AT-AAT
* *
38285612 TTTAATCAT
1 TTTTATAAT
*
38285621 TTTTATAAC
1 TTTTATAAT
38285630 TTTTATTAAT
1 TTTTA-TAAT
38285640 TTTTAT--T
1 TTTTATAAT
38285647 TTTTAT-A-
1 TTTTATAAT
38285654 TTTTAT-AT
1 TTTTATAAT
38285662 TTTT
1 TTTT
38285666 TTGCCTCATC
Statistics
Matches: 95, Mismatches: 17, Indels: 19
0.73 0.13 0.15
Matches are distributed among these distances:
7 14 0.15
8 10 0.11
9 33 0.35
10 32 0.34
11 5 0.05
12 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:38302946 original size:131 final size:131
Alignment explanation
Indices: 38302713--38303145 Score: 781
Period size: 131 Copynumber: 3.4 Consensus size: 131
38302703 TTGATTTACA
*
38302713 AACGTAA-CATATTGAATTTTCCAATTAA---TCATACAATCATAATCAAATCAGAGTTTGTTCA
1 AACGTAATCA-ATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCA
* *
38302774 AATATAAACCCAAAACTCATGTACTCATTTCTTGAACTATGAACATAATTCCTTAAAAATAATTA
65 AATATAAACCCAAAACTCATGTACTCATTTCTTGAATTATGAACATAAATCCTTAAAAATAATTA
38302839 TG
130 TG
38302841 AACGTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAA
1 AACGTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAA
38302906 ATATAAACCCAAAACTCATGTACTCATTTCTTGAATTATGAACATAAATCCTTAAAAATAATTAT
66 ATATAAACCCAAAACTCATGTACTCATTTCTTGAATTATGAACATAAATCCTTAAAAATAATTAT
38302971 G
131 G
38302972 AACGTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAA
1 AACGTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAA
38303037 ATATAAACCCAAAACTCATGTACTCATTTCTTGAATTATGAACATAAATCCTTAAAAATAATTAT
66 ATATAAACCCAAAACTCATGTACTCATTTCTTGAATTATGAACATAAATCCTTAAAAATAATTAT
38303102 G
131 G
38303103 AACGTAATCAATTGAATTATCCAATTAATTG---TACAATCATAAT
1 AACGTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAAT
38303146 TTTACAGTTG
Statistics
Matches: 298, Mismatches: 3, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
128 36 0.12
129 2 0.01
131 260 0.87
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (131 bp):
AACGTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAA
ATATAAACCCAAAACTCATGTACTCATTTCTTGAATTATGAACATAAATCCTTAAAAATAATTAT
G
Found at i:38303278 original size:110 final size:110
Alignment explanation
Indices: 38303107--38303354 Score: 270
Period size: 110 Copynumber: 2.3 Consensus size: 110
38303097 ATTATGAACG
** *
38303107 TAATCAATTGAATTATCCAATTAATTGTACAATCATAATTTTACAGTTGGAACATAATTTGTTTG
1 TAATCAATTGAATTATCCAATTAATTGTACAATCATAAACTTACAGTTGGAACATAATTTGTTCG
38303172 AATATAAACCCTAAACACATATACACGTGTCTCGAATTACTAACA
66 AATATAAACCCTAAACACATATACACGTGTCTCGAATTACTAACA
* * * * *
38303217 TAATCGATTGAATTA-CTCAATTGATTGTACACTCATAAACTTATAGTT-GAATCGA-ATTTTGT
1 TAATCAATTGAATTATC-CAATTAATTGTACAATCATAAACTTACAGTTGGAA-C-ATAATTTGT
* * ** * *
38303279 TCGAATATAAACCCTAAACTCATATATAAATGTCTCAAATTACGAA-A
63 TCGAATATAAACCCTAAACACATATACACGTGTCTCGAATTACTAACA
* * * *
38303326 GTAACCAGTTGAATGATCAAATTAATTGT
1 -TAATCAATTGAATTATCCAATTAATTGT
38303355 TTCAATTGAA
Statistics
Matches: 113, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
109 5 0.04
110 106 0.94
111 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (110 bp):
TAATCAATTGAATTATCCAATTAATTGTACAATCATAAACTTACAGTTGGAACATAATTTGTTCG
AATATAAACCCTAAACACATATACACGTGTCTCGAATTACTAACA
Found at i:38303602 original size:132 final size:131
Alignment explanation
Indices: 38303433--38303675 Score: 317
Period size: 132 Copynumber: 1.8 Consensus size: 131
38303423 ATTGATTGCA
* * *
38303433 TTATTCAATTAATCTATAATCACAAAGTTACAATTGAATCGAAAGTTGTT-AAAGTGTAAACCCT
1 TTATCCAATTAATCTATAATCACAAAGTTACAATTGAATCAAAAGTTGTTCAAA-TATAAACCCT
* * ** * *
38303497 ACACTCATATCCGCATGTCTTGAATTATGAACGTAACCGATTGAATTTTAATTAATTGTACAATC
65 AAACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTTTAATTAATTGTACAATC
38303562 AT
130 AT
** * * *
38303564 TTATCCAATTAATCGTATAATCATGAATTTACAATTGAATCAAAATTTGTTCAAATATGAACCCT
1 TTATCCAATTAATC-TATAATCACAAAGTTACAATTGAATCAAAAGTTGTTCAAATATAAACCCT
* *
38303629 AAACTCATATGCACATGTCTCAAATTTTGAACATAACCAATTGAATT
65 AAACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATT
38303676 ATCCAATTAA
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
131 13 0.14
132 78 0.83
133 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (131 bp):
TTATCCAATTAATCTATAATCACAAAGTTACAATTGAATCAAAAGTTGTTCAAATATAAACCCTA
AACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTTTAATTAATTGTACAATCA
T
Found at i:38304330 original size:24 final size:24
Alignment explanation
Indices: 38304301--38304347 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
38304291 TTCAAAGATT
38304301 ATGAAATTATAAGTTAATATAATG
1 ATGAAATTATAAGTTAATATAATG
* *
38304325 ATGAAATTGTAATTTAATATAAT
1 ATGAAATTATAAGTTAATATAAT
38304348 AATAAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (24 bp):
ATGAAATTATAAGTTAATATAATG
Found at i:38305736 original size:31 final size:31
Alignment explanation
Indices: 38305687--38305750 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
38305677 TGTCATTAGA
38305687 GTCTAAAAAGCAACAGGTA-CTCTGTATCGGT
1 GTCTAAAAAGCAACAGGTACCTC-GTATCGGT
* ** *
38305718 GTCTAAAAAGTATTAGGTACCTCGTATTGGT
1 GTCTAAAAAGCAACAGGTACCTCGTATCGGT
38305749 GT
1 GT
38305751 TGGATGCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (31 bp):
GTCTAAAAAGCAACAGGTACCTCGTATCGGT
Found at i:38309481 original size:66 final size:67
Alignment explanation
Indices: 38309400--38309534 Score: 263
Period size: 66 Copynumber: 2.0 Consensus size: 67
38309390 AAAGTTATAG
38309400 AAACATGTTAATTATTTTGAAAGTTTTAATTTTGATGAAATTTTGTAACTCGG-TAAATACGCTT
1 AAACATGTTAATTATTTTGAAAGTTTTAATTTTGATGAAATTTTGTAACTCGGTTAAATACGCTT
38309464 AC
66 AC
38309466 AAACATGTTAATTATTTTGAAAGTTTTAATTTTGATGAAATTTTGTAACTCGGTTAAATACGCTT
1 AAACATGTTAATTATTTTGAAAGTTTTAATTTTGATGAAATTTTGTAACTCGGTTAAATACGCTT
38309531 AC
66 AC
38309533 AA
1 AA
38309535 GTGTATGTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 53 0.78
67 15 0.22
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (67 bp):
AAACATGTTAATTATTTTGAAAGTTTTAATTTTGATGAAATTTTGTAACTCGGTTAAATACGCTT
AC
Found at i:38313362 original size:20 final size:20
Alignment explanation
Indices: 38313324--38313362 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38313314 GGTAAGTATA
**
38313324 CATATGAAACGGTTCATGAT
1 CATATGAAAAAGTTCATGAT
*
38313344 CATATGAAAAAGTTGATGA
1 CATATGAAAAAGTTCATGA
38313363 ATTAAATGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (20 bp):
CATATGAAAAAGTTCATGAT
Found at i:38316454 original size:2 final size:2
Alignment explanation
Indices: 38316447--38316488 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
38316437 TCAATTAAAG
38316447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38316489 CAAATTTGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38320609 original size:114 final size:114
Alignment explanation
Indices: 38320409--38320639 Score: 408
Period size: 114 Copynumber: 2.0 Consensus size: 114
38320399 TGCAAATTTG
* *
38320409 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCTAAAATTGGTGCCACAAGGGCGGCC
1 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGATGCCACAAGGGCGGCC
* *
38320474 ATACGGCCGTATGAGATACACAGGCTAGAGGTACGATCGTGTTCTTATT
66 ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
*
38320523 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGATGCCACAAGGGTGGCC
1 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGATGCCACAAGGGCGGCC
*
38320588 ATACGGCCGTGTGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
66 ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
38320637 TGT
1 TGT
38320640 AAATTTTTTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (114 bp):
TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGATGCCACAAGGGCGGCC
ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
Found at i:38324490 original size:19 final size:20
Alignment explanation
Indices: 38324466--38324504 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
38324456 AATATAATAA
*
38324466 AAAATATTTTTTTA-ATTTT
1 AAAATACTTTTTTAGATTTT
38324485 AAAATACTTTTTTAGATTTT
1 AAAATACTTTTTTAGATTTT
38324505 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
AAAATACTTTTTTAGATTTT
Found at i:38324525 original size:29 final size:29
Alignment explanation
Indices: 38324471--38324526 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
38324461 AATAAAAAAT
**
38324471 ATTTTTTTAATTTTAAAATACTTTTTTAG
1 ATTTTTTTAATTTTAAAATAAATTTTTAG
*
38324500 ATTTTTTTATTTTTAAAATAAATTTTT
1 ATTTTTTTAATTTTAAAATAAATTTTT
38324527 GGTGTTTATT
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:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATAAATTTTTAG
Found at i:38329115 original size:3 final size:3
Alignment explanation
Indices: 38329107--38329172 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
38329097 CATTTGACCC
38329107 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38329155 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
38329173 AATCATCATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38329180 original size:3 final size:3
Alignment explanation
Indices: 38329174--38329201 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
38329164 TATTATTATA
38329174 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
38329202 AAACTAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:38350236 original size:12 final size:12
Alignment explanation
Indices: 38350221--38350256 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
38350211 CCAAAAATAG
38350221 AAATGGAAATGA
1 AAATGGAAATGA
* *
38350233 AAATGAAAATAA
1 AAATGGAAATGA
38350245 AAATGGAAATGA
1 AAATGGAAATGA
38350257 TCCATTTGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (12 bp):
AAATGGAAATGA
Found at i:38350475 original size:26 final size:26
Alignment explanation
Indices: 38350419--38350475 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
38350409 TACCAGGAGC
*
38350419 AAAATCGTCAAAATTTTATTAGAGGT
1 AAAATCGTCAAAATTTTACTAGAGGT
* * * *
38350445 TAAATTGTCAAAATTTTGCTAGGGGT
1 AAAATCGTCAAAATTTTACTAGAGGT
38350471 AAAAT
1 AAAAT
38350476 AGGGATGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTAGAGGT
Found at i:38362317 original size:104 final size:103
Alignment explanation
Indices: 38362123--38362441 Score: 351
Period size: 102 Copynumber: 3.0 Consensus size: 103
38362113 GGAAAAAAAA
* *
38362123 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA--ACAGTAATAAAAAATTTAAATTTTTTTCGT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA--AAT--AAAA---AAATATATTTCGT
* *
38362186 GTCAGAATCAGATATCAATATACGAAAAAAGTTAAAAAAATATTTTT
59 GTCAGAATCAGATATCAGTATACGAAAAAAG-TAAAAAAA-ATTTAT
*
38362233 TTTGGGTGCTGGCCTGTCAATGGTCGGCACCCCA-TACAAATTAAAAAAA-A-ATTTCGTGTCAG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCA-CCCAGTACAAA-TAAAAAAATATATTTCGTGTCAG
* ***
38362295 AATCAGATATCAGTATAAGAAAAAAGTAAAAAAAAAACAT
64 AATCAGATATCAGTATACGAAAAAAGTAAAAAAAATTTAT
* *
38362335 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATAAAAAAATTATTTTTTTTCGTGTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATAAAAAAA-TA---TATTTCGTGTC
*
38362400 AGAATCAGATATCAGTATACCAAAAAAGTAAAAAAAAATTTA
62 AGAATCAGATATCAGTATACGAAAAAAGT-AAAAAAAATTTA
38362442 AAAAGTAAAA
Statistics
Matches: 181, Mismatches: 17, Indels: 24
0.82 0.08 0.11
Matches are distributed among these distances:
101 12 0.07
102 36 0.20
103 9 0.05
104 35 0.19
106 3 0.02
107 35 0.19
108 9 0.05
109 4 0.02
110 30 0.17
111 5 0.03
112 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (103 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATAAAAAAATATATTTCGTGTCAGAA
TCAGATATCAGTATACGAAAAAAGTAAAAAAAATTTAT
Found at i:38362363 original size:102 final size:99
Alignment explanation
Indices: 38362115--38362437 Score: 353
Period size: 107 Copynumber: 3.1 Consensus size: 99
38362105 AAAAAAAAGG
38362115 AAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA-ACAGTAATAAAAAATTTAAATT
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCATACA--AATAAAAAA---AAA--
*
38362178 TTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAAGTTAAA
59 --TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAG-TAAA
*** *
38362222 AAAATATTTTTTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCCATACAAATTAAAAAAAAATTT
1 AAAA-A-AAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA-CCCATACAAA-TAAAAAAAAATTT
*
38362287 CGTGTCAGAATCAGATATCAGTATAAGAAAAAAGTAAA
62 CGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAA
38362325 AAAAAAACATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATAAAAAAATTATTTT
1 AAAAAAA-ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA-TACAAATAAAAAAA--A----
* * *
38362390 TTTTCGTGTTAGAATCAGATATCAGTATACCAAAAAAGTAAA
58 ATTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAA
38362432 AAAAAA
1 AAAAAA
38362438 TTTAAAAAGT
Statistics
Matches: 188, Mismatches: 14, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
101 12 0.06
102 36 0.19
103 9 0.05
104 35 0.19
107 48 0.26
108 4 0.02
110 30 0.16
111 11 0.06
112 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (99 bp):
AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCATACAAATAAAAAAAAATTTCGTG
TCAGAATCAGATATCAGTATACGAAAAAAGTAAA
Found at i:38363306 original size:89 final size:88
Alignment explanation
Indices: 38363197--38363378 Score: 251
Period size: 89 Copynumber: 2.0 Consensus size: 88
38363187 GAGGTTTTGT
* *
38363197 TTTTTTCTTTACTCATTTGGGTACTTGAACTTTCAAAATGTATCAAAAAAAGCCTTCAAACCTTT
1 TTTTTTCTTTACTCAATTGGGTACTTGAACTTTCAAAATGTATCAAAAAAA-CCCTCAAA-CTTT
*
38363262 TCCAAAAA-AGCAATTAAGCCCCTAC
64 TCCAAAAAGA-CAATTAAGACCCTAC
* * *
38363287 TTTTTT-TTTACTTAATTGGGTACTTGAACTTTCAAAATGTATCAAAAAGACCCTCAAACTTTTT
1 TTTTTTCTTTACTCAATTGGGTACTTGAACTTTCAAAATGTATCAAAAAAACCCTCAAACTTTTC
*
38363351 CAAAAAGTACAATTAAGACCCTGC
66 CAAAAAG-ACAATTAAGACCCTAC
38363375 TTTT
1 TTTT
38363379 ATTAAAAATT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
87 11 0.13
88 24 0.29
89 42 0.51
90 6 0.07
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (88 bp):
TTTTTTCTTTACTCAATTGGGTACTTGAACTTTCAAAATGTATCAAAAAAACCCTCAAACTTTTC
CAAAAAGACAATTAAGACCCTAC
Found at i:38363470 original size:21 final size:20
Alignment explanation
Indices: 38363445--38363486 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38363435 TAAACAATTC
*
38363445 AAATATTAAAAATTAGAAAAA
1 AAATA-TAAAAATCAGAAAAA
*
38363466 AAATATAAAAATCATAAAAA
1 AAATATAAAAATCAGAAAAA
38363486 A
1 A
38363487 TTATAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATATAAAAATCAGAAAAA
Found at i:38363475 original size:8 final size:8
Alignment explanation
Indices: 38363464--38363512 Score: 53
Period size: 8 Copynumber: 5.6 Consensus size: 8
38363454 AAATTAGAAA
38363464 AAAAATAT
1 AAAAATAT
38363472 AAAAATCAT
1 AAAAAT-AT
38363481 AAAAAATTAT
1 -AAAAA-TAT
38363491 AAAACATAT
1 AAAA-ATAT
*
38363500 AGAAATAT
1 AAAAATAT
38363508 AAAAA
1 AAAAA
38363513 AATTATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 14 0.40
9 12 0.34
10 8 0.23
11 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:38363484 original size:19 final size:18
Alignment explanation
Indices: 38363462--38363512 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
38363452 AAAAATTAGA
38363462 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAA-CAT
*
38363481 AAAAAATTAT-AAAACAT
1 AAAAAAATATAAAAACAT
* *
38363498 ATAGAAATATAAAAA
1 AAAAAAATATAAAAA
38363513 AATTATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 10 0.37
18 8 0.30
19 9 0.33
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAAATATAAAAACAT
Found at i:38363499 original size:28 final size:28
Alignment explanation
Indices: 38363463--38363522 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
38363453 AAAATTAGAA
38363463 AAAAAATATAAAAATCAT-AAAAAATTAT
1 AAAAAATATAAAAAT-ATAAAAAAATTAT
* *
38363491 AAAACATATAGAAATATAAAAAAATTAT
1 AAAAAATATAAAAATATAAAAAAATTAT
38363519 AAAA
1 AAAA
38363523 TTTTATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (28 bp):
AAAAAATATAAAAATATAAAAAAATTAT
Found at i:38363513 original size:19 final size:18
Alignment explanation
Indices: 38363463--38363513 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
38363453 AAAATTAGAA
*
38363463 AAAAAATATAAAAATCAT
1 AAAAAATATAAAAAACAT
*
38363481 AAAAAAT-TATAAAACAT
1 AAAAAATATAAAAAACAT
*
38363498 ATAGAAATATAAAAAA
1 A-AAAAATATAAAAAA
38363514 ATTATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.33
18 12 0.44
19 6 0.22
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAATATAAAAAACAT
Found at i:38363827 original size:18 final size:19
Alignment explanation
Indices: 38363785--38363828 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
38363775 ATTTTTTATG
38363785 ATTTTTATAAAAAATTTGTA
1 ATTTTT-TAAAAAATTTGTA
*
38363805 A-TTTTTAATAAA-TTGTA
1 ATTTTTTAAAAAATTTGTA
38363822 ATTTTTT
1 ATTTTTT
38363829 CACCACATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 4 0.18
20 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTTTTAAAAAATTTGTA
Found at i:38364947 original size:82 final size:82
Alignment explanation
Indices: 38364810--38364971 Score: 245
Period size: 82 Copynumber: 2.0 Consensus size: 82
38364800 CACTTTCGCC
* *
38364810 ACCAAGAAATCGGTTCGGTTTAATTTAAGTAAGTTCTTTGTTTTTGTATCATGTCTAAGAGCTAG
1 ACCAAGAAATCGGTTCAGTTCAATTTAAGTAAGTTCTTTGTTTTTGTATCATGTCTAAGAGCTAG
*
38364875 TTTAATAATGCTTTTCA
66 TTTAACAATGCTTTTCA
* * *
38364892 ACCAAGAGATCGGTTCAGTTCAATTTGATTAAGTT-TGTTGTTTTTGTATCATGTCTAAGAGCTA
1 ACCAAGAAATCGGTTCAGTTCAATTTAAGTAAGTTCT-TTGTTTTTGTATCATGTCTAAGAGCTA
*
38364956 GTTTAGCAATGCTTTT
65 GTTTAACAATGCTTTT
38364972 TAAAAGTGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 1 0.01
82 71 0.99
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (82 bp):
ACCAAGAAATCGGTTCAGTTCAATTTAAGTAAGTTCTTTGTTTTTGTATCATGTCTAAGAGCTAG
TTTAACAATGCTTTTCA
Found at i:38366728 original size:13 final size:13
Alignment explanation
Indices: 38366710--38366750 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
38366700 CAAAACTAAT
*
38366710 AGAAAAGGAAGAA
1 AGAAAAGAAAGAA
*
38366723 AGAAAAGAAAGGA
1 AGAAAAGAAAGAA
*
38366736 AGACAAGAAAGAA
1 AGAAAAGAAAGAA
38366749 AG
1 AG
38366751 GGGCGCACGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.68, C:0.02, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAGAA
Found at i:38366735 original size:17 final size:17
Alignment explanation
Indices: 38366713--38366751 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
38366703 AACTAATAGA
38366713 AAAGGAAGA-AAGAAAAG
1 AAAGGAAGACAAG-AAAG
38366730 AAAGGAAGACAAGAAAG
1 AAAGGAAGACAAGAAAG
38366747 AAAGG
1 AAAGG
38366752 GGCGCACGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.67, C:0.03, G:0.31, T:0.00
Consensus pattern (17 bp):
AAAGGAAGACAAGAAAG
Found at i:38367628 original size:14 final size:15
Alignment explanation
Indices: 38367606--38367682 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
38367596 CAATCAAACA
38367606 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
38367620 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
38367635 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
38367655 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
38367669 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
38367683 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:38367647 original size:20 final size:20
Alignment explanation
Indices: 38367622--38367661 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38367612 AATATTTTCC
*
38367622 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
38367642 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
38367662 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:38367667 original size:34 final size:35
Alignment explanation
Indices: 38367610--38367676 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
38367600 CAAACACCAG
*
38367610 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
38367645 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
38367677 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:38368252 original size:18 final size:18
Alignment explanation
Indices: 38368229--38368321 Score: 62
Period size: 18 Copynumber: 4.7 Consensus size: 18
38368219 GAAATGACCA
38368229 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
38368247 AGATGAGAAATATTGAAT-TGG
1 AGATGAG-AA-A-TGAATAT-G
* *
38368268 CAAAAATGAGAAATGAATATA
1 ---AGATGAGAAATGAATATG
*
38368289 AGATGAGAAATGTGATATG
1 AGATGAGAAATG-AATATG
*
38368308 AAATGATGAAATGA
1 AGATGA-GAAATGA
38368322 GATGTGAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
18 18 0.31
19 11 0.19
20 8 0.14
21 11 0.19
22 2 0.03
23 2 0.03
24 6 0.10
ACGTcount: A:0.51, C:0.01, G:0.25, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:38368320 original size:20 final size:18
Alignment explanation
Indices: 38368271--38368330 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
38368261 GAATTGGCAA
*
38368271 AAATGAGAAATGAATAT-
1 AAATGAGAAATGGATATG
38368288 AAGATGAGAAATGTGATATG
1 AA-ATGAGAAATG-GATATG
*
38368308 AAATGATGAAATGAGATGTG
1 AAATGA-GAAATG-GATATG
38368328 AAA
1 AAA
38368331 CTTGAAACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.06
18 10 0.28
19 8 0.22
20 16 0.44
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (18 bp):
AAATGAGAAATGGATATG
Found at i:38368536 original size:18 final size:18
Alignment explanation
Indices: 38368513--38368551 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
38368503 ATAATATTTC
38368513 TTGTTGCATTCTCACATT
1 TTGTTGCATTCTCACATT
38368531 TTGTTGCATTCTCACATT
1 TTGTTGCATTCTCACATT
38368549 TTG
1 TTG
38368552 ATTACTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.13, T:0.51
Consensus pattern (18 bp):
TTGTTGCATTCTCACATT
Found at i:38372231 original size:37 final size:37
Alignment explanation
Indices: 38372190--38372264 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
38372180 ATCTATTTTC
* *
38372190 ATTTTCTTTCTTCTATCTTTTTCCCTGGTCTGTTGGT
1 ATTTTCTTTCTTCTATCTTTTTCCCTGGCCTGCTGGT
*
38372227 ATTTTTTTTCTTCTATCTTTTTCCCTGGCCTGCTGGT
1 ATTTTCTTTCTTCTATCTTTTTCCCTGGCCTGCTGGT
38372264 A
1 A
38372265 AAGAAGATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.07, C:0.23, G:0.13, T:0.57
Consensus pattern (37 bp):
ATTTTCTTTCTTCTATCTTTTTCCCTGGCCTGCTGGT
Found at i:38385234 original size:6 final size:6
Alignment explanation
Indices: 38385223--38385261 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
38385213 TCAATGTAAA
*
38385223 AAAAAC AAAAAC AAAAA- AAACA- AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
38385262 GAACCTCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 8 0.27
6 22 0.73
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:38385239 original size:7 final size:7
Alignment explanation
Indices: 38385222--38385261 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
38385212 TTCAATGTAA
38385222 AAAAAAC
1 AAAAAAC
*
38385229 AAAAACAA
1 AAAAA-AC
38385237 AAAAAAC
1 AAAAAAC
38385244 AAAAAAC
1 AAAAAAC
38385251 -AAAAAC
1 AAAAAAC
38385257 AAAAA
1 AAAAA
38385262 GAACCTCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:38385240 original size:15 final size:16
Alignment explanation
Indices: 38385220--38385255 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
38385210 GATTCAATGT
38385220 AAAAAAAAC-AAAAAC
1 AAAAAAAACAAAAAAC
38385235 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
38385251 AAAAA
1 AAAAA
38385256 CAAAAAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:38385783 original size:23 final size:23
Alignment explanation
Indices: 38385751--38385800 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
38385741 AAAAAAGAAA
*
38385751 AAAAAGATGAGAAATGAAAAAGT
1 AAAAAGATGAAAAATGAAAAAGT
*
38385774 GAAAAA-ATGAAAAATGGAAAAGT
1 -AAAAAGATGAAAAATGAAAAAGT
38385797 AAAA
1 AAAA
38385801 TAGAGAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 15 0.62
24 5 0.21
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (23 bp):
AAAAAGATGAAAAATGAAAAAGT
Found at i:38387409 original size:133 final size:133
Alignment explanation
Indices: 38387263--38387506 Score: 409
Period size: 133 Copynumber: 1.8 Consensus size: 133
38387253 TAGTAGTGGG
*
38387263 GCAGATCAAAGATGGCAGATTTTACCTCC-CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 GCAGATCAAAGATGGCAGATTTTACCTCCTC-GTGGTTACAGTGGAGTACATTGAAACCAGTAAT
* * *
38387327 TTTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTTAGATCTTACCTTCCTGCATAGACAG
65 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTACCTTCCTGCATAGACAG
38387392 CGAA
130 CGAA
* *
38387396 GCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAACCAGTAATT
1 GCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAACCAGTAATT
*
38387461 CTACTTCCCTGGACAGCAGTGGAATAGATTGAAGATTTCAGATCTT
66 CTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTT
38387507 NNNNNNNNNN
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
133 102 0.99
134 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (133 bp):
GCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAACCAGTAATT
CTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTACCTTCCTGCATAGACAGC
GAA
Found at i:38394672 original size:24 final size:24
Alignment explanation
Indices: 38394645--38394690 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
38394635 AGAACAATCC
* *
38394645 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
38394669 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
38394691 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:38399962 original size:19 final size:19
Alignment explanation
Indices: 38399940--38400005 Score: 114
Period size: 19 Copynumber: 3.5 Consensus size: 19
38399930 NNNNATATAT
38399940 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
**
38399959 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATGC
38399978 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
38399997 AATCTTAGA
1 AATCTTAGA
38400006 AGATATGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
AATCTTAGATATGATATGC
Found at i:38400031 original size:22 final size:21
Alignment explanation
Indices: 38399934--38400031 Score: 91
Period size: 19 Copynumber: 4.9 Consensus size: 21
38399924 NNNNNNNNNN
*
38399934 ATATATAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
38399953 ATATGCAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
38399972 ATATATAATCTT--AGATATG
1 ATATGTAATCTTAGAGATATG
*
38399991 ATATGCAATCTTAGAAGATATG
1 ATATGTAATCTTAG-AGATATG
*
38400013 ATTTTGTAATCTTAGAGAT
1 A-TATGTAATCTTAGAGAT
38400032 TTAATTTATA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 44 0.66
22 12 0.18
23 11 0.16
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGTAATCTTAGAGATATG
Found at i:38401541 original size:2 final size:2
Alignment explanation
Indices: 38401534--38401558 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38401524 NNNNNNNTAC
38401534 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 A
38401559 CACACACACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38407996 original size:37 final size:38
Alignment explanation
Indices: 38407943--38408017 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
38407933 TTTCAAATCC
38407943 AAAAATTCAACTTTTCAAAACTCGAATGTATATAAAAA
1 AAAAATTCAACTTTTCAAAACTCGAATGTATATAAAAA
38407981 AAAAATTCAAC-TTTCAAAACTCGAATGTATATAAAAA
1 AAAAATTCAACTTTTCAAAACTCGAATGTATATAAAAA
38408018 TTAAAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 26 0.70
38 11 0.30
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.28
Consensus pattern (38 bp):
AAAAATTCAACTTTTCAAAACTCGAATGTATATAAAAA
Found at i:38408065 original size:10 final size:11
Alignment explanation
Indices: 38408052--38408098 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
38408042 TTTTTTTTTC
38408052 AATTTTTT-AT
1 AATTTTTTAAT
38408062 AATTCTTTTAAT
1 AATT-TTTTAAT
*
38408074 AA-TTATTAAT
1 AATTTTTTAAT
38408084 -ATTTTTTAAT
1 AATTTTTTAAT
38408094 AATTT
1 AATTT
38408099 CTAAATTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 1 0.03
10 17 0.55
11 9 0.29
12 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:38416528 original size:18 final size:18
Alignment explanation
Indices: 38416507--38416544 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
38416497 ATCTAATTCT
38416507 AATAACTATTAGAATTTA
1 AATAACTATTAGAATTTA
38416525 AATAACTATTAGAATTTA
1 AATAACTATTAGAATTTA
38416543 AA
1 AA
38416545 GTACATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAACTATTAGAATTTA
Found at i:38416641 original size:23 final size:23
Alignment explanation
Indices: 38416611--38416656 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
38416601 ACACTCCCCC
38416611 TTGGATGTCCATTGATAGATACT
1 TTGGATGTCCATTGATAGATACT
38416634 TTGGATGTCCATTGATAGATACT
1 TTGGATGTCCATTGATAGATACT
38416657 GTGTCTCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (23 bp):
TTGGATGTCCATTGATAGATACT
Found at i:38420552 original size:24 final size:24
Alignment explanation
Indices: 38420525--38420570 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
38420515 AACCTAATTC
38420525 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
38420549 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
38420571 ACTCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:38420586 original size:24 final size:24
Alignment explanation
Indices: 38420536--38420587 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
38420526 AATCAAAGTC
** **
38420536 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
38420560 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
38420584 AAAT
1 AAAT
38420588 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:38424980 original size:24 final size:24
Alignment explanation
Indices: 38424948--38424999 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
38424938 GATCAAAGTC
*
38424948 AAATATATTATGT-TAATAAATGCT
1 AAATATATTAT-TCTAATAAATACT
*
38424972 AAATATATTATTCTCATAAATACT
1 AAATATATTATTCTAATAAATACT
38424996 AAAT
1 AAAT
38425000 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATTCTAATAAATACT
Found at i:38425660 original size:20 final size:20
Alignment explanation
Indices: 38425618--38425661 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
38425608 TCTCAATAAT
* **
38425618 TAAATGCATGAAAGGTTTTA
1 TAAATGCATGAAACGTTAAA
38425638 TAAATGCATGAAACGTTAAA
1 TAAATGCATGAAACGTTAAA
38425658 TAAA
1 TAAA
38425662 AGAAACTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (20 bp):
TAAATGCATGAAACGTTAAA
Found at i:38426073 original size:20 final size:21
Alignment explanation
Indices: 38426040--38426081 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
38426030 CTTTTTTCTC
38426040 GTGTGATGCACAAGTGTAATGT
1 GTGTGATG-ACAAGTGTAATGT
38426062 GTGTGATG-CAAGTGTAATGT
1 GTGTGATGACAAGTGTAATGT
38426082 ATGTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.33
Consensus pattern (21 bp):
GTGTGATGACAAGTGTAATGT
Found at i:38427354 original size:20 final size:20
Alignment explanation
Indices: 38427318--38427355 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38427308 GTTTGTTATT
*
38427318 TTAATTATTCTATTACTAAA
1 TTAATTATTCTAATACTAAA
*
38427338 TTAATTATTTTAATACTA
1 TTAATTATTCTAATACTA
38427356 TTATTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTATTCTAATACTAAA
Found at i:38427771 original size:4 final size:4
Alignment explanation
Indices: 38427762--38427794 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
38427752 TGTTTTATCT
38427762 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
38427795 GTGTTCATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:38428464 original size:107 final size:108
Alignment explanation
Indices: 38428338--38428644 Score: 519
Period size: 108 Copynumber: 2.9 Consensus size: 108
38428328 AAATAATAAG
* * *
38428338 TAAGGCAATGTTTTGCGTTTGG-AAATTCGAGAAAACATACCGTAATGTGTTGGGTTTCTATTTT
1 TAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
38428402 TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
66 TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
* *
38428445 TAAGGCAATGTTTTGCGTTTGGAAAATTTGAGAAAACGTACCCTAATGTGTTGGGTTTCGATCTT
1 TAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
*
38428510 TTCGTTCGACCAAATAGCCAAAAATCCTTATAAAATTTCAAAA
66 TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
*
38428553 TAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACGTACCCTAATGTGCTGGGTTTCGA-TTT
1 TAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
* *
38428617 CTCGTTGGACCAAATAGCCAAATATCCT
66 TTCGTTCGACCAAATAGCCAAATATCCT
38428645 CTTGAATCTT
Statistics
Matches: 187, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
107 49 0.26
108 138 0.74
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (108 bp):
TAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
Found at i:38433495 original size:29 final size:29
Alignment explanation
Indices: 38433445--38433513 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 29
38433435 AATTTTATCA
*
38433445 ATTTTTTAATAAAAATTAAAT-ATTTCTTAT
1 ATTTTTT-ATTAAAATTAAATAATTT-TTAT
38433475 ATTTTTTATTAAAATCT-AATAATTTTTAT
1 ATTTTTTATTAAAAT-TAAATAATTTTTAT
**
38433504 AAATTTTATT
1 ATTTTTTATT
38433514 TTTTATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTTTTTATTAAAATTAAATAATTTTTAT
Found at i:38436512 original size:110 final size:111
Alignment explanation
Indices: 38436378--38436600 Score: 430
Period size: 110 Copynumber: 2.0 Consensus size: 111
38436368 TAAGTCTCAA
38436378 ATTTTGCTCAAAATTACCTAGATTTGTAAATGTTTATTCTAAACATTGTCCATTTATTTTTATAT
1 ATTTTGCTCAAAATTACCTAGATTTGTAAATGTTTATTCTAAACATTGTCCATTTATTTTTATAT
*
38436443 TTAAAAATATTATTTTTATTTATTATTTATATATTTTATTACAATT
66 TTAAAAATATTATTTTTATTTATTATTTAAATATTTTATTACAATT
38436489 ATTTTGCTC-AAATTACCTAGATTTGTAAATGTTTATTCTAAACATTGTCCATTTATTTTTATAT
1 ATTTTGCTCAAAATTACCTAGATTTGTAAATGTTTATTCTAAACATTGTCCATTTATTTTTATAT
38436553 TTAAAAATATTATTTTTATTTATTATTTAAATATTTTATTACAATT
66 TTAAAAATATTATTTTTATTTATTATTTAAATATTTTATTACAATT
38436599 AT
1 AT
38436601 ACACTTTTTC
Statistics
Matches: 111, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 102 0.92
111 9 0.08
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (111 bp):
ATTTTGCTCAAAATTACCTAGATTTGTAAATGTTTATTCTAAACATTGTCCATTTATTTTTATAT
TTAAAAATATTATTTTTATTTATTATTTAAATATTTTATTACAATT
Found at i:38436591 original size:26 final size:27
Alignment explanation
Indices: 38436540--38436592 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
38436530 ACATTGTCCA
*
38436540 TTTATTTTTATATTTAAAAATATTATT
1 TTTATTTATATATTTAAAAATATTATT
* *
38436567 TTTATTTAT-TATTTAAATATTTTATT
1 TTTATTTATATATTTAAAAATATTATT
38436593 ACAATTATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATTTATATATTTAAAAATATTATT
Found at i:38443499 original size:34 final size:36
Alignment explanation
Indices: 38443419--38443499 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
38443409 CAATATTAAA
* * * *
38443419 TGTGAGCCCAGCTCTAGTTGGATGAACTAACGGTAT
1 TGTGTGCCCAGCGCTAGTCGGATAAACTAACGGTAT
*
38443455 T-TGTGCCCAGCGCTAGTCGGATAAATTAAC-G-AT
1 TGTGTGCCCAGCGCTAGTCGGATAAACTAACGGTAT
38443488 TGTGTGCCCAGC
1 TGTGTGCCCAGC
38443500 ACTAATCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
33 3 0.08
34 11 0.28
35 24 0.62
36 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (36 bp):
TGTGTGCCCAGCGCTAGTCGGATAAACTAACGGTAT
Found at i:38443757 original size:15 final size:15
Alignment explanation
Indices: 38443739--38443777 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
38443729 AACATTAATT
38443739 TATTCCTTAATGTCA
1 TATTCCTTAATGTCA
*
38443754 TATTCTTTAATGTCA
1 TATTCCTTAATGTCA
38443769 TATTTCCTT
1 TA-TTCCTT
38443778 CTAATTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (15 bp):
TATTCCTTAATGTCA
Found at i:38458091 original size:19 final size:19
Alignment explanation
Indices: 38458067--38458181 Score: 167
Period size: 19 Copynumber: 5.8 Consensus size: 19
38458057 AATTTTTGAG
38458067 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
38458086 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
38458105 GATATATGGAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
38458126 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
38458145 GATAAGTGCAATCTTGGATAT
1 GAT-A-TGCAATCTTAGATAT
38458166 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
38458182 AGATATGATT
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
19 50 0.57
20 2 0.02
21 35 0.40
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38458112 original size:40 final size:40
Alignment explanation
Indices: 38458068--38458181 Score: 185
Period size: 40 Copynumber: 2.9 Consensus size: 40
38458058 ATTTTTGAGG
*
38458068 ATATGCAATCTTAGATATGATATGAAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
*
38458108 ATATGGAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
*
38458148 A-AGTGCAATCTTGGATATGATATGCAATCTTAGA
1 ATA-TGCAATCTTAGATATGATATGCAATCTTAGA
38458182 AGATATGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 68 0.99
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
Found at i:38458171 original size:59 final size:56
Alignment explanation
Indices: 38458067--38458188 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 56
38458057 AATTTTTGAG
*
38458067 GATATGCAATCTTAGATATGATATGAAATCTTAGATATGATATATGGAATCTTAGATA
1 GATATGCAATCTTAGATATGATATGAAATCTTAGATATGA-ATATGCAATCTTAGA-A
* *
38458125 TGATATGCAATCTTAGATATGATAAGTGCAATCTTGGATATG-ATATGCAATCTTAGAA
1 -GATATGCAATCTTAGATATGAT-A-TGAAATCTTAGATATGAATATGCAATCTTAGAA
38458183 GATATG
1 GATATG
38458189 ATTTTGTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
57 6 0.10
58 1 0.02
59 36 0.62
60 1 0.02
61 14 0.24
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (56 bp):
GATATGCAATCTTAGATATGATATGAAATCTTAGATATGAATATGCAATCTTAGAA
Found at i:38459124 original size:8 final size:8
Alignment explanation
Indices: 38459113--38459161 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
38459103 GCTTTGCGTG
*
38459113 TTATTGAT
1 TTATTTAT
38459121 TTATCTTTAT
1 TTAT--TTAT
38459131 TTATTTAT
1 TTATTTAT
38459139 TTATTTAT
1 TTATTTAT
*
38459147 TTGTTTAT
1 TTATTTAT
38459155 ATTATTT
1 -TTATTT
38459162 CTATGCCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 23 0.66
9 5 0.14
10 7 0.20
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (8 bp):
TTATTTAT
Found at i:38459135 original size:4 final size:4
Alignment explanation
Indices: 38459126--38459161 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
38459116 TTGATTTATC
*
38459126 TTTA TTTA TTTA TTTA TTTA TTTG TTTA TATTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTT
38459162 CTATGCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:38462078 original size:165 final size:165
Alignment explanation
Indices: 38461880--38462209 Score: 644
Period size: 165 Copynumber: 2.0 Consensus size: 165
38461870 CTTTCACTCC
38461880 GTCTGTCTTGGTACACTCTCAGGATATCTCCGATTCCTTGCCCACGAGCTCCACTCCTTTCTTCC
1 GTCTGTCTTGGTACACTCTCAGGATATCTCCGATTCCTTGCCCACGAGCTCCACTCCTTTCTTCC
38461945 AATCCTCTGATTGTTCCTCAGCATGTGGCTAATACACATTCCATGGTTACGAGATCTAAGGCCAG
66 AATCCTCTGATTGTTCCTCAGCATGTGGCTAATACACATTCCATGGTTACGAGATCTAAGGCCAG
38462010 GATTTTTAAACCTAAGGTTCTCTCTGTTGAAACTT
131 GATTTTTAAACCTAAGGTTCTCTCTGTTGAAACTT
38462045 GTCTGGTCTTGG-ACACTCTCAGGATATCTCCGATTCCTTGCCCACGAGCTCCACTCCTTTCTTC
1 GTCT-GTCTTGGTACACTCTCAGGATATCTCCGATTCCTTGCCCACGAGCTCCACTCCTTTCTTC
38462109 CAATCCTCTGATTGTTCCTCAGCATGTGGCTAATACACATTCCATGGTTACGAGATCTAAGGCCA
65 CAATCCTCTGATTGTTCCTCAGCATGTGGCTAATACACATTCCATGGTTACGAGATCTAAGGCCA
38462174 GGATTTTTAAACCTAAGGTTCTCTCTGTTGAAACTT
130 GGATTTTTAAACCTAAGGTTCTCTCTGTTGAAACTT
38462210 CTAACTATGA
Statistics
Matches: 164, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
165 157 0.96
166 7 0.04
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (165 bp):
GTCTGTCTTGGTACACTCTCAGGATATCTCCGATTCCTTGCCCACGAGCTCCACTCCTTTCTTCC
AATCCTCTGATTGTTCCTCAGCATGTGGCTAATACACATTCCATGGTTACGAGATCTAAGGCCAG
GATTTTTAAACCTAAGGTTCTCTCTGTTGAAACTT
Found at i:38476443 original size:3 final size:3
Alignment explanation
Indices: 38476435--38476501 Score: 98
Period size: 3 Copynumber: 22.3 Consensus size: 3
38476425 TGAAATTATT
* *
38476435 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
38476483 TGA TGA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
38476502 TCACATGGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38480379 original size:21 final size:21
Alignment explanation
Indices: 38480323--38480380 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
38480313 CACTTGGGCC
* *
38480323 GAATGCTACTGGGCCACTTAT
1 GAATGCTACTGGGTCGCTTAT
* *
38480344 AAATGCTGCTGGGTCGCTTAT
1 GAATGCTACTGGGTCGCTTAT
*
38480365 GAATGCTACTAGGTCG
1 GAATGCTACTGGGTCG
38480381 TCAGCTGTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (21 bp):
GAATGCTACTGGGTCGCTTAT
Found at i:38503920 original size:57 final size:57
Alignment explanation
Indices: 38503852--38504138 Score: 574
Period size: 57 Copynumber: 5.0 Consensus size: 57
38503842 TGCCTAGAGT
38503852 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
1 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
38503909 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
1 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
38503966 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
1 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
38504023 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
1 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
38504080 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
1 TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
38504137 TC
1 TC
38504139 ATTTTGGGTC
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 230 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (57 bp):
TCTCGACTGTCATGCATCTAATTTCTCGAATTCTACCATGTCTAATGCTAATGCAAC
Found at i:38508844 original size:54 final size:54
Alignment explanation
Indices: 38508780--38508896 Score: 234
Period size: 54 Copynumber: 2.2 Consensus size: 54
38508770 TGAAGTTATA
38508780 TAACACCCCAAACATGGTCTAAATGTTATGACCGAATCTGGCGATGTCACATTG
1 TAACACCCCAAACATGGTCTAAATGTTATGACCGAATCTGGCGATGTCACATTG
38508834 TAACACCCCAAACATGGTCTAAATGTTATGACCGAATCTGGCGATGTCACATTG
1 TAACACCCCAAACATGGTCTAAATGTTATGACCGAATCTGGCGATGTCACATTG
38508888 TAACACCCC
1 TAACACCCC
38508897 TTACCCGTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (54 bp):
TAACACCCCAAACATGGTCTAAATGTTATGACCGAATCTGGCGATGTCACATTG
Found at i:38510967 original size:30 final size:31
Alignment explanation
Indices: 38510912--38510969 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
38510902 ACCCTTAAAA
** *
38510912 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTTTG
38510943 TATTTACACT-TTAATCCCTCAAATTTT
1 TATTTACACTATTAATCCCTCAAATTTT
38510970 GAGTTTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTTTG
Found at i:38512800 original size:50 final size:50
Alignment explanation
Indices: 38512739--38512926 Score: 216
Period size: 50 Copynumber: 3.6 Consensus size: 50
38512729 ATCTCAATGA
* *
38512739 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTTTCATCTCGG
* * * * *
38512789 TGCCAACGCCATGTCCCAAATATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTTTCATCTCGG
* *
38512839 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGG-CCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA-GGGGACCT-T--TCATCTC---GG
*
38512895 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
38512927 CTGGCTCACA
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
50 76 0.66
51 2 0.02
53 6 0.05
56 32 0.28
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTTTCATCTCGG
Found at i:38512955 original size:48 final size:48
Alignment explanation
Indices: 38512900--38513020 Score: 215
Period size: 48 Copynumber: 2.5 Consensus size: 48
38512890 AATGATGCCA
*
38512900 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACACCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACACACCGATGTCG
* *
38512948 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACACACCGATGTCG
38512996 ATGCCATGTCCCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
38513021 TACGAGATCG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACACACCGATGTCG
Found at i:38513755 original size:22 final size:22
Alignment explanation
Indices: 38513724--38513796 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 22
38513714 TAATTTAAAA
*
38513724 TGAAATCCCAATTTGTCGTAAT
1 TGAAAGCCCAATTTGTCGTAAT
*
38513746 TGAAAGCCCAA-TT-AC--AA-
1 TGAAAGCCCAATTTGTCGTAAT
**
38513763 -GAAATTCCAATTTGTCGTAAT
1 TGAAAGCCCAATTTGTCGTAAT
38513784 TGAAAGCCCAATT
1 TGAAAGCCCAATT
38513797 ACAAGAAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
16 8 0.21
17 2 0.05
18 3 0.08
20 3 0.08
21 2 0.05
22 20 0.53
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (22 bp):
TGAAAGCCCAATTTGTCGTAAT
Found at i:38513767 original size:38 final size:38
Alignment explanation
Indices: 38513725--38513817 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
38513715 AATTTAAAAT
38513725 GAAATCCCAATTTGTCGTAATTGAAAGCCCAATTACAA
1 GAAATCCCAATTTGTCGTAATTGAAAGCCCAATTACAA
*
38513763 GAAATTCCAATTTGTCGTAATTGAAAGCCCAATTACAA
1 GAAATCCCAATTTGTCGTAATTGAAAGCCCAATTACAA
38513801 GAAATCCCAATTTGTCG
1 GAAATCCCAATTTGTCG
38513818 AATCCATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (38 bp):
GAAATCCCAATTTGTCGTAATTGAAAGCCCAATTACAA
Found at i:38516623 original size:29 final size:29
Alignment explanation
Indices: 38516566--38516624 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
38516556 CAATGTTTAC
* *
38516566 TTTTCAAAATGGATCATTTACGTACATAA
1 TTTTCAAAATGGATCATTTACATAAATAA
* *
38516595 TTTTCAAAGTGGATCATTTTCATAAATAA
1 TTTTCAAAATGGATCATTTACATAAATAA
38516624 T
1 T
38516625 CAAAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (29 bp):
TTTTCAAAATGGATCATTTACATAAATAA
Found at i:38535197 original size:22 final size:23
Alignment explanation
Indices: 38535166--38535214 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
38535156 CTTTATGAAA
38535166 TTTTCAAAAAATTTAACTAATT-
1 TTTTCAAAAAATTTAACTAATTC
* *
38535188 TTTTCTAAAATTTTAACTAATTC
1 TTTTCAAAAAATTTAACTAATTC
38535211 TTTT
1 TTTT
38535215 ATATTTGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTCAAAAAATTTAACTAATTC
Found at i:38535335 original size:21 final size:22
Alignment explanation
Indices: 38535311--38535356 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
38535301 AATATTTTTC
*
38535311 TAAGATATAT-GTT-TTATTAAA
1 TAAGATAT-TGGTTATTATAAAA
38535332 TAAGATATTGGTTATTATAAAA
1 TAAGATATTGGTTATTATAAAA
38535354 TAA
1 TAA
38535357 TTTTTTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 11 0.50
22 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (22 bp):
TAAGATATTGGTTATTATAAAA
Found at i:38535419 original size:47 final size:47
Alignment explanation
Indices: 38535368--38535798 Score: 862
Period size: 47 Copynumber: 9.2 Consensus size: 47
38535358 TTTTTATTGT
38535368 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535415 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535462 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535509 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535556 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535603 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535650 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535697 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535744 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
1 ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
38535791 ATATACAT
1 ATATACAT
38535799 TCATTTACTC
Statistics
Matches: 384, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 384 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (47 bp):
ATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGC
Found at i:38536073 original size:14 final size:15
Alignment explanation
Indices: 38536049--38536083 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
38536039 TATATACATT
38536049 ACCATATAAATACTA
1 ACCATATAAATACTA
38536064 ACCATA-AAATACTA
1 ACCATATAAATACTA
38536078 ATCCAT
1 A-CCAT
38536084 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:38538898 original size:15 final size:16
Alignment explanation
Indices: 38538872--38538901 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38538862 GATTCAGTTG
38538872 ATTTTGAATTGGATCC
1 ATTTTGAATTGGATCC
38538888 ATTTT-AATTGGATC
1 ATTTTGAATTGGATC
38538902 AACATAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (16 bp):
ATTTTGAATTGGATCC
Found at i:38540562 original size:14 final size:13
Alignment explanation
Indices: 38540533--38540567 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
38540523 AATTCTCTCT
*
38540533 TAAAATTTTTTAC
1 TAAATTTTTTTAC
38540546 TAAATTTTTTTATC
1 TAAATTTTTTTA-C
38540560 TAAATTTT
1 TAAATTTT
38540568 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATTTTTTTAC
Found at i:38543979 original size:19 final size:18
Alignment explanation
Indices: 38543931--38543979 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
38543921 GATAGTGACA
38543931 ATTACAAACC-AAAGAAT
1 ATTACAAACCAAAAGAAT
* * *
38543948 ATAAAAAAGCAAACAGAAT
1 ATTACAAACCAAA-AGAAT
38543967 ATTACAAACCAAA
1 ATTACAAACCAAA
38543980 TAATATCGGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 15 0.62
ACGTcount: A:0.63, C:0.16, G:0.06, T:0.14
Consensus pattern (18 bp):
ATTACAAACCAAAAGAAT
Found at i:38548038 original size:18 final size:17
Alignment explanation
Indices: 38548005--38548043 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
38547995 TTTTATAAAT
38548005 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
38548023 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
38548040 TGTG
1 TGTG
38548044 GAAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:38548299 original size:23 final size:23
Alignment explanation
Indices: 38548269--38548412 Score: 182
Period size: 23 Copynumber: 6.3 Consensus size: 23
38548259 AGTGTTATGG
* *
38548269 ATCAGTGGTATCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
38548292 TTCTGTGGTAGCTACTGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
38548315 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
38548338 -TCAGTGGTAGCTACGACTACGT
1 ATCAGTGGTAGCTACGGCTACAT
*
38548360 ATCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
*
38548383 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
38548406 ATCAGTG
1 ATCAGTG
38548413 TGGCACTTAT
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
22 18 0.17
23 85 0.83
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:38550177 original size:16 final size:17
Alignment explanation
Indices: 38550156--38550188 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
38550146 TAATAGGAAA
38550156 AATATG-ATGATACGAG
1 AATATGAATGATACGAG
38550172 AATATGAAATGATACGA
1 AATATG-AATGATACGA
38550189 ATCAATTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (17 bp):
AATATGAATGATACGAG
Found at i:38554046 original size:16 final size:16
Alignment explanation
Indices: 38554024--38554062 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
38554014 GCGACAGTTA
*
38554024 TCTAAAAC-ACGGTTT
1 TCTAAAACAAAGGTTT
38554039 TACTAAAACAAAGGTTT
1 T-CTAAAACAAAGGTTT
38554056 TCTAAAA
1 TCTAAAA
38554063 ATACGAACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 7 0.33
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (16 bp):
TCTAAAACAAAGGTTT
Found at i:38555759 original size:85 final size:84
Alignment explanation
Indices: 38555611--38555771 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 84
38555601 TTACAAATTT
* * * *
38555611 CCAAGGTTTAATATAAGACGCATGCATCATTATTAGTGCATTACGTAAGTTGCAAAACGTTTTTT
1 CCAAGGTTTAATATAAGACACATGCAACATTATTAATGCATTACGTAAGTTGCAAAAC-ATTTTT
*
38555676 TTTCAAATATTTACTTAATA
65 TTCCAAATATTTACTTAATA
* * * * *
38555696 CCAATGTTTAATATAAGACACATGCAACATTGTTAATGCATTATGTATGTTGCAAAGCATTTTTT
1 CCAAGGTTTAATATAAGACACATGCAACATTATTAATGCATTACGTAAGTTGCAAAACATTTTTT
38555761 TCCAAATATTT
66 TCCAAATATTT
38555772 GTTTAATCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 16 0.24
85 50 0.76
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (84 bp):
CCAAGGTTTAATATAAGACACATGCAACATTATTAATGCATTACGTAAGTTGCAAAACATTTTTT
TCCAAATATTTACTTAATA
Found at i:38559947 original size:2 final size:2
Alignment explanation
Indices: 38559940--38559975 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
38559930 ATTATATTTC
38559940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38559976 AAAGAAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38574911 original size:22 final size:22
Alignment explanation
Indices: 38574886--38574939 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
38574876 TTTCACTACA
* *
38574886 GTGCCTTCTAATTTGCACTTTG
1 GTGCCTACTAATTCGCACTTTG
* **
38574908 GTGCCTACTGATTCGCACTTCA
1 GTGCCTACTAATTCGCACTTTG
38574930 GTGCCTACTA
1 GTGCCTACTA
38574940 TTAAAGCATT
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:0.17, C:0.28, G:0.19, T:0.37
Consensus pattern (22 bp):
GTGCCTACTAATTCGCACTTTG
Found at i:38577473 original size:46 final size:46
Alignment explanation
Indices: 38577384--38577473 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
38577374 AGATCAGATA
*
38577384 TATGTGGTCAAACCACTATATTACAGCCAAGCTGTCAGAACAAATG
1 TATGTGGTCAAACCACTATATTACAGACAAGCTGTCAGAACAAATG
* * *
38577430 TATGTGGTCAAGCCA-TCATACTTGCAGACAAGTTGTCAG-ACAAA
1 TATGTGGTCAAACCACT-ATA-TTACAGACAAGCTGTCAGAACAAA
38577474 AATGTGGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 1 0.03
46 22 0.58
47 15 0.39
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (46 bp):
TATGTGGTCAAACCACTATATTACAGACAAGCTGTCAGAACAAATG
Found at i:38579392 original size:22 final size:22
Alignment explanation
Indices: 38579364--38579409 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
38579354 TAAATGTGTT
38579364 AAAATAATTA-TACATAAAATAA
1 AAAATAATTAGTACA-AAAATAA
*
38579386 AAAATAATTAGTATAAAAATAA
1 AAAATAATTAGTACAAAAATAA
38579408 AA
1 AA
38579410 CCTCTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAATTAGTACAAAAATAA
Found at i:38580140 original size:82 final size:83
Alignment explanation
Indices: 38580038--38580202 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 83
38580028 AATTATATTA
38580038 ATGTATTTAATATTTCACAATAAATTTTATTATTAGCAATTATTTGAATTAAATATTAAATAATA
1 ATGTATTTAATATTTCACAATAAATTTTATTATTAGCAATTATTTGAATTAAATATTAAATAATA
38580103 ATGTTTTAATTATCCATT
66 ATGTTTTAATTATCCATT
38580121 ATGTATTTAATA-TTCACAATAAATTTTATTATTAGCAATTATTTGAATTAAATATTAAATAATA
1 ATGTATTTAATATTTCACAATAAATTTTATTATTAGCAATTATTTGAATTAAATATTAAATAATA
38580185 ATGTTTTAATTATCCATT
66 ATGTTTTAATTATCCATT
38580203 TTTAAAATTA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 70 0.85
83 12 0.15
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (83 bp):
ATGTATTTAATATTTCACAATAAATTTTATTATTAGCAATTATTTGAATTAAATATTAAATAATA
ATGTTTTAATTATCCATT
Done.