Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 30 of 297
Found at i:10243654 original size:82 final size:81
Alignment explanation
Indices: 10243541--10243696 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10243531 AAATTGTACA
* *
10243541 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
10243605 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
10243622 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
10243687 TGCGAGTTGA
65 TGCGAATTGA
10243697 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:10243708 original size:82 final size:81
Alignment explanation
Indices: 10243537--10243717 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
10243527 GATTAAATTG
* *
10243537 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
10243602 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
10243618 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
10243682 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
10243700 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
10243718 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:10260277 original size:32 final size:32
Alignment explanation
Indices: 10260236--10260301 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
10260226 AAGGCTATTT
*
10260236 ACCAAGCCTTTGCCACCTTGAAACAAAATCTA
1 ACCAAGCCTTTGCCACATTGAAACAAAATCTA
10260268 ACCAAGCCTTTGCCACATTGAAACAAAATCTA
1 ACCAAGCCTTTGCCACATTGAAACAAAATCTA
10260300 AC
1 AC
10260302 ATTAACCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.21
Consensus pattern (32 bp):
ACCAAGCCTTTGCCACATTGAAACAAAATCTA
Found at i:10264626 original size:48 final size:48
Alignment explanation
Indices: 10264574--10264746 Score: 217
Period size: 55 Copynumber: 3.5 Consensus size: 48
10264564 GGCTATTACA
10264574 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCAAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCAAGGCTGATG
10264622 CATGTCCCAAACATGTCTTATGTCTTACACTGGCTTAAATATCTCAAGGCTGATG
1 CATGTCCC-AA-A---C--ATGTCTTACACTGGCTTAAATATCTCAAGGCTGATG
* **
10264677 CATGTCCCAAACATGTCTTACACTGGCTCT-TATA-CTGTA-GCTGATG
1 CATGTCCCAAACATGTCTTACACTGGCT-TAAATATCTCAAGGCTGATG
*
10264723 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
10264747 AGCACACATA
Statistics
Matches: 113, Mismatches: 4, Indels: 18
0.84 0.03 0.13
Matches are distributed among these distances:
46 30 0.27
47 3 0.03
48 27 0.24
49 3 0.03
50 2 0.02
53 2 0.02
54 2 0.02
55 44 0.39
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCAAGGCTGATG
Found at i:10264652 original size:55 final size:55
Alignment explanation
Indices: 10264586--10264696 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
10264576 TGTCCCAAAC
10264586 ATGTCTTACACTGGCTTAAATATCTCAAGGCTGATGCATGTCCCAAACATGTCTT
1 ATGTCTTACACTGGCTTAAATATCTCAAGGCTGATGCATGTCCCAAACATGTCTT
10264641 ATGTCTTACACTGGCTTAAATATCTCAAGGCTGATGCATGTCCCAAACATGTCTT
1 ATGTCTTACACTGGCTTAAATATCTCAAGGCTGATGCATGTCCCAAACATGTCTT
10264696 A
1 A
10264697 CACTGGCTCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (55 bp):
ATGTCTTACACTGGCTTAAATATCTCAAGGCTGATGCATGTCCCAAACATGTCTT
Found at i:10275838 original size:46 final size:45
Alignment explanation
Indices: 10275777--10275947 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 45
10275767 GCATATCTGT
10275777 GCCGATAGCAT-TCCCAGACATGTCTTACACTGACTTATGTCTCGAG
1 GCCGAT-GCATGTCCCAGACATGTCTTACACTGACTTATGTCTC-AG
* * * * *
10275823 GCCGATGCATGTCCCAAACATGTCTTACACTAGCCCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GACTTATGTCTC-AG
* **
10275869 GCCGATGCCATGTCCCAGACATGTTCTTACACTGGCTCTCAT-AAT-ATG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGACT-T-ATGTCTCA-G
*
10275917 GCCGATGCATGTCCCAGACAGGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
10275948 AGCTCACAAT
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 4 0.04
46 47 0.46
47 34 0.33
48 17 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTATGTCTCAG
Found at i:10275897 original size:94 final size:92
Alignment explanation
Indices: 10275776--10275950 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 92
10275766 AGCATATCTG
* *
10275776 TGCCGATAGCATTCCCAGACATGTCTTACACTGACT-T-AT-GTCTCGAGGCCGATGCATGTCCC
1 TGCCGATAGCATTCCCAGACATGTCTTACACTGACTCTCATAATAT---GGCCGATGCATGTCCC
*
10275838 AAACATGTCTTACACTAGCCCTCGTCTCAA
63 AAACAGGTCTTACACTAGCCCTCGTCTCAA
*
10275868 TGCCGAT-GCCATGTCCCAGACATGTTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCC
1 TGCCGATAG-CAT-TCCCAGACATG-TCTTACACTGACTCTCATAATATGGCCGATGCATGTCCC
*
10275932 AGACAGGTCTTACACTAGC
63 AAACAGGTCTTACACTAGC
10275951 TCACAATAAC
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
91 1 0.01
92 10 0.14
93 11 0.15
94 45 0.62
95 1 0.01
96 2 0.03
97 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (92 bp):
TGCCGATAGCATTCCCAGACATGTCTTACACTGACTCTCATAATATGGCCGATGCATGTCCCAAA
CAGGTCTTACACTAGCCCTCGTCTCAA
Found at i:10279385 original size:39 final size:40
Alignment explanation
Indices: 10279342--10279509 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
10279332 CTCGTTCAAG
* * * *
10279342 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
10279381 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
10279421 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
10279461 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
10279501 TGCCTTCGG
1 TGCCTTCGG
10279510 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:10279522 original size:40 final size:40
Alignment explanation
Indices: 10279379--10279509 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
10279369 TAACTCATAC
* *
10279379 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
10279419 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
10279459 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
10279499 AATGCCTTCGG
1 AATGCCTTCGG
10279510 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:10279522 original size:80 final size:80
Alignment explanation
Indices: 10279342--10279562 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
10279332 CTCGTTCAAG
* * * * * * * *
10279342 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
*
10279406 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
*
10279421 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
10279483 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCGCACAAA
** * *
10279501 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAGAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
10279563 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 72 0.61
81 9 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
TAAAACTCGCACAAA
Found at i:10283825 original size:18 final size:18
Alignment explanation
Indices: 10283802--10283851 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
10283792 TAACAATAAA
*
10283802 CAGTGCAGCAGCAGTAAT
1 CAGTGCAGCAACAGTAAT
*
10283820 CAGTGCAGTAACAGTAAT
1 CAGTGCAGCAACAGTAAT
* *
10283838 CAATGCAGTAACAG
1 CAGTGCAGCAACAG
10283852 AATACAAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (18 bp):
CAGTGCAGCAACAGTAAT
Found at i:10284252 original size:27 final size:27
Alignment explanation
Indices: 10284166--10284260 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 27
10284156 ATATATACAT
*
10284166 CACAT-AGGGCAAAACAGTCATATTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
10284192 CATACAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** *
10284219 CGTATAAGGGCACAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
10284246 CACATAAGGGAAAAA
1 CACATAAGGGCAAAA
10284261 TAATTGTAAC
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:10289047 original size:12 final size:12
Alignment explanation
Indices: 10289030--10289089 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
10289020 AGTTACACGA
10289030 CCTAGCACATGG
1 CCTAGCACATGG
*
10289042 CCTAGCACAGGG
1 CCTAGCACATGG
*
10289054 CCTAGTACACT-G
1 CCTAGCACA-TGG
* **
10289066 TCTAGCACACAG
1 CCTAGCACATGG
10289078 CCTAGCACATGG
1 CCTAGCACATGG
10289090 GAATGTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (12 bp):
CCTAGCACATGG
Found at i:10291409 original size:93 final size:94
Alignment explanation
Indices: 10291256--10291426 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 94
10291246 AGGATACCAA
* * * * * *
10291256 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGTAAGGAAATCAGGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGCAAGGAAACCACGTAAGACCATA
10291321 TCAAGACATGGCATTGATAAACTACTCAT
66 TCAAGACATGGCATTGATAAACTACTCAT
* * * *
10291350 GTAAGACCATGGCAAGGCATGGCAATGGTGAG-TTCATAAGGCAAGGATACCACGTAAGACCATA
1 GTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGCAAGGAAACCACGTAAGACCATA
10291414 TCAAGACATGGCA
66 TCAAGACATGGCA
10291427 ATGGTAAGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
93 38 0.57
94 29 0.43
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (94 bp):
GTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGCAAGGAAACCACGTAAGACCATA
TCAAGACATGGCATTGATAAACTACTCAT
Found at i:10295098 original size:16 final size:16
Alignment explanation
Indices: 10295079--10295109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10295069 CTTCTTCACT
10295079 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
10295095 TACTTACTTACTTAA
1 TACTCACTTACTTAA
10295110 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:10295115 original size:20 final size:20
Alignment explanation
Indices: 10295076--10295115 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10295066 AAACTTCTTC
* *
10295076 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
10295096 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
10295116 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:10295392 original size:49 final size:53
Alignment explanation
Indices: 10295322--10295447 Score: 125
Period size: 55 Copynumber: 2.4 Consensus size: 53
10295312 CATAACTTTT
* * *
10295322 CATGGTCTTACGTGGTATCCTT-TT-CAAA-CTTACC-ATTGCCATGTCTTGA
1 CATGGTCTTACATGATATCCTTCTTACAAACCTTACCAATTGCCATGCCTTGA
* * * *
10295371 CATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTTCCATGCCTTGG
1 CATGGTCTTACATGATATCCTT--CTTACAAACCTTACCAATTGCCATGCCTTGA
* *
10295426 CATGGTCTTACACGGTATCCTT
1 CATGGTCTTACATGATATCCTT
10295448 AAACCCTAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
49 19 0.31
52 2 0.03
53 3 0.05
54 6 0.10
55 31 0.51
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (53 bp):
CATGGTCTTACATGATATCCTTCTTACAAACCTTACCAATTGCCATGCCTTGA
Found at i:10306670 original size:28 final size:28
Alignment explanation
Indices: 10306629--10306785 Score: 97
Period size: 28 Copynumber: 5.5 Consensus size: 28
10306619 GAAACACACT
* * * *
10306629 TCGCATACACAGTGCCCACTGACTGATT
1 TCGCACACATAGTGCCCACTGACAGATC
* * * *
10306657 TCGCACACATAGTGCTCGA-TTAAAGAAC
1 TCGCACACATAGTGC-CCACTGACAGATC
* *
10306685 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCC-CACTGA-CAGATC
* * *
10306714 TCGCACACATAGTGCTCGATTGA-AGAAC
1 TCGCACACATAGTGC-CCACTGACAGATC
*
10306742 TCGCACACATAGTGCCTCAACT-ACTGATC
1 TCGCACACATAGTGCC-C-ACTGACAGATC
*
10306771 TGGCACACATAGTGC
1 TCGCACACATAGTGC
10306786 TCGGTTGAAG
Statistics
Matches: 100, Mismatches: 20, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
27 3 0.03
28 51 0.51
29 44 0.44
30 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCCCACTGACAGATC
Found at i:10306717 original size:29 final size:29
Alignment explanation
Indices: 10306657--10306785 Score: 124
Period size: 29 Copynumber: 4.5 Consensus size: 29
10306647 CTGACTGATT
* *
10306657 TCGCACACATAGTG-CTCGATTA-AAGAAC
1 TCGCACACATAGTGCCTCAATTACAA-ATC
*
10306685 TCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCCTCAATTACAAATC
*
10306714 TCGCACACATAGTG-CTCGATTGA-AGAA-C
1 TCGCACACATAGTGCCTCAATT-ACA-AATC
* **
10306742 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCCTCAATTACAAATC
*
10306771 TGGCACACATAGTGC
1 TCGCACACATAGTGC
10306786 TCGGTTGAAG
Statistics
Matches: 84, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
28 37 0.44
29 46 0.55
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTACAAATC
Found at i:10306724 original size:57 final size:57
Alignment explanation
Indices: 10306657--10306817 Score: 241
Period size: 57 Copynumber: 2.8 Consensus size: 57
10306647 CTGACTGATT
* *
10306657 TCGCACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
10306714 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * *
10306771 TGGCACACATAGTGCTCGGTTGAAGAGCTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
10306818 TAATTCCAGC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 95 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:10306897 original size:40 final size:40
Alignment explanation
Indices: 10306823--10307698 Score: 1657
Period size: 40 Copynumber: 21.9 Consensus size: 40
10306813 CCTCATAATT
* * *
10306823 CCAGCACGAATGC-CTTCGAGG-TTTAGCCAAGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCAGATATAACA
* * *
10306862 CTAGCACGAATGCTCTTCCGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10306902 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
*
10306942 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10306982 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307022 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307062 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307102 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307142 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307182 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307222 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307262 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307302 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307342 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307382 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307422 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307462 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307502 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307542 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307582 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
10307622 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
*
10307662 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATA
10307699 TAACTCTCAA
Statistics
Matches: 823, Mismatches: 12, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
39 14 0.02
40 809 0.98
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACA
Found at i:10311924 original size:22 final size:21
Alignment explanation
Indices: 10311866--10311925 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
10311856 CAATTATTCT
* *
10311866 TATTATGGTTTTGCGCCAACC
1 TATTATGGTTCTGTGCCAACC
* *
10311887 TACATATGGCTCTGTGCCAACC
1 TA-TTATGGTTCTGTGCCAACC
*
10311909 TGATTATGGTTGTGTGC
1 T-ATTATGGTTCTGTGC
10311926 TAAACGTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.90
23 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (21 bp):
TATTATGGTTCTGTGCCAACC
Found at i:10316737 original size:74 final size:74
Alignment explanation
Indices: 10316646--10316884 Score: 303
Period size: 74 Copynumber: 3.3 Consensus size: 74
10316636 ATTAGAATGT
*
10316646 CATAGCC-CAGCTATGGTCTTACATATATATATACATTACCATGGTCCAACCATGATCTTACATC
1 CATAGCCTC-GCTATGGTCTTACATATATATATACATTGCCATGGTCCAACCATGATCTTACATC
10316710 TAAAAACTGC
65 TAAAAACTGC
* * *
10316720 CATAGCCTCGCTATGGTCTTACATATATATATACACTGCCATGGTCCAACCATAATCTTACACCT
1 CATAGCCTCGCTATGGTCTTACATATATATATACATTGCCATGGTCCAACCATGATCTTACATCT
10316785 AAAAACTGC
66 AAAAACTGC
* * *
10316794 CATAGCCTCGCTATGGTCTTAC----ATA-A-ACATTGCCATGGTCCAACCATGGTCTTGCGTCT
1 CATAGCCTCGCTATGGTCTTACATATATATATACATTGCCATGGTCCAACCATGATCTTACATCT
*
10316853 GAAAAACTGG
66 -AAAAACTGC
* ** *
10316863 TATAGCCTTACTATGGTTTTAC
1 CATAGCCTCGCTATGGTCTTAC
10316885 GTAAACATTG
Statistics
Matches: 148, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
68 27 0.18
69 27 0.18
70 3 0.02
74 90 0.61
75 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (74 bp):
CATAGCCTCGCTATGGTCTTACATATATATATACATTGCCATGGTCCAACCATGATCTTACATCT
AAAAACTGC
Found at i:10316743 original size:35 final size:35
Alignment explanation
Indices: 10316701--10316817 Score: 112
Period size: 35 Copynumber: 3.2 Consensus size: 35
10316691 CCAACCATGA
10316701 TCTTACATCTAAAAACTGCCATAGCCTCGCTATGG
1 TCTTACATCTAAAAACTGCCATAGCCTCGCTATGG
* * * **
10316736 TCTTACATATATATATACACTGCCATGGTCCAAC-C-ATAA
1 TCTTACATCTA-A-A-A-ACTGCCATAG-CC-TCGCTATGG
*
10316775 TCTTACACCTAAAAACTGCCATAGCCTCGCTATGG
1 TCTTACATCTAAAAACTGCCATAGCCTCGCTATGG
10316810 TCTTACAT
1 TCTTACAT
10316818 AAACATTGCC
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
33 1 0.02
34 3 0.05
35 28 0.45
36 2 0.03
37 2 0.03
38 2 0.03
39 20 0.32
40 3 0.05
41 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (35 bp):
TCTTACATCTAAAAACTGCCATAGCCTCGCTATGG
Found at i:10316909 original size:69 final size:69
Alignment explanation
Indices: 10316689--10316916 Score: 181
Period size: 69 Copynumber: 3.2 Consensus size: 69
10316679 CATTACCATG
* * * *
10316689 GTCCAACCATGATCTTACATCT-AAAAACTGCCATAGCCTCGCTATGGTCTTACATATATATATA
1 GTCCAACCATGGTCTTGCGTCTGAAAAACTGCCATAGCCTCACTATGGTCTTAC----ATA-A-A
* **
10316753 CACTGCCATG
60 CATTGCCAAA
** * ** *
10316763 GTCCAACCATAATCTTACACCT-AAAAACTGCCATAGCCTCGCTATGGTCTTACATAAACATTGC
1 GTCCAACCATGGTCTTGCGTCTGAAAAACTGCCATAGCCTCACTATGGTCTTACATAAACATTGC
**
10316827 CATG
66 CAAA
** * * *
10316831 GTCCAACCATGGTCTTGCGTCTGAAAAACTGGTATAGCCTTACTATGGTTTTACGTAAACATTGC
1 GTCCAACCATGGTCTTGCGTCTGAAAAACTGCCATAGCCTCACTATGGTCTTACATAAACATTGC
10316896 CAAA
66 CAAA
***
10316900 GTTTGACCATGGTCTTG
1 GTCCAACCATGGTCTTG
10316917 TACATCTTTA
Statistics
Matches: 134, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
68 27 0.20
69 53 0.40
70 3 0.02
74 51 0.38
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (69 bp):
GTCCAACCATGGTCTTGCGTCTGAAAAACTGCCATAGCCTCACTATGGTCTTACATAAACATTGC
CAAA
Found at i:10321647 original size:42 final size:43
Alignment explanation
Indices: 10321553--10321721 Score: 130
Period size: 42 Copynumber: 4.0 Consensus size: 43
10321543 TCATACAATG
* * * * *
10321553 CCAACGTCCCAGACGAGG-CTTACATGTAATCAAATATCGATG
1 CCAATGTCCCAGACAAGGTCTTACACGAAATCAAATATCGATA
* * *
10321595 CCACTATCCCAGACAAGGTCTTACACGAAATCATATA-CGATA
1 CCAATGTCCCAGACAAGGTCTTACACGAAATCAAATATCGATA
* * * *
10321637 CCAATGTCCCAGGCATGGTCTTACACGTAATTCTCAAAT-T-GATG
1 CCAATGTCCCAGACAAGGTCTTACACG-AA--ATCAAATATCGATA
* * * * *
10321681 CCAATGTGCCAGACATGGTCTTATAGGAAATCACATATCGA
1 CCAATGTCCCAGACAAGGTCTTACACGAAATCAAATATCGA
10321722 AATCCTGATA
Statistics
Matches: 99, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
41 5 0.05
42 42 0.42
43 21 0.21
44 26 0.26
45 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACAAGGTCTTACACGAAATCAAATATCGATA
Found at i:10328310 original size:46 final size:46
Alignment explanation
Indices: 10328260--10328528 Score: 313
Period size: 46 Copynumber: 5.8 Consensus size: 46
10328250 TGGTTGAGCA
10328260 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
10328306 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
10328351 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
10328399 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10328444 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
10328492 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10328529 GCGGGTTACA
Statistics
Matches: 193, Mismatches: 11, Indels: 38
0.80 0.05 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 8 0.04
46 92 0.48
47 60 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10328416 original size:93 final size:93
Alignment explanation
Indices: 10328257--10328520 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
10328247 GGATGGTTGA
10328257 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
10328322 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
10328350 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
10328415 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
10328443 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
10328507 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
10328521 GCTTATGGGC
Statistics
Matches: 168, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 2 0.01
93 166 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:10338045 original size:40 final size:40
Alignment explanation
Indices: 10337999--10338183 Score: 289
Period size: 40 Copynumber: 4.6 Consensus size: 40
10337989 GAATACACGT
* * *
10337999 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
10338039 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
10338079 CTCTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
10338119 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
10338159 CACTAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGAC
10338184 CATATATAAC
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:10338371 original size:141 final size:140
Alignment explanation
Indices: 10338117--10338399 Score: 437
Period size: 141 Copynumber: 2.0 Consensus size: 140
10338107 GCCCGGATAT
* *
10338117 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
1 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATAACTA-CACGAATGCTCTTCGAG
*
10338182 ACCATATATAACAATACACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTA
65 AACATATATAACAATACACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTA
10338247 TCGACCATTCA
130 TCGACCATTCA
** *
10338258 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATAACT-C-TTAATTCTCATGTAC-
1 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATAACTACACGAATGCTC-T-T-CG
*
10338320 ATATACATATATAACAATACACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGC
63 AGA-ACATATATAACAATACACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGC
10338385 TTATCGACCATTCA
127 TTATCGACCATTCA
10338399 A
1 A
10338400 CTTTCAGTTC
Statistics
Matches: 131, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
138 6 0.05
139 2 0.02
140 2 0.02
141 121 0.92
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (140 bp):
AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATAACTACACGAATGCTCTTCGAGA
ACATATATAACAATACACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTAT
CGACCATTCA
Found at i:10345922 original size:27 final size:27
Alignment explanation
Indices: 10345892--10346069 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10345882 ATATTGAGTC
* * * *
10345892 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
10345919 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10345946 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
10345974 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
10346001 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
10346028 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10346055 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10346070 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:10346031 original size:82 final size:81
Alignment explanation
Indices: 10345913--10346068 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10345903 TGCTATATAA
* *
10345913 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10345978 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10345995 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
10346059 CACTTAGTGC
65 CACTTAGTGC
10346069 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10353977 original size:27 final size:27
Alignment explanation
Indices: 10353947--10354124 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10353937 ATATTGAGTC
* * * *
10353947 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
10353974 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10354001 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
10354029 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
10354056 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
10354083 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10354110 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10354125 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:10354086 original size:82 final size:81
Alignment explanation
Indices: 10353968--10354123 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10353958 TGCTATATAA
* *
10353968 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10354033 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10354050 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
10354114 CACTTAGTGC
65 CACTTAGTGC
10354124 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10358888 original size:30 final size:29
Alignment explanation
Indices: 10358842--10358908 Score: 125
Period size: 30 Copynumber: 2.3 Consensus size: 29
10358832 CCTCAAGTAA
10358842 CCAAAGCTAGTTAAATCGCACACTTAGTG
1 CCAAAGCTAGTTAAATCGCACACTTAGTG
10358871 CCAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCTAG-TTAAATCGCACACTTAGTG
10358901 CCAAAGCT
1 CCAAAGCT
10358909 TTCGATTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.27
30 27 0.73
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (29 bp):
CCAAAGCTAGTTAAATCGCACACTTAGTG
Found at i:10363728 original size:29 final size:29
Alignment explanation
Indices: 10363664--10363804 Score: 108
Period size: 29 Copynumber: 4.9 Consensus size: 29
10363654 TACATACATG
* * * *
10363664 CATATGGCCTATTAGGCCCAA-TCTCATT
1 CATATGGCCCATCAGGCCCAATTCACAAT
* **
10363692 TATATGGCCCATCCA-GCCCAATTCACGTT
1 CATATGGCCCAT-CAGGCCCAATTCACAAT
10363721 CATATGGCCCATCAGGCCCAATTCACAAT
1 CATATGGCCCATCAGGCCCAATTCACAAT
* * * * *
10363750 CATATGACCCATTAGACCCAA-TCTCATT
1 CATATGGCCCATCAGGCCCAATTCACAAT
* ** *
10363778 TATATGGCCCATTTGGCCCAAATCACA
1 CATATGGCCCATCAGGCCCAATTCACA
10363805 TTATATTCAT
Statistics
Matches: 91, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
28 40 0.44
29 51 0.56
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATTCACAAT
Found at i:10369921 original size:22 final size:22
Alignment explanation
Indices: 10369781--10369921 Score: 192
Period size: 22 Copynumber: 6.4 Consensus size: 22
10369771 CATCAATGTT
* *
10369781 ATCAGTGGCAGTTTATTTGCAA
1 ATCAGTGGTAGTTTATCTGCAA
* * *
10369803 ATCAATGGCAATTTATCTGCAA
1 ATCAGTGGTAGTTTATCTGCAA
* *
10369825 ATCAGTGGCAGTTTATCTACAA
1 ATCAGTGGTAGTTTATCTGCAA
10369847 ATCAGTGGTAGTTTATCTGCAA
1 ATCAGTGGTAGTTTATCTGCAA
* *
10369869 TTCAGTGGTAGTTTATCTACAA
1 ATCAGTGGTAGTTTATCTGCAA
*
10369891 TTCAGTGGTAGTTTATCTGCAA
1 ATCAGTGGTAGTTTATCTGCAA
10369913 ATCAGTGGT
1 ATCAGTGGT
10369922 GGCATGACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 107 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (22 bp):
ATCAGTGGTAGTTTATCTGCAA
Found at i:10369935 original size:44 final size:44
Alignment explanation
Indices: 10369814--10369936 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
10369804 TCAATGGCAA
* * * * *
10369814 TTTATCTGCAAATCAGTGGCAGTTTATCTACAAATCAGTGGTAG
1 TTTATCTGCAAATCAGTGGTAGATGATCCACAATTCAGTGGTAG
* * * *
10369858 TTTATCTGCAATTCAGTGGTAGTTTATCTACAATTCAGTGGTAG
1 TTTATCTGCAAATCAGTGGTAGATGATCCACAATTCAGTGGTAG
*
10369902 TTTATCTGCAAATCAGTGGTGGCATGA-CCACAATT
1 TTTATCTGCAAATCAGTGGTAG-ATGATCCACAATT
10369937 GGTGTTTGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
44 68 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (44 bp):
TTTATCTGCAAATCAGTGGTAGATGATCCACAATTCAGTGGTAG
Found at i:10372110 original size:12 final size:12
Alignment explanation
Indices: 10372093--10372118 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10372083 CATTCCGAAG
10372093 TATATATATACA
1 TATATATATACA
10372105 TATATATATACA
1 TATATATATACA
10372117 TA
1 TA
10372119 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:10372648 original size:27 final size:28
Alignment explanation
Indices: 10372564--10372661 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
10372554 CATGAGATTG
* * * *
10372564 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
10372593 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
10372621 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
10372648 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
10372662 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:10372672 original size:27 final size:27
Alignment explanation
Indices: 10372592--10372674 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
10372582 TAAATTGTAC
* *
10372592 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
10372620 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
10372647 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
10372674 A
1 A
10372675 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:10378602 original size:94 final size:91
Alignment explanation
Indices: 10378484--10378699 Score: 254
Period size: 94 Copynumber: 2.3 Consensus size: 91
10378474 AGACGGGGGC
* *
10378484 TAGTGTAAGACGTGTCTGGGACATGCATCAGCCGC-ATCATGATAGCCCGTGTAAGACCACGTCT
1 TAGTGTAAGACATGTCTGGGACATGCATCAGCCGCGATCATGATAGCCAGTGTAAGA-CACGTCT
* *
10378548 GGGACATGGCATAGGCATAGAGGTGAGTTA
65 GGGAAAT-GCATAGGC-TA-AGGTGAGTGA
* * * * **
10378578 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGTTAGCCAGTGTAAGACGTGTCTG
1 TAGTGTAAGACATGTCTGGGACATGCATCAGCCGCGATCATGATAGCCAGTGTAAGACACGTCTG
* * ** *
10378643 GGAAATGCATCGGCTAAGTTTCGTGC
66 GGAAATGCATAGGCTAAGGTGAGTGA
10378669 TAGTGTAAGACATGTCTGGGACATGCATCAG
1 TAGTGTAAGACATGTCTGGGACATGCATCAG
10378700 TACGTATATA
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
91 35 0.33
92 2 0.02
93 7 0.07
94 43 0.41
95 18 0.17
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (91 bp):
TAGTGTAAGACATGTCTGGGACATGCATCAGCCGCGATCATGATAGCCAGTGTAAGACACGTCTG
GGAAATGCATAGGCTAAGGTGAGTGA
Found at i:10378738 original size:49 final size:47
Alignment explanation
Indices: 10378430--10378790 Score: 171
Period size: 47 Copynumber: 7.7 Consensus size: 47
10378420 TGGGTTATAT
* * * * *
10378430 GAGAGCCAGTATAAGACCATGCCTGGGACATGGCATCGGCATTG--AGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-TCGATAGA
* * * *
10378477 CGGGGGCTAGTGTAAGA-CGTGTCTGGGACATGCATCAGC-CGCATCA-T
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTCG-AT-AGA
* ** * *
10378524 GATAGCCCGTGTAAGACCACGTCTGGGACATGGCAT-AG-GC-ATAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCTCGATAGA
* * *
10378569 GGTGAGTTATAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAT-GA
1 -GAGAG--CTAGTGTAAGACCATGTCTGGGACATGCATCAG-CTCGATAGA
** * * * * *
10378618 TGTTAGCCAGTGTAAGA-CGTGTCTGGGAAATGCATCGGCT--A-AGTT
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTCGATAG-A
** * *
10378663 TCGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAG-TACGTATATA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCT-CG-ATAGA
*
10378710 CGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATAGA
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAG-CTCGATAGA
* *
10378760 GATAGCTAGCG-AAGACCATGTCTGGGACATG
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATG
10378791 GCAGCAGCAA
Statistics
Matches: 236, Mismatches: 50, Indels: 55
0.69 0.15 0.16
Matches are distributed among these distances:
43 1 0.00
44 33 0.14
45 2 0.01
46 27 0.11
47 71 0.30
48 57 0.24
49 29 0.12
50 13 0.06
51 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTCGATAGA
Found at i:10386597 original size:16 final size:17
Alignment explanation
Indices: 10386566--10386598 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10386556 TTCATAAGTA
10386566 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
10386583 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
10386599 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:10386944 original size:46 final size:45
Alignment explanation
Indices: 10386879--10387127 Score: 273
Period size: 46 Copynumber: 5.4 Consensus size: 45
10386869 TTATCTTTGA
* * * * *
10386879 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTAT
* * ** *
10386925 CAGGTTGCCATGGTATCTTTCAACCATTGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TAT
* ** * * *
10386971 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTAT
* *
10387016 CATGTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TAT
* *
10387062 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTAT
*
10387108 CCTGTTGCCATGGTATCTTT
1 CATGTTGCCATGGTATCTTT
10387128 ATAAATAAAT
Statistics
Matches: 173, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
45 40 0.23
46 130 0.75
47 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (45 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTAT
Found at i:10387056 original size:91 final size:92
Alignment explanation
Indices: 10386884--10387102 Score: 269
Period size: 91 Copynumber: 2.4 Consensus size: 92
10386874 TTTGACATGA
* * * * ** *
10386884 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCATCAGGTTGCCATGGTATATTTCAAC
* *** * *
10386949 CATTGTCTTGTTCATTTCATGTTACAT
66 CATGGTCTTACACATTTCATATCACAT
* *
10386976 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCATCATGTTGCCATGGTATATTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCATCAGGTTGCCATGGTATATTTCAAC
**
10387040 CATGGTCTTACACATTTCATATCATGT
66 CATGGTCTTACACATTTCATATCACAT
*
10387067 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
10387103 TATATCCTGT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
91 76 0.71
92 31 0.29
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCATCAGGTTGCCATGGTATATTTCAAC
CATGGTCTTACACATTTCATATCACAT
Found at i:10407215 original size:33 final size:33
Alignment explanation
Indices: 10407173--10407236 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
10407163 AGTTTATTCT
*
10407173 GGATTACCAGTCCAGGCTAAATCTAGTCAATTA
1 GGATTACCAGTCCAGGCTAAATCCAGTCAATTA
10407206 GGATTACCAGTCCAGGCTAAATCCAGTCAAT
1 GGATTACCAGTCCAGGCTAAATCCAGTCAAT
10407237 CCTAATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (33 bp):
GGATTACCAGTCCAGGCTAAATCCAGTCAATTA
Found at i:10412800 original size:47 final size:47
Alignment explanation
Indices: 10412741--10412862 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
10412731 CCATTGGTAC
* *
10412741 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGTATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
10412788 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
* *
10412835 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
10412863 CAAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
Found at i:10412898 original size:54 final size:54
Alignment explanation
Indices: 10412833--10413047 Score: 204
Period size: 54 Copynumber: 4.0 Consensus size: 54
10412823 CATGGCATTT
* * *
10412833 GATAAGATAAGGATATCATGTAAGACCATG-CAAAGGCATGGCATTGATAAGTTC
1 GATAAGGTAAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATAAGTTC
* * * *
10412887 GATAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAAATATT
1 GATAAGGTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGAT-AAGT-TC
* * * * * *
10412943 G-TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC
1 GATAAGG-TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTC
* * * * *
10412996 -ATAAGTTAAGGATACCACGTAAGACTATGTCAAGACATGGCAATGGTAAGTT
1 GATAAGGTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT
10413048 TAAAAAGGAA
Statistics
Matches: 131, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
52 4 0.03
53 38 0.29
54 45 0.34
55 38 0.29
56 6 0.05
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (54 bp):
GATAAGGTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTC
Found at i:10413067 original size:108 final size:109
Alignment explanation
Indices: 10412849--10413072 Score: 274
Period size: 108 Copynumber: 2.1 Consensus size: 109
10412839 ATAAGGATAT
* *
10412849 CATGTAAGACCATGCAAAGGCATGGCATTGATAAGTTCGATAAGGTAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCAAAGGCATGGCATTGATAAGTTCGATAAGGTAAGGAAACCACGTAAGACC
* ** *
10412914 ATGTCAAGACATGGCATTGATGAAATATTGTAAGGCAAAGGTCC
66 ATGTCAAGACATGGCAATGATGAAATATTAAAAGGAAAAGGTCC
* * * * * *
10412958 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGTTAAGGATACCACGTAAGACT
1 CATGTAAGACCATGCAAAGGCATGGCATTGATAAGTTCGATAAGGTAAGGAAACCACGTAAGACC
* *
10413022 ATGTCAAGACATGGCAATGGT-AAGT-TTAAAAAGGAAAAGGTTCC
66 ATGTCAAGACATGGCAATGATGAAATATT-AAAAGGAAAAGG-TCC
*
10413066 CAAGTAA
1 CATGTAA
10413073 TCCAAAGCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
106 2 0.02
107 12 0.12
108 49 0.50
109 35 0.36
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (109 bp):
CATGTAAGACCATGCAAAGGCATGGCATTGATAAGTTCGATAAGGTAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATGAAATATTAAAAGGAAAAGGTCC
Found at i:10415989 original size:40 final size:40
Alignment explanation
Indices: 10415837--10415982 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
10415827 TTGAATGATG
* * * *
10415837 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
10415877 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10415917 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10415958 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10415983 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.89
41 9 0.10
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10415989 original size:80 final size:80
Alignment explanation
Indices: 10415837--10416015 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
10415827 TTGAATGATG
* *
10415837 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTG
**
10415902 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
10415917 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* *
10415980 TTGAACGAGTAGCTATA
64 TGGAACGAGTAGCTAAA
* *
10415997 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
10416016 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTG
GAACGAGTAGCTAAA
Found at i:10422549 original size:40 final size:40
Alignment explanation
Indices: 10422465--10422889 Score: 669
Period size: 40 Copynumber: 10.7 Consensus size: 40
10422455 TTGAATGATG
* * * * * *
10422465 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
10422505 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
10422545 TCCGGGCTAAG-CCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10422584 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10422624 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10422664 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10422704 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10422744 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10422784 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10422824 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
10422865 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
10422890 AACGAGGAGC
Statistics
Matches: 364, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
39 34 0.09
40 320 0.88
41 10 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10423862 original size:64 final size:64
Alignment explanation
Indices: 10423761--10423887 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
10423751 TTAAGAGATA
**
10423761 TTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTGTTTTGACTTTGGAAATTT
1 TTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTT
10423825 TTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTGTTCCGACTTTGGAAATT
1 TTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTGTTCCGACTTTGGAAATT
10423888 CATTATAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (64 bp):
TTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTGTTCCGACTTTGGAAATTT
Found at i:10430204 original size:85 final size:85
Alignment explanation
Indices: 10430061--10430239 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
10430051 GGCCGGCCAT
10430061 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
10430126 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
10430146 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
10430211 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
10430231 GAGCATGGG
1 GAGCATGGG
10430240 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:10439151 original size:39 final size:39
Alignment explanation
Indices: 10439053--10439235 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
10439043 GAATGATGTC
* * * *
10439053 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATT
*
10439093 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATT
*
10439132 CTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATT
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATT
* * **
10439172 CGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
*
10439212 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
10439236 AACGAGTTGC
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:10439257 original size:79 final size:78
Alignment explanation
Indices: 10439088--10439268 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 78
10439078 CTAAGTGACC
* * *
10439088 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCAT
**
10439153 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * *
10439167 AAATTCGGGTTAAG-TCTCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGG
1 ATA-TCCGGTTAAGATC-CGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGG
* *
10439230 CATTTGAACGAGTTGCT
62 CATTGGAACGAGTTACT
10439247 ATATCCGGTTAA-ATTCCGAAGG
1 ATATCCGGTTAAGA-TCCGAAGG
10439269 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
78 4 0.05
79 51 0.61
80 29 0.35
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (78 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:10447525 original size:55 final size:54
Alignment explanation
Indices: 10447394--10447563 Score: 155
Period size: 55 Copynumber: 3.1 Consensus size: 54
10447384 ATTTCTTGAT
* * * * *
10447394 ATGGTCTTACGTG-GTATCCTTGCCTTAT-GACCTCACCATTGCCATGCCTTGGC
1 ATGGTCTTACATGAG-ATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGC
* * * * ** * * *
10447447 ATGGTTTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGAC
1 ATGGTCTTACATGAGATCCTTGCCTTATA-AAACTTACCAATGCCATGCCTTGGC
** *
10447502 ATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTTGGC
1 ATGGTCTTACATGAGATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGC
10447556 ATGGTCTT
1 ATGGTCTT
10447564 CCTTGGTGTC
Statistics
Matches: 91, Mismatches: 23, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
53 23 0.25
54 28 0.31
55 40 0.44
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (54 bp):
ATGGTCTTACATGAGATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGC
Found at i:10460430 original size:93 final size:93
Alignment explanation
Indices: 10460318--10460489 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10460308 CGCCCATAAG
* *
10460318 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10460383 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10460411 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10460476 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10460490 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10460486 original size:46 final size:46
Alignment explanation
Indices: 10460311--10460486 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10460301 TGTAACCCGC
* * *
10460311 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10460357 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10460407 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10460450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10460487 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10465485 original size:22 final size:22
Alignment explanation
Indices: 10465457--10465500 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10465447 CACTCGGGTT
*
10465457 TAACAAATCTCGAGTTCCCTAC
1 TAACAAATCTCGAGTGCCCTAC
10465479 TAACAAATCTCGAGTGCCCTAC
1 TAACAAATCTCGAGTGCCCTAC
10465501 ACTGGCTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.25
Consensus pattern (22 bp):
TAACAAATCTCGAGTGCCCTAC
Found at i:10480781 original size:45 final size:48
Alignment explanation
Indices: 10480623--10480845 Score: 187
Period size: 46 Copynumber: 4.7 Consensus size: 48
10480613 TTTGTGTGCC
* * * * *
10480623 AGTGTAAGA-CACGTCTGGGACAT-GCATCGACCA-C-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCATCGA-GATGTGAGCT
* * * *
10480669 AGTGTAAGACCATGTCTGGGATATGGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATCGAGATGTGAGCT
* *
10480717 AGTGTTAGA-CATGTCTGGGACAT-GCATCAGC-TACGAGATGTG-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-CGAGATGTGAGCT
* * *
10480761 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGTG--AGCT
*
10480811 AGTGTAAGACCCTGTCTGGGACATGGCATCAGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
10480846 TATACCCAAT
Statistics
Matches: 143, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
44 8 0.06
45 16 0.11
46 35 0.24
47 29 0.20
48 20 0.14
49 2 0.01
50 33 0.23
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGTGAGCT
Found at i:10480787 original size:92 final size:95
Alignment explanation
Indices: 10480668--10480843 Score: 250
Period size: 92 Copynumber: 1.9 Consensus size: 95
10480658 TTATGAGAGC
* * * *
10480668 CAGTGTAAGACCATGTCTGGGATATGGCATCGACATTGAGA-CGAGAGCTAGTGTTAGA-CATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGAGAGCGAAAGCTAGTGTAAGACCATGT
10480731 CTGGGACAT-GCATCAGCTACGAGATGTGT
66 CTGGGACATGGCATCAGCTACGAGATGTGT
* * * *
10480760 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAAAGCTAGTGTAAGACCCTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGAGA-GCGAAAGCTAGTGTAAGACCATG
10480825 TCTGGGACATGGCATCAGC
65 TCTGGGACATGGCATCAGC
10480844 ATTATACCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 37 0.51
94 14 0.19
95 13 0.18
96 8 0.11
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGAGAGCGAAAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCAGCTACGAGATGTGT
Found at i:10481915 original size:5 final size:5
Alignment explanation
Indices: 10481905--10481931 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10481895 ACTTACTCCC
10481905 TTCCT TTCCT TTCCT TTCCT TTCCT TT
1 TTCCT TTCCT TTCCT TTCCT TTCCT TT
10481932 AGTGTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (5 bp):
TTCCT
Found at i:10483504 original size:43 final size:43
Alignment explanation
Indices: 10483419--10483583 Score: 142
Period size: 43 Copynumber: 3.8 Consensus size: 43
10483409 TCGTACAATG
* * *
10483419 CAATATCCCAGATATGGTCTTACATGTTATCACAT-ATCGATGC
1 CAATAGCCCAGCTATGGTCTTACATGTAATCACATAAT-GATGC
* * *
10483462 CAATAGCCCAGCTATGGTCTTACATGAAATTAAATAATGATGC
1 CAATAGCCCAGCTATGGTCTTACATGTAATCACATAATGATGC
* * *
10483505 CAAT-GTCTCAGGC-ATGGTCTTATACGTAATCACATAATGATGC
1 CAATAG-CCCA-GCTATGGTCTTACATGTAATCACATAATGATGC
* **
10483548 CAAT-GTCCCAGAC-ATGGTGTTACACATAATCACATA
1 CAATAG-CCCAG-CTATGGTCTTACATGTAATCACATA
10483584 TTGTTAATAT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.02
43 96 0.94
44 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (43 bp):
CAATAGCCCAGCTATGGTCTTACATGTAATCACATAATGATGC
Found at i:10488075 original size:24 final size:24
Alignment explanation
Indices: 10488043--10488137 Score: 163
Period size: 24 Copynumber: 4.0 Consensus size: 24
10488033 CTATCAGGAA
10488043 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
10488067 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* *
10488091 AGGATTTAGGAGCTGATAAGGGAG
1 AGGATTTAGGAGTTGATAAGGGAT
*
10488115 AGGATTTAGGAGTTGATTAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
10488138 GAATAGTGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.33, C:0.01, G:0.39, T:0.27
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:10489379 original size:28 final size:28
Alignment explanation
Indices: 10489339--10489395 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10489329 GGCTATGCTA
10489339 TGCATGAAAACCCTAATAACAGTTAAAT
1 TGCATGAAAACCCTAATAACAGTTAAAT
10489367 TGCATGAAAACCCTAATAACAGTTAAAT
1 TGCATGAAAACCCTAATAACAGTTAAAT
10489395 T
1 T
10489396 ACTTGAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.26
Consensus pattern (28 bp):
TGCATGAAAACCCTAATAACAGTTAAAT
Found at i:10489402 original size:28 final size:28
Alignment explanation
Indices: 10489341--10489407 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
10489331 CTATGCTATG
*
10489341 CATGAAAACCCTAATAACAGTTAAATTG
1 CATGAAAACCCTAATAACAGTTAAATTA
10489369 CATGAAAACCCTAATAACAGTTAAATTA
1 CATGAAAACCCTAATAACAGTTAAATTA
* *
10489397 CTTGAATACCC
1 CATGAAAACCC
10489408 CTATGTATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (28 bp):
CATGAAAACCCTAATAACAGTTAAATTA
Found at i:10489610 original size:27 final size:27
Alignment explanation
Indices: 10489568--10489678 Score: 82
Period size: 27 Copynumber: 4.1 Consensus size: 27
10489558 AGGAAGCGTC
* * *
10489568 CTGGTGGCTATGCCACATTTATTTGACT
1 CTGGTGGCTCTACCACATTTATCTG-CT
* *
10489596 -TGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTACCACATTTATCTGCT
* * *
10489622 CTGGTGGCTCTTCCACAATTATCTGTT
1 CTGGTGGCTCTACCACATTTATCTGCT
* * ** *
10489649 CCGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTACCACATTTATCTGCT
10489675 CTGG
1 CTGG
10489679 CAGTAATGCT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 13 0.19
27 56 0.81
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTACCACATTTATCTGCT
Found at i:10489675 original size:26 final size:26
Alignment explanation
Indices: 10489597--10489675 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
10489587 TATTTGACTT
* * *
10489597 GGTGGCTCTACCACATATATCTGTTCT
1 GGTGACTCTTCCACAT-TATCTGTTCC
*
10489624 GGTGGCTCTTCCACAATTATCTGTTCC
1 GGTGACTCTTCCAC-ATTATCTGTTCC
10489651 GGTGACTCTGT-CACATTATCTGTTC
1 GGTGACTCT-TCCACATTATCTGTTC
10489676 TGGCAGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
26 11 0.23
27 33 0.70
28 3 0.06
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (26 bp):
GGTGACTCTTCCACATTATCTGTTCC
Found at i:10496044 original size:24 final size:24
Alignment explanation
Indices: 10495945--10496045 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
10495935 AAGTCTGTCA
*
10495945 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* * *
10495969 GGATAGGATTTAGGAGATCATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
10495993 GGATAGGATTTAGGAGCTGGTAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
10496017 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
10496041 GGAGA
1 GGAGA
10496046 ACAGTGTTGG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:10497502 original size:27 final size:26
Alignment explanation
Indices: 10497462--10497572 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
10497452 AGGAAGCGTC
*
10497462 CTGGTGGCTATGCCACATTTATCTTAT
1 CTGGTGGCTCTGCCACATTTATCTT-T
* *
10497489 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCT-TT
* *
10497516 CTGGTGGCTCTGCCACAATTATTTGTT
1 CTGGTGGCTCTGCCACATTTATCT-TT
* *
10497543 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCT-TT
10497569 CTGG
1 CTGG
10497573 CAGCAATGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 12 0.16
27 60 0.82
28 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.41
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTTATCTTT
Found at i:10497546 original size:54 final size:53
Alignment explanation
Indices: 10497462--10497572 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 53
10497452 AGGAAGCGTC
* * *
10497462 CTGGTGGCTATGCCACATTTATCTTATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
10497516 CTGGTGGCTCTGCCACAATTAT-TTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTT-ATCTGGTGACTCTGCCACATTATCTGTT
10497569 CTGG
1 CTGG
10497573 CAGCAATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 14 0.28
54 36 0.72
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.41
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGCCACATTATCTGTT
Found at i:10501207 original size:30 final size:29
Alignment explanation
Indices: 10501148--10501207 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
10501138 AACTATTATT
**
10501148 ATGGCCAGAAGCCAAATCATACGATATGC
1 ATGGCCAGAAGCCAAATCATAAAATATGC
* *
10501177 ATGGCCCGAAGCCAAATTGATAAAATATGC
1 ATGGCCAGAAGCCAAA-TCATAAAATATGC
10501207 A
1 A
10501208 CCCGAAGTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (29 bp):
ATGGCCAGAAGCCAAATCATAAAATATGC
Found at i:10507162 original size:38 final size:37
Alignment explanation
Indices: 10507089--10507167 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
10507079 TATTACGAAA
* *
10507089 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
10507126 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
10507164 TCTT
1 TCTT
10507168 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:10507412 original size:48 final size:48
Alignment explanation
Indices: 10507290--10508346 Score: 1869
Period size: 48 Copynumber: 22.1 Consensus size: 48
10507280 TCGGGACTTA
* * * * * * * **
10507290 TCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC-CG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10507337 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10507384 TCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-
1 TCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10507432 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10507481 TCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10507529 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507576 TCACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507625 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507673 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507721 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507769 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507817 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507865 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507913 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10507961 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10508009 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10508057 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10508105 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10508153 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10508201 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10508248 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
*
10508295 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
10508342 TCACA
1 TCACA
10508347 ATTTAGAATT
Statistics
Matches: 988, Mismatches: 15, Indels: 14
0.97 0.01 0.01
Matches are distributed among these distances:
47 193 0.20
48 743 0.75
49 47 0.05
50 5 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (48 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
Found at i:10518637 original size:26 final size:26
Alignment explanation
Indices: 10518608--10518701 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 26
10518598 AGCATGGCTG
* *
10518608 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGACA
* *
10518634 CCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGACA
10518661 CCAGAACAGATATATGTGGCAGAGACA
1 CCAGAACAGATA-ATGTGGCAGAGACA
*
10518688 CCAGATCAGATAAT
1 CCAGAACAGATAAT
10518702 TTATGGCATA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 15 0.25
27 44 0.73
28 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGACA
Found at i:10519698 original size:25 final size:25
Alignment explanation
Indices: 10519664--10519713 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
10519654 AAACCATATC
* *
10519664 ACCTATTGAGTACTCAATCTCCTTA
1 ACCTACTGAGCACTCAATCTCCTTA
10519689 ACCTACTGAGCACTCAATCTCCTTA
1 ACCTACTGAGCACTCAATCTCCTTA
10519714 CGCTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (25 bp):
ACCTACTGAGCACTCAATCTCCTTA
Found at i:10525157 original size:27 final size:27
Alignment explanation
Indices: 10525105--10525213 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
10525095 ATGGCTGCCT
** *
10525105 GAACAGATAA-TGTAACAGAGTCACCA
1 GAACAGATAATTGTGGCAGAGCCACCA
*
10525131 TAACAGATAATTGTGGCAGAGCCACCA
1 GAACAGATAATTGTGGCAGAGCCACCA
*
10525158 GAAAAGAT-ATATGTGGCAGAGCCACCA
1 GAACAGATAAT-TGTGGCAGAGCCACCA
* * *
10525185 GATCAGATAATTTATGGCATAGCCACCA
1 GAACAGATAA-TTGTGGCAGAGCCACCA
10525213 G
1 G
10525214 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 11 0.16
27 41 0.59
28 16 0.23
29 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.18
Consensus pattern (27 bp):
GAACAGATAATTGTGGCAGAGCCACCA
Found at i:10534053 original size:13 final size:13
Alignment explanation
Indices: 10534024--10534090 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 13
10534014 AAGCCACCCC
10534024 TTTTATTTTATTTTA
1 TTTTA-TTTA-TTTA
10534039 TTTTATTTATTTA
1 TTTTATTTATTTA
10534052 --TTAGTGTTATTTA
1 TTTTA-T-TTATTTA
*
10534065 TTAGTA-TTATTTA
1 TT-TTATTTATTTA
10534078 TTTTTATTTATTT
1 -TTTTATTTATTT
10534091 TTGTTTTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
11 3 0.07
12 1 0.02
13 20 0.47
14 12 0.28
15 5 0.12
16 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:10534084 original size:10 final size:10
Alignment explanation
Indices: 10534024--10534092 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 10
10534014 AAGCCACCCC
10534024 TTTTATTT-T
1 TTTTATTTAT
10534033 ATTTTATTT-T
1 -TTTTATTTAT
*
10534043 ATTTATTTAT
1 TTTTATTTAT
10534053 TAGTGTTATTTAT
1 T--T-TTATTTAT
10534066 TAGTATTATTTAT
1 T--T-TTATTTAT
10534079 TTTTATTTAT
1 TTTTATTTAT
10534089 TTTT
1 TTTT
10534093 GTTTTACTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
9 7 0.13
10 22 0.42
11 1 0.02
12 1 0.02
13 21 0.40
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:10534269 original size:14 final size:15
Alignment explanation
Indices: 10534238--10534282 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
10534228 TTGAATTTAG
*
10534238 TATTATTATTTTTGTTT
1 TATT-TTATTATT-TTT
10534255 TATTTT-TTATTTTT
1 TATTTTATTATTTTT
10534269 TATTTTATTATTTT
1 TATTTTATTATTTT
10534283 CTTAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 9 0.35
15 11 0.42
16 2 0.08
17 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (15 bp):
TATTTTATTATTTTT
Found at i:10534279 original size:8 final size:7
Alignment explanation
Indices: 10534252--10534282 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
10534242 ATTATTTTTG
10534252 TTTTATT
1 TTTTATT
10534259 TTTTATT
1 TTTTATT
10534266 TTTTATT
1 TTTTATT
10534273 TTATTATT
1 TT-TTATT
10534281 TT
1 TT
10534283 CTTAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:10541575 original size:28 final size:28
Alignment explanation
Indices: 10541537--10541593 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
10541527 ATAGAGCAAG
* *
10541537 AAAACCTAGATTTGGACTTAGATCGGGA
1 AAAACCCAGATTTGGACTTAAATCGGGA
10541565 AAAACCCAGATTTGGACTTAAATCGGGA
1 AAAACCCAGATTTGGACTTAAATCGGGA
10541593 A
1 A
10541594 GTACGAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (28 bp):
AAAACCCAGATTTGGACTTAAATCGGGA
Found at i:10541728 original size:38 final size:38
Alignment explanation
Indices: 10541677--10541752 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
10541667 CATGTTATCC
10541677 ATGTTATTGTTAAAATTACTTGAAATCTATCTTGCTTT
1 ATGTTATTGTTAAAATTACTTGAAATCTATCTTGCTTT
10541715 ATGTTATTGTTAAAATTACTTGAAATCTATCTTGCTTT
1 ATGTTATTGTTAAAATTACTTGAAATCTATCTTGCTTT
10541753 GGTTATATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (38 bp):
ATGTTATTGTTAAAATTACTTGAAATCTATCTTGCTTT
Found at i:10542368 original size:49 final size:49
Alignment explanation
Indices: 10542279--10542410 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 49
10542269 TTATTGTGTG
* * *
10542279 TCAGTGTAAGACCTGTTTGGGACATGACATCAACACCGATAGAT-AAGAA
1 TCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAA-AA
* * * * *
10542328 TCAGTGTAAGATCTGTCTGGGACACGGCATCGGC-CTCGATATATGAAAG
1 TCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAAAA
* *
10542377 TCAATGTAAGACCTATCTGGGACATGGCATCGAC
1 TCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
10542411 TTTGATGTGC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 65 0.96
50 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (49 bp):
TCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAA
Found at i:10549615 original size:43 final size:42
Alignment explanation
Indices: 10549559--10549714 Score: 120
Period size: 43 Copynumber: 3.7 Consensus size: 42
10549549 AGCATAAACA
** *
10549559 ATGCCAACATCCCAGACGTGTTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACA-CG
* * * * *
10549602 ATGCCATTGTCCCAAACAG-GGTCTTACACT-AAATCAGATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACA-TGTAATCAAACACG
* * * *
10549644 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAGAA-GCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCA-AACACG
* *
10549687 ATGCCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
10549715 CATTAACACA
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 26 0.30
43 59 0.67
44 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACACG
Found at i:10549667 original size:42 final size:43
Alignment explanation
Indices: 10549600--10549715 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
10549590 AATCAAACAT
* * * *
10549600 CGATGCCATTGTCCCAAACAGGGTCTTACAC-TAAATCAGATA-
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAGA-AG
10549642 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAGAAG
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAGAAG
* * *
10549685 CGATGCCAACGTCCTAGACGTGGTCTTACAC
1 CGATGCCAATGTCCCAGACATGGTCTTACAC
10549716 ATTAACACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAGAAG
Found at i:10551119 original size:20 final size:21
Alignment explanation
Indices: 10551080--10551119 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10551070 AAGAGATATT
*
10551080 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTGTGTAAAATAAG
*
10551101 TTGTAAA-TGTGTGAAATAA
1 TTGTAAAGTGTGTAAAATAA
10551120 TTGAAATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTGTGTAAAATAAG
Found at i:10551887 original size:48 final size:46
Alignment explanation
Indices: 10551775--10551901 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 46
10551765 TGATACGTGT
* **
10551775 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACATATTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACATATACAGA
* * * *
10551821 GCCAGTGTAAGGCATGTCTGGGACATGCATTGGCCTCGAGATATACA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CT--ACATATACAGA
*
10551869 GCTAGTGTAAGACCTGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCG
10551902 ACACCGATAG
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
46 29 0.44
47 2 0.03
48 24 0.36
49 11 0.17
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACATATACAGA
Found at i:10551942 original size:49 final size:49
Alignment explanation
Indices: 10551874--10552001 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 49
10551864 TACAAGCTAG
* * *
10551874 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAA
1 TGTAAGACCTATCTAGGACATGGCATCGAC-CTCGATAGATGAAAGCCAA
* * * ** *
10551923 TGTAAGACCTATCTAGGACACGACATC-AGCCTCGATATATGAAATTCAG
1 TGTAAGACCTATCTAGGACATGGCATCGA-CCTCGATAGATGAAAGCCAA
* *
10551972 TGCAAGACCTTTCTAGGACATGGCATCGAC
1 TGTAAGACCTATCTAGGACATGGCATCGAC
10552002 TTTGATGTGC
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
48 2 0.03
49 60 0.95
50 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTATCTAGGACATGGCATCGACCTCGATAGATGAAAGCCAA
Found at i:10554406 original size:26 final size:26
Alignment explanation
Indices: 10554354--10554450 Score: 104
Period size: 26 Copynumber: 3.7 Consensus size: 26
10554344 CGTTTTGACC
* ** * *
10554354 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAACTCGTGTGAGCATACTCTTTT
*
10554380 CACAGCTCGTGTGAGCATACTCTTTT
1 CACAACTCGTGTGAGCATACTCTTTT
* *
10554406 CACAACTCATGTGAGCATGCTCTTTT
1 CACAACTCGTGTGAGCATACTCTTTT
**
10554432 CGTAACTCGTGTGAGCATA
1 CACAACTCGTGTGAGCATA
10554451 TATGTAAAGG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (26 bp):
CACAACTCGTGTGAGCATACTCTTTT
Found at i:10557123 original size:26 final size:26
Alignment explanation
Indices: 10557090--10557161 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
10557080 AATAACGTAG
* * *
10557090 CAAAGCTGCCAATAATATTATTGCAA
1 CAAAGCTGCCAATAACAGTAATGCAA
* *
10557116 CAAAGCTGCTAATAACAGTAATGCAG
1 CAAAGCTGCCAATAACAGTAATGCAA
* *
10557142 CAAAGCTGCCAGTATCAGTA
1 CAAAGCTGCCAATAACAGTA
10557162 TATGTGGCAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (26 bp):
CAAAGCTGCCAATAACAGTAATGCAA
Found at i:10557614 original size:17 final size:19
Alignment explanation
Indices: 10557584--10557621 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
10557574 TGGAACTTAT
*
10557584 CCGTGTGGAGCCACA-AGC
1 CCGTGTGGACCCACACAGC
10557602 CCGT-TGGACCCACACAGC
1 CCGTGTGGACCCACACAGC
10557620 CC
1 CC
10557622 ATTTTGGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.21, C:0.42, G:0.26, T:0.11
Consensus pattern (19 bp):
CCGTGTGGACCCACACAGC
Found at i:10564822 original size:23 final size:25
Alignment explanation
Indices: 10564796--10564846 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
10564786 CCAACACATC
10564796 AATA-ACT-CAGCAAAGCTGCCAGT
1 AATATACTGCAGCAAAGCTGCCAGT
* *
10564819 AATATTATTGCAGCAAAGCTGCTAGT
1 AATA-TACTGCAGCAAAGCTGCCAGT
10564845 AA
1 AA
10564847 CAGAATTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
25 2 0.09
26 17 0.74
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (25 bp):
AATATACTGCAGCAAAGCTGCCAGT
Found at i:10564832 original size:26 final size:26
Alignment explanation
Indices: 10564803--10564867 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
10564793 ATCAATAACT
* **
10564803 CAGCAAAGCTGCCAGTAATATTATTG
1 CAGCAAAGCTGCCAGTAACAGAATTG
*
10564829 CAGCAAAGCTGCTAGTAACAGAATTG
1 CAGCAAAGCTGCCAGTAACAGAATTG
*
10564855 CAGTAAAGCTGCC
1 CAGCAAAGCTGCC
10564868 GGTATCAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGAATTG
Found at i:10565518 original size:24 final size:23
Alignment explanation
Indices: 10565473--10565518 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
10565463 TCAAACACCG
*
10565473 AGCCTTCAGCTCTTCAATTTTTT
1 AGCCTTCAGCTCTTCAACTTTTT
* *
10565496 AGCCTTTCAGCTTTTCGACTTTT
1 AGCC-TTCAGCTCTTCAACTTTT
10565519 GTGATTACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.15, C:0.26, G:0.11, T:0.48
Consensus pattern (23 bp):
AGCCTTCAGCTCTTCAACTTTTT
Found at i:10569116 original size:101 final size:101
Alignment explanation
Indices: 10568984--10569166 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
10568974 CCAACAATTT
* * * *
10568984 GGTACACATAGTAGCCTACACTTAGTACTACACACATGACGTAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTACACTTAATACTACACACACGACCTAACCATCTGATACACGTAATAGC
10569049 CTGCACTTAGTACTACATACATGATCGAAGTTGTCA
66 CTGCACTTAGTACTACATACATGATCGAAGTTGTCA
* * ** * * *
10569085 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACTATCTGGTACATGTAATAGC
1 GGTACACATAGTAGCCTACACTTAATACTACACACACGACCTAACCATCTGATACACGTAATAGC
10569150 CTGCACTTAGTACTACA
66 CTGCACTTAGTACTACA
10569167 CACGTGACCT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
GGTACACATAGTAGCCTACACTTAATACTACACACACGACCTAACCATCTGATACACGTAATAGC
CTGCACTTAGTACTACATACATGATCGAAGTTGTCA
Found at i:10569176 original size:50 final size:50
Alignment explanation
Indices: 10568936--10569178 Score: 236
Period size: 50 Copynumber: 4.9 Consensus size: 50
10568926 AAGCTATTTA
* * * * * *
10568936 GTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACC-AACAATTTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
* * * *
10568985 GTACACATAGTAGCCTACACTTAGTACTACACACATGACGTAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
* * * * * * * * *
10569035 ATACACGTAGTAGCCTGCACTTAGTACTACATACATGATCGAAGTTGTCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTG
* * * *
10569086 GTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACTATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
** *
10569136 GTACATGTAATAGCCTGCACTTAGTACTACACACGTGACCTAA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
10569179 AACCATCTTA
Statistics
Matches: 152, Mismatches: 40, Indels: 3
0.78 0.21 0.02
Matches are distributed among these distances:
49 33 0.22
50 83 0.55
51 36 0.24
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
Found at i:10571933 original size:15 final size:15
Alignment explanation
Indices: 10571915--10571944 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10571905 AACTAGGATT
*
10571915 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
10571930 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
10571945 CAATATCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:10574638 original size:18 final size:18
Alignment explanation
Indices: 10574615--10574650 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10574605 TCATAAAAGC
10574615 ATCTATCATAAAACTAAG
1 ATCTATCATAAAACTAAG
10574633 ATCTATCATAAAACTAAG
1 ATCTATCATAAAACTAAG
10574651 TCCCTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
ATCTATCATAAAACTAAG
Found at i:10576564 original size:40 final size:40
Alignment explanation
Indices: 10576505--10576893 Score: 441
Period size: 40 Copynumber: 9.8 Consensus size: 40
10576495 CATTTGAATG
10576505 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
10576545 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* *
10576585 TTATCC-GGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
10576624 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* *
10576664 TTATCC-GGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
10576703 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* *
10576743 TTATCC-GGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
10576782 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* *
10576822 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
10576862 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
10576894 TTGTGGTTAT
Statistics
Matches: 284, Mismatches: 54, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
39 95 0.33
40 187 0.66
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:10576643 original size:79 final size:79
Alignment explanation
Indices: 10576506--10576913 Score: 717
Period size: 79 Copynumber: 5.1 Consensus size: 79
10576496 ATTTGAATGA
*
10576506 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCC-GGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
10576571 TTGTGCTAGTGATTT
65 TTGTGCTAGTGATTT
10576586 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAAT
10576651 TGTGCTAGTGATTT
66 TGTGCTAGTGATTT
10576665 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAAT
10576730 TGTGCTAGTGATTT
66 TGTGCTAGTGATTT
10576744 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 TATCCGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAAT
10576809 TGTGCTAGTGATTT
66 TGTGCTAGTGATTT
* * * * *
10576823 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCC-GGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
* * *
10576888 TTGTGCTTGTGGTTA
65 TTGTGCTAGTGATTT
10576903 TATCCGGCTAA
1 TATCCGGCTAA
10576914 ATTCCGAAGA
Statistics
Matches: 318, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
79 242 0.76
80 76 0.24
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TATCCGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAAT
TGTGCTAGTGATTT
Found at i:10578677 original size:43 final size:42
Alignment explanation
Indices: 10578583--10578688 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 42
10578573 TAGGGTTTCC
* * *
10578583 GAGATTACGTGTAAGACCATATTTAGGATATGGCATCGATAT
1 GAGATTTCGTGTAAGACCATATATAGGACATGGCATCGATAT
* * * *
10578625 GAGACTTCGTGTAAGACCATGTATGGGACATTGGCATTGATAT
1 GAGATTTCGTGTAAGACCATATATAGGACA-TGGCATCGATAT
*
10578668 GTGATTTCGTGTAAGACCATA
1 GAGATTTCGTGTAAGACCATA
10578689 GCTGAGCTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 24 0.45
43 29 0.55
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
GAGATTTCGTGTAAGACCATATATAGGACATGGCATCGATAT
Found at i:10593057 original size:750 final size:745
Alignment explanation
Indices: 10591631--10593059 Score: 1754
Period size: 750 Copynumber: 1.9 Consensus size: 745
10591621 TGCACATCTG
* * * **
10591631 TCAGTCTAGATTTTATTTTAGCTAAAATTGAACCGTCATCAAACAACACCAATCATGTGTTCAAC
1 TCAGTCTAGATTTTAATTCAGCTAAAATCGAACCGTCATCAAACAACACCAATCACATGTTCAAC
* * *
10591696 ACTTCTAAAGCAAACAAAGATTTTCTACTCAGTCCATCAGCAATGACATTAGCCTTTCCCAGATT
66 ACTTCTAAAGAAAACAAAGATTTTCTACTCAGTCCATCAGCAATGAAATTAGCCTTTCCCAGATG
* * * *
10591761 ATAATCAATGATCAAATCATATTATTTCAATAACTTGAGCCATCTACGCTGTCTCAAATTCAAAC
131 ATAATCAATGATCAAATCATAATATTTCAATAACTCGAACCATCTACGCTATCTCAAATTCAAAC
* *
10591826 CTTTTTGCGACGTCAAATACTTCAGGCTTTTATAATCTGTAAAGATATTAAATTTTTCTCCATAC
196 CTTTTTGCGACGTCAAATACTTCAAGCTTTTATAATCTGTAAAGATATGAAATTTTTCTCCATAC
* * * * **
10591891 AAATGGTGCCGCCAAATCTTCAAAGTGAGCAAAATAGCTGCAAGCTCTAAATCGTGTGTTGGATA
261 AAATGGTGCCGCCAAATCTTCAAAGCGAACAAAATAGCTGCAAGCTCTAAATCATGAGTCAGATA
* * * *
10591956 TTTATTTTCGTGTAGTTTCAACTGTCTAGAAGCATACGCTATTACTTTGCCTTCTTGCATCAAAA
326 TTTATTTTCATGCAGTTTCAACTGTCTAG-AG-A-ACGCTATCACTGTGCCTTCTTGCATC--AA
* *
10592021 CTAGCTCAACCCGTTCAATGAAGCATCACTATAAATAAAAAAATTATTTATCAAACTCTGATTGA
386 CTAGCTCAACCCGTTCAATGAAGCATCAATATAAATAAAAAAATTATTTATCAAACTCTGACTGA
* * * *
10592086 ACCAACATAGGTACCTTGGTTAATAAAGCTTTCAACTAATTAAAACTTTGCTTACATTTCTTGAC
451 ACCAACATAGGTACCTCGGTTAAAAAAGCTTTCAACTAATTAAAACTTTGCTGACATTTCTGGAC
*
10592151 AAAGCTTTCAACAATATCGTCAACGGCATAGCAATCATTGAGAATCCCTTGACCAATCTTCTATA
516 AAAGCTTTCAACAATATCGTCAACGGCATAGCAATCATCGAGAATCCCTTGACCAATCTTCTATA
* * * *
10592216 ATATCTAGCTAAACCTAGAAAAATTTTGACTTCAGATTCATTTCTAGGAGGTTTGTAGTCTACCA
581 ATATCTAGCTAAACCCAGAAAAATTCTGACTTCAGATTCATTTCTAGGAGGCTTCTAGTCTACCA
* * *
10592281 CAGCTGAGATTTTACTTGGGTCAACTCTATTGCAGAAATGTCTATTGTAGGTTTCTAGTCTCATC
646 CAGCTGAGATTATACTCGGATCAACTCTATTGCAGAAATGTCTATTGTAGGTTTCTAGTCTCATC
10592346 AAATTTTTGATCTTCGCAAATCTATTACAAAAACA
711 AAATTTTTGATCTTCGCAAATCTATTACAAAAACA
* ** ** *
10592381 TCAGTCTAGCTTTTAATTCAGCTAAAATCGAACCGTCATCAGTCAATGCCAATCACATGTTCAAT
1 TCAGTCTAGATTTTAATTCAGCTAAAATCGAACCGTCATCAAACAACACCAATCACATGTTCAAC
* *
10592446 GC-TCGTAAAGAAAACAAAGATTTTCTACTCAGTGCATCAGCAATGAAATTAGCCTTTCCCAGAT
66 ACTTC-TAAAGAAAACAAAGATTTTCTACTCAGTCCATCAGCAATGAAATTAGCCTTTCCCAGAT
* * **
10592510 GATAATCAATGATCAAATCATAATCTTTCAATAACTCGAATCATCTGTGCTATCTCAAATTCAAA
130 GATAATCAATGATCAAATCATAATATTTCAATAACTCGAACCATCTACGCTATCTCAAATTCAAA
* * * * * *
10592575 TCTTTTTGTGACGTCAAATACTTCAAGCTTTTATGATCTGTGAAGATATGACATTTTTCTCCCTA
195 CCTTTTTGCGACGTCAAATACTTCAAGCTTTTATAATCTGTAAAGATATGAAATTTTTCTCCATA
* * *
10592640 CAAATTGTGTCGCCAAATCTTCAAAGCGAACACAATAGCTGCAAGCTCTAAATCATGAGTCAGAT
260 CAAATGGTGCCGCCAAATCTTCAAAGCGAACAAAATAGCTGCAAGCTCTAAATCATGAGTCAGAT
* * *
10592705 ATTTCTTTTCATGCGGTTTCAACTGTCTAG-G-A-GC-A-CAC-GTGCCTTGGTTG-A-C-A-TA
325 ATTTATTTTCATGCAGTTTCAACTGTCTAGAGAACGCTATCACTGTGCCTT-CTTGCATCAACTA
* * * * * * * ** *
10592760 GC-CAACCCGTTCAATGAAGCGTCAATGTCAAT-CAACACTTCTTTATCGGACTCTGGCTGAACC
389 GCTCAACCCGTTCAATGAAGCATCAATATAAATAAAAAAATTATTTATCAAACTCTGACTGAACC
* * * *
10592823 AACATAGGTGCCTCGGTTAAAAAAGCTTTCAGCTGATTAAAATTTTGCTGACATTTCTCGGACCA
454 AACATAGGTACCTCGGTTAAAAAAGCTTTCAACTAATTAAAACTTTGCTGACATTTCT-GG---A
* * * *
10592888 TTCAAATTTAACATCTTTTTACAACAATTTCGTCAATGGCGTAGCAATCATCGAGAATCCCTTGA
515 --C------AA-AGC--TTT-CAACAATATCGTCAACGGCATAGCAATCATCGAGAATCCCTTGA
* * * *
10592953 CGAATCTTCTATAATATCTTA-CTACACCCAGAAAACTTCTGACTTCAGATAT-ATTTCTCGGAG
568 CCAATCTTCTATAATATC-TAGCTAAACCCAGAAAAATTCTGACTTCAGAT-TCATTTCTAGGAG
* *
10593016 GCTTCTAGTCTATCACAGCTGTGATTATACTCGGATCAACTCTA
631 GCTTCTAGTCTACCACAGCTGAGATTATACTCGGATCAACTCTA
10593060 ATACCATTTG
Statistics
Matches: 573, Mismatches: 86, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
734 74 0.13
735 27 0.05
736 4 0.01
737 1 0.00
738 1 0.00
740 2 0.00
741 7 0.01
742 5 0.01
743 1 0.00
744 2 0.00
745 1 0.00
746 2 0.00
747 2 0.00
748 1 0.00
749 5 0.01
750 435 0.76
751 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (745 bp):
TCAGTCTAGATTTTAATTCAGCTAAAATCGAACCGTCATCAAACAACACCAATCACATGTTCAAC
ACTTCTAAAGAAAACAAAGATTTTCTACTCAGTCCATCAGCAATGAAATTAGCCTTTCCCAGATG
ATAATCAATGATCAAATCATAATATTTCAATAACTCGAACCATCTACGCTATCTCAAATTCAAAC
CTTTTTGCGACGTCAAATACTTCAAGCTTTTATAATCTGTAAAGATATGAAATTTTTCTCCATAC
AAATGGTGCCGCCAAATCTTCAAAGCGAACAAAATAGCTGCAAGCTCTAAATCATGAGTCAGATA
TTTATTTTCATGCAGTTTCAACTGTCTAGAGAACGCTATCACTGTGCCTTCTTGCATCAACTAGC
TCAACCCGTTCAATGAAGCATCAATATAAATAAAAAAATTATTTATCAAACTCTGACTGAACCAA
CATAGGTACCTCGGTTAAAAAAGCTTTCAACTAATTAAAACTTTGCTGACATTTCTGGACAAAGC
TTTCAACAATATCGTCAACGGCATAGCAATCATCGAGAATCCCTTGACCAATCTTCTATAATATC
TAGCTAAACCCAGAAAAATTCTGACTTCAGATTCATTTCTAGGAGGCTTCTAGTCTACCACAGCT
GAGATTATACTCGGATCAACTCTATTGCAGAAATGTCTATTGTAGGTTTCTAGTCTCATCAAATT
TTTGATCTTCGCAAATCTATTACAAAAACA
Found at i:10613948 original size:3 final size:3
Alignment explanation
Indices: 10613940--10614080 Score: 282
Period size: 3 Copynumber: 47.0 Consensus size: 3
10613930 TTTATGAGAN
10613940 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10613988 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10614036 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10614081 AGATGAAGAT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 138 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10617150 original size:30 final size:31
Alignment explanation
Indices: 10617099--10617166 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
10617089 AGTTTCATTT
* *
10617099 CAGTCACTCAACTTTAGAAAAA-TAACAAAA
1 CAGTCACTCAACGTTACAAAAAGTAACAAAA
* *
10617129 CAGTCACT-AACGTTATCAAAAAGTGACAAAT
1 CAGTCACTCAACGTTA-CAAAAAGTAACAAAA
10617160 CAGTCAC
1 CAGTCAC
10617167 GCACTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.19
30 13 0.41
31 13 0.41
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.21
Consensus pattern (31 bp):
CAGTCACTCAACGTTACAAAAAGTAACAAAA
Found at i:10617319 original size:3 final size:3
Alignment explanation
Indices: 10617313--10617346 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10617303 GAAGAAGATT
10617313 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
10617347 GATTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:10618069 original size:54 final size:54
Alignment explanation
Indices: 10617987--10618094 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
10617977 TTTCAGAGAG
*
10617987 ACTGGAATCAAGTGGGGAAGTGGTTTAAGCTAATGGCGCGACTTTGGTCTCTTC
1 ACTGGAATCAAGTGGGGAAGTGGTTTAAGCTAATGGCGCGACTTTGGTCACTTC
10618041 ACTGGAATCAAGTGGGGAAGTGGTTTAAGCTAATGGCGCGACTTTGGTCACTTC
1 ACTGGAATCAAGTGGGGAAGTGGTTTAAGCTAATGGCGCGACTTTGGTCACTTC
10618095 CGATTTCGAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (54 bp):
ACTGGAATCAAGTGGGGAAGTGGTTTAAGCTAATGGCGCGACTTTGGTCACTTC
Found at i:10618185 original size:3 final size:3
Alignment explanation
Indices: 10618174--10618207 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10618164 AATTCTTTTT
*
10618174 TTC TT- TTC TTC TTC TTC TTC TTT TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
10618208 TTGATAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:10618200 original size:12 final size:12
Alignment explanation
Indices: 10618166--10618209 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10618156 CCATCCCAAA
10618166 TTCTT-TTTTTC
1 TTCTTCTTTTTC
*
10618177 TT-TTCTTCTTC
1 TTCTTCTTTTTC
10618188 TTCTTCTTTTTC
1 TTCTTCTTTTTC
10618200 TTCTTCTTTT
1 TTCTTCTTTT
10618210 GATAAACCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 2 0.07
11 9 0.31
12 18 0.62
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:10618568 original size:29 final size:26
Alignment explanation
Indices: 10618522--10618587 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 26
10618512 ATACTTACAT
10618522 TTTTAAATCATAAAAGTAAAAAAATTAAA
1 TTTTAAA--ATAAAAGTAAAAAAA-TAAA
*
10618551 TTCCTTAAAATAAAAGTAAAAGAATAAA
1 TT--TTAAAATAAAAGTAAAAAAATAAA
10618579 TTTTAAAAT
1 TTTTAAAAT
10618588 CACTAAGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 7 0.21
28 6 0.18
29 16 0.47
31 5 0.15
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (26 bp):
TTTTAAAATAAAAGTAAAAAAATAAA
Found at i:10623273 original size:24 final size:25
Alignment explanation
Indices: 10623208--10623300 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 25
10623198 CTCGTGTGAG
**
10623208 CATATAAACGGGAAGCTCATTTGAGC
1 CATAT-AACGGGAAGCTCATAAGAGC
*
10623234 TATATAACGGGAAGCTCATAAGAGC
1 CATATAACGGGAAGCTCATAAGAGC
* * *
10623259 CATA-ATCGGGAAGCTCGTGAGAGC
1 CATATAACGGGAAGCTCATAAGAGC
* *
10623283 CATATATCAGGAAGCTCA
1 CATATAACGGGAAGCTCA
10623301 AGAGATCCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
24 21 0.37
25 32 0.56
26 4 0.07
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATAAGAGC
Found at i:10623317 original size:23 final size:25
Alignment explanation
Indices: 10623243--10623331 Score: 78
Period size: 24 Copynumber: 3.6 Consensus size: 25
10623233 CTATATAACG
*
10623243 GGAAGCTCATA-AGAGCCATA-ATCG
1 GGAAGCTCA-AGAGAGCCATATATCA
**
10623267 GGAAGCTCGTGAGAGCCATATATCA
1 GGAAGCTCAAGAGAGCCATATATCA
*
10623292 GGAAGCTCAAGAGATCCA-ATAT-A
1 GGAAGCTCAAGAGAGCCATATATCA
* *
10623315 GGAGTGCTCATGAGAGC
1 GGA-AGCTCAAGAGAGC
10623332 TAATAAAGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.08
24 31 0.58
25 18 0.34
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (25 bp):
GGAAGCTCAAGAGAGCCATATATCA
Found at i:10624868 original size:59 final size:58
Alignment explanation
Indices: 10624805--10624946 Score: 158
Period size: 59 Copynumber: 2.4 Consensus size: 58
10624795 GAGGTACGTA
* * * *
10624805 GCGTAAGACCATGGATGAAAGATGCCATGGCAATATGGTACCAGGTAAAAAGGTATATG
1 GCGTAAGACCATGGATGAAAGATGCCATGGCAACACGGTACAAGGTAAAAA-GTATACG
* ** * * *
10624864 GCGTAAGACTATGGATGAAAGACACCATGGCAACACGGTATAAGGTATAAAGTATGCG
1 GCGTAAGACCATGGATGAAAGATGCCATGGCAACACGGTACAAGGTAAAAAGTATACG
* **
10624922 GTGTAAGACCATAAATGAAAGATGC
1 GCGTAAGACCATGGATGAAAGATGC
10624947 TATGACAGCC
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
58 24 0.36
59 43 0.64
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (58 bp):
GCGTAAGACCATGGATGAAAGATGCCATGGCAACACGGTACAAGGTAAAAAGTATACG
Found at i:10630597 original size:31 final size:31
Alignment explanation
Indices: 10630562--10630623 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10630552 TGAGAGTTGG
10630562 CTTATTTTGGTATATTTGGTGATGTATATGT
1 CTTATTTTGGTATATTTGGTGATGTATATGT
10630593 CTTATTTTGGTATATTTGGTGATGTATATGT
1 CTTATTTTGGTATATTTGGTGATGTATATGT
10630624 ATATGCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.03, G:0.23, T:0.55
Consensus pattern (31 bp):
CTTATTTTGGTATATTTGGTGATGTATATGT
Found at i:10640185 original size:43 final size:44
Alignment explanation
Indices: 10640136--10640286 Score: 202
Period size: 43 Copynumber: 3.5 Consensus size: 44
10640126 GATTACCTAG
* *
10640136 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
10640180 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
10640222 ATATGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
*
10640267 ATG-G-TAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
10640287 ATTTGGGATA
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 87 0.94
44 2 0.02
45 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:10642355 original size:43 final size:43
Alignment explanation
Indices: 10642308--10642464 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
10642298 TCACATATCG
* *
10642308 ATGCCACTGCCCCAGACAGGGTCTTACACGAAATCGATTAACA
1 ATGCCAATGCCCCAGACATGGTCTTACACGAAATCGATTAACA
* * * **
10642351 ATGCCAATGTCCCAGACATGGTCGTACACGTAATCG-TATAATG
1 ATGCCAATGCCCCAGACATGGTCTTACACGAAATCGAT-TAACA
* * * **
10642394 ATGCCAATGTCCTAGACATGGTCTTACAC-ATAA-CCACAATACA
1 ATGCCAATGCCCCAGACATGGTCTTACACGA-AATCGATTA-ACA
10642437 ATGCCAATGCCCCAGACATGGTCTTACA
1 ATGCCAATGCCCCAGACATGGTCTTACA
10642465 TATCATCTCA
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 3 0.03
43 90 0.97
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAATGCCCCAGACATGGTCTTACACGAAATCGATTAACA
Found at i:10642411 original size:86 final size:86
Alignment explanation
Indices: 10642307--10642464 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 86
10642297 ATCACATATC
* * * * *
10642307 GATGCCACTGCCCCAGACAGGGTCTTACACGA-AATC-GATTAACAATGCCAATGTCCCAGACAT
1 GATGCCAATGCCCCAGACAGGGTCTTACAC-ATAACCACAAT-ACAATGCCAATGCCCCAGACAT
10642370 GGTCGTACACGTAATCGTATAAT
64 GGTCGTACACGTAATCGTATAAT
* * *
10642393 GATGCCAATGTCCTAGACATGGTCTTACACATAACCACAATACAATGCCAATGCCCCAGACATGG
1 GATGCCAATGCCCCAGACAGGGTCTTACACATAACCACAATACAATGCCAATGCCCCAGACATGG
*
10642458 TCTTACA
66 TCGTACA
10642465 TATCATCTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 1 0.02
86 58 0.95
87 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (86 bp):
GATGCCAATGCCCCAGACAGGGTCTTACACATAACCACAATACAATGCCAATGCCCCAGACATGG
TCGTACACGTAATCGTATAAT
Found at i:10651636 original size:27 final size:26
Alignment explanation
Indices: 10651603--10651829 Score: 168
Period size: 27 Copynumber: 8.4 Consensus size: 26
10651593 ATACCCCCAG
*
10651603 TTGTAAAATTACCAAAGTACCCCCGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* * *
10651630 TTATAAAATTACCCAAATATCCTCGGT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
10651657 TTGCAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
*
10651684 TTGTAAAATTAACGAAATACCCTC-AGT
1 TTGTAAAATT-ACCAAATACCCTCGA-T
* * *
10651711 TTGTAAAATTACTGAAACACCCTCAAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
* * *
10651738 TTGTAAAATTACTGAAATACCCTTGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
10651765 TTGTAAAATTACCAATGTACCCCCGAT
1 TTGTAAAATTACCAA-ATACCCTCGAT
** * **
10651792 TTACAAAATTATCATTTTACCCTCGAT
1 TTGTAAAATTACCA-AATACCCTCGAT
**
10651819 TTACAAAATTA
1 TTGTAAAATTA
10651830 TTGAAATACC
Statistics
Matches: 166, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.04
27 152 0.92
28 8 0.05
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Done.