Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 109 of 322
Found at i:35427584 original size:78 final size:78
Alignment explanation
Indices: 35427448--35427605 Score: 219
Period size: 78 Copynumber: 2.0 Consensus size: 78
35427438 TTAATCGGGG
* * **
35427448 TAAACTACTGTACTGAATGATTGATAGTTACTGAATAACTAAATTACTGTATTAAATAATTGATA
1 TAAACTACTGCACTGAATGATTGATAGTTACTAAATAACTAAATTACTGTACCAAATAATTGATA
*
35427513 GTTATTGAATAAA
66 GTTACTGAATAAA
* *
35427526 TAAACTACTGCACTGAAT-ATTTGATAGTTACTAAATGACTAAATTACTGTACCGAATAATTGAT
1 TAAACTACTGCACTGAATGA-TTGATAGTTACTAAATAACTAAATTACTGTACCAAATAATTGAT
* *
35427590 TGTTACTGATTAAA
65 AGTTACTGAATAAA
35427604 TA
1 TA
35427606 TGATTAGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 69 0.99
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (78 bp):
TAAACTACTGCACTGAATGATTGATAGTTACTAAATAACTAAATTACTGTACCAAATAATTGATA
GTTACTGAATAAA
Found at i:35433412 original size:40 final size:40
Alignment explanation
Indices: 35433347--35433472 Score: 155
Period size: 40 Copynumber: 3.2 Consensus size: 40
35433337 GGACTAAGAT
* * *
35433347 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
35433387 TCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* ** *
35433427 CCGAAGGCATTTGTGCGTGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
35433466 CCAAAGG
1 CCGAAGG
35433473 TACTTGGGTT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 14 0.19
40 60 0.81
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:35441403 original size:39 final size:40
Alignment explanation
Indices: 35441238--35441403 Score: 226
Period size: 40 Copynumber: 4.2 Consensus size: 40
35441228 GGACTAAGAT
* * *
35441238 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
35441278 TCGAAGGCATTTGTACGAGTTACTATAGCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
35441318 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* ** * *
35441358 CCGAAGGCATTTGTGTGAGTTGTTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
35441397 CCGAAGG
1 CCGAAGG
35441404 TACTTGGGTT
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 16 0.14
40 96 0.86
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:35444668 original size:30 final size:28
Alignment explanation
Indices: 35444629--35444690 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
35444619 ATGGATTTAA
35444629 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
35444659 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
35444687 ATTA
1 ATTA
35444691 ATTAAGTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:35445799 original size:44 final size:44
Alignment explanation
Indices: 35445750--35445841 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
35445740 TGTTCAGGGA
35445750 TACTTCGACCTTGAGTCGATG-AGGCA-CTATAAGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGTA-GCATCT-TAAGTGTCGTACTGT
* **
35445794 TACTTCGACTTTGAGTCGATGTAGCATCTTGTGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGTAGCATCTTAAGTGTCGTACTGT
35445838 TACT
1 TACT
35445842 GTTACTTCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 40 0.93
45 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGTAGCATCTTAAGTGTCGTACTGT
Found at i:35446032 original size:39 final size:39
Alignment explanation
Indices: 35445984--35446125 Score: 203
Period size: 39 Copynumber: 3.6 Consensus size: 39
35445974 TTAATAGGGG
* * *
35445984 TAAAATACTGTACTCAATAATTGATTGTTACTGAATAAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* *
35446023 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
35446062 TAAACTACTGTACTGAATATTTGATAGTTACTGAATGAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
*
35446101 TAAATTACTGTACTGAATAACTGAT
1 TAAATTACTGTACTGAATAATTGAT
35446126 TGTTGCTTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (39 bp):
TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:35447699 original size:12 final size:12
Alignment explanation
Indices: 35447666--35447699 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35447656 AGGGTACACG
35447666 GGCACGGGCACA
1 GGCACGGGCACA
*
35447678 GGCACAGGCACA
1 GGCACGGGCACA
*
35447690 GGCATGGGCA
1 GGCACGGGCA
35447700 TGGGCACAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.41, T:0.03
Consensus pattern (12 bp):
GGCACGGGCACA
Found at i:35459725 original size:42 final size:42
Alignment explanation
Indices: 35459662--35459915 Score: 262
Period size: 42 Copynumber: 5.7 Consensus size: 42
35459652 CTTCGTTTTC
* *
35459662 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATCTTCACAT-A
*
35459705 T-GATGCCATAGTCCAGCTATGGCCTTACACATCTTCACATAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
35459747 T-GATGCCATAGTCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATCTTCACATA
*
35459788 TCGATGCCATAG-CCAAGCTATGGTCTTACACGTAATCACATATCACATG
1 TCGATGCCATAGTCC-AGCTATGGTCTTACAC---AT--C-T-TCACATA
*
35459837 TCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACAC--AT--C-T-TCACATA
*
35459885 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGTCCAGCTATGGTCTTACAC
35459916 GAATCACATA
Statistics
Matches: 187, Mismatches: 14, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
41 4 0.02
42 99 0.53
43 1 0.01
45 2 0.01
48 46 0.25
49 33 0.18
50 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGTCCAGCTATGGTCTTACACATCTTCACATA
Found at i:35459893 original size:48 final size:49
Alignment explanation
Indices: 35459774--35460081 Score: 288
Period size: 48 Copynumber: 6.3 Consensus size: 49
35459764 TATGGTCTTA
* * *
35459774 CACATATTCATATATCGATGCCATAGCCAAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAAT
* *
35459824 CACATATCACATGTCGATGCCATAGCCCAGCTATGGTCTTACACG-GAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAAT
35459872 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAAT
* * * * * ** * * *
35459920 CACATATCTCA-CT-GATGTCATATCCAAAATATGGTCTTATAC-AGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGA-AAT
* * * * * * *
35459967 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTTATACGCAAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAAT
* *
35460014 CACATAATCACATCTTTCCGATGCCATAGCCCAGCTATGGTCTTATACAGAAAT
1 CACAT-ATCACA--TAT-CGATGCCATAGCCCAGCTATGGTCTTACAC-GAAAT
35460068 CACATATCACATAT
1 CACATATCACATAT
35460082 TGTCATGGTC
Statistics
Matches: 214, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
46 23 0.11
47 42 0.20
48 63 0.29
49 36 0.17
50 6 0.03
51 2 0.01
53 34 0.16
54 8 0.04
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAAT
Found at i:35460058 original size:53 final size:53
Alignment explanation
Indices: 35459948--35460079 Score: 152
Period size: 53 Copynumber: 2.6 Consensus size: 53
35459938 CATATCCAAA
* * *
35459948 ATATGGTCTTATACAG-TAGCATATATCACA-----CCGATGCCATATCCCAG
1 ATATGGTCTTATACAGAAAGCACATATCACATCTTTCCGATGCCATAGCCCAG
*
35459995 ATATGGTCTTATAC-GCAAGCACATAATCACATCTTTCCGATGCCATAGCCCAG
1 ATATGGTCTTATACAGAAAGCACAT-ATCACATCTTTCCGATGCCATAGCCCAG
* *
35460048 CTATGGTCTTATACAGAAATCACATATCACAT
1 ATATGGTCTTATACAGAAAGCACATATCACAT
35460080 ATTGTCATGG
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
46 1 0.01
47 20 0.28
48 6 0.08
53 36 0.51
54 8 0.11
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (53 bp):
ATATGGTCTTATACAGAAAGCACATATCACATCTTTCCGATGCCATAGCCCAG
Found at i:35463949 original size:40 final size:40
Alignment explanation
Indices: 35463894--35464640 Score: 1359
Period size: 40 Copynumber: 18.6 Consensus size: 40
35463884 TGTTCGGATG
35463894 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35463934 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35463974 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464014 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464054 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464094 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464134 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464174 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464214 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464254 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464294 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464334 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464374 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464414 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35464454 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
* **
35464494 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
* * *
35464534 ATATCCGGGCGAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTCCT
* * **
35464577 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
* *
35464617 ATATCCGAGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
35464641 NNNNNNNNNN
Statistics
Matches: 687, Mismatches: 17, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
40 653 0.95
43 34 0.05
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
Found at i:35471192 original size:64 final size:64
Alignment explanation
Indices: 35471113--35471240 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
35471103 GAAAGTTATC
*
35471113 GAGTAATGTTTGTATGTTAAGTGATAGAATAGAGCGAATGCTTGGAATGTGATATGTATGAATT
1 GAGTAATGTTTGTATGTTAACTGATAGAATAGAGCGAATGCTTGGAATGTGATATGTATGAATT
*
35471177 GAGTAATGTTTGTATGTTAACTGATTGAATAGAGCGAATGCTTGGAATGTGATATGTATGAATT
1 GAGTAATGTTTGTATGTTAACTGATAGAATAGAGCGAATGCTTGGAATGTGATATGTATGAATT
35471241 ATAAGTTGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (64 bp):
GAGTAATGTTTGTATGTTAACTGATAGAATAGAGCGAATGCTTGGAATGTGATATGTATGAATT
Found at i:35471926 original size:40 final size:40
Alignment explanation
Indices: 35471871--35472172 Score: 473
Period size: 40 Copynumber: 7.6 Consensus size: 40
35471861 TGTTCGGATG
35471871 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35471911 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35471951 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
35471991 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
* * *
35472031 ATATCCGGGCTAAGTCCCGAAGGCATTTCGAG-TAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT-GTGCGAGTTCCT
* * **
35472071 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
* * * *
35472111 ATATCCGAGCTAAGACCCGAAGGCATTTGTGGGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
*
35472151 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
35472173 TACTTGGGTT
Statistics
Matches: 243, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.06
40 226 0.93
41 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
Found at i:35475716 original size:20 final size:20
Alignment explanation
Indices: 35475691--35475761 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
35475681 CTTCTATTTC
*
35475691 AAAAAAAAGGAAAAAATAAA
1 AAAAAAAAGAAAAAAATAAA
*
35475711 AAAAAAGAGAAAAAAATAAA
1 AAAAAAAAGAAAAAAATAAA
* *
35475731 AAGAAAAAAGAGACAAATGAAA
1 AA-AAAAAAGAAAAAAAT-AAA
35475753 AAAGAAAAA
1 AAA-AAAAA
35475762 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 20 0.47
21 13 0.30
22 10 0.23
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAATAAA
Found at i:35475738 original size:7 final size:7
Alignment explanation
Indices: 35475693--35475761 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
35475683 TCTATTTCAA
35475693 AAAAAAGG
1 AAAAAA-G
35475701 AAAAAA-
1 AAAAAAG
*
35475707 TAAAAA-
1 AAAAAAG
*
35475713 AAAAGAG
1 AAAAAAG
35475720 AAAAAA-
1 AAAAAAG
35475726 ATAAAAAG
1 A-AAAAAG
35475734 AAAAAAG
1 AAAAAAG
*
35475741 AGACAAATG
1 A-A-AAAAG
35475750 AAAAAAG
1 AAAAAAG
35475757 AAAAA
1 AAAAA
35475762 TGGAGAGGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
6 10 0.20
7 26 0.52
8 9 0.18
9 5 0.10
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:35475741 original size:23 final size:23
Alignment explanation
Indices: 35475691--35475761 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
35475681 CTTCTATTTC
* *
35475691 AAAAAAAAGGAAAAAAT--AAA-
1 AAAAAAGAGAAAAAAATAAAAAG
35475711 AAAAAAGAGAAAAAAATAAAAAG
1 AAAAAAGAGAAAAAAATAAAAAG
**
35475734 AAAAAAGAGACAAATGA-AAAAAG
1 AAAAAAGAGA-AAAAAATAAAAAG
35475757 AAAAA
1 AAAAA
35475762 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
20 15 0.35
22 3 0.07
23 21 0.49
24 4 0.09
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.04
Consensus pattern (23 bp):
AAAAAAGAGAAAAAAATAAAAAG
Found at i:35475753 original size:14 final size:14
Alignment explanation
Indices: 35475721--35475763 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 14
35475711 AAAAAAGAGA
*
35475721 AAAAAATAAAAA-G
1 AAAAAAGAAAAATG
35475734 AAAAAAGAGACAAATG
1 AAAAAAGA-A-AAATG
35475750 AAAAAAGAAAAATG
1 AAAAAAGAAAAATG
35475764 GAGAGGCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 4 0.15
16 9 0.35
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAAAGAAAAATG
Found at i:35476804 original size:44 final size:44
Alignment explanation
Indices: 35476609--35477102 Score: 355
Period size: 44 Copynumber: 11.2 Consensus size: 44
35476599 CAAAGAAATA
* *
35476609 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * **
35476653 AGATCTGACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* * **
35476698 AGCA--TGGCATCCCTGTGTTTATAGGGGACAAGTTGAAGATTTC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * *
35476741 AGCA--TGGCATCCCTTTGTTTTTACGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
35476784 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * * * * **
35476828 AGATCTGATATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
35476873 --ATCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AGAT-TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
35476916 AGATTTGGCATCCCCGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
35476960 AGATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
35477005 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGA
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * *
35477048 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG--ATAGC
*
35477094 CGATTTGGC
1 AGATTTGGC
35477103 TTTCACTGTT
Statistics
Matches: 349, Mismatches: 79, Indels: 42
0.74 0.17 0.09
Matches are distributed among these distances:
42 2 0.01
43 72 0.21
44 225 0.64
45 36 0.10
46 14 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:35476901 original size:132 final size:132
Alignment explanation
Indices: 35476614--35477087 Score: 598
Period size: 132 Copynumber: 3.6 Consensus size: 132
35476604 AAATAAGATT
* * * * * * *
35476614 TGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATC-CCTGTGTTTATAG
* * ** * * * * * * *
35476678 CGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGGA-CA-AGTTGAAGATT
65 GGAA-CAAATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGCGAAGCAGA-TCGAAGATT
35476739 TCAGCA
127 TCAGCA
* * *
35476745 TGGCATCCCTTTGTTTTTACGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
* * *
35476810 GAACAAATCAAAGATAGCAGATCTGATATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAT
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
35476875 CA
131 CA
*
35476877 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCCGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
*
35476942 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
35477007 CA
131 CA
* * * * *
35477009 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGAAGATTTGGCATCCTTGTGCTTACAAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
35477074 GAACAAATCGAAGA
66 GAACAAATCGAAGA
35477088 CATAGCCGAT
Statistics
Matches: 300, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
130 13 0.04
131 72 0.24
132 214 0.71
133 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
CA
Found at i:35476906 original size:175 final size:175
Alignment explanation
Indices: 35476609--35476977 Score: 560
Period size: 175 Copynumber: 2.1 Consensus size: 175
35476599 CAAAGAAATA
* *
35476609 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGCAGATCTGACACTCCTGTGCTT
* *
35476674 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGGACAAGTTGAAGATT
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* ** * * *
35476739 TCAGCA-TGGCATCCCTTTGTTTTTACGGAACAAGTTGAAGATAGC
131 GCAG-ATTGGCATCCCCGTGTTTATACGGAACAAATCGAAGATAGC
* *
35476784 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGCAGATCTGATATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGCAGATCTGACACTCCTGTGCTT
*
35476849 ACAGCGAAGCAGATCGAAGATTTCATCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
35476914 GCAGATTTGGCATCCCCGTGTTTATAGGGAACAAATCGAAGATAGC
131 GCAGA-TTGGCATCCCCGTGTTTATACGGAACAAATCGAAGATAGC
* * *
35476960 AGATCTGACATTCCTGTG
1 AGATTTGGCATCCCTGTG
35476978 CTTACAGTGA
Statistics
Matches: 175, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
174 1 0.01
175 126 0.72
176 48 0.27
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (175 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCAGATTGGCATCCCCGTGTTTATACGGAACAAATCGAAGATAGC
Found at i:35477814 original size:407 final size:408
Alignment explanation
Indices: 35477049--35478180 Score: 1809
Period size: 407 Copynumber: 2.8 Consensus size: 408
35477039 GAAGATAGAA
* *
35477049 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCCGATTTGGCTTTCAC-TGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
35477113 TATGATAAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
35477178 CGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATATAGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGA-GGAGAG--G-CACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
*
35477243 AGATCCAAGGTGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGACGACATAGCTGATTTGGC
192 AGATCCAAGGTGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
35477308 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAA
257 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * *
35477373 TCGAAGTTTGGCGTCTCCATATTCGACAGAGAGCAGGCACATAGCAGATCTGACCTTCATATGTT
322 TCGAAGTTTAGCGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTT
*
35477438 TATACTGAAGCAGATCCAAGGT
387 TATACTGAAGCAGATCCAAGAT
35477460 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
35477525 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
35477590 CGTCTCCATATTCGA-CAGAGGCACATAGCAGATCTGGCCTTCATATGTTTATATTGAAGCAGAT
131 CGTCTCCATATTCGAGGAGAGGCACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGCAGAT
* *
35477654 CCGAGGTGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGGCATAGCTGATTTGGCTTTC
196 CCAAGGTGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTC
* *
35477719 ATGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGA
261 ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGA
*
35477784 AGTTTAGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATA
326 AGTTTAGCGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATA
35477849 CTGAAGCAGATCCAAGAT
391 CTGAAGCAGATCCAAGAT
* *
35477867 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
35477932 TACGATGAAGCAAATCTAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * ** * *
35477997 CATCTCCATATTTGATGGAGGGCAGACACATAGCAGATCTAACCTTCAGGTGATTAGACTGAAGC
131 CGTCTCCATATTCGA-GGA--G-AGGCACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
* * * * * *
35478062 AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGT
192 AGATCCAAGGTGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
35478127 TTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
257 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
35478181 TAGAAAATAG
Statistics
Matches: 666, Mismatches: 49, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
407 379 0.57
408 1 0.00
409 1 0.00
410 4 0.01
411 60 0.09
412 221 0.33
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (408 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGAGGAGAGGCACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGCAGAT
CCAAGGTGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTC
ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGA
AGTTTAGCGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATA
CTGAAGCAGATCCAAGAT
Found at i:35478197 original size:206 final size:206
Alignment explanation
Indices: 35477049--35478180 Score: 1835
Period size: 206 Copynumber: 5.5 Consensus size: 206
35477039 GAAGATAGAA
* *
35477049 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCCGATTTGGCTTTCAC-TGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
35477113 TATGATAAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
35477178 CGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATATAGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCATATGTTTATACTGAAGC
35477243 AGATCCAAGGT
196 AGATCCAAGGT
*
35477254 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGACGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
35477319 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
35477384 CGTCTCCATATTCGACAGAGAGCAGGCACATAGCAGATCTGACCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCATATGTTTATACTGAAGC
35477449 AGATCCAAGGT
196 AGATCCAAGGT
35477460 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
35477525 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
** *
35477590 CGTCTCCATATTCGAC--AGAG--G-CACATAGCAGATCTGGCCTTCATATGTTTATATTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCATATGTTTATACTGAAGC
*
35477650 AGATCCGAGGT
196 AGATCCAAGGT
* *
35477661 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGGCATAGCTGATTTGGCTTTCATGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
35477726 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTAG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
35477791 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCATATGTTTATACTGAAGC
*
35477856 AGATCCAAGAT
196 AGATCCAAGGT
* *
35477867 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
35477932 TACGATGAAGCAAATCTAAGATGATTTAGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * ** * *
35477997 CATCTCCATATTTGATGGAGGGCAGACACATAGCAGATCTAACCTTCAGGTGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCATATGTTTATACTGAAGC
*
35478062 AGATCCAAGAT
196 AGATCCAAGGT
* * * * * *
35478073 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
35478138 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
35478181 TAGAAAATAG
Statistics
Matches: 866, Mismatches: 55, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
201 187 0.22
202 1 0.00
203 4 0.00
204 4 0.00
205 59 0.07
206 611 0.71
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCATATGTTTATACTGAAGC
AGATCCAAGGT
Found at i:35478610 original size:19 final size:19
Alignment explanation
Indices: 35478586--35478664 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
35478576 AATCTTTAAG
35478586 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35478605 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35478624 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35478641 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
35478662 GAT
1 GAT
35478665 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:35478616 original size:36 final size:36
Alignment explanation
Indices: 35478576--35478663 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
35478566 ATGGAAATAT
35478576 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
35478612 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
35478648 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
35478664 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:35479058 original size:65 final size:65
Alignment explanation
Indices: 35478988--35479128 Score: 282
Period size: 65 Copynumber: 2.2 Consensus size: 65
35478978 TTATGTATTT
35478988 TATATATTATAATATTTAACCTTTTTATATAGTTTATTTCCAAATATATATTTTCTATGCGTGTA
1 TATATATTATAATATTTAACCTTTTTATATAGTTTATTTCCAAATATATATTTTCTATGCGTGTA
35479053 TATATATTATAATATTTAACCTTTTTATATAGTTTATTTCCAAATATATATTTTCTATGCGTGTA
1 TATATATTATAATATTTAACCTTTTTATATAGTTTATTTCCAAATATATATTTTCTATGCGTGTA
35479118 TATATATTATA
1 TATATATTATA
35479129 TTATCATTTC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 76 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (65 bp):
TATATATTATAATATTTAACCTTTTTATATAGTTTATTTCCAAATATATATTTTCTATGCGTGTA
Found at i:35479278 original size:26 final size:24
Alignment explanation
Indices: 35479235--35479283 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
35479225 CTGCATAGTT
35479235 TTATTTTTTTATAAGCTATGTTTAA
1 TTATTTTTTTATAAGCTAT-TTTAA
**
35479260 TTATTTCTTTTATGTGCTATTTTA
1 TTATTT-TTTTATAAGCTATTTTA
35479284 TGATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.63
Consensus pattern (24 bp):
TTATTTTTTTATAAGCTATTTTAA
Found at i:35483780 original size:28 final size:28
Alignment explanation
Indices: 35483723--35483786 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
35483713 TGGAAAGTAG
* ***
35483723 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCACATGAACAAGA
*
35483751 TTGGGCCTGATGGGCCACGTGAACAAGA
1 TTGGGCCTGATGGGCCACATGAACAAGA
35483779 TTGGGCCT
1 TTGGGCCT
35483787 AAAGGGGCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCACATGAACAAGA
Found at i:35484133 original size:27 final size:27
Alignment explanation
Indices: 35484111--35484497 Score: 474
Period size: 27 Copynumber: 14.4 Consensus size: 27
35484101 AGAAATTATT
*
35484111 GAAATACCCTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
*
35484138 GAAATACCC-CTAATTTGTAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* *
35484165 AAAATACCCTCGA-TTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
35484191 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
35484218 AAAATACCCTCAATTTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
35484245 GAAACACCCTTGATTTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
35484272 GAAACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
35484299 GAAACACCCTCGATTTTTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
35484326 GAAACACCCTTGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
35484353 AAAATACCTTCTATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
35484380 AAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
35484407 GAAATACCCTCGATTTGTAAAATTAAC
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
35484434 GAAACACCCCCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
35484461 AAAATACCCTTG-TAGTGTAAAATTACC
1 GAAATACCCTCGAT-TTGTAAAATTACC
35484488 GAAATACCCT
1 GAAATACCCT
35484498 TGTAGTGTAA
Statistics
Matches: 312, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 26 0.08
27 285 0.91
28 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:35484521 original size:27 final size:27
Alignment explanation
Indices: 35484462--35484539 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
35484452 AAAATTATCA
*
35484462 AAATACCCTTGTAGTGTAAAATTACCG
1 AAATACCCTTGTAGTGTAAAATGACCG
*
35484489 AAATACCCTTGTAGTGTAAAATGACTG
1 AAATACCCTTGTAGTGTAAAATGACCG
* * * *
35484516 ACATACCCCTGTTGGGTAAAATGA
1 AAATACCCTTGTAGTGTAAAATGA
35484540 TTGTTTGCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCG
Found at i:35486006 original size:37 final size:37
Alignment explanation
Indices: 35485965--35486092 Score: 238
Period size: 37 Copynumber: 3.5 Consensus size: 37
35485955 ACACATATTT
* *
35485965 ATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
35486002 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
35486039 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
35486076 ATCGGGTCTTACCCGGA
1 ATCGGGTCTTACCCGGA
35486093 ATATATTTCC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
Found at i:35486354 original size:46 final size:47
Alignment explanation
Indices: 35486256--35486410 Score: 204
Period size: 47 Copynumber: 3.3 Consensus size: 47
35486246 TTCACANATT
* * * * * * *
35486256 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
35486303 TATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTATCACGTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
35486349 TATACACTTTCACATTCATCACATCGGCCCTTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* *
35486396 TATATACATTCACAT
1 TATACACTTTCACAT
35486411 CACAATTATC
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 39 0.41
47 56 0.59
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:35488822 original size:28 final size:27
Alignment explanation
Indices: 35488791--35488895 Score: 104
Period size: 28 Copynumber: 3.7 Consensus size: 27
35488781 CTGACTGATT
*
35488791 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTC-ATTAAAGAAC
* *
35488819 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTC-ATTA-AAGAAC
35488848 TCGCACACATAGTGCTCAGTTAAAGAAC
1 TCGCACACATAGTGCTCA-TTAAAGAAC
* *
35488876 TTGCACACACAGTGCCTCAT
1 TCGCACACATAGTG-CTCAT
35488896 AACTCCAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.03
28 34 0.53
29 27 0.42
30 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCATTAAAGAAC
Found at i:35488966 original size:40 final size:40
Alignment explanation
Indices: 35488922--35489290 Score: 666
Period size: 40 Copynumber: 9.2 Consensus size: 40
35488912 TCTTCGAGGT
* *
35488922 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
35488962 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
35489002 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
35489042 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
35489082 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
35489122 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
35489162 TTAGCCCGGATACATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
35489202 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
35489242 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
35489282 TTAGCCCGG
1 TTAGCCCGG
35489291 TTATATAACT
Statistics
Matches: 317, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 317 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:35491047 original size:48 final size:48
Alignment explanation
Indices: 35490948--35491386 Score: 680
Period size: 48 Copynumber: 9.0 Consensus size: 48
35490938 CACCACAAAC
*
35490948 TCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCAC--ATATACATTTCTCATACATATT
*
35490998 TCACATTAGCCATTCGACTTTACCACATATACATTTCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT
* * *
35491046 TCACTTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATC
1 TCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT
*
35491094 TCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCAC--ATATACATTTCTCATACATATT
* *
35491144 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATC
1 TCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT
*
35491192 TCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCAC--ATATACATTTCTCATACATATT
*
35491242 TCACATTAGCCATTCGACTTTACCACATATACATTTCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT
* *
35491290 TCACTTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT
* * * *
35491338 TCACAGTAGCCATTCGGCTTTGCCACATATACATATCTCATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT
35491386 T
1 T
35491387 ATCTTGTACA
Statistics
Matches: 360, Mismatches: 25, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
48 247 0.69
50 113 0.31
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (48 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT
Found at i:35491134 original size:98 final size:96
Alignment explanation
Indices: 35490948--35491384 Score: 685
Period size: 98 Copynumber: 4.5 Consensus size: 96
35490938 CACCACAAAC
* * *
35490948 TCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTC
1 TCACATTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATCTCACATTAGCCATTC
*
35491013 GACTTTACCACATATACATTTCTCATACATATT
64 GGCTTTACCACATATACATTTCTCATACATATT
*
35491046 TCACTTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCATTCGG
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCATTCGG
*
35491111 TTTTACCACATATATACATTTCTCATACATATT
66 CTTTACCAC--ATATACATTTCTCATACATATT
35491144 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCATTCGG
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCATTCGG
*
35491209 TTTTACCACATATATACATTTCTCATACATATT
66 CTTTACCAC--ATATACATTTCTCATACATATT
* * * *
35491242 TCACATTAGCCATTCGACTTTACCACATATACATTTCTCATACATATTTCACTTTAGCCATTCGG
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCATTCGG
*
35491307 CTTTACCACATATACATATCTCATACATATT
66 CTTTACCACATATACATTTCTCATACATATT
* * *
35491338 TCACAGTAGCCATTCGGCTTTGCCACATATACATATCTCATATATAT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
35491385 TTATCTTGTA
Statistics
Matches: 319, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
96 107 0.34
98 212 0.66
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (96 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCATTCGG
CTTTACCACATATACATTTCTCATACATATT
Found at i:35491214 original size:146 final size:146
Alignment explanation
Indices: 35490947--35491384 Score: 727
Period size: 146 Copynumber: 3.0 Consensus size: 146
35490937 GCACCACAAA
35490947 CTCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATT
1 CTCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATT
* * *
35491012 CGACTTTACCACATATACATTTCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATA
66 CGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
35491077 CATATCTCATACATAT
131 CATATCTCATACATAT
35491093 CTCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATT
1 CTCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATT
* *
35491158 CGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCATTCGGTTTTACCACATATA
66 CGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATA
*
35491223 TACATTTCTCATACATAT
129 TACATATCTCATACATAT
* ** *
35491241 TTCACATTAGCCATTCGACTTTACCAC--ATATACATTTCTCATACATATTTCACTTTAGCCATT
1 CTCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATT
* *
35491304 CGGCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTGCCACATATA
66 CGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
*
35491369 CATATCTCATATATAT
131 CATATCTCATACATAT
35491385 TTATCTTGTA
Statistics
Matches: 274, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
144 19 0.07
146 211 0.77
148 44 0.16
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (146 bp):
CTCACATTAGCCATTCGGTTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATT
CGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
CATATCTCATACATAT
Found at i:35497532 original size:42 final size:42
Alignment explanation
Indices: 35497426--35497586 Score: 153
Period size: 43 Copynumber: 3.8 Consensus size: 42
35497416 TGTGTTATCA
** * * * * *
35497426 TGTAAGACCAAGTCTGGGACGTTGGCATCGATTTGTGATTTATG
1 TGTAAGACCCTGTCTGGGACATTGGCATTG-TATATGA-TTACG
* * *
35497470 TGTAAGACCATGTCTAGGACATTGGCATTGTATATGATTTCG
1 TGTAAGACCCTGTCTGGGACATTGGCATTGTATATGATTACG
* * * *
35497512 TGTAAGACCCTATCTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGACATTGGCATTG-TATATGATTACG
35497555 TGTAAGACCAC-GTCTGGGACATTGGCATTGTA
1 TGTAAGACC-CTGTCTGGGACATTGGCATTGTA
35497587 AGAGCTTATG
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 31 0.32
43 40 0.41
44 27 0.28
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATTGGCATTGTATATGATTACG
Found at i:35503328 original size:45 final size:44
Alignment explanation
Indices: 35503262--35503386 Score: 142
Period size: 45 Copynumber: 2.8 Consensus size: 44
35503252 GTTGAAAAAC
* * * **
35503262 GAGTAAGACCATAGCTAAAAGACATTATTGCATCGTGAATCAAA
1 GAGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCAAA
* *
35503306 TGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAAA
1 -GAGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCAAA
* * *
35503351 CATGTAAGACCATAGTTGAAAGACTCTATGGCATCA
1 GA-GTAAGACCATAGCTGAAAGACACTATGGCATCA
35503387 TGTCAGGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (44 bp):
GAGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCAAA
Found at i:35505624 original size:20 final size:20
Alignment explanation
Indices: 35505599--35505644 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
35505589 GTGCCTAGAT
*
35505599 CATGTGGAGGTCTACATGCC
1 CATGTGGAGGTCTACACGCC
*
35505619 CATGTGGTGGTCTACACGCC
1 CATGTGGAGGTCTACACGCC
35505639 CATGTG
1 CATGTG
35505645 CAAGCTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.26
Consensus pattern (20 bp):
CATGTGGAGGTCTACACGCC
Found at i:35516074 original size:21 final size:20
Alignment explanation
Indices: 35516050--35516089 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35516040 CTGTGTTGAT
35516050 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
* *
35516071 TTCGTTTTTGGCCCGTTTT
1 TTCGTCTTTGGCCCATTTT
35516090 TCTTTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.25, G:0.17, T:0.53
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:35517950 original size:27 final size:27
Alignment explanation
Indices: 35517920--35517973 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
35517910 CCCACGGTCG
35517920 TGTAGGGTTTCACACGCCCGTGTCATT
1 TGTAGGGTTTCACACGCCCGTGTCATT
*
35517947 TGTAGGTTTTCACACGCCCGTGTCATT
1 TGTAGGGTTTCACACGCCCGTGTCATT
35517974 CTGACAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (27 bp):
TGTAGGGTTTCACACGCCCGTGTCATT
Found at i:35522531 original size:25 final size:24
Alignment explanation
Indices: 35522503--35522551 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
35522493 AAGCTCCTCT
*
35522503 TGAGCTGATAAACAGTAAGCTCTAA
1 TGAGCTG-GAAACAGTAAGCTCTAA
*
35522528 TGAGCTGGAAATAGTAAGCTCTAA
1 TGAGCTGGAAACAGTAAGCTCTAA
35522552 CGAACTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (24 bp):
TGAGCTGGAAACAGTAAGCTCTAA
Found at i:35522583 original size:24 final size:24
Alignment explanation
Indices: 35522516--35522583 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
35522506 GCTGATAAAC
* *
35522516 AGTAAGCTCTAATGAGCTG-GAAAT
1 AGTAAGCTCTAACGAGCTGAG-ATT
*
35522540 AGTAAGCTCTAACGAACTGAGATT
1 AGTAAGCTCTAACGAGCTGAGATT
*
35522564 AGTAAGCTCTTACGAGCTGA
1 AGTAAGCTCTAACGAGCTGA
35522584 TATATCGGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (24 bp):
AGTAAGCTCTAACGAGCTGAGATT
Found at i:35524941 original size:69 final size:70
Alignment explanation
Indices: 35524809--35524941 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
35524799 TAGTTTATTA
* * * * *
35524809 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
35524874 CTTAG
66 CTTAG
35524879 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
35524942 GTTATGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:35526383 original size:47 final size:47
Alignment explanation
Indices: 35526329--35526659 Score: 592
Period size: 47 Copynumber: 7.0 Consensus size: 47
35526319 TATTTGAATA
*
35526329 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
35526376 AATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATG
35526423 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
35526472 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
35526519 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35526566 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
35526613 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35526660 TGTGACAGCC
Statistics
Matches: 274, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
46 2 0.01
47 227 0.83
49 43 0.16
50 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:35526488 original size:143 final size:141
Alignment explanation
Indices: 35526329--35526659 Score: 592
Period size: 143 Copynumber: 2.3 Consensus size: 141
35526319 TATTTGAATA
*
35526329 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
35526394 TGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 TGTGATAAGGCCT-AATAGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
35526458 TGGCCGATGTGATG
128 TGGCCGATGTGATG
35526472 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
35526537 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
35526602 CCGATGTGATG
131 CCGATGTGATG
*
35526613 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
35526660 TGTGACAGCC
Statistics
Matches: 183, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
141 81 0.44
143 100 0.55
144 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:35528369 original size:39 final size:40
Alignment explanation
Indices: 35528263--35528407 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 40
35528253 TTGAATGTTG
* *
35528263 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
35528302 ATCCGGACTAAGAT-CCGATGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35528343 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35528382 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35528408 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 34 0.38
40 43 0.48
41 12 0.13
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35528425 original size:40 final size:40
Alignment explanation
Indices: 35528263--35528440 Score: 107
Period size: 40 Copynumber: 4.5 Consensus size: 40
35528253 TTGAATGTTG
* ** * * *
35528263 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAA
** * ** *
35528303 TCCGGACTAAGAT-CCGATGGCATTTGTGCGAGAT-ACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAA
* ** *
35528343 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
*
35528382 TCCGGGTTAAGTCCCGAAGGCATTTGAACGAG-GAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
35528422 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35528441 TACGTGATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 48 0.42
40 57 0.50
41 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:35528440 original size:39 final size:40
Alignment explanation
Indices: 35528337--35528440 Score: 97
Period size: 39 Copynumber: 2.6 Consensus size: 40
35528327 TGTGCGAGAT
* * * ** *
35528337 ACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTT
1 ACTAAATCCGGGTTAAATCCCGAAGGCATTTGAACGAGTG
*
35528376 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGAACGAG-G
1 ACTAAATCCGGGTTAAATCCCGAAGGCATTTGAACGAGTG
* *
35528415 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAATCCCGAAGG
35528441 TACGTGATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 27 0.51
40 26 0.49
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
ACTAAATCCGGGTTAAATCCCGAAGGCATTTGAACGAGTG
Found at i:35529819 original size:47 final size:47
Alignment explanation
Indices: 35529750--35529968 Score: 339
Period size: 47 Copynumber: 4.7 Consensus size: 47
35529740 GGTGTTACAT
35529750 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGC
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGC
*
35529797 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGC
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGC
* *
35529844 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGC
* * * * * *
35529891 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGC
* *
35529938 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
35529969 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 159 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGC
Found at i:35530521 original size:90 final size:90
Alignment explanation
Indices: 35530368--35530548 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 90
35530358 GGAAAAAAAG
* *
35530368 AATATGTAATGTACCTATGATCATAAGAGGTCTCTATCAAGTGAGAATTTATCTGCCTATTATAT
1 AATATGCAATGTACCTATGATCATAAGAGGTCACTATCAAGTGAGAATTTATCTGCCTATTATAT
35530433 ATGATGAGATGTGCATATTCGGTAA
66 ATGATGAGATGTGCATATTCGGTAA
35530458 AATATGCAATGTACCTATGATCATAAGAGGTCACTATCAAGTGAGAATTTATCTGCCTATTATAT
1 AATATGCAATGTACCTATGATCATAAGAGGTCACTATCAAGTGAGAATTTATCTGCCTATTATAT
35530523 ATGATGAGATGTGCATATTCGGTAA
66 ATGATGAGATGTGCATATTCGGTAA
35530548 A
1 A
35530549 GGGATGGTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (90 bp):
AATATGCAATGTACCTATGATCATAAGAGGTCACTATCAAGTGAGAATTTATCTGCCTATTATAT
ATGATGAGATGTGCATATTCGGTAA
Found at i:35534247 original size:28 final size:28
Alignment explanation
Indices: 35534117--35534249 Score: 121
Period size: 28 Copynumber: 4.7 Consensus size: 28
35534107 ACATACCAAC
*
35534117 ATATGGCCCA-CTAGGCCCAATCTCATTT
1 ATATGGCCCATC-CGGCCCAATCTCATTT
*
35534145 ATATGGCCCATCCGG-CCAAT-TCACGTTC
1 ATATGGCCCATCCGGCCCAATCTCA--TTT
* * *
35534173 ATATGGCCCATCTGGCCCAATTCACATTC
1 ATATGGCCCATCCGGCCCAA-TCTCATTT
* *
35534202 ATGTGGCCCATTAC-GCCCAATCTCATTT
1 ATATGGCCCA-TCCGGCCCAATCTCATTT
*
35534230 ATATTGCCCATCCGGCCCAA
1 ATATGGCCCATCCGGCCCAA
35534250 ATCACATTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
26 3 0.04
27 7 0.08
28 48 0.56
29 23 0.27
30 2 0.02
31 2 0.02
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATCCGGCCCAATCTCATTT
Found at i:35534363 original size:19 final size:19
Alignment explanation
Indices: 35534339--35534375 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35534329 CAGCCCCTCG
35534339 GGCCCATTTAGCCTATTCC
1 GGCCCATTTAGCCTATTCC
*
35534358 GGCCCATTTGGCCTATTC
1 GGCCCATTTAGCCTATTC
35534376 ACAACCCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.35, G:0.19, T:0.32
Consensus pattern (19 bp):
GGCCCATTTAGCCTATTCC
Found at i:35538664 original size:21 final size:20
Alignment explanation
Indices: 35538648--35538686 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35538638 AAAATATGTC
*
35538648 ATATGTGCAAATGAATAGGGA
1 ATATGTG-AAATGAATATGGA
*
35538669 ATATGTGAAATGTATATG
1 ATATGTGAAATGAATATG
35538687 AACTAAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.31
Consensus pattern (20 bp):
ATATGTGAAATGAATATGGA
Found at i:35539242 original size:37 final size:37
Alignment explanation
Indices: 35539201--35539275 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
35539191 AAGTTAGTGT
35539201 AAGAGTATGCCTAAAGATCAATCACGAGATGGTTGTA
1 AAGAGTATGCCTAAAGATCAATCACGAGATGGTTGTA
35539238 AAGAGTATGCCTAAAGATCAATCACGAGATGGTTGTA
1 AAGAGTATGCCTAAAGATCAATCACGAGATGGTTGTA
35539275 A
1 A
35539276 TAGCATACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (37 bp):
AAGAGTATGCCTAAAGATCAATCACGAGATGGTTGTA
Found at i:35544767 original size:43 final size:43
Alignment explanation
Indices: 35544719--35544836 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
35544709 GTTATCTAGA
*
35544719 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** * * *
35544762 TGTGATTATGTATAAGACCGTGTCTAGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
35544805 TATGATTTCAGGTAAGACCCTATCTGGGACAT
1 TGTGATTACATGTAAGACCATGTCTGGGACAT
35544837 CGATATATGA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:35548429 original size:27 final size:26
Alignment explanation
Indices: 35548381--35548440 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35548371 GCGAGGCTAC
*
35548381 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
35548408 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
35548434 CAGATAT
1 CAGATAT
35548441 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35548485 original size:71 final size:67
Alignment explanation
Indices: 35548408--35548549 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
35548398 TCACCAGATA
* * *
35548408 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
35548473 GGCTGC
62 GGCTGC
* *
35548479 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
35548544 GC
66 GC
35548546 CAGA
1 CAGA
35548550 ACGCTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 41 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:35548527 original size:27 final size:26
Alignment explanation
Indices: 35548479--35548530 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35548469 GCGAGGCTGC
*
35548479 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35548505 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35548531 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35551614 original size:16 final size:17
Alignment explanation
Indices: 35551593--35551625 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35551583 CACATTAAAG
35551593 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
35551609 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
35551626 CTTCTTGATG
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:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:35552500 original size:60 final size:60
Alignment explanation
Indices: 35552422--35552561 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 60
35552412 CAGTGTTAAC
* *
35552422 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
35552483 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
35552543 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
35552562 CATAATTAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
60 55 0.79
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:35552522 original size:28 final size:27
Alignment explanation
Indices: 35552421--35552522 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
35552411 TCAGTGTTAA
* *
35552421 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
35552449 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
35552481 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
35552509 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
35552523 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:35556546 original size:33 final size:33
Alignment explanation
Indices: 35556504--35556570 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
35556494 ATCCAGAGAA
35556504 AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
1 AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
* *
35556537 AACTTTTCCTTGAGTTTCTATAGGCACATCTCT
1 AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
35556570 A
1 A
35556571 TGCAGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (33 bp):
AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
Found at i:35559091 original size:27 final size:26
Alignment explanation
Indices: 35559040--35559091 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35559030 GCGAGGTTGC
*
35559040 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35559066 CAGATATATGTGACGAGGCCAGCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35559092 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35559368 original size:19 final size:19
Alignment explanation
Indices: 35559344--35559391 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
35559334 TTTACCAAAG
35559344 TCGGCCCATTGGCCCGTTT
1 TCGGCCCATTGGCCCGTTT
35559363 TCGGCCCATTGGCCCGTTT
1 TCGGCCCATTGGCCCGTTT
*
35559382 TCGGCGCATT
1 TCGGCCCATT
35559392 AAGCCCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.06, C:0.35, G:0.27, T:0.31
Consensus pattern (19 bp):
TCGGCCCATTGGCCCGTTT
Found at i:35563280 original size:42 final size:43
Alignment explanation
Indices: 35563145--35563312 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
35563135 ATAAGCTCGC
* * * * *
35563145 ACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-TAT
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
** * * * *
35563186 ATTGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATAAT
1 A-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
* *
35563230 ATAATGCCAATGTCCTAGACATGGTCTTAC-CGTAATCACAAT
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
* * *
35563272 ACAATGCCAATGTCCCAAACATGTTCTTACATGTAATCACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
35563313 TCTCGATAAC
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 41 0.40
43 57 0.56
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
Found at i:35566781 original size:39 final size:40
Alignment explanation
Indices: 35566691--35566788 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 40
35566681 TTTATTGTAC
* *
35566691 ACGTGCCCTTGTTTGTACTTCGGTACCCCTAAATGCACAT
1 ACGTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACAT
* *
35566731 ACGTGCTCCTGTTTGTACTTCGATA-CCCTGAATGCACAT
1 ACGTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACAT
* *
35566770 TCGTGCCCCTGTTTATACT
1 ACGTGCCCCTGTTTGTACT
35566789 CTGTTAACTC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 29 0.57
40 22 0.43
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (40 bp):
ACGTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACAT
Found at i:35570407 original size:20 final size:20
Alignment explanation
Indices: 35570382--35570420 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35570372 TAGAACATAC
35570382 TTATTTCCTATTTTT-TTATA
1 TTATTT-CTATTTTTATTATA
*
35570402 TTATTTGTATTTTTATTAT
1 TTATTTCTATTTTTATTAT
35570421 TTACCCGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTTCTATTTTTATTATA
Found at i:35574624 original size:27 final size:27
Alignment explanation
Indices: 35574594--35574727 Score: 142
Period size: 27 Copynumber: 5.0 Consensus size: 27
35574584 CCTTAATCGA
* *
35574594 TAAAATGTCTGTTTTGCGCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
35574621 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
35574648 TAAAATGAATGTTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * * *
35574675 TAAAATAACTATTTTTCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * * *
35574702 TAAGATGATTGTATTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
35574728 ATGTATGTTT
Statistics
Matches: 85, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:35574652 original size:54 final size:54
Alignment explanation
Indices: 35574594--35574729 Score: 182
Period size: 54 Copynumber: 2.5 Consensus size: 54
35574584 CCTTAATCGA
** * * *
35574594 TAAAATGTCTGTTTTGCGCTTATGTGGTAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTGCCCTTATATGG
*
35574648 TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTTCCCTTATATGG
1 TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTGCCCTTATATGG
* * * *
35574702 TAAGATGATTGTATTGCCCCTATGTGAT
1 TAAAATGAATGTTTTGCCCTTATGTGAT
35574730 GTATGTTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (54 bp):
TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTGCCCTTATATGG
Found at i:35583779 original size:21 final size:21
Alignment explanation
Indices: 35583740--35583779 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35583730 TTCTAAGGAC
*
35583740 TTTTAATTAAGTTTTATTTCA
1 TTTTAATTAAGTTTCATTTCA
35583761 TTTTAA-TAAGTTTGCATTT
1 TTTTAATTAAGTTT-CATTT
35583780 TAATTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTAATTAAGTTTCATTTCA
Found at i:35585460 original size:34 final size:34
Alignment explanation
Indices: 35585430--35585497 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
35585420 TAAGCCCTTA
* * *
35585430 ACAGTAGCATTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTATCAGTATGGGCCTTAGCCCAAT
*
35585464 ACAGTAACAGTATCAGTATGAGCCTTAGCCCAAT
1 ACAGTAACAGTATCAGTATGGGCCTTAGCCCAAT
35585498 TTAGTATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (34 bp):
ACAGTAACAGTATCAGTATGGGCCTTAGCCCAAT
Found at i:35588315 original size:39 final size:39
Alignment explanation
Indices: 35588272--35588346 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
35588262 ATAAAGATTA
* * *
35588272 ATGTGCATGAATGTAGAAGTGGATTGTAAAGTTTGTTAG
1 ATGTGCATGAATGCAGAAGTAGATTATAAAGTTTGTTAG
* *
35588311 ATGTGGATGATTGCAGAAGTAGATTATAAAGTTTGT
1 ATGTGCATGAATGCAGAAGTAGATTATAAAGTTTGT
35588347 CAAAGTCATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (39 bp):
ATGTGCATGAATGCAGAAGTAGATTATAAAGTTTGTTAG
Found at i:35591257 original size:96 final size:96
Alignment explanation
Indices: 35591083--35591258 Score: 271
Period size: 96 Copynumber: 1.8 Consensus size: 96
35591073 TCTCTTGTTA
* *
35591083 GATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACATTGCACAAAA
1 GATATTTAATTCGACATTGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACAAAA
* * *
35591148 GGTGATAGCTCAATCTTATTCTCTCTATTTG
66 GGTAAGAGATCAATCTTATTCTCTCTATTTG
* * * *
35591179 GATATTTTATTCGACATTGGAAATCCTCATGATCTTTTGAACTACACCAATAACATTTCACAACA
1 GATATTTAATTCGACATTGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACAAAA
35591244 GGTAAGAGATCAATC
66 GGTAAGAGATCAATC
35591259 GTACTCCTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (96 bp):
GATATTTAATTCGACATTGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACAAAA
GGTAAGAGATCAATCTTATTCTCTCTATTTG
Found at i:35593619 original size:46 final size:46
Alignment explanation
Indices: 35593521--35593677 Score: 145
Period size: 47 Copynumber: 3.4 Consensus size: 46
35593511 ATTGTCTAAG
* * * * * * *
35593521 CTTATGACACATTAAGTGGTTGTATTAACTAGAACATATTTAATAAA
1 CTTAAGACATATTAAATGGTTGAACTAATTAGAACATA-TTAATTAA
* *
35593568 CTTAAGACATGTTAAATGGTTGAACTAATTAGAACACATTAATTAA
1 CTTAAGACATATTAAATGGTTGAACTAATTAGAACATATTAATTAA
*** *
35593614 CTTAAGACATATT-AATTACTGAATCTAATTAGAACATATTAAATAGA
1 CTTAAGACATATTAAATGGTTGAA-CTAATTAGAACATATTAATTA-A
* *
35593661 CTCAAGACACATTAAAT
1 CTTAAGACATATTAAAT
35593678 ACTTAAACTA
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
45 7 0.08
46 38 0.42
47 42 0.47
48 3 0.03
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (46 bp):
CTTAAGACATATTAAATGGTTGAACTAATTAGAACATATTAATTAA
Found at i:35597949 original size:28 final size:27
Alignment explanation
Indices: 35597848--35597952 Score: 97
Period size: 28 Copynumber: 3.8 Consensus size: 27
35597838 TAAATGTGAT
* *
35597848 TTGGGCCTAGT-AGCCATATAAATGTGA
1 TTGGGCCTAGTGGGCCATATAAA-GAGA
* * *
35597875 TTTGGGCCTAATGGGCCACATAAATATGA
1 -TTGGGCCTAGTGGGCCATATAAAGA-GA
*
35597904 ATGGGCCT-GATGGGCCATATGAAAGAGA
1 TTGGGCCTAG-TGGGCCATAT-AAAGAGA
35597932 TTGGGCCTAGTGGGCCATATA
1 TTGGGCCTAGTGGGCCATATA
35597953 TATGTGGATT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.02
28 45 0.73
29 16 0.26
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (27 bp):
TTGGGCCTAGTGGGCCATATAAAGAGA
Found at i:35603878 original size:16 final size:16
Alignment explanation
Indices: 35603857--35603888 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35603847 GTTGTAATGC
35603857 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
35603873 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
35603889 TCTCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:35605405 original size:28 final size:28
Alignment explanation
Indices: 35605365--35605476 Score: 111
Period size: 28 Copynumber: 4.0 Consensus size: 28
35605355 CATGACTGTA
35605365 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* * **
35605393 AATGTGATTTGGGCCTAATGGGCCACACA
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* *
35605422 AATGTGAATGGGCCT-GATGAGCCATATG
1 AATGTGATTGGGCCTAG-TGGGCCATATG
* *
35605450 AAAGAGATTGGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAGTGGGCCATAT
35605477 ATAGGTATGT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
28 53 0.79
29 14 0.21
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAGTGGGCCATATG
Found at i:35605471 original size:56 final size:57
Alignment explanation
Indices: 35605364--35605473 Score: 145
Period size: 56 Copynumber: 1.9 Consensus size: 57
35605354 GCATGACTGT
* * *
35605364 AAATGTGATTTGGGCCTAGTGGCCATATGAATGTGATTTGGGCCTAATGGGCCACAC
1 AAATGTGATATGGGCCTAGTGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACAC
*
35605421 AAATGTGA-ATGGGCCT-GATGAGCCATATGAAAGAGA-TTGGGCCTAGTGGGCCA
1 AAATGTGATATGGGCCTAG-TG-GCCATATGAAAGAGATTTGGGCCTAATGGGCCA
35605474 TATATAGGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 1 0.02
56 25 0.53
57 21 0.45
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (57 bp):
AAATGTGATATGGGCCTAGTGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACAC
Found at i:35610556 original size:52 final size:52
Alignment explanation
Indices: 35610489--35610604 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
35610479 GATATGACAT
*
35610489 TGTGCTAAGTGAAATATGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
35610541 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
35610593 TGTGCTAAGTGA
1 TGTGCTAAGTGA
35610605 GAAATTTCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:35610557 original size:28 final size:27
Alignment explanation
Indices: 35610489--35610604 Score: 154
Period size: 24 Copynumber: 4.4 Consensus size: 27
35610479 GATATGACAT
* *
35610489 TGTGCTAAGTGAAATATGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
35610516 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
35610541 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
35610568 --T-CTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
35610592 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
35610605 GAAATTTCCC
Statistics
Matches: 79, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
24 43 0.54
25 3 0.04
27 3 0.04
28 30 0.38
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:35610681 original size:51 final size:51
Alignment explanation
Indices: 35610626--35610876 Score: 360
Period size: 51 Copynumber: 4.9 Consensus size: 51
35610616 GTTGAACCTT
* *
35610626 TGAATAAAATGGCTTTGGACACAACTGTGGTACTATGTGAAGGCCACTTTG
1 TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* *
35610677 TGAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGGCACTTTG
1 TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* * **
35610728 TGAATATAATAGCTTTGGATACAAGTGTAATACTATGTGAAGGCCACTTTG
1 TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* *
35610779 TGAATAAAATAGCTTTGGACACAAGGGTGGTACTAGGTGAAGGCCACTTTG
1 TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* * * *
35610830 TGAATAAAATAGCTTTGG-CTACAAGGGTAGTAATAAGTGAAGGCCAC
1 TGAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
35610877 CGTGTATCCG
Statistics
Matches: 182, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 181 0.99
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
Found at i:35620184 original size:42 final size:42
Alignment explanation
Indices: 35620121--35620216 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
35620111 TCGCTTACTT
* * * *
35620121 GATGCCATAGT-CCAACTATGGTCTTACACGAAGTCTCGTATC
1 GATGCCAT-GTCCCAACTATGGTCTTACACAAAATCACATATC
35620163 GATGCCATGTCCCAAAC-ATGGTCTTACACAAAATCACATATC
1 GATGCCATGTCCC-AACTATGGTCTTACACAAAATCACATATC
35620205 GATGCCAATGTC
1 GATGCC-ATGTC
35620217 ATATCCCAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.04
42 37 0.79
43 8 0.17
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (42 bp):
GATGCCATGTCCCAACTATGGTCTTACACAAAATCACATATC
Found at i:35620235 original size:48 final size:48
Alignment explanation
Indices: 35620164--35620488 Score: 461
Period size: 48 Copynumber: 6.8 Consensus size: 48
35620154 TCTCGTATCG
* ****
35620164 ATGCCATGTCCCAAACATGGTCTTACACAAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * ** * * *
35620212 ATGTCATATCCCAGATATGGTCTTACATTAGATAACATGTTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
35620260 ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
35620308 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
35620356 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
35620404 TTTCCATGTCCCAGACATGGTTTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
35620452 ATGCCATGTCCCAGACATGGTCTTACTTGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
35620489 ATGCCATAGC
Statistics
Matches: 247, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 247 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:35621713 original size:30 final size:30
Alignment explanation
Indices: 35621672--35621730 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
35621662 TCTGAGCCTT
35621672 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
* * * *
35621702 GGGGCAAAAGTGTAAGTTTGTCAAAGTTT
1 GGGGAAAAAGTGTAAATATGTAAAAGTTT
35621731 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (30 bp):
GGGGAAAAAGTGTAAATATGTAAAAGTTTA
Found at i:35622175 original size:55 final size:54
Alignment explanation
Indices: 35622067--35622321 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
35622057 ATTAGGGTTT
* * *
35622067 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
** **
35622122 AAGGATACCATGTAAGACCATGTTAAGACATGGCATTAATAAGTTACTATAAGGCC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG-C
* * * *
35622178 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCACTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * * *
35622230 AAGGATACCACGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * *
35622279 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
35622322 GTACCTGTGT
Statistics
Matches: 168, Mismatches: 27, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 42 0.25
54 7 0.04
55 68 0.40
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:35623792 original size:47 final size:47
Alignment explanation
Indices: 35623695--35623867 Score: 181
Period size: 47 Copynumber: 3.7 Consensus size: 47
35623685 TATATATATT
* * *
35623695 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * * *
35623740 CCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACAATCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
35623787 TCACATTGGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCAC--ACATATGCA-TGTTCACATTCA
* * * *
35623836 TCACATCGGCCATTAGGCTTTATCACATATAT
1 TCACATTGGCCATTCGGCCTTATCACACATAT
35623868 ACACTTTGAC
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 18 0.17
46 1 0.01
47 49 0.46
49 38 0.36
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:35632421 original size:46 final size:44
Alignment explanation
Indices: 35632364--35632466 Score: 147
Period size: 43 Copynumber: 2.3 Consensus size: 44
35632354 GCTTTAAGCT
35632364 GGTGAATAATATTATCGGGCTACGGGCCTAGCAGGCTATAATGCC
1 GGTGAAT-ATATTATCGGGCTACGGGCCTAGCAGGCTATAATGCC
*
35632409 GGTGAGATA-A-TATCGGGCTTCGGGCCTAGCAGGCTATAATGCC
1 GGTGA-ATATATTATCGGGCTACGGGCCTAGCAGGCTATAATGCC
35632452 GGTGAAATGATATTA
1 GGTG-AAT-ATATTA
35632467 GGCTTCAAGC
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
43 38 0.73
44 3 0.06
45 7 0.13
46 4 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (44 bp):
GGTGAATATATTATCGGGCTACGGGCCTAGCAGGCTATAATGCC
Found at i:35632471 original size:43 final size:43
Alignment explanation
Indices: 35632371--35632499 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
35632361 GCTGGTGAAT
* * *
35632371 AATATTATCGGGCTACGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCAGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* *
35632414 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCAGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* * ** * * *
35632457 AATGATATTAGGCTTCAAGCCTAGTAGACGA-AATGCCGGTGA
1 AATAATATCAGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
35632499 A
1 A
35632500 TGAGTTCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 12 0.16
43 62 0.84
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (43 bp):
AATAATATCAGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
Found at i:35633973 original size:39 final size:39
Alignment explanation
Indices: 35633928--35634055 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
35633918 GGTCTTTAAC
* * *
35633928 CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCTAGCATATAGCCTGCGGACCTCATGT
* * * * *
35633967 CTGGATATATTTCTAGCATATAGCCCGCAGATCTCATGT
1 CCGGATATTTTTCTAGCATATAGCCTGCGGACCTCATGT
* *
35634006 CCGGATATTTTTCTAGTATACAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCTAGCATATAGCCTGCGGACCTCATGT
35634045 CCGGATATTTT
1 CCGGATATTTT
35634056 CGATCTCAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCTAGCATATAGCCTGCGGACCTCATGT
Found at i:35641984 original size:39 final size:39
Alignment explanation
Indices: 35641941--35642070 Score: 188
Period size: 39 Copynumber: 3.3 Consensus size: 39
35641931 GGTCTTTAAC
* *
35641941 CCGGATATTTTTCCAGCATGTAGCCTGCAGACCTCAAGT
1 CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
*
35641980 CCGGATATATTTTTCCAGCATGTAGCCTGCGGATCTCATGT
1 CCGG--ATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
* * *
35642021 CAGGATATTTTTCCAGTATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
35642060 CCGGATATTTT
1 CCGGATATTTT
35642071 CAATCTCATA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 46 0.57
41 35 0.43
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCATGT
Found at i:35642000 original size:41 final size:41
Alignment explanation
Indices: 35641945--35642067 Score: 178
Period size: 41 Copynumber: 3.0 Consensus size: 41
35641935 TTTAACCCGG
* *
35641945 ATATTTTTCCAGCATGTAGCCTGCAGACCTCAAGTCCGGAT
1 ATATTTTTCCAGCATGTAGCCTGCGGACCTCATGTCCGGAT
* *
35641986 ATATTTTTCCAGCATGTAGCCTGCGGATCTCATGTCAGG--
1 ATATTTTTCCAGCATGTAGCCTGCGGACCTCATGTCCGGAT
* *
35642025 ATATTTTTCCAGTATATAGCCTGCGGACCTCATGTCCGGAT
1 ATATTTTTCCAGCATGTAGCCTGCGGACCTCATGTCCGGAT
35642066 AT
1 AT
35642068 TTTCAATCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
39 35 0.49
41 37 0.51
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (41 bp):
ATATTTTTCCAGCATGTAGCCTGCGGACCTCATGTCCGGAT
Found at i:35646177 original size:49 final size:49
Alignment explanation
Indices: 35646124--35646355 Score: 250
Period size: 49 Copynumber: 4.7 Consensus size: 49
35646114 CTAGTACGCA
*
35646124 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACACG
* * ** * *
35646173 TAGTAGCCTGCACTTAGTACTGCACACGTGACCTAACCATTTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGATACACG
* * * * * *
35646223 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGATACACG
* * * * *
35646274 TAGTAGCCTGTACTTAGTACCT-CACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTA-CTACACACGCGACCAATTATCTGATACACG
*
35646323 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
35646356 TCACAATAGT
Statistics
Matches: 149, Mismatches: 29, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
48 2 0.01
49 67 0.45
50 47 0.32
51 31 0.21
52 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACACG
Found at i:35649144 original size:15 final size:15
Alignment explanation
Indices: 35649126--35649169 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
35649116 GAAGCCCAGA
35649126 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
35649141 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
35649156 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
35649170 TTTACAGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35658776 original size:102 final size:101
Alignment explanation
Indices: 35658621--35658854 Score: 263
Period size: 102 Copynumber: 2.3 Consensus size: 101
35658611 CAGATACTCG
* * * * * ** *
35658621 GTGGCCTGCACATATTACCACCCTTGTAACCGAAGCTATTTGGTGCACATAGTAGCCTGCACTTA
1 GTGGCCTGCACTTAGTACCACACATGTGACCGAAGCTATCGGGTACACATAGTAGCCTGCACTTA
* * * *
35658686 GTAATACATC-TGTGACCAGAACCGTCTCTTACACATA
66 GTAATAC-CCATGCGACC-GAACCATCTCGTACACATA
* *
35658723 GTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACTCATAGTAGCCTGCACTTA
1 GTGGCCTGCACTTAGTACCACACATGTGACCGAAGCTATCGGGTACACATAGTAGCCTGCACTTA
* * * *
35658788 GTACTACCCATGCGACCTAACCATCTGGTACACGTA
66 GTAATACCCATGCGACCGAACCATCTCGTACACATA
* *
35658824 GTAGCCTGCACTTAGTACTACACATGTGACC
1 GTGGCCTGCACTTAGTACCACACATGTGACC
35658855 TAAAACCATT
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
101 43 0.39
102 67 0.61
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (101 bp):
GTGGCCTGCACTTAGTACCACACATGTGACCGAAGCTATCGGGTACACATAGTAGCCTGCACTTA
GTAATACCCATGCGACCGAACCATCTCGTACACATA
Found at i:35658831 original size:50 final size:50
Alignment explanation
Indices: 35658661--35658903 Score: 227
Period size: 51 Copynumber: 4.8 Consensus size: 50
35658651 CGAAGCTATT
* * *
35658661 TGGTGCACATAGTAGCCTGCACTTAGTAATACATC-TGTGACCAGAACCGTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACA-CATGTGACC-GAACCATC
** * * * *
35658712 TCTTACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAA-CCATC
* * * * *
35658763 GGGTACTCATAGTAGCCTGCACTTAGTACTACCCATGCGACCTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAACCATC
* * *
35658813 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC--GAACCATC
*** * * *
35658865 TTAAACTCATAGTATCCTGCACATAGTACTACACATGTG
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
35658904 TTCTCACAAC
Statistics
Matches: 154, Mismatches: 34, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
50 45 0.29
51 71 0.46
52 38 0.25
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAACCATC
Found at i:35658852 original size:101 final size:102
Alignment explanation
Indices: 35658668--35658852 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 102
35658658 ATTTGGTGCA
* * * * *
35658668 CATAGTAGCCTGCACTTAGTAATACATCTGTGACCAGAACCGTCTCTTACACATAGTGGCCTGCA
1 CATAGTAGCCTGCACTTAGTAATACACCTGCGACCAGAACCATCTCGTACACATAGTAGCCTGCA
35658733 CTTAGTACCACACATGTGATCGAAGCTATCGGGTACT
66 CTTAGTACCACACATGTGATCGAAGCTATCGGGTACT
* * * *
35658770 CATAGTAGCCTGCACTTAGTACTAC-CCATGCGACC-TAACCATCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTAATACACC-TGCGACCAGAACCATCTCGTACACATAGTAGCCTGC
*
35658833 ACTTAGTACTACACATGTGA
65 ACTTAGTACCACACATGTGA
35658853 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
101 42 0.58
102 30 0.42
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTGCACTTAGTAATACACCTGCGACCAGAACCATCTCGTACACATAGTAGCCTGCA
CTTAGTACCACACATGTGATCGAAGCTATCGGGTACT
Found at i:35663104 original size:55 final size:53
Alignment explanation
Indices: 35662914--35663168 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
35662904 ACACGGGTAC
* * * * *
35662914 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
35662963 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
35663016 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
35663071 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
35663124 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
35663169 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:35663105 original size:108 final size:110
Alignment explanation
Indices: 35662961--35663161 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
35662951 ATCCTTTTGA
* *
35662961 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
35663024 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
35663069 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
35663134 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
35663162 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:35664489 original size:42 final size:42
Alignment explanation
Indices: 35664424--35664508 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
35664414 CGTCGTTTAC
* *
35664424 TTGATGCCATAGTCCAACTATGGTCTTACACGAAGTCTCATA
1 TTGATGCCATAGTCCAACTATGGTCTTACACGAAATCACATA
35664466 TTGATGCCAT-GTCCAAGAC-ATGGTCTTACACGAAATCACATA
1 TTGATGCCATAGTCC-A-ACTATGGTCTTACACGAAATCACATA
35664508 T
1 T
35664509 CGACACCAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 4 0.10
42 33 0.85
43 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
TTGATGCCATAGTCCAACTATGGTCTTACACGAAATCACATA
Found at i:35664552 original size:48 final size:48
Alignment explanation
Indices: 35664469--35664739 Score: 286
Period size: 48 Copynumber: 5.8 Consensus size: 48
35664459 TCTCATATTG
* * ** *
35664469 ATGCCATGTCCAAGACATGGTCTTACACGAAATCACATATCGACACCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
* * * * * *
35664517 ACGCCATATCCCAAATATGGTCTTACATAGGATCACATAGT-GATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATA-TCGATACCA
** *
35664565 ATGCTGTGTCCCAGACATGGTCTTACATGGGATCAC----C--TACCG
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
* * **
35664607 ATGCTATGTCGCAGACATGGTCTTACATGGGATCACATATCGATGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
*
35664655 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATTCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
* * *
35664703 ATGCCATGTCCTAAACATGGTCTTACATTGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
35664740 ATGCCATAGC
Statistics
Matches: 183, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
42 37 0.20
46 1 0.01
48 144 0.79
49 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATACCA
Found at i:35664624 original size:42 final size:42
Alignment explanation
Indices: 35664565--35664698 Score: 169
Period size: 42 Copynumber: 3.0 Consensus size: 42
35664555 AGTGATGCCA
* *
35664565 ATGCTGTGTCCCAGACATGGTCTTACATGGGATCACCTACCG
1 ATGCTATGTCCCAGACATGGTCTTACATGGGATCACATACCG
* *
35664607 ATGCTATGTCGCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCTATGTCCCAGACATGGTCTTACATGGGATCACATACCG
*
35664649 ATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATG-C--T---ATGTCCCAGACATGGTCTTACATGGGATCACATACCG
35664697 AT
1 AT
35664699 TCCAATGCCA
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
42 41 0.51
43 1 0.01
45 1 0.01
48 38 0.47
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (42 bp):
ATGCTATGTCCCAGACATGGTCTTACATGGGATCACATACCG
Found at i:35664691 original size:138 final size:138
Alignment explanation
Indices: 35664468--35664738 Score: 348
Period size: 138 Copynumber: 2.0 Consensus size: 138
35664458 GTCTCATATT
*
35664468 GATGCCATGTCCAAGACATGGTCTTACACGAAATCACATATCGACACCAACGCCATATCCCAAAT
1 GATGCCATGTCCAAGACATGGTCTTACACGAAATCACATATCGACACCAACGCCATATCCCAAAC
** *
35664533 ATGGTCTTACATAGGATCACATAGT-GATGCCAATGCTGTGTCCCAGACATGGTCTTACATGGGA
66 ATGGTCTTACATAGGATCACATA-TCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
35664597 TCACCTACC
130 TCACCTACC
* * ** *** * * *
35664606 GATGCTATGTCGC-AGACATGGTCTTACATGGGATCACATATCGATGTCAATGCCATGTCCCAGA
1 GATGCCATGTC-CAAGACATGGTCTTACACGAAATCACATATCGACACCAACGCCATATCCCAAA
* * * *
35664670 CATGGTCTTACATGGGATCACATATCGATTCCAATGCCATGTCCTAAACATGGTCTTACATTGGA
65 CATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
35664735 TCAC
130 TCAC
35664739 AATGCCATAG
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
137 1 0.01
138 111 0.98
139 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (138 bp):
GATGCCATGTCCAAGACATGGTCTTACACGAAATCACATATCGACACCAACGCCATATCCCAAAC
ATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAT
CACCTACC
Found at i:35664762 original size:37 final size:37
Alignment explanation
Indices: 35664721--35664803 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
35664711 TCCTAAACAT
*
35664721 GGTCTTACAT-TGGATCACAATGCCATAGCCCAGCTAC
1 GGTCTTACATGT-CATCACAATGCCATAGCCCAGCTAC
* * * *
35664758 GGTCTTACATGTCATTACGATGCCATAGCCCATCTAT
1 GGTCTTACATGTCATCACAATGCCATAGCCCAGCTAC
35664795 GGTCTTACA
1 GGTCTTACA
35664804 CGTACGCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 39 0.98
38 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (37 bp):
GGTCTTACATGTCATCACAATGCCATAGCCCAGCTAC
Found at i:35670234 original size:17 final size:17
Alignment explanation
Indices: 35670212--35670245 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35670202 ATAATCAAAT
35670212 CAGTCAAATTCAAAGTC
1 CAGTCAAATTCAAAGTC
*
35670229 CAGTCAAATTCGAAGTC
1 CAGTCAAATTCAAAGTC
35670246 TAAGTCAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (17 bp):
CAGTCAAATTCAAAGTC
Found at i:35670355 original size:27 final size:27
Alignment explanation
Indices: 35670281--35670450 Score: 123
Period size: 27 Copynumber: 6.3 Consensus size: 27
35670271 CAAAACAGTC
* * ** *
35670281 ATTTTACCCTACAAGGGTATGTCAGTC
1 ATTTTACACTACAAGGGTATTTTGGTA
*
35670308 ACTTTACACTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTTGGTA
* * **
35670335 ATTTTACACTACAAGGATATTTCGACA
1 ATTTTACACTACAAGGGTATTTTGGTA
* ** *
35670362 ATTTTACA-AATCGGGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTTGGTA
*
35670389 ATTTTACAAACT-GAA-GGTATTTTGGTA
1 ATTTTAC--ACTACAAGGGTATTTTGGTA
* *
35670416 ATTTTACA-AACCAAGGGTATTTTGATA
1 ATTTTACACTA-CAAGGGTATTTTGGTA
35670443 ATTTTACA
1 ATTTTACA
35670451 AATCGGGGGG
Statistics
Matches: 111, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 106 0.95
29 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTTGGTA
Found at i:35670451 original size:27 final size:27
Alignment explanation
Indices: 35670319--35670555 Score: 201
Period size: 27 Copynumber: 8.7 Consensus size: 27
35670309 CTTTACACTA
* *
35670319 CAAGGGTATTTTGGTAATTTTACACTA-
1 CAAGGGTATTTCGGTAATTTTACA-AAC
* ** *
35670346 CAAGGATATTTCGACAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
**
35670373 CGGGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
35670400 TGAA-GGTATTTTGGTAATTTTACAAAC
1 -CAAGGGTATTTCGGTAATTTTACAAAC
* *
35670427 CAAGGGTATTTTGATAATTTTACAAATC
1 CAAGGGTATTTCGGTAATTTTACAAA-C
*** * * *
35670455 GGGGGGTACTTCGGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
35670482 C-AGAGGTATTTCGATAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
** *
35670509 TGAGGGTACTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
35670536 CGAGGGTATTTCGATAATTT
1 CAAGGGTATTTCGGTAATTT
35670556 CTCTTTATTA
Statistics
Matches: 167, Mismatches: 37, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.02
27 141 0.84
28 22 0.13
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:35670451 original size:54 final size:54
Alignment explanation
Indices: 35670361--35670555 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
35670351 ATATTTCGAC
* ** * * *
35670361 AATTTTACAAATCGGGGGTATTTCGGTAATTTTACAAACTGAAGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTCGATAATTTTACAAACTGAAGGTACTTCGGT
* * **
35670415 AATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCGGGGGGTACTTCGGT
1 AATTTTACAAACCAAGGGTATTTCGATAATTTTACAAA-CTGAAGGTACTTCGGT
* * *
35670470 AATTTTCCAAATC-AGAGGTATTTCGATAATTTTACAAACTGAGGGTACTTCGGT
1 AATTTTACAAACCAAG-GGTATTTCGATAATTTTACAAACTGAAGGTACTTCGGT
*
35670524 AATTTTACAAACCGAGGGTATTTCGATAATTT
1 AATTTTACAAACCAAGGGTATTTCGATAATTT
35670556 CTCTTTATTA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
54 76 0.63
55 45 0.37
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (54 bp):
AATTTTACAAACCAAGGGTATTTCGATAATTTTACAAACTGAAGGTACTTCGGT
Found at i:35670504 original size:82 final size:81
Alignment explanation
Indices: 35670323--35670555 Score: 272
Period size: 82 Copynumber: 2.9 Consensus size: 81
35670313 ACACTACAAG
* * * *
35670323 GGTATTTTGGTAATTTTACACTA-CAAGGATATTTCGACAATTTTACAAATCGGGGGTATTTCGG
1 GGTATTTTGGTAATTTTACA-AACCAAGGGTATTTCGATAATTTTACAAATCGGGGGTACTTCGG
*
35670387 TAATTTTACAAACTGAA
65 TAATTTTACAAACAGAA
*
35670404 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCGGGGGGTACTTCGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAATC-GGGGGTACTTCGG
*
35670469 TAATTTTCCAAATCAG-A
65 TAATTTTACAAA-CAGAA
* * ** * * * * * *
35670486 GGTATTTCGATAATTTTACAAACTGAGGGTACTTCGGTAATTTTACAAACCGAGGGTATTTCGAT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAATCGGGGGTACTTCGGT
35670551 AATTT
66 AATTT
35670556 CTCTTTATTA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 61 0.47
82 67 0.51
83 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGATAATTTTACAAATCGGGGGTACTTCGGT
AATTTTACAAACAGAA
Found at i:35670873 original size:29 final size:29
Alignment explanation
Indices: 35670831--35670928 Score: 153
Period size: 29 Copynumber: 3.4 Consensus size: 29
35670821 TCCACACTTA
*
35670831 TTCATTTGGCCCCTTTAGGCCCAATCTCG
1 TTCATATGGCCCCTTTAGGCCCAATCTCG
35670860 TTCATATGGCCCCTTTAGGCCCAATCTCG
1 TTCATATGGCCCCTTTAGGCCCAATCTCG
* * *
35670889 TTCATATGG-CCCATTAGGCCCAATCACA
1 TTCATATGGCCCCTTTAGGCCCAATCTCG
35670917 TTCATATGGCCC
1 TTCATATGGCCC
35670929 ATCAGACCCA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 25 0.39
29 39 0.61
ACGTcount: A:0.19, C:0.34, G:0.16, T:0.31
Consensus pattern (29 bp):
TTCATATGGCCCCTTTAGGCCCAATCTCG
Found at i:35670920 original size:28 final size:28
Alignment explanation
Indices: 35670830--35670967 Score: 150
Period size: 28 Copynumber: 4.9 Consensus size: 28
35670820 ATCCACACTT
* * *
35670830 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
* * *
35670859 GTTCATATGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
*
35670888 GTTCATATGGCCCATTAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* *
35670916 ATTCATATGGCCCATCAGACCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* * *
35670944 ATGCATATGACCCATCAGGCCCAA
1 ATTCATATGGCCCATTAGGCCCAA
35670968 CTACTTCCCA
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 62 0.63
29 37 0.37
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:35673948 original size:27 final size:26
Alignment explanation
Indices: 35673903--35674019 Score: 74
Period size: 27 Copynumber: 4.3 Consensus size: 26
35673893 GCAAAACAGT
* * * *
35673903 TATTTTACCCTATAGGGGTATGTCGG
1 TATTTTACACTACAAGGGTATGTCGA
* * *
35673929 TCATTTTACAGTACAAGGGTATTTTTGA
1 T-ATTTTACACTACAAGGGTA-TGTCGA
* *
35673957 TATTTTACACTACAAGGGTATTTTGA
1 TATTTTACACTACAAGGGTATGTCGA
* * *
35673983 TAATTTTACAAGT-CGAGGGTATTTCGA
1 T-ATTTTAC-ACTACAAGGGTATGTCGA
35674010 TAATTTTACA
1 T-ATTTTACA
35674020 AATCGAGGGT
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 9 0.12
27 61 0.80
28 6 0.08
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (26 bp):
TATTTTACACTACAAGGGTATGTCGA
Found at i:35673989 original size:54 final size:53
Alignment explanation
Indices: 35673931--35674154 Score: 163
Period size: 54 Copynumber: 4.2 Consensus size: 53
35673921 TATGTCGGTC
* *
35673931 ATTTTACAGTACAAGGGTATTTTTGAT-ATTTTAC-ACTACAAGGGTATTT-TGATA
1 ATTTTACAGT-CAAGGGTA-TTTCGATAATTTTACAAAT-CAAGGGTATTTCT-ATA
* *
35673985 ATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCTATA
1 ATTTTAC-AGTCAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCTATA
* *** ** *
35674039 ATTTTACAAATTGGGGGTATTTCGATAATTTTACAAA-CTGGGGGTAATTT-GATA
1 ATTTTAC-AGTCAAGGGTATTTCGATAATTTTACAAATC-AAGGGT-ATTTCTATA
* * * * **
35674093 ATTTCACAAATCGAGGGTATTTC-AGTAATTTTACAAATCAGGGGTATTTCGGTA
1 ATTTTAC-AGTCAAGGGTATTTCGA-TAATTTTACAAATCAAGGGTATTTCTATA
35674147 ATTTTACA
1 ATTTTACA
35674155 AACTGGGGGT
Statistics
Matches: 146, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
53 13 0.09
54 122 0.84
55 11 0.08
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
ATTTTACAGTCAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCTATA
Found at i:35674020 original size:27 final size:27
Alignment explanation
Indices: 35673971--35674235 Score: 265
Period size: 27 Copynumber: 9.8 Consensus size: 27
35673961 TTACACTACA
* *
35673971 AGGGTATTTTGATAATTTTACAAGTCG
1 AGGGTATTTCGATAATTTTACAAATCG
35673998 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
35674025 AGGGTATTTCTATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
35674052 GGGGTATTTCGATAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* *
35674079 GGGGTAATTT-GATAATTTCACAAATCG
1 AGGGT-ATTTCGATAATTTTACAAATCG
35674106 AGGGTATTTC-AGTAATTTTACAAATC-
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
35674132 AGGGGTATTTCGGTAATTTTACAAA-CTG
1 A-GGGTATTTCGATAATTTTACAAATC-G
* * *
35674160 GGGGTAATTTAG-TAATTTTACAAATTG
1 AGGGT-ATTTCGATAATTTTACAAATCG
* * * *
35674187 GGGGTACTTCGTTAATTTTCCAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* *
35674214 GGGGTATTTTGATAATTTTACA
1 AGGGTATTTCGATAATTTTACA
35674236 CTTCGATAAT
Statistics
Matches: 203, Mismatches: 22, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.05
27 182 0.90
28 10 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:35674240 original size:43 final size:43
Alignment explanation
Indices: 35674192--35674274 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
35674182 AATTGGGGGT
* * * *
35674192 ACTTCGTTAATTTTCCAAACTGGGGGTATTTTGATAATTTTAC
1 ACTTCGATAATTTTACAAACCGGGGGTATTTCGATAATTTTAC
*
35674235 ACTTCGATAATTTTACAAACCGGGGGTATTTCGGTAATTT
1 ACTTCGATAATTTTACAAACCGGGGGTATTTCGATAATTT
35674275 CTCTTTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (43 bp):
ACTTCGATAATTTTACAAACCGGGGGTATTTCGATAATTTTAC
Found at i:35677034 original size:18 final size:19
Alignment explanation
Indices: 35676985--35677034 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
35676975 AATTGGTTGT
*
35676985 TATGATGATATAGGTGTTAA
1 TATG-TGATATGGGTGTTAA
*
35677005 TATGTGAAATGGGTGTTAA
1 TATGTGATATGGGTGTTAA
*
35677024 -ATGTTATATGG
1 TATGTGATATGG
35677035 TTGAGTTCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 9 0.35
19 13 0.50
20 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (19 bp):
TATGTGATATGGGTGTTAA
Found at i:35679017 original size:40 final size:40
Alignment explanation
Indices: 35678943--35679408 Score: 747
Period size: 40 Copynumber: 11.7 Consensus size: 40
35678933 AACCCAAGTA
* *
35678943 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
35678982 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35679022 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
35679062 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
35679102 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
35679142 CCTTCGGGGCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35679182 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
35679222 CCTTCGGGGCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35679262 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35679302 CCTTCGGGGCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35679342 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
35679382 CCTTCGGGACTTAGCCCGGATATAGTC
1 CCTTCGGGACTTAGCCCGGATATAGTC
35679409 NNNNNNNNNN
Statistics
Matches: 392, Mismatches: 33, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
39 12 0.03
40 377 0.96
41 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:35680463 original size:14 final size:14
Alignment explanation
Indices: 35680441--35680483 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
35680431 TTTCATTTTG
35680441 TAACATAAAATTAT
1 TAACATAAAATTAT
*
35680455 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
35680468 TAACACAAAATAAT
1 TAACATAAAATTAT
35680482 TA
1 TA
35680484 TAATATGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:35680477 original size:13 final size:13
Alignment explanation
Indices: 35680441--35680479 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
35680431 TTTCATTTTG
35680441 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
35680455 TAGCATAAAATAT
1 TAACATAAAATAT
*
35680468 TAACACAAAATA
1 TAACATAAAATA
35680480 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:35688047 original size:30 final size:30
Alignment explanation
Indices: 35688013--35688073 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35688003 TCCTTAACTC
35688013 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35688043 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35688073 A
1 A
35688074 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.