Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 37 of 91
Found at i:12882381 original size:15 final size:16
Alignment explanation
Indices: 12882340--12882384 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
12882330 AATCAAGATT
12882340 TTCATTTTCTTTTC-C
1 TTCATTTTCTTTTCTC
12882355 TTC-TTTTCCTTTTCTC
1 TTCATTTT-CTTTTCTC
12882371 -TCATTTTCTTTTCT
1 TTCATTTTCTTTTCT
12882385 TACTCCTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (16 bp):
TTCATTTTCTTTTCTC
Found at i:12883188 original size:20 final size:20
Alignment explanation
Indices: 12883143--12883180 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12883133 TTTTGGCCCC
12883143 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
12883163 ATTTGACTTATTTGAGTA
1 ATTTGACTTATTGGAGTA
12883181 AGATTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:12884358 original size:13 final size:13
Alignment explanation
Indices: 12884340--12884364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12884330 AGAGAAATTG
12884340 TGATTTTATAAAA
1 TGATTTTATAAAA
12884353 TGATTTTATAAA
1 TGATTTTATAAA
12884365 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:12886077 original size:19 final size:19
Alignment explanation
Indices: 12886039--12886077 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12886029 AGAAGGAGAA
*
12886039 AAGCTGCTGGAGAATGAAG
1 AAGCTGCTGGAGAATCAAG
12886058 AAGCTGCTGGAAGAA-CAAG
1 AAGCTGCTGG-AGAATCAAG
12886077 A
1 A
12886078 TATTTATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.41, C:0.13, G:0.33, T:0.13
Consensus pattern (19 bp):
AAGCTGCTGGAGAATCAAG
Found at i:12904623 original size:36 final size:36
Alignment explanation
Indices: 12904576--12904646 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
12904566 GTCTTTCATT
* * *
12904576 ATGCAAACAGAAGTTAAAAAATCCATGTAGTTGATA
1 ATGCAAACAGAAATTAAAAAATCCACGCAGTTGATA
*
12904612 ATGCAAACAGAAATTAAACAATCCACGCAGTTGAT
1 ATGCAAACAGAAATTAAAAAATCCACGCAGTTGAT
12904647 CTCAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (36 bp):
ATGCAAACAGAAATTAAAAAATCCACGCAGTTGATA
Found at i:12907360 original size:1 final size:1
Alignment explanation
Indices: 12907356--12907381 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
12907346 CTTCAAACTT
12907356 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
12907382 CTGTAATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12913483 original size:64 final size:64
Alignment explanation
Indices: 12913380--12913507 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
12913370 AATACTATCA
12913380 GAATCATGTTATCATGTGCAGCTAACCTTGATTGAGACCTACAACAATTTGATGTCAAGAATGC
1 GAATCATGTTATCATGTGCAGCTAACCTTGATTGAGACCTACAACAATTTGATGTCAAGAATGC
* *
12913444 GAATCATGTTATCATGTGCAGCTAACCTTGATTGGGACCTACAACAGTTTGATGTCAAGAATGC
1 GAATCATGTTATCATGTGCAGCTAACCTTGATTGAGACCTACAACAATTTGATGTCAAGAATGC
12913508 CTTCCTACAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (64 bp):
GAATCATGTTATCATGTGCAGCTAACCTTGATTGAGACCTACAACAATTTGATGTCAAGAATGC
Found at i:12914335 original size:72 final size:71
Alignment explanation
Indices: 12914258--12914401 Score: 263
Period size: 72 Copynumber: 2.0 Consensus size: 71
12914248 TTTAGGATTA
12914258 ATATGTGTGTGTGTGTGTGTGTATATATATATATATATATAGT-GGCTGTTGTAAATAATATTTT
1 ATATGTGTGTGTGTGTGTGTGTATATATATATATATATATA-TAGGCTGTTGTAAATAATATTTT
12914322 TTATGAC
65 TTATGAC
12914329 ANTATGTGTGTGTGTGTGTGTGTATATATATATATATATATATAGGCTGTTGTAAATAATATTTT
1 A-TATGTGTGTGTGTGTGTGTGTATATATATATATATATATATAGGCTGTTGTAAATAATATTTT
12914394 TTATGAC
65 TTATGAC
12914401 A
1 A
12914402 GAGAATAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
71 2 0.03
72 69 0.97
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.47
Consensus pattern (71 bp):
ATATGTGTGTGTGTGTGTGTGTATATATATATATATATATATAGGCTGTTGTAAATAATATTTTT
TATGAC
Found at i:12915814 original size:5 final size:5
Alignment explanation
Indices: 12915804--12915836 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
12915794 TTTACTTGCA
*
12915804 TTTCT TTTCT TTTCT TTTCT CTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
12915837 TCCTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:12915846 original size:15 final size:16
Alignment explanation
Indices: 12915804--12915850 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
12915794 TTTACTTGCA
*
12915804 TTTCTTTTCTTTTC-T
1 TTTCTCTTCTTTTCTT
12915819 TTTCTCTTCTTTTCTT
1 TTTCTCTTCTTTTCTT
12915835 TTTC-CTT-TTTT-TT
1 TTTCTCTTCTTTTCTT
12915848 TTT
1 TTT
12915851 GTTAATTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 5 0.17
14 4 0.13
15 16 0.53
16 5 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTCTTCTTTTCTT
Found at i:12916399 original size:37 final size:38
Alignment explanation
Indices: 12916326--12916402 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 38
12916316 TTTTTTTATC
* * *
12916326 TATATCTTGGTACATCTACAGGTGTTTTTCAGAACTGA
1 TATATCTTGGTACATCTACAGGGGTTTTACAAAACTGA
* *
12916364 TATATCTTGGTATATCTA-TGGGGTTTTACAAAACTGA
1 TATATCTTGGTACATCTACAGGGGTTTTACAAAACTGA
12916401 TA
1 TA
12916403 GAAATGTGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
37 17 0.50
38 17 0.50
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (38 bp):
TATATCTTGGTACATCTACAGGGGTTTTACAAAACTGA
Found at i:12932048 original size:2 final size:2
Alignment explanation
Indices: 12932037--12932071 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12932027 ATAGGCCTAG
12932037 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12932072 GAAATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:12936122 original size:61 final size:61
Alignment explanation
Indices: 12936046--12936349 Score: 414
Period size: 60 Copynumber: 5.0 Consensus size: 61
12936036 AGACATCATC
* * *
12936046 ACCTACTCGTGGGAACTGCCCACGCCACCATATATAAATCGAGGCTCCAGGTCCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
* * * * *
12936107 ACCTACTAGTGGGAACTGCCCACGCCACTATATATAAATTGGGGCTTCAGGTCTCCCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTC-CCCCTTTT
* * * * *
12936169 ACCTACTCGTGGGAACTACCCATGCCACCATACATAAATCGGGGCTTTAAGTGCCCC-TTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
* * *
12936229 ACCTACTAGTGGGAACTACCCACGCCACCATACATAAATCGGGGCTTCAAGT-CCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
* * *
12936289 ACCTACTCGTGGGAATTACCCACGCCACTATATATAAATCGGGGCTTCAGGTCTCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
12936350 TAAATCAAAT
Statistics
Matches: 215, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
59 4 0.02
60 102 0.47
61 58 0.27
62 51 0.24
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (61 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTT
Found at i:12938947 original size:11 final size:12
Alignment explanation
Indices: 12938931--12938965 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
12938921 CTTTTCTTCC
12938931 TTTTCTCTC-TA
1 TTTTCTCTCTTA
12938942 TTTTCTCTCTTA
1 TTTTCTCTCTTA
12938954 TTTTCTC-CTTA
1 TTTTCTCTCTTA
12938965 T
1 T
12938966 GGCCGACCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTCTCTCTTA
Found at i:12939933 original size:68 final size:66
Alignment explanation
Indices: 12939752--12939966 Score: 222
Period size: 68 Copynumber: 3.2 Consensus size: 66
12939742 CTAGTTATTC
* * *
12939752 TTTT-TTT-TTCTTTCTTCCCTCTCTTTCTTCTCCTTTGCCGCTACTCCTTCTCTCATTCTTCTA
1 TTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTCTG-CGCTGCTCCTTCTCTCATTCTTCTA
12939815 CT
65 CT
* * * * * * *
12939817 TTTTCTTTCTTTTTTTTTCCCTTTCTTTTCTTCTCCTCTGCTGTTGCTCTTTCTTTCGTTCTTTT
1 TTTTCTTTCTTCTTTCTTCCCTTTC-TTTCTTCTCCTCTGC-GCTGCTCCTTCTCTCATTCTTCT
12939882 ACT
64 ACT
* *
12939885 TTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTC-GTCGTCGTGCTCCCTCTCTCTTTCTTC
1 TTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTCTG-CG-C-TGCTCCTTCTCTCATTCTTC
*
12939949 TTCT
63 TACT
*
12939953 CTTTCTTT-TTCTTT
1 TTTTCTTTCTTCTTT
12939967 TTCTTCTCCC
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
65 4 0.03
66 5 0.04
67 33 0.27
68 81 0.66
ACGTcount: A:0.02, C:0.32, G:0.05, T:0.61
Consensus pattern (66 bp):
TTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTCTGCGCTGCTCCTTCTCTCATTCTTCTAC
T
Found at i:12939955 original size:12 final size:12
Alignment explanation
Indices: 12939938--12939973 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12939928 GTGCTCCCTC
12939938 TCTCTTTCTTCT
1 TCTCTTTCTTCT
*
12939950 TCTCTTTCTTTT
1 TCTCTTTCTTCT
*
12939962 TCTTTTTCTTCT
1 TCTCTTTCTTCT
12939974 CCCCGAGACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTCTTTCTTCT
Found at i:12940054 original size:16 final size:17
Alignment explanation
Indices: 12940025--12940070 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
12940015 GTCCCCCACT
12940025 CTCTTC-CTTCTCTT-TC
1 CTCTTCTCTT-TCTTCTC
*
12940041 CTCTTCTCTTTCTTCTT
1 CTCTTCTCTTTCTTCTC
12940058 CTCTT-TCTTTCTT
1 CTCTTCTCTTTCTT
12940071 GTCTTTTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (17 bp):
CTCTTCTCTTTCTTCTC
Found at i:12940065 original size:12 final size:12
Alignment explanation
Indices: 12940026--12940076 Score: 66
Period size: 12 Copynumber: 4.1 Consensus size: 12
12940016 TCCCCCACTC
12940026 TCTTCCTTCTCTT
1 TCTT-CTTCTCTT
*
12940039 TCCTCTTCTCTT
1 TCTTCTTCTCTT
12940051 TCTTCTTCTCTT
1 TCTTCTTCTCTT
*
12940063 TCTTTCTTGTCTT
1 TC-TTCTTCTCTT
12940076 T
1 T
12940077 TCTCCCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 21 0.62
13 13 0.38
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (12 bp):
TCTTCTTCTCTT
Found at i:12942739 original size:20 final size:20
Alignment explanation
Indices: 12942714--12942759 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
12942704 AGCTATCCCC
12942714 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
12942734 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
12942754 ATTTGA
1 ATTTGA
12942760 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:12945453 original size:22 final size:23
Alignment explanation
Indices: 12945423--12945469 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
12945413 ATATAGAGTT
12945423 ATTTGAGCTTAATT-TTGATAGTA
1 ATTTGAGCTTAATTCTTG-TAGTA
*
12945446 ATTT-AGCTTAGTTCTTGTAGTA
1 ATTTGAGCTTAATTCTTGTAGTA
12945468 AT
1 AT
12945470 GCATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (23 bp):
ATTTGAGCTTAATTCTTGTAGTA
Found at i:12950381 original size:2 final size:2
Alignment explanation
Indices: 12950374--12950405 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
12950364 CTGGATGTGT
*
12950374 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12950406 TGAGTGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12951199 original size:56 final size:55
Alignment explanation
Indices: 12951051--12951218 Score: 196
Period size: 55 Copynumber: 3.0 Consensus size: 55
12951041 CGGTACTGAC
* * *
12951051 GGTGGTGATTCCAGCTATGTGCGATGTAGGGGGACACATAGGCTGATGACCGGTG
1 GGTGATGATTCCAGCTATGTGCGATGTGGGGGGACACATAGGCTGAGGACCGGTG
* * * * *
12951106 GGTGATGATTCAAG-TAGTATGCGATGTGGGAGGACACATGGGCTGAGGACTGGT-
1 GGTGATGATTCCAGCTA-TGTGCGATGTGGGGGGACACATAGGCTGAGGACCGGTG
* * *
12951160 GGTGGTCTATATCCAGCTATGTGCGATGTGGGGGGACACATAGGCTGAGGACCGTTG
1 GGTGAT-GAT-TCCAGCTATGTGCGATGTGGGGGGACACATAGGCTGAGGACCGGTG
12951217 GG
1 GG
12951219 CGTATACATG
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
54 7 0.08
55 45 0.49
56 36 0.39
57 4 0.04
ACGTcount: A:0.21, C:0.15, G:0.40, T:0.24
Consensus pattern (55 bp):
GGTGATGATTCCAGCTATGTGCGATGTGGGGGGACACATAGGCTGAGGACCGGTG
Found at i:12952413 original size:2 final size:2
Alignment explanation
Indices: 12952406--12952455 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
12952396 TATCACATTT
12952406 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
12952448 CA CA CA CA
1 CA CA CA CA
12952456 TATATATATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:12952460 original size:2 final size:2
Alignment explanation
Indices: 12952455--12952489 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12952445 ACACACACAC
12952455 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12952490 ATAAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12952519 original size:2 final size:2
Alignment explanation
Indices: 12952512--12952560 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
12952502 ACTACNCACT
12952512 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
12952554 AC AC AC A
1 AC AC AC A
12952561 TATATATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12952565 original size:2 final size:2
Alignment explanation
Indices: 12952560--12952592 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12952550 ACACACACAC
12952560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12952593 CTGAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12953358 original size:17 final size:17
Alignment explanation
Indices: 12953322--12953356 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12953312 TTCATCGAAA
*
12953322 TAAAACTTTTCATTTTT
1 TAAAACTTTCCATTTTT
12953339 TAAAGACTTTCCATTTTT
1 TAAA-ACTTTCCATTTTT
12953357 AATTCTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.54
Consensus pattern (17 bp):
TAAAACTTTCCATTTTT
Found at i:12961206 original size:12 final size:12
Alignment explanation
Indices: 12961189--12961213 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12961179 AAGAAAATAG
12961189 AATATTTTATTT
1 AATATTTTATTT
12961201 AATATTTTATTT
1 AATATTTTATTT
12961213 A
1 A
12961214 GTTTGATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:12962296 original size:53 final size:53
Alignment explanation
Indices: 12962182--12962320 Score: 147
Period size: 53 Copynumber: 2.6 Consensus size: 53
12962172 TTATCATTTT
*
12962182 TTGTTAAAAAGCAAGAATCCCTTGTGTGGATTGTATAAGGGTTATTCCTTAATC
1 TTGTTAAAAAGCAAGAAT-CCTTGTGTGGATGGTATAAGGGTTATTCCTTAATC
* * * * * **
12962236 ATATTAAAAA-CAAAGAATCCTTTTGTGGATGGTGTGAGGGTTA-TCGCTTTGTC
1 TTGTTAAAAAGC-AAGAATCCTTGTGTGGATGGTATAAGGGTTATTC-CTTAATC
12962289 TTGTTAAAAAGCAAGAATCCTTGATAGTGGAT
1 TTGTTAAAAAGCAAGAATCCTTG-T-GTGGAT
12962321 TGAAATTCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
52 2 0.03
53 45 0.65
54 16 0.23
55 6 0.09
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (53 bp):
TTGTTAAAAAGCAAGAATCCTTGTGTGGATGGTATAAGGGTTATTCCTTAATC
Found at i:12963919 original size:37 final size:37
Alignment explanation
Indices: 12963873--12963964 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
12963863 ATCATGTGCG
12963873 CCCCCACATCTCGCACAGCTAATGCCATCGTGTGCAC
1 CCCCCACATCTCGCACAGCTAATGCCATCGTGTGCAC
* * * *
12963910 CCCCCACATCGCACAAAACTAATGCCATCGTGTGCAC
1 CCCCCACATCTCGCACAGCTAATGCCATCGTGTGCAC
12963947 CCCCCACATCGT-GCACAG
1 CCCCCACATC-TCGCACAG
12963965 GCAATTTCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.43, G:0.15, T:0.16
Consensus pattern (37 bp):
CCCCCACATCTCGCACAGCTAATGCCATCGTGTGCAC
Found at i:12965742 original size:61 final size:61
Alignment explanation
Indices: 12965669--12965791 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
12965659 TGCCTTTTAA
* *
12965669 ATAGCTTTTAAAAACCCTACTTTTTATAAAGTTAGGAAAACTCCTCGTTTGAGATATTGAC
1 ATAGCTTTTAAAAACCCTACTTCTTATAAAGTTAGGAAAACTCCTCGTCTGAGATATTGAC
*
12965730 ATAGCTTTTAAAAACCCTACTTCTTATAAAGTTAGGAAAACTCCTTGTCTGAGATATTGAC
1 ATAGCTTTTAAAAACCCTACTTCTTATAAAGTTAGGAAAACTCCTCGTCTGAGATATTGAC
12965791 A
1 A
12965792 CAGCGTTGCA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (61 bp):
ATAGCTTTTAAAAACCCTACTTCTTATAAAGTTAGGAAAACTCCTCGTCTGAGATATTGAC
Found at i:12968179 original size:14 final size:17
Alignment explanation
Indices: 12968145--12968176 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12968135 CACAACACTC
12968145 ACATAATCCATTCTAAA
1 ACATAATCCATTCTAAA
12968162 ACATAA-CCATT-TAAA
1 ACATAATCCATTCTAAA
12968177 CATTGCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (17 bp):
ACATAATCCATTCTAAA
Found at i:12971586 original size:20 final size:20
Alignment explanation
Indices: 12971561--12971626 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
12971551 GTTAAAATAA
12971561 CTTCAATTTTGCAATTAAGC
1 CTTCAATTTTGCAATTAAGC
* *
12971581 CTTCAATATTAT-AAAATAA--
1 CTTCAAT-TT-TGCAATTAAGC
12971600 CTTCAATTTTGCAATTAAGC
1 CTTCAATTTTGCAATTAAGC
12971620 CTTCAAT
1 CTTCAAT
12971627 ATTATAACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
17 1 0.03
18 7 0.19
19 7 0.19
20 14 0.38
21 7 0.19
22 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (20 bp):
CTTCAATTTTGCAATTAAGC
Found at i:12971607 original size:39 final size:39
Alignment explanation
Indices: 12971553--12971633 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
12971543 ATAGTTAGGT
12971553 TAAAATAACTTCAATTTTGCAATTAAGCCTTCAATATTA
1 TAAAATAACTTCAATTTTGCAATTAAGCCTTCAATATTA
12971592 TAAAATAACTTCAATTTTGCAATTAAGCCTTCAATATTA
1 TAAAATAACTTCAATTTTGCAATTAAGCCTTCAATATTA
12971631 TAA
1 TAA
12971634 CACATTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (39 bp):
TAAAATAACTTCAATTTTGCAATTAAGCCTTCAATATTA
Found at i:12973357 original size:2 final size:2
Alignment explanation
Indices: 12973350--12973380 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12973340 CATGCACAAC
*
12973350 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12973381 CCAACATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12976021 original size:15 final size:15
Alignment explanation
Indices: 12976001--12976044 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
12975991 GAATGAATTA
12976001 CACTGAAAGGTTGAT
1 CACTGAAAGGTTGAT
12976016 CACTGAAAGGTTGAT
1 CACTGAAAGGTTGAT
12976031 CACTGAAAGGTTGA
1 CACTGAAAGGTTGA
12976045 GTCAAACCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (15 bp):
CACTGAAAGGTTGAT
Found at i:12976425 original size:36 final size:35
Alignment explanation
Indices: 12976306--12976519 Score: 263
Period size: 35 Copynumber: 6.1 Consensus size: 35
12976296 CACTTGATTA
12976306 AAATTGTTTAATTAAGTTA-T--GCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * *
12976338 AAATTGTTTAATTAAATTATTGGACCTAATTAACT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
12976373 AAATTGTTTAATTAAGTCATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * *
12976408 AAATTAGTTTAATTAAGTCATTTGGCCTAATTGATT
1 AAATT-GTTTAATTAAGTTATTGGGCCTAATTAATT
* * * *
12976444 AAAATTATTTAATTAAATTGTTGGGCTTAATTAATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
12976480 AAATTGTTTAATTAAGTTATTAGGCCTAATCAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
12976515 AAATT
1 AAATT
12976520 AAACAATTAA
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
32 18 0.12
33 1 0.01
35 79 0.51
36 52 0.34
37 5 0.03
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:12976483 original size:107 final size:103
Alignment explanation
Indices: 12976299--12976520 Score: 293
Period size: 107 Copynumber: 2.1 Consensus size: 103
12976289 TCTCAAGCAC
*
12976299 TTGATTAAAATT-GTTTAATTAAGTTATGCCTAATTAATTAAATTGTTTAATTAAATTATTGGAC
1 TTGATT-AAATTAGTTTAATTAAGTTATGCCTAATTAATTAAATTATTTAATTAAATTATTGGAC
*
12976363 CTAATTAACTAAATTGTTTAATTAAGTCATTGGGCCTAA
65 CTAATTAACTAAATTGTTTAATTAAGTCATTAGGCCTAA
* * *
12976402 TTGATTAAATTAGTTTAATTAAGTCATTTGGCCTAATTGATTAAAATTATTTAATTAAATTGTTG
1 TTGATTAAATTAGTTTAATTAAGT--TAT-GCCTAATTAATT-AAATTATTTAATTAAATTATTG
* * * *
12976467 GGCTTAATTAATTAAATTGTTTAATTAAGTTATTAGGCCTAA
62 GACCTAATTAACTAAATTGTTTAATTAAGTCATTAGGCCTAA
**
12976509 TCAATTAAATTA
1 TTGATTAAATTA
12976521 AACAATTAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
102 5 0.05
103 18 0.17
105 2 0.02
106 11 0.11
107 67 0.65
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.45
Consensus pattern (103 bp):
TTGATTAAATTAGTTTAATTAAGTTATGCCTAATTAATTAAATTATTTAATTAAATTATTGGACC
TAATTAACTAAATTGTTTAATTAAGTCATTAGGCCTAA
Found at i:12976528 original size:13 final size:13
Alignment explanation
Indices: 12976510--12976534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12976500 TAGGCCTAAT
12976510 CAATTAAATTAAA
1 CAATTAAATTAAA
12976523 CAATTAAATTAA
1 CAATTAAATTAA
12976535 TTGGGCTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
CAATTAAATTAAA
Found at i:12992741 original size:19 final size:19
Alignment explanation
Indices: 12992686--12992744 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
12992676 ACCCGGCTCA
12992686 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* ****
12992705 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
12992724 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
12992743 TG
1 TG
12992745 CACACAGGCA
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
18 4 0.14
19 20 0.71
20 4 0.14
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:12997357 original size:38 final size:38
Alignment explanation
Indices: 12997256--12997369 Score: 133
Period size: 38 Copynumber: 3.0 Consensus size: 38
12997246 GGAGTGTGTG
* ** * *
12997256 TGATGATATTGAAATATCCGAGTAGGGAGTGTACACGA
1 TGATGATATTGAAATGTGTGAGTAGGGAGTGCACATGA
12997294 TGATGATATTGAAATGTGTGAGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGTGAGTAGGGAGTGCACATGA
**
12997332 TGATGATATTG-CCT-TGTGCATGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGTG-A-GTAGGGAGTGCACATGA
12997370 GCTGAGTGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
36 4 0.06
37 2 0.03
38 61 0.91
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.29
Consensus pattern (38 bp):
TGATGATATTGAAATGTGTGAGTAGGGAGTGCACATGA
Found at i:13001402 original size:20 final size:20
Alignment explanation
Indices: 13001376--13001421 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13001366 AATCTTACCT
* *
13001376 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
13001397 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
13001418 TTTT
1 TTTT
13001422 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:13001423 original size:22 final size:22
Alignment explanation
Indices: 13001381--13001421 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13001371 TACCTTTTTT
*
13001381 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
13001403 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
13001422 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:13028313 original size:10 final size:11
Alignment explanation
Indices: 13028259--13028314 Score: 66
Period size: 10 Copynumber: 5.4 Consensus size: 11
13028249 AACCAAGTTT
13028259 TTTCTTCCTTTC
1 TTTC-TCCTTTC
13028271 TTTCT-CTTTC
1 TTTCTCCTTTC
13028281 TTTCTCCTTTC
1 TTTCTCCTTTC
*
13028292 TTTCT--TTTT
1 TTTCTCCTTTC
13028301 TTTCTCCTTT-
1 TTTCTCCTTTC
13028311 TTTC
1 TTTC
13028315 CAACTGATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 8 0.20
10 14 0.35
11 14 0.35
12 4 0.10
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTCTCCTTTC
Found at i:13028426 original size:19 final size:19
Alignment explanation
Indices: 13028402--13028441 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13028392 GGTGGCAAGG
13028402 TGAAAATGGCATGGAAGCA
1 TGAAAATGGCATGGAAGCA
* *
13028421 TGAAAATGGCGTGGGAGCA
1 TGAAAATGGCATGGAAGCA
13028440 TG
1 TG
13028442 GAGGAGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.38, T:0.17
Consensus pattern (19 bp):
TGAAAATGGCATGGAAGCA
Found at i:13030889 original size:13 final size:14
Alignment explanation
Indices: 13030871--13030900 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13030861 TTATTTTTCA
13030871 AAAAAAAGA-AAAG
1 AAAAAAAGAGAAAG
13030884 AAAAAAAGAGAAAG
1 AAAAAAAGAGAAAG
13030898 AAA
1 AAA
13030901 TGGAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAGAAAG
Found at i:13033708 original size:15 final size:15
Alignment explanation
Indices: 13033686--13033719 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13033676 AATCGGTTTT
*
13033686 GAAA-GAAGGAAAGA
1 GAAAGGAAGAAAAGA
13033700 GAAAGGAAGAAAAGA
1 GAAAGGAAGAAAAGA
13033715 GAAAG
1 GAAAG
13033720 AAAAAAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGGAAGAAAAGA
Found at i:13033726 original size:14 final size:15
Alignment explanation
Indices: 13033695--13033727 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13033685 TGAAAGAAGG
*
13033695 AAAGAGAAAGGAAGA
1 AAAGAGAAAGGAAAA
13033710 AAAGAGAAA-GAAAA
1 AAAGAGAAAGGAAAA
13033724 AAAG
1 AAAG
13033728 CTAGAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAGGAAAA
Found at i:13035247 original size:25 final size:25
Alignment explanation
Indices: 13035212--13035267 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13035202 TCTGTGATAT
*
13035212 ATATACGTGGCAAGGCCACAAGATG
1 ATATACATGGCAAGGCCACAAGATG
* * *
13035237 ATATACATGGCTAGGCCACCAGTTG
1 ATATACATGGCAAGGCCACAAGATG
13035262 ATATAC
1 ATATAC
13035268 GTGGTTGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
ATATACATGGCAAGGCCACAAGATG
Found at i:13039708 original size:21 final size:22
Alignment explanation
Indices: 13039665--13039708 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
13039655 CTCTTAAACT
*
13039665 AATTTAAAATAAAATAACATAA
1 AATTTAAAATAAAAGAACATAA
* *
13039687 AATTT-AACTAAAAGAACTTAA
1 AATTTAAAATAAAAGAACATAA
13039708 A
1 A
13039709 TGAACTACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (22 bp):
AATTTAAAATAAAAGAACATAA
Found at i:13043891 original size:23 final size:23
Alignment explanation
Indices: 13043840--13043892 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
13043830 GTTTAGAGTT
* * *
13043840 TGTGAAATGGCATGTTGGGAATG
1 TGTGACATGACATGGTGGGAATG
13043863 TGTGACATGACATGGTGGGAATG
1 TGTGACATGACATGGTGGGAATG
13043886 TGTGACA
1 TGTGACA
13043893 CGGTTGTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.38, T:0.28
Consensus pattern (23 bp):
TGTGACATGACATGGTGGGAATG
Found at i:13043935 original size:58 final size:58
Alignment explanation
Indices: 13043863--13044010 Score: 179
Period size: 58 Copynumber: 2.6 Consensus size: 58
13043853 GTTGGGAATG
* *** * * *
13043863 TGTGACATGACATGGTGGGAATGTGTGACACGGTTGTGACATGGCATGGTTTAGAGTT
1 TGTGACACGACATGGTGGGAATGTGTGACACGGTTGTGACACACCATAGTTCAAAGTT
* *
13043921 TGTGACACGACATGGTTGGAATGTATGACACGGTTGTGACACACCATAGTTCAAAGTT
1 TGTGACACGACATGGTGGGAATGTGTGACACGGTTGTGACACACCATAGTTCAAAGTT
* * * *
13043979 GGTGACACGTCATGGAGGGAATCTGTGACACG
1 TGTGACACGACATGGTGGGAATGTGTGACACG
13044011 ACAGTGTTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (58 bp):
TGTGACACGACATGGTGGGAATGTGTGACACGGTTGTGACACACCATAGTTCAAAGTT
Found at i:13044326 original size:47 final size:47
Alignment explanation
Indices: 13044046--13044331 Score: 340
Period size: 47 Copynumber: 6.1 Consensus size: 47
13044036 TAGCGTTAAG
* *
13044046 AGTTCGTGACATGCCATGGGGGGAATCTGTGACATGCCAGCGTTCAA
1 AGTTCGTGACATGCCATGGAGGGAATCTGTGACATGCCAGTGTTCAA
** * * ** *
13044093 AGTAGGTGACATGTCATGGAGGGAATCTGTGACACGTTAGTGTTCAG
1 AGTTCGTGACATGCCATGGAGGGAATCTGTGACATGCCAGTGTTCAA
* * *
13044140 AGTTCGTGATACGCCATGGAGGGAATCTATGACATGCCAGTGTTCAA
1 AGTTCGTGACATGCCATGGAGGGAATCTGTGACATGCCAGTGTTCAA
* * * * * *
13044187 AGTTTGTGACATGTCATGGAGGGAATTTGTGACACGTCAGTGTTCAG
1 AGTTCGTGACATGCCATGGAGGGAATCTGTGACATGCCAGTGTTCAA
* *
13044234 AGTTCGTGACACT-CCATGGAGGCAATCTGTGACATGCCAGCGTTCAA
1 AGTTCGTGACA-TGCCATGGAGGGAATCTGTGACATGCCAGTGTTCAA
* ** *
13044281 AGTTCGTGACATGCCATGGAGGTAATCTGTGACATGTTAGTGTTCAG
1 AGTTCGTGACATGCCATGGAGGGAATCTGTGACATGCCAGTGTTCAA
13044328 AGTT
1 AGTT
13044332 TGTCAGACTC
Statistics
Matches: 196, Mismatches: 41, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
46 1 0.01
47 194 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTTCGTGACATGCCATGGAGGGAATCTGTGACATGCCAGTGTTCAA
Found at i:13044342 original size:94 final size:94
Alignment explanation
Indices: 13044027--13044348 Score: 441
Period size: 94 Copynumber: 3.4 Consensus size: 94
13044017 TTAAGAGTTC
* * *
13044027 GTGACAC-TCTAGCGTTAAGAGTTCGTGACA-TGCCATGGGGGGAATCTGTGACATGCCAGCGTT
1 GTGACACGT-TAGTGTTCAGAGTTCGTGACACT-CCATGGAGGGAATCTGTGACATGCCAGCGTT
**
13044090 CAAAGTAGGTGACATGTCATGGAGGGAATCT
64 CAAAGTTCGTGACATGTCATGGAGGGAATCT
* * * *
13044121 GTGACACGTTAGTGTTCAGAGTTCGTGATACGCCATGGAGGGAATCTATGACATGCCAGTGTTCA
1 GTGACACGTTAGTGTTCAGAGTTCGTGACACTCCATGGAGGGAATCTGTGACATGCCAGCGTTCA
* *
13044186 AAGTTTGTGACATGTCATGGAGGGAATTT
66 AAGTTCGTGACATGTCATGGAGGGAATCT
* *
13044215 GTGACACGTCAGTGTTCAGAGTTCGTGACACTCCATGGAGGCAATCTGTGACATGCCAGCGTTCA
1 GTGACACGTTAGTGTTCAGAGTTCGTGACACTCCATGGAGGGAATCTGTGACATGCCAGCGTTCA
* *
13044280 AAGTTCGTGACATGCCATGGAGGTAATCT
66 AAGTTCGTGACATGTCATGGAGGGAATCT
* * * *
13044309 GTGACATGTTAGTGTTCAGAGTTTGTCAGACTCCATGGAG
1 GTGACACGTTAGTGTTCAGAGTTCGTGACACTCCATGGAG
13044349 ATCCGTGACA
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
94 200 1.00
95 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (94 bp):
GTGACACGTTAGTGTTCAGAGTTCGTGACACTCCATGGAGGGAATCTGTGACATGCCAGCGTTCA
AAGTTCGTGACATGTCATGGAGGGAATCT
Found at i:13044577 original size:7 final size:7
Alignment explanation
Indices: 13044565--13044589 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13044555 GTTTGTGTTC
13044565 TTCCTCA
1 TTCCTCA
13044572 TTCCTCA
1 TTCCTCA
13044579 TTCCTCA
1 TTCCTCA
13044586 TTCC
1 TTCC
13044590 CAAATATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCCTCA
Found at i:13045088 original size:31 final size:30
Alignment explanation
Indices: 13045003--13045363 Score: 355
Period size: 31 Copynumber: 11.5 Consensus size: 30
13044993 GTCAGCGTTT
* *
13045003 GCGTGTTACAACATTTGAC-TTGATATGCATT
1 GCGTGTTACCACATTT-ACGTT-ATATGCATG
*
13045034 GCGTGTTACAACATTTTACGTTATATGCATG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
* * *
13045065 GTGTGTTACAACATTCTATGTTATATGCATG
1 GCGTGTTACCACATT-TACGTTATATGCATG
* *
13045096 GCGTGTTAACACATTTTACGTTATATGTATG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
* *
13045127 GCGTGTTACCACAGTTTATGTTATATGCACG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
* *
13045158 GCATGTTACCATAGTTTACGTTATATGCATGGCGTG
1 GCGTGTTACCACA-TTTACGTTATATGCA-----TG
13045194 GCGTGTTACCACATTTTACGTTATATGCATG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
* * * *
13045225 GTGTGCTACCATAGTTTACATTATATGCATG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
13045256 GCGTGTTACCACAGTTTACGTTATATGCATG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
* * ** *
13045287 GCTTTTTACCACATTTTTTGTTATATGCGTG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
* *
13045318 GCGTTTTACCACATTTTTCGTTATATGCATG
1 GCGTGTTACCACA-TTTACGTTATATGCATG
13045349 GCGTGTTACCACATT
1 GCGTGTTACCACATT
13045364 ATGGGTCAAC
Statistics
Matches: 282, Mismatches: 39, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.01
31 244 0.87
32 7 0.02
36 27 0.10
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (30 bp):
GCGTGTTACCACATTTACGTTATATGCATG
Found at i:13045165 original size:93 final size:93
Alignment explanation
Indices: 13045003--13045361 Score: 391
Period size: 93 Copynumber: 3.8 Consensus size: 93
13044993 GTCAGCGTTT
* * * *
13045003 GCGTGTT-ACAACATTTGAC-TTGATATGCATTGCGTGTTACAACATTTTACGTTATATGCATGG
1 GCGTGTTAAC-ACATTTTACGTT-ATATGCATGGCGTGTTACCACAGTTTACGTTATATGCATGG
* * *
13045066 TGTGTTACAACA-TTCTATGTTATATGCATG
64 CGTGTTACCACAGTT-TACGTTATATGCATG
* * * *
13045096 GCGTGTTAACACATTTTACGTTATATGTATGGCGTGTTACCACAGTTTATGTTATATGCACGGCA
1 GCGTGTTAACACATTTTACGTTATATGCATGGCGTGTTACCACAGTTTACGTTATATGCATGGCG
*
13045161 TGTTACCATAGTTTACGTTATATGCATGGCGTG
66 TGTTACCACAGTTTACGTTATATGCA-----TG
* * * * *
13045194 GCGTGTTACCACATTTTACGTTATATGCATGGTGTGCTACCATAGTTTACATTATATGCATGGCG
1 GCGTGTTAACACATTTTACGTTATATGCATGGCGTGTTACCACAGTTTACGTTATATGCATGGCG
13045259 TGTTACCACAGTTTACGTTATATGCATG
66 TGTTACCACAGTTTACGTTATATGCATG
* * * ** * * * *
13045287 GCTTTTTACCACATTTTTTGTTATATGCGTGGCGTTTTACCACATTTTTCGTTATATGCATGGCG
1 GCGTGTTAACACATTTTACGTTATATGCATGGCGTGTTACCACAGTTTACGTTATATGCATGGCG
13045352 TGTTACCACA
66 TGTTACCACA
13045362 TTATGGGTCA
Statistics
Matches: 224, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
93 135 0.60
94 6 0.03
98 83 0.37
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (93 bp):
GCGTGTTAACACATTTTACGTTATATGCATGGCGTGTTACCACAGTTTACGTTATATGCATGGCG
TGTTACCACAGTTTACGTTATATGCATG
Found at i:13045276 original size:160 final size:160
Alignment explanation
Indices: 13045034--13045353 Score: 444
Period size: 160 Copynumber: 2.0 Consensus size: 160
13045024 GATATGCATT
* **
13045034 GCGTGTTACAACATTTTACGTTATATGCATGGTGTGTTACAACATTCTATGTTATATGCATGGCG
1 GCGTGTTACAACATTTTACGTTATATGCATGGTGTGCTACAACATTCTACATTATATGCATGGCG
* *
13045099 TGTTAACACATTTTACGTTATATGTATGGCGTGTTACCACAGTTTATGTTATATGCACGGCATGT
66 TGTTAACACAGTTTACGTTATATGCATGGCGTGTTACCACAGTTTATGTTATATGCACGGCATGT
*
13045164 TACCATAGTTTACGTTATATGCATGGCGTG
131 TACCACAGTTTACGTTATATGCATGGCGTG
* * *
13045194 GCGTGTTACCACATTTTACGTTATATGCATGGTGTGCTACCATAGTT-TACATTATATGCATGGC
1 GCGTGTTACAACATTTTACGTTATATGCATGGTGTGCTACAACA-TTCTACATTATATGCATGGC
* * * * * ** * *
13045258 GTGTTACCACAGTTTACGTTATATGCATGGCTTTTTACCACATTTTTTGTTATATGCGTGGCGTT
65 GTGTTAACACAGTTTACGTTATATGCATGGCGTGTTACCACAGTTTATGTTATATGCACGGCATG
* *
13045323 TTACCACATTTTTCGTTATATGCATGGCGTG
130 TTACCACAGTTTACGTTATATGCATGGCGTG
13045354 TTACCACATT
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
160 137 0.99
161 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (160 bp):
GCGTGTTACAACATTTTACGTTATATGCATGGTGTGCTACAACATTCTACATTATATGCATGGCG
TGTTAACACAGTTTACGTTATATGCATGGCGTGTTACCACAGTTTATGTTATATGCACGGCATGT
TACCACAGTTTACGTTATATGCATGGCGTG
Found at i:13048528 original size:12 final size:12
Alignment explanation
Indices: 13048511--13048535 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13048501 AAGAAAATGG
13048511 AATATTTTATTT
1 AATATTTTATTT
13048523 AATATTTTATTT
1 AATATTTTATTT
13048535 A
1 A
13048536 GTTTGATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:13051030 original size:43 final size:43
Alignment explanation
Indices: 13050961--13051143 Score: 258
Period size: 43 Copynumber: 4.3 Consensus size: 43
13050951 ACTCTCCCTC
* * * *
13050961 AGCTGGGTCATCATCAGCTCATGTGCATTCTTACACCGGATAT
1 AGCTGGGTCATCATCAGCTCATGTGCACTCCTACACCGCACAT
* * *
13051004 AGTTGGGTCATCATCAGCTCAAGTGCACTCCTACACCACACAT
1 AGCTGGGTCATCATCAGCTCATGTGCACTCCTACACCGCACAT
* * * *
13051047 GGCTAGGTCATCATCACCTCATGTGCACTCCTACACTGCACAT
1 AGCTGGGTCATCATCAGCTCATGTGCACTCCTACACCGCACAT
13051090 AGCTGGGTCATCATCAGCTCATGTGCACTCCTACACCGCACAT
1 AGCTGGGTCATCATCAGCTCATGTGCACTCCTACACCGCACAT
*
13051133 AGTTGGGTCAT
1 AGCTGGGTCAT
13051144 AGTTATCACA
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 121 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (43 bp):
AGCTGGGTCATCATCAGCTCATGTGCACTCCTACACCGCACAT
Found at i:13054592 original size:118 final size:118
Alignment explanation
Indices: 13054408--13055008 Score: 898
Period size: 118 Copynumber: 5.1 Consensus size: 118
13054398 CTGGAAGACG
*
13054408 TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCTTGT
1 TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCGTGT
* * *
13054473 CACCCCACAATATTGCAAGAAGTTAGCGTGTCACCACCAAAATCTGGATGCAC
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACCAAAATCTGCATGCAC
* * * *
13054526 TCAGCATGTCATGCCAAGTTTCTGGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCGTGT
1 TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCGTGT
* *
13054591 CACCCCAAAATACTGCAAGAAGTCAGCGTGTCACCACCGAAATCTGCATGCAC
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACCAAAATCTGCATGCAC
* * * * *
13054644 TCAGCGTGTCATGCCAAGTATCTGGTTCCACTTAGCTTGTCACCACAAGATGGGGCATGCCGTGT
1 TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCGTGT
* *
13054709 CACCCCACATTATTGCAAGAAGTCAGCGTGTCACCACCAAAATCTGCATGCAC
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACCAAAATCTGCATGCAC
* **
13054762 TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAAATGGGGCGTGTAGTGT
1 TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCGTGT
* * * *
13054827 CA-CCCACAATACTACAAGAAGTCAACGTGCCACCACCAAAATTTGCATGCAC
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACCAAAATCTGCATGCAC
* * * * * * *
13054879 TCAGCGCGTCACACCAATTATGTACTTCCACTCAGCGTGTCACCATAAGATGGGGAGTGCCGTGT
1 TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCGTGT
* *
13054944 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACCGAAATCTACATGCAC
66 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACCAAAATCTGCATGCAC
13054997 TCAGCGTGTCAC
1 TCAGCGTGTCAC
13055009 CACAAGATGT
Statistics
Matches: 432, Mismatches: 50, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
117 101 0.23
118 331 0.77
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (118 bp):
TCAGCGTGTCACGCCAAGTATCTAGTTCCACTCAGCGTGTCACCACAAGATGGGGCGTGCCGTGT
CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACCAAAATCTGCATGCAC
Found at i:13054621 original size:31 final size:31
Alignment explanation
Indices: 13054586--13054654 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
13054576 TGGGGCGTGC
*
13054586 CGTGTCACC-CCAAAATACTGCAAGAAGTCAG
1 CGTGTCACCACCAAAAT-CTGCAAGAACTCAG
* * *
13054617 CGTGTCACCACCGAAATCTGCATGCACTCAG
1 CGTGTCACCACCAAAATCTGCAAGAACTCAG
13054648 CGTGTCA
1 CGTGTCA
13054655 TGCCAAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.19
Consensus pattern (31 bp):
CGTGTCACCACCAAAATCTGCAAGAACTCAG
Found at i:13054766 original size:31 final size:31
Alignment explanation
Indices: 13054731--13054812 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
13054721 TTGCAAGAAG
*
13054731 TCAGCGTGTCACCACCAAAATCT-GCATGCAC
1 TCAGCGTGTCACCACCAAAATCTAG-ATCCAC
* * *
13054762 TCAGCGTGTCA-CGCCAAGTATCTAGTTCCAC
1 TCAGCGTGTCACCACCAA-AATCTAGATCCAC
13054793 TCAGCGTGTCACCA-CAAAAT
1 TCAGCGTGTCACCACCAAAAT
13054813 GGGGCGTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
30 7 0.17
31 33 0.79
32 2 0.05
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (31 bp):
TCAGCGTGTCACCACCAAAATCTAGATCCAC
Found at i:13058816 original size:31 final size:31
Alignment explanation
Indices: 13058771--13059025 Score: 377
Period size: 31 Copynumber: 8.2 Consensus size: 31
13058761 CAGTCATGCT
13058771 GTAACAC-CCTATGCATATAATGTAAAATGTG
1 GTAACACGCC-ATGCATATAATGTAAAATGTG
13058802 GTAACACGCCATGCATATAATGTAAAATGTG
1 GTAACACGCCATGCATATAATGTAAAATGTG
* * *
13058833 GTAACATGTCATGCATATAACGTAAAATGTG
1 GTAACACGCCATGCATATAATGTAAAATGTG
* * *
13058864 GCAACATGCCATGCATATAATGTAAAATGTT
1 GTAACACGCCATGCATATAATGTAAAATGTG
*
13058895 GTAACACGCCATGCATATAACGTAAAATGTG
1 GTAACACGCCATGCATATAATGTAAAATGTG
*
13058926 GTAACACGCCATGCATATAATGTAAAATGTT
1 GTAACACGCCATGCATATAATGTAAAATGTG
*
13058957 GTAACACGCCATGCATATAACGTAAAATGTG
1 GTAACACGCCATGCATATAATGTAAAATGTG
* * * *
13058988 GTAACACTCCATGCATATAATATAAATTGTT
1 GTAACACGCCATGCATATAATGTAAAATGTG
13059019 GTAACAC
1 GTAACAC
13059026 ACCAACGCTG
Statistics
Matches: 203, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
31 201 0.99
32 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (31 bp):
GTAACACGCCATGCATATAATGTAAAATGTG
Found at i:13058875 original size:62 final size:62
Alignment explanation
Indices: 13058770--13059025 Score: 415
Period size: 62 Copynumber: 4.1 Consensus size: 62
13058760 TCAGTCATGC
*
13058770 TGTAACAC-CCTATGCATATAATGTAAAATGTGGTAACACGCCATGCATATAATGTAAAATGT
1 TGTAACACGCC-ATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAATGTAAAATGT
* * * * *
13058832 GGTAACATGTCATGCATATAACGTAAAATGTGGCAACATGCCATGCATATAATGTAAAATGT
1 TGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAATGTAAAATGT
13058894 TGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAATGTAAAATGT
1 TGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAATGTAAAATGT
* * *
13058956 TGTAACACGCCATGCATATAACGTAAAATGTGGTAACACTCCATGCATATAATATAAATTGT
1 TGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAATGTAAAATGT
13059018 TGTAACAC
1 TGTAACAC
13059026 ACCAACGCTG
Statistics
Matches: 179, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
62 178 0.99
63 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (62 bp):
TGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAATGTAAAATGT
Found at i:13059488 original size:9 final size:9
Alignment explanation
Indices: 13059449--13059490 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
13059439 GGTGCTCAAC
13059449 AGAGAGTTG
1 AGAGAGTTG
13059458 -GCAGAGTTG
1 AG-AGAGTTG
* *
13059467 AGACAGTTC
1 AGAGAGTTG
13059476 AGAGAGTTG
1 AGAGAGTTG
13059485 AGAGAG
1 AGAGAG
13059491 AAAGATGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.40, T:0.19
Consensus pattern (9 bp):
AGAGAGTTG
Found at i:13065422 original size:42 final size:42
Alignment explanation
Indices: 13065334--13065453 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
13065324 CCAATCACAA
* * *
13065334 CAAAATCACGTGAAGTGGAAACCTACTCAACCCACTTTAAAC
1 CAAAATCATGGGAAGTGGAAACCTACTCAATCCACTTTAAAC
***
13065376 CAAAATCATGGGAAGTGGAAACCTACTCAATCCACTTTACTG
1 CAAAATCATGGGAAGTGGAAACCTACTCAATCCACTTTAAAC
* * *
13065418 CAAAA-CAAT-GGAAGTTGAGACATACTCAATCCACTT
1 CAAAATC-ATGGGAAGTGGAAACCTACTCAATCCACTT
13065454 GACAATAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 25 0.37
42 43 0.63
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (42 bp):
CAAAATCATGGGAAGTGGAAACCTACTCAATCCACTTTAAAC
Found at i:13066714 original size:56 final size:57
Alignment explanation
Indices: 13066626--13066788 Score: 256
Period size: 56 Copynumber: 2.9 Consensus size: 57
13066616 AAATAATATC
*
13066626 TAAGTAAGTGTCCTCTTTACTTTTTACTCTCCATTTACTTAAGATATTTATACCATT
1 TAAGTAAATGTCCTCTTTACTTTTTACTCTCCATTTACTTAAGATATTTATACCATT
* * *
13066683 TAAGTAAATGTCTTCTTTA-TTTTTACTCTCCATTTACTTAAGATATCTATATCATT
1 TAAGTAAATGTCCTCTTTACTTTTTACTCTCCATTTACTTAAGATATTTATACCATT
* * *
13066739 TAAATAAATGTCCTCTTTACTTTTTACTCTCTATTTACTTAAAATATTTA
1 TAAGTAAATGTCCTCTTTACTTTTTACTCTCCATTTACTTAAGATATTTA
13066789 ATATAAATAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
56 52 0.54
57 44 0.46
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (57 bp):
TAAGTAAATGTCCTCTTTACTTTTTACTCTCCATTTACTTAAGATATTTATACCATT
Found at i:13071431 original size:10 final size:9
Alignment explanation
Indices: 13071418--13071473 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 9
13071408 CATTGGATTC
13071418 AAAAAAAAT
1 AAAAAAAAT
13071427 CAAAAAAAA-
1 -AAAAAAAAT
* *
13071436 GAAAAAATT
1 AAAAAAAAT
13071445 AAAAAAAAAT
1 -AAAAAAAAT
13071455 AAATAAAAAT
1 AAA-AAAAAT
13071465 AAATAAAAA
1 AAA-AAAAA
13071474 AATTTCAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 6 0.15
9 3 0.08
10 30 0.77
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:13071442 original size:17 final size:17
Alignment explanation
Indices: 13071420--13071452 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13071410 TTGGATTCAA
13071420 AAAAAATCAAAAAAAAG
1 AAAAAATCAAAAAAAAG
*
13071437 AAAAAATTAAAAAAAA
1 AAAAAATCAAAAAAAA
13071453 ATAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAAAATCAAAAAAAAG
Found at i:13071448 original size:15 final size:14
Alignment explanation
Indices: 13071418--13071475 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
13071408 CATTGGATTC
13071418 AAAAAAAATCAAA-A
1 AAAAAAAAT-AAATA
*
13071432 AAAAGAAAA-AATTA
1 AAAA-AAAATAAATA
13071446 AAAAAAAATAAATA
1 AAAAAAAATAAATA
*
13071460 AAAATAAATAAA-A
1 AAAAAAAATAAATA
13071473 AAA
1 AAA
13071476 TTTCAGAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 10 0.26
14 24 0.63
15 4 0.11
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (14 bp):
AAAAAAAATAAATA
Found at i:13073714 original size:19 final size:20
Alignment explanation
Indices: 13073677--13073716 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13073667 AAGATATATC
*
13073677 TTGCATGTTTTATTTGTGTT
1 TTGCATGTTTTAGTTGTGTT
13073697 TTGCATGTTTT-GTTGTGTT
1 TTGCATGTTTTAGTTGTGTT
13073716 T
1 T
13073717 CAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.07, C:0.05, G:0.23, T:0.65
Consensus pattern (20 bp):
TTGCATGTTTTAGTTGTGTT
Found at i:13075036 original size:20 final size:19
Alignment explanation
Indices: 13075007--13075060 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
13074997 ATTAGGTTAC
13075007 TTTTAAGTTAGTTATTTTAA
1 TTTTAAGTTA-TTATTTTAA
* * *
13075027 TTTTATGTTATTCTTTTTA
1 TTTTAAGTTATTATTTTAA
*
13075046 TTTT-GGTTATTATTT
1 TTTTAAGTTATTATTT
13075061 ATTAGTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 9 0.31
19 11 0.38
20 9 0.31
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTTAAGTTATTATTTTAA
Found at i:13076938 original size:19 final size:21
Alignment explanation
Indices: 13076914--13076957 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
13076904 CCTATAAATA
13076914 TCTTG-AATTTCCAGCAGCT-
1 TCTTGAAATTTCCAGCAGCTG
*
13076933 TCTTGAAATTTTCAGCAGCTG
1 TCTTGAAATTTCCAGCAGCTG
13076954 TCTT
1 TCTT
13076958 CTTCTTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (21 bp):
TCTTGAAATTTCCAGCAGCTG
Found at i:13078260 original size:60 final size:60
Alignment explanation
Indices: 13078180--13078328 Score: 199
Period size: 60 Copynumber: 2.5 Consensus size: 60
13078170 CACTGTAGCT
* * ** *
13078180 TCTCGTTGCAGCGAGAAACTTTCTATTTTTGGGTTACAATTTCGTTGCTGTGAGATTGAA
1 TCTCGCTGCAGCGAGAAACTTTCTGTTTTTGGGTTACAATTTCCCTGCAGTGAGATTGAA
* * * * *
13078240 TTTTGCTGCAGTGAGAAACTTTCTGTTTCTGGGTTATAATTTCCCTGCAGTGAGATTGAA
1 TCTCGCTGCAGCGAGAAACTTTCTGTTTTTGGGTTACAATTTCCCTGCAGTGAGATTGAA
*
13078300 TCTCGCTGCAGCGAAAAACTTTCTGTTTT
1 TCTCGCTGCAGCGAGAAACTTTCTGTTTT
13078329 GGTCTCCTAT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (60 bp):
TCTCGCTGCAGCGAGAAACTTTCTGTTTTTGGGTTACAATTTCCCTGCAGTGAGATTGAA
Found at i:13081149 original size:38 final size:38
Alignment explanation
Indices: 13081098--13081194 Score: 158
Period size: 38 Copynumber: 2.6 Consensus size: 38
13081088 AGCTCATGTG
*
13081098 CATCCCCCCACATCGTGCACAATCAGTGCCATCCTGTA
1 CATCCCCCCACATCATGCACAATCAGTGCCATCCTGTA
* *
13081136 CATCCCCCCACATCATGCACAATCAGTGTCATCTTGTA
1 CATCCCCCCACATCATGCACAATCAGTGCCATCCTGTA
*
13081174 CATCACCCCACATCATGCACA
1 CATCCCCCCACATCATGCACA
13081195 CGAGCATTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.27, C:0.41, G:0.10, T:0.22
Consensus pattern (38 bp):
CATCCCCCCACATCATGCACAATCAGTGCCATCCTGTA
Found at i:13083884 original size:35 final size:35
Alignment explanation
Indices: 13083845--13083927 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
13083835 GATGTGGGCA
**
13083845 GGAGTGCATGTGATGATATTGAAATGTGCATGTAG
1 GGAGTGCACATGATGATATTGAAATGTGCATGTAG
*** *
13083880 GGAGTGCACATGATGATATTGCCTTGTGCGTGTAG
1 GGAGTGCACATGATGATATTGAAATGTGCATGTAG
*
13083915 GGAGTGTACATGA
1 GGAGTGCACATGA
13083928 GCTGAGTAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (35 bp):
GGAGTGCACATGATGATATTGAAATGTGCATGTAG
Found at i:13084839 original size:22 final size:22
Alignment explanation
Indices: 13084814--13084857 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13084804 TGGCCCTACA
*
13084814 TCACGCTATACATAAAAACCAG
1 TCACGCAATACATAAAAACCAG
* *
13084836 TCACGGAATACATAACAACCAG
1 TCACGCAATACATAAAAACCAG
13084858 AAACGTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.16
Consensus pattern (22 bp):
TCACGCAATACATAAAAACCAG
Found at i:13084956 original size:22 final size:22
Alignment explanation
Indices: 13084864--13084949 Score: 145
Period size: 22 Copynumber: 3.9 Consensus size: 22
13084854 CCAGAAACGT
* *
13084864 AATGCCTAATATCCATTCAGAC
1 AATGCATAATATCCATTCACAC
13084886 AATGCATAATATCCATTCACAC
1 AATGCATAATATCCATTCACAC
*
13084908 AATGCAAAATATCCATTCACAC
1 AATGCATAATATCCATTCACAC
13084930 AATGCATAATATCCATTCAC
1 AATGCATAATATCCATTCAC
13084950 TTAATGCCTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.27
Consensus pattern (22 bp):
AATGCATAATATCCATTCACAC
Found at i:13092914 original size:22 final size:22
Alignment explanation
Indices: 13092889--13092932 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13092879 TAAGATGTAA
*
13092889 CAATGATCAAATATTTTC-ATCT
1 CAATAATC-AATATTTTCTATCT
*
13092911 CAATAATCCATATTTTCTATCT
1 CAATAATCAATATTTTCTATCT
13092933 ACTTGACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (22 bp):
CAATAATCAATATTTTCTATCT
Found at i:13098008 original size:2 final size:2
Alignment explanation
Indices: 13097995--13098031 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
13097985 ATTGGTTAAA
* *
13097995 AT AT AT AC AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13098032 GAGGTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:13098010 original size:10 final size:10
Alignment explanation
Indices: 13097995--13098031 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
13097985 ATTGGTTAAA
13097995 ATATATACAT
1 ATATATACAT
*
13098005 ATATATATAT
1 ATATATACAT
13098015 ATATATACAT
1 ATATATACAT
13098025 ATATATA
1 ATATATA
13098032 GAGGTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATACAT
Found at i:13102876 original size:30 final size:30
Alignment explanation
Indices: 13102782--13102876 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
13102772 TAGAAAAATT
* ** *
13102782 CAAATAAGTTCTTATATTTTTA-TTACATA
1 CAAATAAGCTCTTATATTTTTATTTTGAGA
* * * *
13102811 CAATTAAGCCCTTATACTTTTATTTTGAGT
1 CAAATAAGCTCTTATATTTTTATTTTGAGA
* *
13102841 TAAATAAGCTCTTATATTTTTATTTTGAGC
1 CAAATAAGCTCTTATATTTTTATTTTGAGA
13102871 CAAATA
1 CAAATA
13102877 TGTCTTTATG
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 18 0.35
30 33 0.65
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (30 bp):
CAAATAAGCTCTTATATTTTTATTTTGAGA
Found at i:13105476 original size:28 final size:29
Alignment explanation
Indices: 13105435--13105494 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13105425 GTCTATGGGC
*
13105435 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
13105463 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
13105493 AA
1 AA
13105495 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:13116523 original size:28 final size:30
Alignment explanation
Indices: 13116482--13116544 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
13116472 GTCTATGGGC
* *
13116482 AATTTTTCAGTTTT-T-GGGGTAAAAATGT
1 AATTTTTCACTTTTATGGGGGCAAAAATGT
* *
13116510 AATTTTTGACTTTTATGGGGGCAAAAGTGT
1 AATTTTTCACTTTTATGGGGGCAAAAATGT
13116540 AATTT
1 AATTT
13116545 CAAAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 12 0.41
29 1 0.03
30 16 0.55
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (30 bp):
AATTTTTCACTTTTATGGGGGCAAAAATGT
Found at i:13131428 original size:14 final size:15
Alignment explanation
Indices: 13131409--13131437 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13131399 TAATAAAGGG
13131409 TATTTTTA-TCTTTT
1 TATTTTTATTCTTTT
13131423 TATTTTTATTCTTTT
1 TATTTTTATTCTTTT
13131438 CTTATTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTATTCTTTT
Found at i:13135471 original size:12 final size:12
Alignment explanation
Indices: 13135454--13135494 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
13135444 AAATAAAATT
13135454 AATAAATAATAA
1 AATAAATAATAA
*
13135466 AATAAATGATAA
1 AATAAATAATAA
13135478 AAT-AATAA-AGA
1 AATAAATAATA-A
13135489 AATAAA
1 AATAAA
13135495 AAGAGTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 1 0.04
11 8 0.32
12 16 0.64
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:13135973 original size:2 final size:2
Alignment explanation
Indices: 13135964--13136001 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
13135954 ATCCATTTTT
*
13135964 TA TA -A TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13136002 CTACATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13136463 original size:60 final size:60
Alignment explanation
Indices: 13136374--13136667 Score: 414
Period size: 60 Copynumber: 4.9 Consensus size: 60
13136364 ATTTAAAAAA
* * * *
13136374 GGGGACCTGAAGCTCCGATTTTTATATGGTGGCATAGGTAGTTTCAACGAGTAGGTAAAG
1 GGGGACCTGAAGCCCCGATTTTTATATGGTGGCATGGGTAGTTCCCACGAGTAGGTAAAG
* * *
13136434 GGGGACCTAAAGCCCCGATTTTTATATGGTGGCGTGGGTAGTTCCCACGAATAGGTAAAG
1 GGGGACCTGAAGCCCCGATTTTTATATGGTGGCATGGGTAGTTCCCACGAGTAGGTAAAG
* * * *
13136494 GGGGACCTGAAACCCCGATTTTTATATGGTGACGTGGGTAGTTCCCACAAGTAGGTAAAG
1 GGGGACCTGAAGCCCCGATTTTTATATGGTGGCATGGGTAGTTCCCACGAGTAGGTAAAG
* *
13136554 GGAGACCTGAAGCCCCGATTTATATATGAG-GGCATGGGTAGTTCCCACGAGTAGGTAAAG
1 GGGGACCTGAAGCCCCGATTTTTATATG-GTGGCATGGGTAGTTCCCACGAGTAGGTAAAG
* * *
13136614 GGGGACTTGAAGCCCCGA--TTCATATGGTGGCATGGGCAGTTCCCACGAGTAGGT
1 GGGGACCTGAAGCCCCGATTTTTATATGGTGGCATGGGTAGTTCCCACGAGTAGGT
13136668 GATGATGTCT
Statistics
Matches: 209, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
57 1 0.00
58 31 0.15
60 176 0.84
61 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (60 bp):
GGGGACCTGAAGCCCCGATTTTTATATGGTGGCATGGGTAGTTCCCACGAGTAGGTAAAG
Found at i:13137506 original size:2 final size:2
Alignment explanation
Indices: 13137499--13137536 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13137489 TGTTATGTTG
13137499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13137537 TATGTATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13138009 original size:18 final size:18
Alignment explanation
Indices: 13137994--13138033 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
13137984 GATAACACAT
13137994 TTAACACGTTTAACACGA
1 TTAACACGTTTAACACGA
13138012 TTAACACGTTTAACACGA
1 TTAACACGTTTAACACGA
13138030 TTAA
1 TTAA
13138034 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (18 bp):
TTAACACGTTTAACACGA
Found at i:13138028 original size:9 final size:9
Alignment explanation
Indices: 13137986--13138033 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
13137976 ACACAATTGA
*
13137986 TAACACATT
1 TAACACGTT
13137995 TAACACGTT
1 TAACACGTT
*
13138004 TAACACGAT
1 TAACACGTT
13138013 TAACACGTT
1 TAACACGTT
*
13138022 TAACACGAT
1 TAACACGTT
13138031 TAA
1 TAA
13138034 ATAAAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (9 bp):
TAACACGTT
Found at i:13138111 original size:16 final size:16
Alignment explanation
Indices: 13138092--13138124 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13138082 CAGTAATTAT
*
13138092 AAAAATAATTATAATA
1 AAAAATAATAATAATA
13138108 AAAAATAATAATAATA
1 AAAAATAATAATAATA
13138124 A
1 A
13138125 CATCAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATAATAATAATA
Found at i:13138322 original size:18 final size:18
Alignment explanation
Indices: 13138301--13138335 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13138291 TATACACGTT
13138301 TAAACACAATAACACGAC
1 TAAACACAATAACACGAC
**
13138319 TAAACATGATAACACGA
1 TAAACACAATAACACGA
13138336 TTAAGTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAACACAATAACACGAC
Found at i:13138576 original size:21 final size:21
Alignment explanation
Indices: 13138524--13138578 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
13138514 TTGCCAAGTC
13138524 TATATGCTATAGAGATGATCA
1 TATATGCTATAGAGATGATCA
* * * *
13138545 TACATGTTATA-AGATTGTTTA
1 TATATGCTATAGAGA-TGATCA
13138566 TATATGCTATAGA
1 TATATGCTATAGA
13138579 AAGGATAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.12
21 22 0.85
22 1 0.04
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (21 bp):
TATATGCTATAGAGATGATCA
Found at i:13143020 original size:31 final size:32
Alignment explanation
Indices: 13142968--13143027 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
13142958 AATTTTGAAA
* *
13142968 TAAAATATTATTTTATTTAATAA-AATAATAT
1 TAAAATATTATTATATATAATAACAATAATAT
13142999 TAAAATATTATTA-ATAATAATAACAATAA
1 TAAAATATTATTATAT-ATAATAACAATAA
13143028 ATGAATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 18 0.72
32 5 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (32 bp):
TAAAATATTATTATATATAATAACAATAATAT
Found at i:13143572 original size:34 final size:34
Alignment explanation
Indices: 13143527--13143626 Score: 85
Period size: 34 Copynumber: 2.9 Consensus size: 34
13143517 GGGGTTGATT
*
13143527 TGCTGCCGATTTAAGGAGGAAAAAAGAGGCTTTG
1 TGCTGCTGATTTAAGGAGGAAAAAAGAGGCTTTG
** * *
13143561 TGCTGCTGATTTTTGAGAGG-AAAGAGGGGCTTTG
1 TGCTGCTGATTTAAG-GAGGAAAAAAGAGGCTTTG
* * *
13143595 TGCTGTTGGATTTGGAGGAAGAAAAAGAGAGG
1 TGCTGCT-GATTT-AAGGAGGAAAAA-AGAGG
13143627 AAGCTGCGTT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
34 30 0.60
35 12 0.24
36 4 0.08
37 4 0.08
ACGTcount: A:0.29, C:0.08, G:0.37, T:0.26
Consensus pattern (34 bp):
TGCTGCTGATTTAAGGAGGAAAAAAGAGGCTTTG
Found at i:13152144 original size:9 final size:9
Alignment explanation
Indices: 13152130--13152163 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
13152120 ATTTTTTCAG
13152130 TTCGGTTAA
1 TTCGGTTAA
*
13152139 TTCGGTT-G
1 TTCGGTTAA
13152147 TTCGGTTAA
1 TTCGGTTAA
13152156 TTCGGTTA
1 TTCGGTTA
13152164 GAGGAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.15, C:0.12, G:0.26, T:0.47
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:13152151 original size:17 final size:17
Alignment explanation
Indices: 13152129--13152162 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13152119 GATTTTTTCA
13152129 GTTCGGTTAATTCGGTT
1 GTTCGGTTAATTCGGTT
13152146 GTTCGGTTAATTCGGTT
1 GTTCGGTTAATTCGGTT
13152163 AGAGGAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.47
Consensus pattern (17 bp):
GTTCGGTTAATTCGGTT
Found at i:13154260 original size:22 final size:22
Alignment explanation
Indices: 13154218--13154258 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13154208 TTACCTTTGT
*
13154218 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
13154240 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
13154259 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:13155095 original size:66 final size:64
Alignment explanation
Indices: 13155014--13155189 Score: 203
Period size: 66 Copynumber: 2.7 Consensus size: 64
13155004 TTTTAAACCA
* * * *
13155014 TAGATAGAACCTCTAAACAATACCTTTTGAAGGTTAA-GATATAAAATCTCCCTATTTTTTAAGA
1 TAGATAGAACCTCTAAACAATACCTTTTGAAAGTTAATG-TAT--AACCTCCCTATCTTGTAAGA
13155078 TT
63 TT
* * *
13155080 TAGATAGAACTTCTAAACAATA-CTTTTTAAAGTTAATGTATAACCTCCCTATCTTGTAAGGTT
1 TAGATAGAACCTCTAAACAATACCTTTTGAAAGTTAATGTATAACCTCCCTATCTTGTAAGATT
* * *
13155143 TGAATATAGAACCTCTAAACAATACCTTTTGAAAGCTAAGGTATAAC
1 T--AGATAGAACCTCTAAACAATACCTTTTGAAAGTTAATGTATAAC
13155190 ATCCATGTCT
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
63 19 0.20
65 34 0.36
66 41 0.44
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (64 bp):
TAGATAGAACCTCTAAACAATACCTTTTGAAAGTTAATGTATAACCTCCCTATCTTGTAAGATT
Found at i:13162350 original size:21 final size:22
Alignment explanation
Indices: 13162324--13162364 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
13162314 CCTAGGTGAA
13162324 AAAATTCAAGGAAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
13162345 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
13162365 ACAAAAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:13162370 original size:22 final size:21
Alignment explanation
Indices: 13162319--13162370 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
13162309 AAAACCCTAG
13162319 GTGAAAAAATTCAAGGAAAAA
1 GTGAAAAAATTCAAGGAAAAA
**
13162340 GTGTGAAAATTCAAGGAAACAA
1 GTGAAAAAATTCAAGGAAA-AA
*
13162362 GTGACAAAA
1 GTGAAAAAA
13162371 GGTAAGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (21 bp):
GTGAAAAAATTCAAGGAAAAA
Found at i:13164662 original size:23 final size:23
Alignment explanation
Indices: 13164633--13164687 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
13164623 GTATAGAGTT
* *
13164633 TGTGACATGGCATGGTG-GCAATG
1 TGTGACACGGCATGGTGAG-AATA
*
13164656 TGTGACACGTCATGGTGAGAATA
1 TGTGACACGGCATGGTGAGAATA
13164679 TGTGACACG
1 TGTGACACG
13164688 ATAGGGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (23 bp):
TGTGACACGGCATGGTGAGAATA
Found at i:13164934 original size:23 final size:23
Alignment explanation
Indices: 13164903--13164959 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
13164893 ACCATGGAGG
* *
13164903 GAATCTGTGACACGGTAAGGTGA
1 GAATATGTGACACGGCAAGGTGA
* * * *
13164926 TAATGTGTGAGACGGCACGGTGA
1 GAATATGTGACACGGCAAGGTGA
13164949 GAATATGTGAC
1 GAATATGTGAC
13164960 GTGGGTGTGA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (23 bp):
GAATATGTGACACGGCAAGGTGA
Found at i:13164977 original size:104 final size:103
Alignment explanation
Indices: 13164714--13165248 Score: 544
Period size: 104 Copynumber: 5.2 Consensus size: 103
13164704 GTGACAAGTT
* * *
13164714 AGGGTGATAATGTGTGAGACGACACGGTGAGAATA--TGACAGGGGTGTAACATGACAAGGTTTA
1 AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGAC-GGGGTGTGACATGACAGGGTTTA
* ** *
13164777 GAGTGTGTGACACACCATGGTCA-AACGTGTGACACGAC
65 GAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGGC
* * * * * * *
13164815 ATGGTTATAATGAGTGA-A--GCGACGTAATGATAATGTGTGACACGGGTGTGACATGACAGGGT
1 AGGGTGATAATGTGTGAGACGGC-ACG--GTGAGAATATGTGAC-GGGGTGTGACATGACAGGGT
* * *
13164877 TTAGAGTGTGTGACACACCATGGAGGGAATC-TGTGACACGGT
62 TTAGAGTGTGTGACACGCCATGGAGAGAA-CGTGTGACACGGC
* * *
13164919 AAGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACGTGGGTGTGACACGACAGCGTTTA
1 AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACG-GGGTGTGACATGACAGGGTTTA
** * * *
13164984 GAGTGTGTGACACGCCATGGTCAGAACATGTGACACAGT
65 GAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGGC
* * * * * * * * *
13165023 AGGGTCATAATGTGTGAAACGACACAGTGATAATGTGTGACACGGGTGTGGCACGACAGGGTTTA
1 AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGAC-GGGGTGTGACATGACAGGGTTTA
* * **
13165088 GAGTGTGTGATACGCCATGGAGGGAATTTGTGACACGGC
65 GAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGGC
* *
13165127 AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGGTGTGACATGGCAGTGTTT
1 AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTG--ACGGGGTGTGACATGACAGGGTTT
**
13165192 AGAGTGTGTGACACGCCATGGTCAGAACGTGTGACACGGC
64 AGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGGC
*
13165232 AGGGTCATAATGTGTGA
1 AGGGTGATAATGTGTGA
13165249 AACGTGTCAC
Statistics
Matches: 354, Mismatches: 65, Indels: 26
0.80 0.15 0.06
Matches are distributed among these distances:
98 1 0.00
99 3 0.01
100 1 0.00
101 20 0.06
103 46 0.13
104 207 0.58
105 69 0.19
106 5 0.01
107 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (103 bp):
AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACGGGGTGTGACATGACAGGGTTTAG
AGTGTGTGACACGCCATGGAGAGAACGTGTGACACGGC
Found at i:13165086 original size:208 final size:205
Alignment explanation
Indices: 13164716--13165252 Score: 774
Period size: 208 Copynumber: 2.6 Consensus size: 205
13164706 GACAAGTTAG
* *
13164716 GGTGATAATGTGTGAGACGACACGGTGAGAATA--TGACAGGGGTGTAACATGACAAGGTTTAGA
1 GGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGAC-GGGGTGTGACATGAC-AGGTTTAGA
* * * * * **
13164779 GTGTGTGACACACCATGGTCA-AACGTGTGACACGACATGGTTATAATGAGTGAAGCGACGTAAT
64 GTGTGTGACACGCCATGGTCAGAACGTGTGACACG-CAGGGTCATAATGTGTGAAACGACACAAT
*
13164843 GATAATGTGTGACACGGGTGTGACATGACAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATC
128 GATAATGTGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATC
*
13164908 TGTGACACGGTAA
193 TGTGACACGGCAA
*
13164921 GGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACGTGGGTGTGACACGACAGCGTTTAGA
1 GGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACG-GGGTGTGACATGACAG-GTTTAGA
* * *
13164986 GTGTGTGACACGCCATGGTCAGAACATGTGACACAGTAGGGTCATAATGTGTGAAACGACACAGT
64 GTGTGTGACACGCCATGGTCAGAACGTGTGACAC-GCAGGGTCATAATGTGTGAAACGACACAAT
* * * *
13165051 GATAATGTGTGACACGGGTGTGGCACGACAGGGTTTAGAGTGTGTGATACGCCATGGAGGGAATT
128 GATAATGTGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATC
*
13165116 TGTGACACGGCAG
193 TGTGACACGGCAA
*
13165129 GGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGGTGTGACATGGCAGTGTTTAG
1 GGTGATAATGTGTGAGACGGCACGGTGAGAATATGTG--ACGGGGTGTGACATGACAG-GTTTAG
13165194 AGTGTGTGACACGCCATGGTCAGAACGTGTGACACGGCAGGGTCATAATGTGTGAAACG
63 AGTGTGTGACACGCCATGGTCAGAACGTGTGACAC-GCAGGGTCATAATGTGTGAAACG
13165253 TGTCACGACC
Statistics
Matches: 298, Mismatches: 26, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
205 32 0.11
206 3 0.01
207 43 0.14
208 140 0.47
209 77 0.26
210 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (205 bp):
GGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACGGGGTGTGACATGACAGGTTTAGAGT
GTGTGACACGCCATGGTCAGAACGTGTGACACGCAGGGTCATAATGTGTGAAACGACACAATGAT
AATGTGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATCTGT
GACACGGCAA
Found at i:13165142 original size:23 final size:23
Alignment explanation
Indices: 13165111--13165171 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
13165101 GCCATGGAGG
* *
13165111 GAATTTGTGACACGGCAGGGTGA
1 GAATATGTGACACGGCACGGTGA
* * *
13165134 TAATGTGTGAGACGGCACGGTGA
1 GAATATGTGACACGGCACGGTGA
13165157 GAATATGTGACACGG
1 GAATATGTGACACGG
13165172 GGTGTGACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.38, T:0.21
Consensus pattern (23 bp):
GAATATGTGACACGGCACGGTGA
Found at i:13165227 original size:23 final size:23
Alignment explanation
Indices: 13165197--13165248 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
13165187 TGTTTAGAGT
*
13165197 GTGTGACACGCCATGGTCAGAAC
1 GTGTGACACGCCAGGGTCAGAAC
* * *
13165220 GTGTGACACGGCAGGGTCATAAT
1 GTGTGACACGCCAGGGTCAGAAC
13165243 GTGTGA
1 GTGTGA
13165249 AACGTGTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (23 bp):
GTGTGACACGCCAGGGTCAGAAC
Found at i:13168280 original size:23 final size:23
Alignment explanation
Indices: 13168254--13168306 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
13168244 GGAGGGAATT
* * *
13168254 TGTGACATGGCAGGGTGAAAATG
1 TGTGACATGACACGGTGAAAATA
* *
13168277 TGTGAGATGACACGGTGAGAATA
1 TGTGACATGACACGGTGAAAATA
13168300 TGTGACA
1 TGTGACA
13168307 CAAGTGTGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.36, T:0.23
Consensus pattern (23 bp):
TGTGACATGACACGGTGAAAATA
Found at i:13168381 original size:104 final size:104
Alignment explanation
Indices: 13168199--13168571 Score: 381
Period size: 104 Copynumber: 3.6 Consensus size: 104
13168189 GATAATGTGA
** * ** * *
13168199 GACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATTTGTGACATGG
1 GACACGGGTGTGACACGACAACGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGA
* *
13168264 CAGGGTGAAAATGTGTGAGATGACACGGTGAGAATATGT
66 CAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGT
** * * **
13168303 GACACAAGTGTGACACGACAACGTTTAGAGTGTGTGACATGTCATGGTTAGAACGTGTGACACGA
1 GACACGGGTGTGACACGACAACGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGA
* * * * * *
13168368 CAAGGTCATAATGTGTGAAACGACACAGTGATAATGTGT
66 CAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGT
* * * ** *
13168407 GACACGGGTGTGATACGACAA-GATTTAGAGTGTGTGACACGCCATTGAGGGAATTTGTGACACT
1 GACACGGGTGTGACACGACAACG-TTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACG
* * *
13168471 CCAGGGTGATAATGCGTGAGACGACGCGGTGAGAATATGT
65 ACAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGT
* * * * * * **
13168511 AAGATGGGTGTGACACGACAGCGTTTAGAGTGTGGGACATGCCATGGTCAG-ACGTGTGACA
1 GACACGGGTGTGACACGACAACGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACA
13168572 TGGCATGGCT
Statistics
Matches: 212, Mismatches: 55, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
103 9 0.04
104 202 0.95
105 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.23
Consensus pattern (104 bp):
GACACGGGTGTGACACGACAACGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGA
CAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGT
Found at i:13168383 original size:23 final size:23
Alignment explanation
Indices: 13168357--13168412 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
13168347 TGGTTAGAAC
13168357 GTGTGACACGACA-AGGTCATAAT
1 GTGTGACACGACACA-GTCATAAT
* *
13168380 GTGTGAAACGACACAGTGATAAT
1 GTGTGACACGACACAGTCATAAT
13168403 GTGTGACACG
1 GTGTGACACG
13168413 GGTGTGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (23 bp):
GTGTGACACGACACAGTCATAAT
Found at i:13168524 original size:208 final size:207
Alignment explanation
Indices: 13168177--13168571 Score: 576
Period size: 208 Copynumber: 1.9 Consensus size: 207
13168167 GGGCTTTACA
* * *
13168177 AAACGGCAAAGTGATAATGTGAGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACGCC
1 AAACGACAAAGTGATAATGTGAGACACGGGTGTGACACGACAAGATTTAGAGTGTGTGACACGCC
* * * *
13168242 ATGGAGGGAATTTGTGACATGGCAGGGTGAAAATGTGTGAGATGACACGGTGAGAATATGTGACA
66 ATGGAGGGAATTTGTGACATGCCAGGGTGAAAATGCGTGAGACGACACGGTGAGAATATGTAACA
* * *
13168307 CAAGTGTGACACGACAACGTTTAGAGTGTGTGACATGTCATGGTTAGAACGTGTGACACGACAAG
131 CAAGTGTGACACGACAACGTTTAGAGTGTGGGACATGCCATGGTCAG-ACGTGTGACACGACAAG
13168372 GTCATAATGTGTG
195 GTCATAATGTGTG
* * *
13168385 AAACGACACAGTGATAATGTGTGACACGGGTGTGATACGACAAGATTTAGAGTGTGTGACACGCC
1 AAACGACAAAGTGATAATGTGAGACACGGGTGTGACACGACAAGATTTAGAGTGTGTGACACGCC
* * * *
13168450 ATTGAGGGAATTTGTGACACT-CCAGGGTGATAATGCGTGAGACGACGCGGTGAGAATATGTAAG
66 ATGGAGGGAATTTGTGACA-TGCCAGGGTGAAAATGCGTGAGACGACACGGTGAGAATATGTAAC
*** *
13168514 ATGGGTGTGACACGACAGCGTTTAGAGTGTGGGACATGCCATGGTCAGACGTGTGACA
130 ACAAGTGTGACACGACAACGTTTAGAGTGTGGGACATGCCATGGTCAGACGTGTGACA
13168572 TGGCATGGCT
Statistics
Matches: 165, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
207 10 0.06
208 154 0.93
209 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (207 bp):
AAACGACAAAGTGATAATGTGAGACACGGGTGTGACACGACAAGATTTAGAGTGTGTGACACGCC
ATGGAGGGAATTTGTGACATGCCAGGGTGAAAATGCGTGAGACGACACGGTGAGAATATGTAACA
CAAGTGTGACACGACAACGTTTAGAGTGTGGGACATGCCATGGTCAGACGTGTGACACGACAAGG
TCATAATGTGTG
Found at i:13168573 original size:22 final size:23
Alignment explanation
Indices: 13168546--13168602 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
13168536 TAGAGTGTGG
13168546 GACATGCCATGG-TCAG-ACGTGT
1 GACATGCCATGGCT-AGAACGTGT
* *
13168568 GACATGGCATGGCTTGAACGTGT
1 GACATGCCATGGCTAGAACGTGT
*
13168591 GACACGCCATGG
1 GACATGCCATGG
13168603 GTTGAATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (23 bp):
GACATGCCATGGCTAGAACGTGT
Found at i:13168592 original size:23 final size:23
Alignment explanation
Indices: 13168562--13168625 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
13168552 CCATGGTCAG
* *
13168562 ACGTGTGACATGGCATGGCTTGA
1 ACGTGTGACACGCCATGGCTTGA
*
13168585 ACGTGTGACACGCCATGGGTTGA
1 ACGTGTGACACGCCATGGCTTGA
** *
13168608 ATATGTGACACACCATGG
1 ACGTGTGACACGCCATGG
13168626 TGTGAAAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (23 bp):
ACGTGTGACACGCCATGGCTTGA
Found at i:13168988 original size:12 final size:13
Alignment explanation
Indices: 13168964--13168996 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13168954 GTTTAAGCTG
13168964 TTTTCTTTCTGTT
1 TTTTCTTTCTGTT
13168977 TTTTCTTT-TGTT
1 TTTTCTTTCTGTT
*
13168989 ATTTCTTT
1 TTTTCTTT
13168997 GCTTAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTGTT
Found at i:13169142 original size:55 final size:55
Alignment explanation
Indices: 13169079--13169568 Score: 629
Period size: 55 Copynumber: 8.9 Consensus size: 55
13169069 TGTCTACAAA
*
13169079 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGACTGTTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * * *
13169134 TAGCGTGTTGTGGCTTAACTGGTTTTTTGGGTTTTTAGAGTGTCACGGTTGTTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * *
13169189 TGGCGTGTTGTGGGTTAACTGGATTTTTGGGTTTTTGGCGTGTCACGGTTGTTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * * *
13169244 TGACGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCATGTCTATTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * * * * * *
13169299 TAGCGTGTAGTGGGTTAACTGATTTTTTTGGTTTTTGGAGTGTCACGGTTGTTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * * * *
13169354 TGGCGTGTTGTGGGTTAACTTGATTTTTGGGTTTTTGGCGTGTCACAGCTGTGCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * *
13169409 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGTGTGTCATGGTTGTTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * * * * * * * *
13169464 TGGCATGTTGTGGGGTAAATAGATTTTTAGGTTTTTGGCGTGTCATGGCTATTCC
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
* * *
13169519 TGGCATGTTGTGGGTTAACTGATTTTTTGTGTTTTTAGCGTGTCACGGCT
1 TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCT
13169569 ATTGGTGTAA
Statistics
Matches: 370, Mismatches: 65, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 370 1.00
ACGTcount: A:0.11, C:0.12, G:0.32, T:0.45
Consensus pattern (55 bp):
TGGCGTGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCC
Found at i:13169628 original size:25 final size:25
Alignment explanation
Indices: 13169600--13169664 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
13169590 TTACAGTGAC
*
13169600 TGGCGTGTCACGACACGGATATGCA
1 TGGCGTGTCACGACACGGATATGAA
13169625 TGGCGTGTCACGACACGGATATGAA
1 TGGCGTGTCACGACACGGATATGAA
*
13169650 TGGCATGTCACGACA
1 TGGCGTGTCACGACA
13169665 TTTGACTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (25 bp):
TGGCGTGTCACGACACGGATATGAA
Found at i:13171020 original size:2 final size:2
Alignment explanation
Indices: 13171013--13171045 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13171003 TGCCTATTAC
13171013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13171046 CATAACCACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13171928 original size:22 final size:22
Alignment explanation
Indices: 13171890--13171933 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13171880 ACTTCCATCA
13171890 AACACTTTCTAAGTTTACATGT
1 AACACTTTCTAAGTTTACATGT
*
13171912 AACACTATTCTCA-TTTACATGT
1 AACACT-TTCTAAGTTTACATGT
13171934 TGCCACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
AACACTTTCTAAGTTTACATGT
Done.