Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 342 of 344
Found at i:111141853 original size:5 final size:6
Alignment explanation
Indices: 111141836--111141863 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
111141826 ATAATTGTTC
111141836 ATAAAA ATAAAA ATAAAA ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAA
111141864 TTAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:111142463 original size:51 final size:51
Alignment explanation
Indices: 111142403--111142508 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
111142393 GTTTATATCG
111142403 ATTATTATGTTCTGTTGTAACTGTCATATGTCATGTCATCACTTATCATAC
1 ATTATTATGTTCTGTTGTAACTGTCATATGTCATGTCATCACTTATCATAC
111142454 ATTATTATGTTCTGTTGTAACTGTCATATGTCATGTCATCACTTATCATAC
1 ATTATTATGTTCTGTTGTAACTGTCATATGTCATGTCATCACTTATCATAC
111142505 ATTA
1 ATTA
111142509 AGGGCTTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.45
Consensus pattern (51 bp):
ATTATTATGTTCTGTTGTAACTGTCATATGTCATGTCATCACTTATCATAC
Found at i:111159056 original size:16 final size:16
Alignment explanation
Indices: 111159035--111159066 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
111159025 TGTTTGAGTA
111159035 ATTATTATATACTAAG
1 ATTATTATATACTAAG
111159051 ATTATTATATACTAAG
1 ATTATTATATACTAAG
111159067 TAATGCTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTATTATATACTAAG
Found at i:111163920 original size:38 final size:38
Alignment explanation
Indices: 111163875--111163950 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
111163865 AATAAATATC
111163875 ACAATTTGATGCATTTAATGGGGAAATAAATTTAATGT
1 ACAATTTGATGCATTTAATGGGGAAATAAATTTAATGT
111163913 ACAATTTGATGCATTTAATGGGGAAATAAATTTAATGT
1 ACAATTTGATGCATTTAATGGGGAAATAAATTTAATGT
111163951 GTGGACCACT
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:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (38 bp):
ACAATTTGATGCATTTAATGGGGAAATAAATTTAATGT
Found at i:111167228 original size:37 final size:37
Alignment explanation
Indices: 111167158--111167228 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
111167148 TTTGCTGCAG
* * * **
111167158 AGTAAAGACAAAGATGAACAGGGATGATTCCCTGTAA
1 AGTAAAGAAAAAAATAAACAGGGATGACCCCCTGTAA
*
111167195 AGTAAAGAAAAAAATAAACAGGGGTGACCCCCTG
1 AGTAAAGAAAAAAATAAACAGGGATGACCCCCTG
111167229 ATTCCCTGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.15
Consensus pattern (37 bp):
AGTAAAGAAAAAAATAAACAGGGATGACCCCCTGTAA
Found at i:111185398 original size:104 final size:103
Alignment explanation
Indices: 111185233--111185451 Score: 368
Period size: 104 Copynumber: 2.1 Consensus size: 103
111185223 ATTACATTAA
*
111185233 AAAAAATCACAAAACACTAAACTAAACACTAATAATTTATATAACCTAATCATAAATTACTAACA
1 AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACA
*
111185298 AAGTAACTATAAAATTATTTTTTTTAAAAATAAATTACT
66 AAATAACTATAAAATTATTTTTTTT-AAAATAAATTACT
111185337 AAAAAATCACAAAACAC-ATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
1 AAAAAATCACAAAACACTA-AACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
** *
111185401 AAAATAACTATAAAATTATTTTTTTTAAAATTCATTATT
65 AAAATAACTATAAAATTATTTTTTTTAAAATAAATTACT
111185440 AAAAAATCACAA
1 AAAAAATCACAA
111185452 GTTCAAGTAG
Statistics
Matches: 109, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
103 23 0.21
104 86 0.79
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (103 bp):
AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAACA
AAATAACTATAAAATTATTTTTTTTAAAATAAATTACT
Found at i:111188546 original size:15 final size:15
Alignment explanation
Indices: 111188520--111188559 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
111188510 GAGCAAAAAA
*
111188520 AAAACACAAAATCAC
1 AAAACACTAAATCAC
*
111188535 AAAACCCTAAATCAC
1 AAAACACTAAATCAC
*
111188550 TAAACACTAA
1 AAAACACTAA
111188560 CAATTTGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAACACTAAATCAC
Found at i:111189014 original size:15 final size:17
Alignment explanation
Indices: 111188994--111189027 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
111188984 ATAAAATAAT
111188994 AATATTTT-AT-TAAAA
1 AATATTTTAATATAAAA
111189009 AATATTTTAATATAAAA
1 AATATTTTAATATAAAA
111189026 AA
1 AA
111189028 AGAGTTGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATTTTAATATAAAA
Found at i:111198617 original size:35 final size:34
Alignment explanation
Indices: 111198578--111198652 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
111198568 TTAATACAGT
* *
111198578 AGCAAATAGTATGCTTTATAAC-ATATCAATACAAA
1 AGCAAATAATACGC-TTATAACAAT-TCAATACAAA
* * *
111198613 AGCAATTAATACGCTTATAACAATTCAATATAAT
1 AGCAAATAATACGCTTATAACAATTCAATACAAA
111198647 AGCAAA
1 AGCAAA
111198653 AAGACATGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
34 20 0.61
35 13 0.39
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (34 bp):
AGCAAATAATACGCTTATAACAATTCAATACAAA
Found at i:111198650 original size:69 final size:68
Alignment explanation
Indices: 111198520--111198652 Score: 151
Period size: 69 Copynumber: 1.9 Consensus size: 68
111198510 GCAATATAAC
*** * * * *
111198520 ATGCTTATAACATATCAAAACGGTAGCCATTAATGCACTTATAGCAAATTAATACAGTAGCAAAT
1 ATGCTTATAACATATCAAAACAAAAGCAATTAATACACTTATAACAAATTAATACAATAGCAAAT
111198585 AGT
66 AGT
* * *
111198588 ATGCTTTATAACATATCAATACAAAAGCAATTAATACGCTTATAAC-AATTCAATATAATAGCAA
1 ATGC-TTATAACATATCAAAACAAAAGCAATTAATACACTTATAACAAATT-AATACAATAGCAA
111198652 A
64 A
111198653 AAGACATGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
68 8 0.15
69 45 0.85
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (68 bp):
ATGCTTATAACATATCAAAACAAAAGCAATTAATACACTTATAACAAATTAATACAATAGCAAAT
AGT
Found at i:111199448 original size:31 final size:31
Alignment explanation
Indices: 111199392--111199450 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
111199382 GGTTTAATTA
*
111199392 TACACACGAAACTTTGATTACGATTCAAATG
1 TACACACGAAACTTTAATTACGATTCAAATG
* **
111199423 TACACATGAAACTTTAATTTTGATTCAA
1 TACACACGAAACTTTAATTACGATTCAA
111199451 TTATACATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (31 bp):
TACACACGAAACTTTAATTACGATTCAAATG
Found at i:111199880 original size:15 final size:15
Alignment explanation
Indices: 111199861--111199889 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
111199851 ATAATTAACT
111199861 TTTTTTAA-ATAATA
1 TTTTTTAATATAATA
111199875 TTTTTTAATATAATA
1 TTTTTTAATATAATA
111199890 ATAATTTTTA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTTAATATAATA
Found at i:111199886 original size:35 final size:34
Alignment explanation
Indices: 111199828--111199898 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
111199818 ACTGAAAAAA
111199828 TTTTAAATAATATATATACATAT-ATAATTAACTTT
1 TTTTAAATAATATATATACATATAATAA-TAA-TTT
* *
111199863 TTTTAAATAATATTTTTTA-ATATAATAATAATTT
1 TTTTAAATAATA-TATATACATATAATAATAATTT
111199897 TT
1 TT
111199899 AAAAGGAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 5 0.16
35 19 0.59
36 8 0.25
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (34 bp):
TTTTAAATAATATATATACATATAATAATAATTT
Found at i:111199931 original size:17 final size:18
Alignment explanation
Indices: 111199891--111199936 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
111199881 AATATAATAA
*
111199891 TAATTTTTAAAAGGAGAG
1 TAATTTTTCAAAGGAGAG
* *
111199909 TTATTTTTCAAAGGTG-G
1 TAATTTTTCAAAGGAGAG
111199926 TAATTTTTCAA
1 TAATTTTTCAA
111199937 TAGAGTGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.43
Consensus pattern (18 bp):
TAATTTTTCAAAGGAGAG
Found at i:111201724 original size:31 final size:32
Alignment explanation
Indices: 111201656--111201726 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
111201646 ACGAAATTCA
*
111201656 GTATTTAATATCTATTTTTTTTATCACAAGTG
1 GTATTTAATATCTATTTTTGTTATCACAAGTG
*
111201688 ATATTTAA-AT-TATATTTTGTTACTCA-AAGTG
1 GTATTTAATATCTAT-TTTTGTTA-TCACAAGTG
111201719 GTATTTAA
1 GTATTTAA
111201727 GTTTTAATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 3 0.09
31 21 0.62
32 10 0.29
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (32 bp):
GTATTTAATATCTATTTTTGTTATCACAAGTG
Found at i:111204652 original size:12 final size:12
Alignment explanation
Indices: 111204635--111204668 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
111204625 TTAAGGTTCG
*
111204635 ATTTTTTGGAAA
1 ATTTTTTGAAAA
111204647 ATTTTTTGAAAA
1 ATTTTTTGAAAA
111204659 ATTTTTTGAA
1 ATTTTTTGAA
111204669 GTGTCATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (12 bp):
ATTTTTTGAAAA
Found at i:111206015 original size:15 final size:15
Alignment explanation
Indices: 111205977--111206005 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111205967 CGCGTGTAAG
111205977 ACTCAACTCAGCTCA
1 ACTCAACTCAGCTCA
111205992 ACTCAACTCAGCTC
1 ACTCAACTCAGCTC
111206006 TCACTCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.41, G:0.07, T:0.21
Consensus pattern (15 bp):
ACTCAACTCAGCTCA
Found at i:111207746 original size:4 final size:4
Alignment explanation
Indices: 111207739--111207774 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
111207729 TATACATATA
111207739 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
111207775 CTATTTGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:111209681 original size:6 final size:6
Alignment explanation
Indices: 111209670--111209699 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
111209660 GTTCCGTAAC
111209670 ACCCCA ACCCCA ACCCCA ACCCCA ACCCCA
1 ACCCCA ACCCCA ACCCCA ACCCCA ACCCCA
111209700 TCCAACATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCCA
Found at i:111216973 original size:27 final size:28
Alignment explanation
Indices: 111216935--111217001 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
111216925 GTGTACTAGT
111216935 TGAGAAAGTGGGG-GGGGGGGACTGACA
1 TGAGAAAGTGGGGAGGGGGGGACTGACA
111216962 TGAGAAAGTGGGGAGGGGGGGACTGACA
1 TGAGAAAGTGGGGAGGGGGGGACTGACA
111216990 TGAGAAAGTGGG
1 TGAGAAAGTGGG
111217002 AACATGCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
27 13 0.33
28 26 0.67
ACGTcount: A:0.28, C:0.06, G:0.54, T:0.12
Consensus pattern (28 bp):
TGAGAAAGTGGGGAGGGGGGGACTGACA
Found at i:111226073 original size:36 final size:36
Alignment explanation
Indices: 111226015--111226157 Score: 146
Period size: 36 Copynumber: 4.0 Consensus size: 36
111226005 GCAGTGCAAA
* * *
111226015 ACTGTTCATTGATGATATAAAATGCAAGAAGTGTAG
1 ACTGTCCATTGACGATATAAAATGGAAGAAGTGTAG
* * *
111226051 ACTGTCCGTTGACGATACAAAATGGAAGAAGTGTAA
1 ACTGTCCATTGACGATATAAAATGGAAGAAGTGTAG
** * *
111226087 ATCAT-T-CATTGGTGATATAAAATGTAAGAAGTATAG
1 A-C-TGTCCATTGACGATATAAAATGGAAGAAGTGTAG
* *
111226123 ACCGTCTATTGACGATATAAAATGGAAGAAGTGTA
1 ACTGTCCATTGACGATATAAAATGGAAGAAGTGTA
111226158 AAGCATTCAT
Statistics
Matches: 84, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
35 2 0.02
36 79 0.94
37 2 0.02
38 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (36 bp):
ACTGTCCATTGACGATATAAAATGGAAGAAGTGTAG
Found at i:111226180 original size:36 final size:35
Alignment explanation
Indices: 111226019--111226180 Score: 137
Period size: 36 Copynumber: 4.5 Consensus size: 35
111226009 TGCAAAACTG
* * *
111226019 TTCATTGATGATATAAAATGCAAGAAGTGTAGAC-
1 TTCATTGGTGATATAAAATGGAAGAAGTGTAAACA
* ** *
111226053 TGTCCGTTGACGATACAAAATGGAAGAAGTGTAAATCA
1 T-T-CATTGGTGATATAAAATGGAAGAAGTGTAAA-CA
* * * *
111226091 TTCATTGGTGATATAAAATGTAAGAAGTATAGACC
1 TTCATTGGTGATATAAAATGGAAGAAGTGTAAACA
* **
111226126 GTCTATTGACGATATAAAATGGAAGAAGTGTAAAGCA
1 TTC-ATTGGTGATATAAAATGGAAGAAGTGTAAA-CA
*
111226163 TTCATTGGTGATGTAAAA
1 TTCATTGGTGATATAAAA
111226181 GGTAAGCAAT
Statistics
Matches: 98, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
34 1 0.01
35 4 0.04
36 87 0.89
37 5 0.05
38 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (35 bp):
TTCATTGGTGATATAAAATGGAAGAAGTGTAAACA
Found at i:111226186 original size:72 final size:72
Alignment explanation
Indices: 111226019--111226186 Score: 246
Period size: 72 Copynumber: 2.3 Consensus size: 72
111226009 TGCAAAACTG
* * * * *
111226019 TTCATTGATGATATAAAATGCAAGAAGTGTAGACTGTCCGTTGACGATACAAAATGGAAGAAGTG
1 TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCCATTGACGATACAAAATGGAAGAAGTG
*
111226084 TAAATCA
66 TAAAGCA
* *
111226091 TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCTATTGACGATATAAAATGGAAGAAGTG
1 TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCCATTGACGATACAAAATGGAAGAAGTG
111226156 TAAAGCA
66 TAAAGCA
* *
111226163 TTCATTGGTGATGTAAAAGGTAAG
1 TTCATTGGTGATATAAAATGTAAG
111226187 CAATGCATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (72 bp):
TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCCATTGACGATACAAAATGGAAGAAGTG
TAAAGCA
Found at i:111226465 original size:29 final size:29
Alignment explanation
Indices: 111226422--111226484 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
111226412 TACAAAAGGA
* *
111226422 TGACGAGTATGGCAACCTGACCAGGTTGT
1 TGACGAGTATAGCAACCTAACCAGGTTGT
*
111226451 TGACGAGTATAGCAACCTAACTAGGTTGT
1 TGACGAGTATAGCAACCTAACCAGGTTGT
111226480 TGACG
1 TGACG
111226485 GATGTGACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (29 bp):
TGACGAGTATAGCAACCTAACCAGGTTGT
Found at i:111227259 original size:81 final size:79
Alignment explanation
Indices: 111227166--111227420 Score: 234
Period size: 81 Copynumber: 3.2 Consensus size: 79
111227156 ATACATGCCG
*
111227166 GGGGATATAACCACCTGCAAGATCCCCTCGTGGGCTCTCTTTGTCTCACAATAATCATTATACAA
1 GGGGATATAACCACC-GCAAGAT-CCTTCGTGGGCTCTCTTTGTCTCACAATAATCATTATAC-A
*
111227231 ATATACAAACATACAAA
63 ATATACAAACATGCAAA
*** * * * *
111227248 GGGG-TATAACCACC-CATGAGAATCCTTCACAGGCTCTTTTTATCCCACAATATTCATTATACT
1 GGGGATATAACCACCGCA--AG-ATCCTTCGTGGGCTCTCTTTGTCTCACAATAATCATTATAC-
111227311 AATATACAAACATGCAAA
62 AATATACAAACATGCAAA
* * * *
111227329 GGGGATATAACCATCCGCAAGAAACCTTCGTGGGCTC-CTTTTGTCTAACAAT-GTACAATATAC
1 GGGGATATAACCA-CCGCAAG-ATCCTTCGTGGGCTCTC-TTTGTCTCACAATAAT-CATTATAC
*
111227392 -ATATACCAACATGCAAA
62 AATATACAAACATGCAAA
*
111227409 GAGG-TATAACCA
1 GGGGATATAACCA
111227421 TATGTGGGAA
Statistics
Matches: 143, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
79 10 0.07
80 19 0.13
81 65 0.45
82 45 0.31
83 2 0.01
84 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (79 bp):
GGGGATATAACCACCGCAAGATCCTTCGTGGGCTCTCTTTGTCTCACAATAATCATTATACAATA
TACAAACATGCAAA
Found at i:111231643 original size:21 final size:22
Alignment explanation
Indices: 111231614--111231660 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
111231604 CAGAAGGAGT
*
111231614 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
111231636 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
111231657 GAGT
1 GAGT
111231661 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:111234399 original size:62 final size:61
Alignment explanation
Indices: 111234323--111234441 Score: 220
Period size: 62 Copynumber: 1.9 Consensus size: 61
111234313 GAACTGTGCA
111234323 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAAT-GGGGAAGAGGCAATCGGTCGACT
*
111234385 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGCGGCAATCGGTC
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTC
111234442 TACTGCTGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 18 0.32
62 38 0.68
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (61 bp):
AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
Found at i:111236548 original size:101 final size:101
Alignment explanation
Indices: 111236373--111236579 Score: 396
Period size: 101 Copynumber: 2.0 Consensus size: 101
111236363 ATCAGTCCCA
*
111236373 TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGGGAAAGGTTTATGCTTGCTAACTGTTGT
1 TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
111236438 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
66 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
*
111236474 TAATTTATGAAGATTTAAAGAATATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
1 TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
111236539 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
66 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
111236575 TAATT
1 TAATT
111236580 GTTACATGTT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (101 bp):
TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
Found at i:111236946 original size:128 final size:121
Alignment explanation
Indices: 111236669--111236951 Score: 424
Period size: 121 Copynumber: 2.3 Consensus size: 121
111236659 TTTTCATTCG
* *
111236669 TTTCAAATGCATTGGCTAAGGTTCAAGCTAATTACTGCTTAAAGATTGGAGTATGGTATATCGAT
1 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGAGTATGGTATATCAAT
* *
111236734 GTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGATATCATTTTAAGAATCA
66 GTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATTGTAAGAATCA
*
111236790 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGATTATGGTATATCAAT
1 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGAGTATGGTATATCAAT
*
111236855 GTTTAGTGTAGTCGGGGCATTGGGCATTCAATAGCTTAGTT-ATTGACATCATTGTAAGAATCA
66 GTTTAGTGTAGT-----C---GGGCATTCAATACCTTAGTTCATTGACATCATTGTAAGAATCA
*
111236918 TTTCAAATGCATTGGATAAGGTTCAAGCTAGTTA
1 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTA
111236952 TATAGCTTGA
Statistics
Matches: 147, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
121 74 0.50
126 1 0.01
128 53 0.36
129 19 0.13
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (121 bp):
TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGAGTATGGTATATCAAT
GTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATTGTAAGAATCA
Found at i:111237098 original size:147 final size:147
Alignment explanation
Indices: 111236821--111237215 Score: 526
Period size: 147 Copynumber: 2.6 Consensus size: 147
111236811 TTCAAGCTAG
111236821 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAG-TGTAGTCGGGGCATTGGGCATTCA
1 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCT-TAGT-----C---GGGCATTCA
* **
111236885 ATAGCTTAGTT-ATTGACATCATTGTAAGAATCATTTCAAATGCATTGGATAAGGTTCAAGCTAG
57 ATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATCAGATAAGGTTCAAGCTAG
* *
111236949 TTATATAGCTTGACTTATAGCTGTCC
122 TTATATAGCTTGACCTATAGCTGGCC
*
111236975 TTGCTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
1 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
* *
111237040 TTCATTGACATCATAGTAAGATTCATTTCAAATGCATCAGCTAAGGTTCAAGCTAGTTATATAGC
66 TTCATTGACATCATAGTAAGAATCATTTCAAATGCATCAGATAAGGTTCAAGCTAGTTATATAGC
*
111237105 TTGACCTGTAGCTGGCC
131 TTGACCTATAGCTGGCC
* * * ** * *
111237122 TTACTGCCTAAAGAGTGGATCATGGTATATTGATGTTTAGCTTAGTTGGGCATTCAATACCTTA-
1 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
*
111237186 TATCATTGACATCATGGTAAGAATCATTTC
66 T-TCATTGACATCATAGTAAGAATCATTTC
111237216 TTGACCTGTA
Statistics
Matches: 219, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
146 21 0.10
147 153 0.70
149 1 0.00
154 43 0.20
155 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (147 bp):
TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
TTCATTGACATCATAGTAAGAATCATTTCAAATGCATCAGATAAGGTTCAAGCTAGTTATATAGC
TTGACCTATAGCTGGCC
Found at i:111239085 original size:19 final size:19
Alignment explanation
Indices: 111239061--111239107 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
111239051 AATTAGAAGT
111239061 AAAACTCGATTTTTTTGAG
1 AAAACTCGATTTTTTTGAG
111239080 AAAACTCGATTTTTTTGAG
1 AAAACTCGATTTTTTTGAG
*
111239099 TAAACTCGA
1 AAAACTCGA
111239108 ATAAGTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
AAAACTCGATTTTTTTGAG
Found at i:111239282 original size:19 final size:18
Alignment explanation
Indices: 111239260--111239303 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
111239250 AATTACAAAA
*
111239260 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
111239279 AAAAATTCAAAATATTTAT
1 AAAAA-TCAAAATATTTAT
111239298 AAAAAT
1 AAAAAT
111239304 TTCAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:111239282 original size:20 final size:20
Alignment explanation
Indices: 111239259--111239326 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
111239249 AAATTACAAA
111239259 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAATTTTT
* *
111239279 AAAAATTCAAAAT-ATTTAT
1 AAAAAATCAAAATAATTTTT
* *
111239298 AAAAATTTCAAATTTATATTTTT
1 AAAAA-ATCAAA-ATA-ATTTTT
111239321 AAAAAA
1 AAAAAA
111239327 AATTATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 10 0.26
20 18 0.46
21 1 0.03
23 10 0.26
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTT
Found at i:111239310 original size:19 final size:20
Alignment explanation
Indices: 111239259--111239309 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
111239249 AAATTACAAA
* *
111239259 AAAAAATCAAAATAATTTTT
1 AAAAATTCAAAATAATTTAT
111239279 AAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
111239298 AAAAATTTCAAA
1 AAAAA-TTCAAA
111239310 TTTATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:111242172 original size:21 final size:23
Alignment explanation
Indices: 111242148--111242189 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
111242138 ACAAGCTTAC
111242148 AGGTTC-TGTCCCT-GCTTCATT
1 AGGTTCATGTCCCTCGCTTCATT
*
111242169 AGGTTCATGTCCTTCGCTTCA
1 AGGTTCATGTCCCTCGCTTCA
111242190 AACACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (23 bp):
AGGTTCATGTCCCTCGCTTCATT
Found at i:111242941 original size:18 final size:18
Alignment explanation
Indices: 111242918--111242953 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
111242908 AACCCACCTT
111242918 CATCAGGACATAAACATA
1 CATCAGGACATAAACATA
*
111242936 CATCAGGACATAACCATA
1 CATCAGGACATAAACATA
111242954 GGAAACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.17
Consensus pattern (18 bp):
CATCAGGACATAAACATA
Found at i:111244477 original size:31 final size:33
Alignment explanation
Indices: 111244442--111244509 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
111244432 GACATAATAG
*
111244442 CAATTTTA-ACCCTCAACA-TTATACATTATGT
1 CAATTTTAGACCCTCAAAATTTATACATTATGT
* *
111244473 CAA-TTTAGTCCCTCAAAATTTATACATTGTGT
1 CAATTTTAGACCCTCAAAATTTATACATTATGT
111244505 -AATTT
1 CAATTT
111244510 GTTTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 4 0.13
31 13 0.42
32 14 0.45
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (33 bp):
CAATTTTAGACCCTCAAAATTTATACATTATGT
Found at i:111254404 original size:12 final size:12
Alignment explanation
Indices: 111254381--111254411 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
111254371 CTTCAAGTTC
111254381 ATATACTTTATAT
1 ATATA-TTTATAT
111254394 ATATATTTATAT
1 ATATATTTATAT
111254406 ATATAT
1 ATATAT
111254412 ATATTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:111266532 original size:17 final size:17
Alignment explanation
Indices: 111266501--111266534 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
111266491 CATGGTAAAT
* *
111266501 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
111266518 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
111266535 CAAGAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:111267005 original size:24 final size:24
Alignment explanation
Indices: 111266960--111267005 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
111266950 ATAATTTTAG
* *
111266960 ACATATATATTATAGTATATAAGC
1 ACATATATATAATAATATATAAGC
111266984 ACATATATATAAATAATA-ATAA
1 ACATATATAT-AATAATATATAA
111267006 TATAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
ACATATATATAATAATATATAAGC
Found at i:111267553 original size:7 final size:7
Alignment explanation
Indices: 111267537--111267574 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
111267527 CCTTACTCTA
111267537 AAACCCT
1 AAACCCT
*
111267544 AAATCCT
1 AAACCCT
111267551 AAACCCT
1 AAACCCT
111267558 AAACCCT
1 AAACCCT
111267565 AAACCCT
1 AAACCCT
111267572 AAA
1 AAA
111267575 TCTATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:111268102 original size:15 final size:16
Alignment explanation
Indices: 111268076--111268105 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111268066 TAGTGTTTAG
111268076 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
111268092 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
111268106 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:111268569 original size:46 final size:44
Alignment explanation
Indices: 111268470--111269063 Score: 219
Period size: 44 Copynumber: 13.6 Consensus size: 44
111268460 TTTTAATCCG
* * ** *
111268470 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ATGTCTTTAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TCTTCGATCTA
* *
111268513 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTCTTCGATCTA
* * * *
111268559 CTCCGCTGTAACCTCAGGGAAATAAGACCTGA---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATTCTTCGATCTA
* * * * * **
111268600 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATTCTTCGATCTA
* * ** *
111268644 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ATGTCTTTAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAT-TCTTCGATCTA
* * * *
111268687 CTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTCTTCGATCTA
* * * * *
111268733 TTCCACTGTAATCTCAGGGAAATAAGACCTGA--C-ACGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATTCTTCGATCTA
** * * * * **
111268774 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATTCTTCGATCTA
* * * * * *
111268818 CTCCACTGTAATCTCAGGGGGATAGGAT-T-ACTAGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGA-T-TCTTCGATCTA
** * *
111268862 CTCTGCTGTAATCTCAGGGAGATAAGATCTGA--C-ACGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATTCTTCGATCTA
* * * * **
111268903 CTCTACTGTAACTTCAGAGAGATAAGATCCTTCG-TT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-C-T-GATTCTTCGATCTA
** * * *
111268947 CTCCACTGTAATATCAGGGAGATAGGAT-T-ACTATCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGA-T-TCTTCGATCTA
* * * *
111268991 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG--ATTCTTCGATCTA
* * ** *
111269037 TTCCAATGTAGTCTCAGGGAAATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
111269064 CCTGTATAAT
Statistics
Matches: 415, Mismatches: 95, Indels: 79
0.70 0.16 0.13
Matches are distributed among these distances:
40 3 0.01
41 90 0.22
42 8 0.02
43 62 0.15
44 142 0.34
45 3 0.01
46 101 0.24
47 5 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGATTCTTCGATCTA
Found at i:111268622 original size:87 final size:87
Alignment explanation
Indices: 111268508--111268802 Score: 260
Period size: 87 Copynumber: 3.4 Consensus size: 87
111268498 TATGTCTTTA
* * * * * *
111268508 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCGCTGTAACCT
1 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
111268573 CAGGGAAATAAGACCTGATGCG
66 CAGGGAAATAAGACCTGATGCG
* ** ** ** *
111268595 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAACT
1 ATCTACTCTGCTGTAACTTCAGAGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCACTGTAACC
* * * *
111268657 TCAGGGAGATAGGA--TTATGTCTTTA
65 TCAGGGAAATAAGACCTGATG-C---G
* * * * * *
111268682 ATCTGCTCCGCTATAA-TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
1 ATCTACTCTGCTGTAACT-TCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
**
111268746 TCAGGGAAATAAGACCTGACACG
65 TCAGGGAAATAAGACCTGATGCG
111268769 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
111268803 CTTCATTTTA
Statistics
Matches: 155, Mismatches: 41, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
83 4 0.03
84 1 0.01
85 25 0.16
86 5 0.03
87 88 0.57
88 5 0.03
89 24 0.15
90 1 0.01
91 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (87 bp):
ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
CAGGGAAATAAGACCTGATGCG
Found at i:111268711 original size:174 final size:174
Alignment explanation
Indices: 111268421--111268893 Score: 754
Period size: 174 Copynumber: 2.7 Consensus size: 174
111268411 CTTGGACGTA
* *
111268421 ATCTACTCTACTGCCAA-TTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAACTTC
1 ATCTACTCTACTG-TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
* *
111268485 AGGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTC
65 AGGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC
* **
111268550 TTCGGTCTACTCCGCTGTAACCTCAGGGAAATAAGACCTGATGCG
130 TTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGACACG
111268595 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
*
111268660 GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCT
66 GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCT
* *
111268725 TCGGTCTATTCCACTGTAATCTCAGGGAAATAAGACCTGACACG
131 TCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGACACG
* *
111268769 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAA-TCTC
1 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TC
* * *
111268833 AGGGGGATAGGATTACTAG-CTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGA
65 AGGGAGATAGGATTA-T-GTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
111268894 CACGATCTAC
Statistics
Matches: 279, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
173 3 0.01
174 235 0.84
175 40 0.14
176 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (174 bp):
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
GGGAGATAGGATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCT
TCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGACACG
Found at i:111268894 original size:129 final size:129
Alignment explanation
Indices: 111268738--111269022 Score: 498
Period size: 129 Copynumber: 2.2 Consensus size: 129
111268728 GTCTATTCCA
* * *
111268738 CTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * *
111268803 CTTCATTTTAATCCGCTCCACTGTAATCTCAGGGGGATAGGATTACTAGCTTCAATCTGCTCTG
66 CTTCATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
111268867 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* *
111268932 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
66 CTTCATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
111268996 CTGTAATCTCAGGGAGATAAGATCTGA
1 CTGTAATCTCAGGGAGATAAGATCTGA
111269023 AATTCTTCGG
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 148 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (129 bp):
CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTCATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
Found at i:111291577 original size:24 final size:25
Alignment explanation
Indices: 111291531--111291578 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
111291521 TTTCCATTCA
111291531 AAGGTTTTAGGATAATTTATTAAAT
1 AAGGTTTTAGGATAATTTATTAAAT
* *
111291556 AAGGTTTTAGTAT-ATTTCTTAAA
1 AAGGTTTTAGGATAATTTATTAAA
111291579 AATCTGACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (25 bp):
AAGGTTTTAGGATAATTTATTAAAT
Found at i:111293687 original size:23 final size:22
Alignment explanation
Indices: 111293650--111293705 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
111293640 ATAATGGTAG
*
111293650 TAAAATATATATAATTACTAAATGT
1 TAAAATA-AAATAATTA-TAAAT-T
*
111293675 T-AAATAAAATAATTATATATT
1 TAAAATAAAATAATTATAAATT
111293696 TAAAATAAAA
1 TAAAATAAAA
111293706 GATAATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.43
23 8 0.29
24 5 0.18
25 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAATAAAATAATTATAAATT
Found at i:111296734 original size:4 final size:4
Alignment explanation
Indices: 111296725--111296756 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
111296715 AACATATAAT
*
111296725 CATA CATA CAGA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
111296757 TATATGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (4 bp):
CATA
Found at i:111297987 original size:26 final size:26
Alignment explanation
Indices: 111297944--111297993 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
111297934 GTTAACCTAG
111297944 CCCCTTTTTTCTAATTATATATTCTC
1 CCCCTTTTTTCTAATTATATATTCTC
*
111297970 CCCCTTTTCTT-TATTTATATATTC
1 CCCCTTTT-TTCTAATTATATATTC
111297994 ATCTGGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (26 bp):
CCCCTTTTTTCTAATTATATATTCTC
Found at i:111299100 original size:18 final size:19
Alignment explanation
Indices: 111299068--111299109 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
111299058 CTTCATGCTT
111299068 TTTTTTTAAATTTTTATAA
1 TTTTTTTAAATTTTTATAA
* *
111299087 TTTTTTTACA-TTTTATAG
1 TTTTTTTAAATTTTTATAA
111299105 TTTTT
1 TTTTT
111299110 AATGTTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTTAAATTTTTATAA
Found at i:111300351 original size:16 final size:17
Alignment explanation
Indices: 111300330--111300363 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
111300320 AGCAAAGTGT
*
111300330 AATTTTATTAATT-TAA
1 AATTTTATAAATTATAA
111300346 AATTTTATAAATTATAA
1 AATTTTATAAATTATAA
111300363 A
1 A
111300364 GACCTAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTATAAATTATAA
Found at i:111303824 original size:12 final size:12
Alignment explanation
Indices: 111303807--111303834 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
111303797 TAATCGATTA
111303807 ATAGATTTATTT
1 ATAGATTTATTT
111303819 ATAGATTTATTT
1 ATAGATTTATTT
111303831 ATAG
1 ATAG
111303835 GTTGAGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (12 bp):
ATAGATTTATTT
Found at i:111304551 original size:22 final size:21
Alignment explanation
Indices: 111304502--111304554 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
111304492 TAATCACATT
* *
111304502 TTAAATTTATTTCATAGAAAA
1 TTAAAATTATTTAATAGAAAA
*
111304523 TTAAAATTATTTAATTGAAAA
1 TTAAAATTATTTAATAGAAAA
*
111304544 TTGCAAATTAT
1 TT-AAAATTAT
111304555 ATTTTAACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
TTAAAATTATTTAATAGAAAA
Found at i:111311701 original size:40 final size:40
Alignment explanation
Indices: 111311657--111311737 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
111311647 CTGTACAGTA
111311657 TATCAAAAAACAAATTGATCCTTTTTGTTAATTATCATTT
1 TATCAAAAAACAAATTGATCCTTTTTGTTAATTATCATTT
111311697 TATCAAAAAACAAATTGATCCTTTTTGTTAATTATCATTT
1 TATCAAAAAACAAATTGATCCTTTTTGTTAATTATCATTT
111311737 T
1 T
111311738 TTTGTACTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (40 bp):
TATCAAAAAACAAATTGATCCTTTTTGTTAATTATCATTT
Found at i:111317901 original size:31 final size:31
Alignment explanation
Indices: 111317864--111317923 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
111317854 CAAAATAAGT
*
111317864 AAATTAGTCCTTGTGCATTAAATCAAAGAGA
1 AAATTAGTCATTGTGCATTAAATCAAAGAGA
111317895 AAATTAGTCATTGTGCATTAAATCAAAGA
1 AAATTAGTCATTGTGCATTAAATCAAAGA
111317924 CAAAGACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (31 bp):
AAATTAGTCATTGTGCATTAAATCAAAGAGA
Found at i:111319561 original size:44 final size:44
Alignment explanation
Indices: 111319510--111319600 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
111319500 TATTGTTTGG
111319510 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
1 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
111319554 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
1 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
111319598 ACT
1 ACT
111319601 CAATTTTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (44 bp):
ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
Found at i:111321863 original size:105 final size:105
Alignment explanation
Indices: 111321681--111321891 Score: 422
Period size: 105 Copynumber: 2.0 Consensus size: 105
111321671 TAAATGTTTG
111321681 TGGATTAAAGTTACTATTATACTAATTTAAAAGCTACCATTGTTTGTCCATTGGTGACTAAAAAA
1 TGGATTAAAGTTACTATTATACTAATTTAAAAGCTACCATTGTTTGTCCATTGGTGACTAAAAAA
111321746 GACAAAATTGAATAAGTGAGTGACCATTTTATAACTTTTC
66 GACAAAATTGAATAAGTGAGTGACCATTTTATAACTTTTC
111321786 TGGATTAAAGTTACTATTATACTAATTTAAAAGCTACCATTGTTTGTCCATTGGTGACTAAAAAA
1 TGGATTAAAGTTACTATTATACTAATTTAAAAGCTACCATTGTTTGTCCATTGGTGACTAAAAAA
111321851 GACAAAATTGAATAAGTGAGTGACCATTTTATAACTTTTC
66 GACAAAATTGAATAAGTGAGTGACCATTTTATAACTTTTC
111321891 T
1 T
111321892 TAATTGGGTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (105 bp):
TGGATTAAAGTTACTATTATACTAATTTAAAAGCTACCATTGTTTGTCCATTGGTGACTAAAAAA
GACAAAATTGAATAAGTGAGTGACCATTTTATAACTTTTC
Found at i:111325662 original size:8 final size:8
Alignment explanation
Indices: 111325651--111325678 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
111325641 TATAAAAATA
111325651 ATTTATAT
1 ATTTATAT
111325659 ATTTATAT
1 ATTTATAT
111325667 ATTTATAT
1 ATTTATAT
111325675 ATTT
1 ATTT
111325679 TCTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTATAT
Found at i:111328310 original size:15 final size:17
Alignment explanation
Indices: 111328282--111328314 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
111328272 TTGTATATAT
111328282 TATATTTATATTATGTA
1 TATATTTATATTATGTA
111328299 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
111328314 T
1 T
111328315 GTTTCCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:111328935 original size:18 final size:18
Alignment explanation
Indices: 111328866--111328958 Score: 77
Period size: 17 Copynumber: 5.1 Consensus size: 18
111328856 TGTTGTAAAC
* *
111328866 TTTTCGTGTTTCCAAAAT
1 TTTTCGTGTTTTCAAAAA
111328884 TTTTCGTGTTTTTCTAAAAAAA
1 TTTTCGTG-TTTTC---AAAAA
**
111328906 AATTCAG-G-TTTCAAAAA
1 TTTTC-GTGTTTTCAAAAA
111328923 TTTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
111328940 TTTTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
111328957 TT
1 TT
111328959 CTTATTTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.02
17 31 0.51
18 12 0.20
19 4 0.07
20 4 0.07
22 8 0.13
23 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:111339199 original size:86 final size:89
Alignment explanation
Indices: 111338995--111339314 Score: 262
Period size: 86 Copynumber: 3.8 Consensus size: 89
111338985 TGTTCATCAA
* * * *
111338995 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCTCATGATGAGGTATTTACGAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCTCACGATGAGGTATTTACAAT
111339060 TTCCATTTTTCAATTTATGTTTTTC
66 TTCCATTTTTCAATTTATG-TTTTC
* * *
111339085 -AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGGT-ACGCTGAGGTATTGT-CAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCTCACGATGAGGTATT-TACAA
***
111339146 TTTTTGTGTTTT-AATTTATG-TTTC
65 TTTCCAT-TTTTCAATTTATGTTTTC
* * * * * * *
111339170 AAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCA-AG-ACACGTTGAAGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCTCACGATGAGGTATTTACAAT
** * *
111339233 TTCTGTCTTTCAA---A------A
66 TTCCATTTTTCAATTTATGTTTTC
* * *
111339248 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAATTT-CAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCTCACGATGAGGT-ATTTACAA
111339312 TTT
65 TTT
111339315 ATGTTTGTCA
Statistics
Matches: 194, Mismatches: 26, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
78 38 0.20
80 16 0.08
81 4 0.02
83 1 0.01
85 8 0.04
86 58 0.30
87 25 0.13
88 8 0.04
89 36 0.19
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCTCACGATGAGGTATTTACAAT
TTCCATTTTTCAATTTATGTTTTC
Found at i:111339446 original size:71 final size:73
Alignment explanation
Indices: 111339154--111339458 Score: 370
Period size: 71 Copynumber: 4.1 Consensus size: 73
111339144 AATTTTTGTG
* * *
111339154 TTTT-AATTTATG-TT-TCAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTATGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
111339216 GTTGAAGTA
65 GCTGAGGTA
*
111339225 TTTTCAATTTCTGTCTT-TCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTCAATTTATGT-TTGTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
111339289 GTCACACGCTGAGGTA
60 G--ACACGCTGAGGTA
* *
111339305 ATTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
111339370 CTGAGGTA
66 CTGAGGTA
* * * *
111339378 TTTTCAATTTAT-TTT-TGAAAAATCAACTCATATTGCGATAGGTGAGTTAAGCCTCAAGACACG
1 TTTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
111339441 TTGAGGTA
66 CTGAGGTA
111339449 TTTTCAATTT
1 TTTTCAATTT
111339459 CTGCTCACAT
Statistics
Matches: 208, Mismatches: 16, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
71 64 0.31
72 10 0.05
73 23 0.11
74 4 0.02
75 41 0.20
78 39 0.19
79 2 0.01
80 25 0.12
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (73 bp):
TTTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:111339479 original size:58 final size:59
Alignment explanation
Indices: 111339404--111339520 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 59
111339394 GAAAAATCAA
* * **
111339404 CTCATATTGCGATAGGTGAGTTAAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
* *
111339462 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
111339521 TTGTTAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
58 38 0.73
59 14 0.27
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (59 bp):
CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACACTGAGGTAATTTTCAATTTCTG
Found at i:111339635 original size:72 final size:72
Alignment explanation
Indices: 111339462--111339827 Score: 421
Period size: 72 Copynumber: 4.9 Consensus size: 72
111339452 TCAATTTCTG
* * *
111339462 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTTA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTT-TT-
* *
111339527 AAAAAAAAATTAA
63 ---CAAAAATCAA
* **
111339540 CTCATATTGCGAGAAATGAGTTGAGCCTCATTACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
111339605 AATTCAA
66 AAATCAA
* * * * *
111339612 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTCTCA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT-TC-
111339677 AAAAAAAAATCAA
64 ----AAAAATCAA
* *
111339690 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
111339755 AAATCAA
66 AAATCAA
* *
111339762 CTCATATTGCGAGATGTGAGTTGAGCCTCGAGG-CACGCTGAGGT-ATTGTCAATTTTTGTGTTT
1 CTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATT-TCAATTTCTGT-TTT
111339825 CAA
63 CAA
111339828 TTTATTTTTC
Statistics
Matches: 254, Mismatches: 25, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
71 3 0.01
72 121 0.48
73 10 0.04
76 2 0.01
77 16 0.06
78 102 0.40
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
AAATCAA
Found at i:111339726 original size:150 final size:146
Alignment explanation
Indices: 111339462--111340700 Score: 1360
Period size: 144 Copynumber: 8.2 Consensus size: 146
111339452 TCAATTTCTG
* * * *
111339462 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTTA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAA-TTTCAATTTCTGTT-TT-
* * ** ***
111339527 AAAAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCATTACACGCTGAGGTAATTTCAA
63 -CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
*
111339592 TTTCTGTTTTCAAAATTCAA
127 TTTCTGTTTTCAAAAATCAA
* * * *
111339612 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTCTCA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTT-TC-
111339677 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
64 --AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
111339742 TTTCTGTTTTCAAAAATCAA
127 TTTCTGTTTTCAAAAATCAA
* * * *
111339762 CTCATATTGCGAGATGTGAGTTGAGCCTCGAGGCACGCTGAGGT-ATTGTCAATTTTTGTGTTTC
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TCAATTTCTGT-TTTC
* ** *
111339826 AATTTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
64 -----A------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
*
111339891 TAATTTCAATTTCTTTTTGTCAAAAATCAA
118 TAATTTCAATTTCTGTTT-TCAAAAATCAA
* * * * *
111339921 CTCATATTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCGATTTCTGCTTTTCA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC-AATT-T-C---T--
* *
111339986 AGTTATATTTTTCAAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
58 -G------TTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
*
111340051 GAGGTAATTTTCAATTTCTGTTGTTAAAAAAATCAA
114 GAGGTAA-TTTCAATTTCTGTT-TT-CAAAAATCAA
* * *
111340087 CTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGC--
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
* ** * * * *
111340150 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCGAGACATGCTGAGGTATTTTCAATTTT
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
111340215 TGTTTTTCAAAAAAAAATCAA
131 TG-TTTTC----AAAAATCAA
* * ** *
111340236 CTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTATGTTTTC--
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
111340299 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
111340364 TGTTTTCAAAATTCAA
131 TGTTTTCAAAAATCAA
* **
111340380 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTC--
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
* *
111340443 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACATGCTGAGGTAATTTCAATTTC
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
111340508 TGTTTTCAAAATTCAA
131 TGTTTTCAAAAATCAA
* ** *
111340524 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
* * * * *
111340589 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGTTGAGGTATTTTCAATT
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTCAATT
111340654 TCTGTCTTTCAAAAAAATCAA
129 TCTGT-TTTC--AAAAATCAA
*
111340675 CTCATATTGC-AAAAGGTGAGTTGAGC
1 CTCATATTGCGAGAA-GTGAGTTGAGC
111340701 TTCAGATTAC
Statistics
Matches: 947, Mismatches: 95, Indels: 93
0.83 0.08 0.08
Matches are distributed among these distances:
144 204 0.22
146 51 0.05
147 49 0.05
148 31 0.03
149 146 0.15
150 170 0.18
151 34 0.04
152 1 0.00
157 1 0.00
158 66 0.07
159 53 0.06
160 7 0.01
161 1 0.00
163 1 0.00
164 53 0.06
165 18 0.02
166 54 0.06
168 1 0.00
170 1 0.00
173 4 0.00
174 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (146 bp):
CTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAAAAATCAA
Found at i:111339844 original size:86 final size:86
Alignment explanation
Indices: 111339736--111339902 Score: 250
Period size: 86 Copynumber: 1.9 Consensus size: 86
111339726 GCTGAGGTAA
* * **
111339736 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGAGG-CACGC
1 TTTCAATTTATGTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTC-AGGACACGC
111339800 TGAGGT-ATTGTCAATTTTTGTG
65 TGAGGTAATT-TCAATTTTTGTG
111339822 TTTCAATTTAT-TTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTATGTTTTC-AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGC
111339886 TGAGGTAATTTCAATTT
65 TGAGGTAATTTCAATTT
111339903 CTTTTTGTCA
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
85 8 0.11
86 63 0.85
87 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (86 bp):
TTTCAATTTATGTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCT
GAGGTAATTTCAATTTTTGTG
Found at i:111339943 original size:73 final size:73
Alignment explanation
Indices: 111339822--111339986 Score: 210
Period size: 73 Copynumber: 2.3 Consensus size: 73
111339812 AATTTTTGTG
* *
111339822 TTTCAATTT-ATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTC-AGGACACG
1 TTTCAATTTCTTTTTTCAAAAAATCAACTCATATTACGAGAAATAAGTTGAGCCTCAAGG-CACG
111339885 CTGAGGTAA
65 CTGAGGTAA
* **
111339894 TTTCAATTTCTTTTTGTC-AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGGCACG
1 TTTCAATTTCTTTTT-TCAAAAAATCAACTCATATTACGAGAAATAAGTTGAGCCTCAAGGCACG
*
111339958 TTGAGGTAA
65 CTGAGGTAA
* *
111339967 TTTCGATTTCTGCTTTTCAA
1 TTTCAATTTCT-TTTTTCAA
111339987 GTTATATTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
72 9 0.11
73 62 0.77
74 9 0.11
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (73 bp):
TTTCAATTTCTTTTTTCAAAAAATCAACTCATATTACGAGAAATAAGTTGAGCCTCAAGGCACGC
TGAGGTAA
Found at i:111340187 original size:72 final size:72
Alignment explanation
Indices: 111340003--111340705 Score: 935
Period size: 72 Copynumber: 9.6 Consensus size: 72
111339993 TTTTTCAAAA
*
111340003 AAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTT
*
111340068 CTGTTGTTAA
65 CTGTT-TT-C
**
111340078 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
111340143 TGTTTGC
66 TGTTTTC
* ** * *
111340150 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GAGACATGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTT
*
111340214 TTGTTTTTC
65 CTG-TTTTC
* *
111340223 AAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
*
111340288 TTTATGTTTTC
62 TTTCTGTTTTC
*
111340299 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
111340364 TGTTTTC
66 TGTTTTC
* *
111340371 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
111340436 TGTTTTC
66 TGTTTTC
*
111340443 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACATGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTT
111340507 CTGTTTTC
65 CTGTTTTC
* ** * ** *
111340515 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
111340580 TGTTTTC
66 TGTTTTC
* * * *
111340587 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGTTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCA
111340651 ATTTCTGTCTTTC
61 ATTTCTGT-TTTC
* * *
111340664 AAAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCTTCAG
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
111340706 ATTACACACT
Statistics
Matches: 571, Mismatches: 41, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
71 2 0.00
72 333 0.58
73 6 0.01
74 48 0.08
75 52 0.09
76 30 0.05
77 98 0.17
78 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:111342606 original size:15 final size:17
Alignment explanation
Indices: 111342578--111342609 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
111342568 TTGTATATAT
111342578 TATATTTATATTATGTA
1 TATATTTATATTATGTA
111342595 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
111342610 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:111343235 original size:18 final size:18
Alignment explanation
Indices: 111343214--111343258 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
111343204 AAAATTTAGG
111343214 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
111343232 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
111343249 TTT-AAAAATT
1 TTTCAAAAATT
111343259 CTTATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:111343760 original size:18 final size:18
Alignment explanation
Indices: 111343737--111343791 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
111343727 GATCAATACG
111343737 ATAGCATTTAATATACTT
1 ATAGCATTTAATATACTT
* *
111343755 ATAGCATATCA-ATAC-T
1 ATAGCATTTAATATACTT
* * *
111343771 ATAACAATTATTATACTT
1 ATAGCATTTAATATACTT
111343789 ATA
1 ATA
111343792 TTAATTCAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 13 0.46
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.40
Consensus pattern (18 bp):
ATAGCATTTAATATACTT
Found at i:111343801 original size:34 final size:33
Alignment explanation
Indices: 111343715--111343801 Score: 77
Period size: 34 Copynumber: 2.5 Consensus size: 33
111343705 GTAATGTGGC
* *
111343715 ATACTTATAATAGA-TCAATACGATAGCATTTAAT
1 ATACTTAT-ATA-ATTCAATACGATAACAATTAAT
** * *
111343749 ATACTTATAGCATATCAATACTATAACAATTATT
1 ATACTTATATAAT-TCAATACGATAACAATTAAT
111343783 ATACTTATATTAATTCAAT
1 ATACTTATA-TAATTCAAT
111343802 TCAGTAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
32 1 0.02
33 1 0.02
34 38 0.90
35 2 0.05
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.39
Consensus pattern (33 bp):
ATACTTATATAATTCAATACGATAACAATTAAT
Found at i:111348484 original size:21 final size:23
Alignment explanation
Indices: 111348448--111348493 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
111348438 AGATTGCAAG
111348448 ATATATGATAGAGTATATATTAT
1 ATATATGATAGAGTATATATTAT
* *
111348471 ATATAT-ATAG-GTATCTTTTAT
1 ATATATGATAGAGTATATATTAT
111348492 AT
1 AT
111348494 CCATTTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 4 0.19
23 6 0.29
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (23 bp):
ATATATGATAGAGTATATATTAT
Found at i:111349819 original size:23 final size:23
Alignment explanation
Indices: 111349790--111349845 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
111349780 TCACCTGAAT
111349790 ATAAAAAAAGTTTAGAGACTAAA
1 ATAAAAAAAGTTTAGAGACTAAA
111349813 ATAAAAAAAGTTTAGAGACTAAA
1 ATAAAAAAAGTTTAGAGACTAAA
111349836 ATCAAAAAAA
1 AT-AAAAAAA
111349846 TTATTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.78
24 7 0.22
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (23 bp):
ATAAAAAAAGTTTAGAGACTAAA
Found at i:111354508 original size:92 final size:92
Alignment explanation
Indices: 111354378--111354545 Score: 291
Period size: 92 Copynumber: 1.8 Consensus size: 92
111354368 GGTCCAAGTT
* *
111354378 CGATGAAGCGCATTATCCTCCTGCTTATAGATTAGGGAGGGGATATGGGTAATTCTAGGTATTGT
1 CGATGAAGCGCATTATCCTCCTACTTATAAATTAGGGAGGGGATATGGGTAATTCTAGGTATTGT
111354443 GTCAAAAAGAGGACATAGGTTCGAGTG
66 GTCAAAAAGAGGACATAGGTTCGAGTG
* * *
111354470 CGATGAAGCGCATTATCCTCCTACTTATAAATTGGGGAGGGGATATGGGTAGTTCTAGTTATTGT
1 CGATGAAGCGCATTATCCTCCTACTTATAAATTAGGGAGGGGATATGGGTAATTCTAGGTATTGT
111354535 GTCAAAAAGAG
66 GTCAAAAAGAG
111354546 CAGTTATGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (92 bp):
CGATGAAGCGCATTATCCTCCTACTTATAAATTAGGGAGGGGATATGGGTAATTCTAGGTATTGT
GTCAAAAAGAGGACATAGGTTCGAGTG
Found at i:111358722 original size:35 final size:35
Alignment explanation
Indices: 111358672--111358745 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
111358662 TTTTATAGTA
* *
111358672 TTGTTAATGTTTGTTTTAAGATTTATGTTCAAGAT
1 TTGTTAATGTCTGTTTTAAGATTTATGTTCAAGAC
* *
111358707 TTGTTGATGTCTGTTTTAAGATTTATGTTCGAGAC
1 TTGTTAATGTCTGTTTTAAGATTTATGTTCAAGAC
111358742 TTGT
1 TTGT
111358746 GGTTATCTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.53
Consensus pattern (35 bp):
TTGTTAATGTCTGTTTTAAGATTTATGTTCAAGAC
Found at i:111367797 original size:26 final size:26
Alignment explanation
Indices: 111367767--111367848 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
111367757 TGAAATTCCC
111367767 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
111367793 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111367819 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111367845 ATCA
1 ATCA
111367849 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:111371526 original size:15 final size:16
Alignment explanation
Indices: 111371506--111371546 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
111371496 TTATATTTTA
111371506 AATAATTTGA-TTAAT
1 AATAATTTGATTTAAT
111371521 AATAATTTGATTTAAT
1 AATAATTTGATTTAAT
* *
111371537 TATTATTTGA
1 AATAATTTGA
111371547 ATTGATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (16 bp):
AATAATTTGATTTAAT
Found at i:111379691 original size:40 final size:40
Alignment explanation
Indices: 111379636--111379716 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
111379626 TCGAGGAACT
111379636 TCTTGAACTTTGTGAACCCTGTTGGGTTCTTCTTAGAGTA
1 TCTTGAACTTTGTGAACCCTGTTGGGTTCTTCTTAGAGTA
111379676 TCTTGAACTTTGTGAACCCTGTTGGGTTCTTCTTAGAGTA
1 TCTTGAACTTTGTGAACCCTGTTGGGTTCTTCTTAGAGTA
111379716 T
1 T
111379717 GAGAGACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (40 bp):
TCTTGAACTTTGTGAACCCTGTTGGGTTCTTCTTAGAGTA
Found at i:111380503 original size:11 final size:11
Alignment explanation
Indices: 111380487--111380523 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
111380477 TTACAAAATT
111380487 AAAAATTCTAA
1 AAAAATTCTAA
*
111380498 AAAAATTC-AT
1 AAAAATTCTAA
111380508 AAAAATTCTAA
1 AAAAATTCTAA
111380519 AAAAA
1 AAAAA
111380524 AAATTAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTCTAA
Found at i:111380531 original size:21 final size:21
Alignment explanation
Indices: 111380481--111380531 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
111380471 CAACTATTAC
111380481 AAAATTAAAAATTCTAAAAAA
1 AAAATTAAAAATTCTAAAAAA
**
111380502 ATTCA-TAAAAATTCTAAAAAA
1 A-AAATTAAAAATTCTAAAAAA
111380523 AAAATTAAA
1 AAAATTAAA
111380532 GAAGAGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATTAAAAATTCTAAAAAA
Found at i:111385370 original size:31 final size:31
Alignment explanation
Indices: 111385281--111385371 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 31
111385271 GAGTGTAAAC
*
111385281 TTGTAAACTTACTAATAGTTGAGTGACC-AA
1 TTGTAAACTTACTAATAGTTGAGCGACCAAA
** * *
111385311 TT-TATAACTTTTTAA-AATTCAGCGACCAAA
1 TTGTA-AACTTACTAATAGTTGAGCGACCAAA
* *
111385341 TTGTAAACTTGCTAATAGTTGAGCAACCAAA
1 TTGTAAACTTACTAATAGTTGAGCGACCAAA
111385372 ATTTAAATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
29 11 0.23
30 22 0.47
31 14 0.30
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (31 bp):
TTGTAAACTTACTAATAGTTGAGCGACCAAA
Found at i:111386951 original size:18 final size:17
Alignment explanation
Indices: 111386908--111386953 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
111386898 CCGTTATGTC
111386908 CGCGACCGCGA-C-AAA
1 CGCGACCGCGACCGAAA
*
111386923 CGC-AACGCGACCGAAAA
1 CGCGACCGCGACCG-AAA
111386940 CGCGACCGCGACCG
1 CGCGACCGCGACCG
111386954 TAATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.24
15 4 0.16
17 6 0.24
18 9 0.36
ACGTcount: A:0.30, C:0.41, G:0.28, T:0.00
Consensus pattern (17 bp):
CGCGACCGCGACCGAAA
Found at i:111388998 original size:45 final size:48
Alignment explanation
Indices: 111388919--111389039 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 48
111388909 CTCAACCAGG
* * * *
111388919 ACACGAAGCACGACCTAATGTTTCTACTCCGTCCCC-T-T-CATCGAAA
1 ACACAAAGTACGACCCAATGCTTCTACTCCGTCCCCTTCTCCATC-AAA
* *
111388965 A-ACAAAGTACGACCCAATGCTTCTATTCTGTCCCCTTCTCCATCAAA
1 ACACAAAGTACGACCCAATGCTTCTACTCCGTCCCCTTCTCCATCAAA
* *
111389012 ACACAAAGTACAATCCAATGCTTCTACT
1 ACACAAAGTACGACCCAATGCTTCTACT
111389040 GCTTCTACTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
45 28 0.45
46 2 0.03
47 5 0.08
48 27 0.44
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.26
Consensus pattern (48 bp):
ACACAAAGTACGACCCAATGCTTCTACTCCGTCCCCTTCTCCATCAAA
Found at i:111393712 original size:23 final size:23
Alignment explanation
Indices: 111393652--111393712 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 23
111393642 ACTAAATTGA
* * *
111393652 AATAGAGTTAACATTTATTGTTT
1 AATAGAGTTAATATTTACTGTTC
* *
111393675 AAAAAAG-T-ATCATTTACTGTTC
1 AATAGAGTTAAT-ATTTACTGTTC
111393697 AATAGAGTTAATATTT
1 AATAGAGTTAATATTT
111393713 TTAAAATGGT
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
21 1 0.04
22 15 0.54
23 10 0.36
24 2 0.07
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (23 bp):
AATAGAGTTAATATTTACTGTTC
Found at i:111394025 original size:34 final size:34
Alignment explanation
Indices: 111393987--111394051 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
111393977 TAAAATATGA
*
111393987 ATATAAAT-TTAATTATAAACTATTATTATTCTAT
1 ATATAAATGTTAATAATAAAC-ATTATTATTCTAT
* *
111394021 ATATAAATGTTTATAATAATCATTATTATTC
1 ATATAAATGTTAATAATAAACATTATTATTC
111394052 AGCATAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (34 bp):
ATATAAATGTTAATAATAAACATTATTATTCTAT
Found at i:111400261 original size:16 final size:15
Alignment explanation
Indices: 111400240--111400287 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
111400230 GATGTGAATA
111400240 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
111400256 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
111400271 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
111400287 A
1 A
111400288 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:111400270 original size:8 final size:8
Alignment explanation
Indices: 111400236--111400287 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
111400226 CAATGATGTG
*
111400236 AATAATAA
1 AATATTAA
111400244 AATATATAA
1 AATAT-TAA
111400253 AATA-TAA
1 AATATTAA
111400260 AATATTAA
1 AATATTAA
*
111400268 AATATCAA
1 AATATTAA
*
111400276 AATATTAG
1 AATATTAA
111400284 AATA
1 AATA
111400288 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:111400287 original size:24 final size:24
Alignment explanation
Indices: 111400235--111400291 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
111400225 ACAATGATGT
*
111400235 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
111400259 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
111400283 GAATAATAA
1 GAATAATAA
111400292 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:111400465 original size:25 final size:25
Alignment explanation
Indices: 111400437--111400501 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
111400427 CGTGATAATA
*
111400437 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
111400462 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
111400485 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
111400502 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:111400651 original size:23 final size:25
Alignment explanation
Indices: 111400608--111400653 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
111400598 TATACCTAAT
111400608 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
111400633 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
111400654 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:111401176 original size:30 final size:30
Alignment explanation
Indices: 111401140--111401314 Score: 287
Period size: 30 Copynumber: 5.8 Consensus size: 30
111401130 TAGGTACAAG
* *
111401140 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
111401170 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
111401200 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
111401230 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
111401260 TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
111401290 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
111401315 TGAGAAAAGT
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 134 1.00
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:111401233 original size:60 final size:60
Alignment explanation
Indices: 111401140--111401314 Score: 323
Period size: 60 Copynumber: 2.9 Consensus size: 60
111401130 TAGGTACAAG
*
111401140 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
111401200 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
111401260 TGGTGGTGGAAAATGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
111401315 TGAGAAAAGT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 112 1.00
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:111402081 original size:14 final size:14
Alignment explanation
Indices: 111402062--111402111 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
111402052 GAGTTGATTT
* *
111402062 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
111402076 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
111402091 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
111402105 TT-AAAAA
1 TTGAAAAA
111402112 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:111402269 original size:73 final size:74
Alignment explanation
Indices: 111402091--111402328 Score: 300
Period size: 74 Copynumber: 3.2 Consensus size: 74
111402081 AAAACAGAAA
* * ** *
111402091 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
111402156 GAGTT-AATTT
64 GAGTTGATTTT
* * * * *
111402166 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCG-GGCTCAACTCACCTTTCGAAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
111402230 GTTGATTTT
66 GTTGATTTT
* *
111402239 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
111402304 GTTGATTTT
66 GTTGATTTT
* **
111402313 TTTACGAACAGAAATT
1 TTGAAAAACAGAAATT
111402329 GAAGAACAGA
Statistics
Matches: 140, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
72 26 0.19
73 44 0.31
74 45 0.32
75 25 0.18
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (74 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:111402337 original size:14 final size:14
Alignment explanation
Indices: 111402318--111402345 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
111402308 ATTTTTTTAC
111402318 GAACAGAAATTGAA
1 GAACAGAAATTGAA
111402332 GAACAGAAATTGAA
1 GAACAGAAATTGAA
111402346 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:111402479 original size:14 final size:14
Alignment explanation
Indices: 111402460--111402509 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
111402450 GAGTTGATTT
* *
111402460 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
111402474 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
111402489 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
111402503 TT-AAAAA
1 TTGAAAAA
111402510 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:111402512 original size:162 final size:172
Alignment explanation
Indices: 111402319--111402843 Score: 556
Period size: 180 Copynumber: 3.0 Consensus size: 172
111402309 TTTTTTTACG
* * *
111402319 AACAGAAATTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTC
1 AACAGAAATTGAA-AAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTC
* * *
111402383 TCGCAA-A-AG-TAGA-TTTTG-A-AAA-T-ACCT-CGACA-TGTGAACCCAAGGCTCAACTCAC
65 TCGCAATAGAGTTA-ATTTTTGAAGAAATTAAACTACCACAGCGTG-ACCCAAGGCTCAACTCAC
111402438 ATCTCGCAATATGAGTTGA-TTTTTG-AAAAATATAAATTGAAAA
128 ATCTCGCAATATGAGTTGATTTTTTGAAAAAATATAAATTGAAAA
111402481 AACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCT
1 AACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCT
* * * *
111402546 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
66 CGCAATA-GAGTTAATTTTTG----A-AGAAATT-AAACTACCACAGCGTGACCCAAGGCTCAAC
* *
111402611 TCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAAATATAAATTGAAAA
124 TCACATCTCGCAATATGAGTTGA-TTTTTTGAAAAAATATAAATTGAAAA
*
111402661 AACAGAAATTGAAAAGCAGAAATTAAAAAGACCTTAGCATGTGAGCCGAGACTCAACTCACCTCT
1 AACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCT
* * * * * *
111402726 CACAATATGAGTTGATTTTTTTGACAAACAGACATTGAAAAATACCTCAGCGTGTAAGCCAAGGC
66 CGCAATA-GAGTT-A-ATTTTTG----A-AGAAATT--AAACTACCACAGCGTG--ACCCAAGGC
* *
111402791 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAATAGAAATTGAAAA
119 TCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAAATATAAATTGAAAA
111402844 CACCTCAGCA
Statistics
Matches: 314, Mismatches: 23, Indels: 31
0.85 0.06 0.08
Matches are distributed among these distances:
161 2 0.01
162 64 0.20
163 1 0.00
165 3 0.01
166 7 0.02
172 1 0.00
173 3 0.01
174 1 0.00
176 2 0.01
177 36 0.11
178 3 0.01
179 6 0.02
180 94 0.30
181 1 0.00
182 18 0.06
183 32 0.10
184 7 0.02
185 33 0.11
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (172 bp):
AACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCT
CGCAATAGAGTTAATTTTTGAAGAAATTAAACTACCACAGCGTGACCCAAGGCTCAACTCACATC
TCGCAATATGAGTTGATTTTTTGAAAAAATATAAATTGAAAA
Found at i:111402659 original size:15 final size:15
Alignment explanation
Indices: 111402639--111402689 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
111402629 GTTGATTTTT
* *
111402639 TTGAAAAAATATAAA
1 TTGAAAAAACAGAAA
111402654 TTGAAAAAACAGAAA
1 TTGAAAAAACAGAAA
*
111402669 TTG-AAAAGCAGAAA
1 TTGAAAAAACAGAAA
111402683 TT-AAAAA
1 TTGAAAAA
111402690 GACCTTAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 16 0.50
15 16 0.50
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (15 bp):
TTGAAAAAACAGAAA
Found at i:111402724 original size:180 final size:182
Alignment explanation
Indices: 111402420--111402843 Score: 696
Period size: 180 Copynumber: 2.3 Consensus size: 182
111402410 CGACATGTGA
*
111402420 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAAAC
1 ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAAAAC
*
111402484 AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGC
66 AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCAC
*
111402549 AATATGAGTT-A-ATTTTTGACAAACAGAAATTG-AAATTACCTCAGCGTGT
131 AATATGAGTTGATATTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT
* *
111402598 -CCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAAATATAAATTGAAAAA
1 ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAATATAAATTGAAAAA
*
111402662 ACAGAAATTGAAAAGCAGAAATTAAAAAGACCTTAGCATGTGAGCCGAGACTCAACTCACCTCTC
64 ACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTC
* *
111402727 ACAATATGAGTTGATTTTTTTGACAAACAGACATTGAAAAATACCTCAGCGTGT
129 ACAATATGAGTTGATATTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT
* *
111402781 AAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAA
1 -ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAA
111402844 CACCTCAGCA
Statistics
Matches: 226, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
177 33 0.15
179 6 0.03
180 94 0.42
181 1 0.00
182 19 0.08
183 33 0.15
184 7 0.03
185 33 0.15
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (182 bp):
ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAAAAC
AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCAC
AATATGAGTTGATATTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT
Found at i:111402802 original size:78 final size:75
Alignment explanation
Indices: 111402669--111402910 Score: 266
Period size: 78 Copynumber: 3.2 Consensus size: 75
111402659 AAAACAGAAA
* * * *
111402669 TTGAAAAGCAGAAATT-AAAAAGACCTTAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATA
1 TTGAAAA-CAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
111402733 TGAGTTGATTTTT
63 TGAGTTGATTTTT
* * *
111402746 TTGACAAACAGACATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGA-AAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
111402811 TGAGTTGA-TTTT
63 TGAGTTGATTTTT
* *
111402823 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGCAACATG
1 TTG-AAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
111402884 AGTTGA--TTT
65 AGTTGATTTTT
*
111402893 TTGAAAAACATAAATTGA
1 TTG-AAAACAGAAATTGA
111402911 GCAGAAATTG
Statistics
Matches: 146, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
70 18 0.12
71 31 0.21
74 1 0.01
76 15 0.10
77 28 0.19
78 53 0.36
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (75 bp):
TTGAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:111402868 original size:71 final size:73
Alignment explanation
Indices: 111402712--111403074 Score: 285
Period size: 71 Copynumber: 4.8 Consensus size: 73
111402702 TGAGCCGAGA
* * * *
111402712 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAAACAGACATTGAAAAATACCTC-A-
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAGAAATTG-AAAATACCTCAAC
*
111402775 GCGTGTAAGCCAAGG
64 GCATGT--G---AGG
*
111402790 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTC-A-GC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAATACCTCAACGC
111402853 ATGTGAGG
66 ATGTGAGG
*
111402861 CTCAACTCACCTCTCGCAACATGAGTTGA-TTTTTGAAAAACATAAATTGAGCAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG----A-A-AAA-T----AGAAATTGAAAA
** *
111402925 TACCTCAACGGGTCTTGAGG
55 TACCTCAACGCAT-GTGAGG
* ** *
111402945 TTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGAT--AAATTGAAAATACCTCAATGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAATACCTCAACG-
*
111403007 GACT-TGAGG
65 CA-TGTGAGG
* * *
111403016 TTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-A--AAAATAGAAATTGAAAATA
111403075 GAAATGGAAA
Statistics
Matches: 241, Mismatches: 21, Indels: 47
0.78 0.07 0.15
Matches are distributed among these distances:
70 6 0.02
71 90 0.37
72 1 0.00
73 1 0.00
74 2 0.01
75 3 0.01
76 18 0.07
77 32 0.13
78 29 0.12
79 1 0.00
81 17 0.07
82 1 0.00
83 2 0.01
84 32 0.13
85 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (73 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAATACCTCAACGC
ATGTGAGG
Found at i:111402974 original size:155 final size:158
Alignment explanation
Indices: 111402791--111403158 Score: 448
Period size: 155 Copynumber: 2.3 Consensus size: 158
111402781 AAGCCAAGGC
111402791 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTC-A-G-C
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAT--AAATTGAAAACACCTCAATGTC
* * *
111402853 A-TGTGAGGCTCAACTCACCTCTCGCAACATGAGTTGA-TTTTTG-A-AAAACATAAATTG-AGC
64 ACT-TGAGGCTCAACTCACCTCTCACAACATGAGTTGATTTTTTGAATAAAACAGAAATTGAAAC
* * *
111402913 AGAAATTGAAAATACCTCAACGGGTCTTGAGGT
128 AGAAATGGAAAACACCTC-A-GCGTCTTGAGGT
** * *
111402946 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGATAAATTGAAAATACCTCAATGTGAC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATGTCAC
* * *
111403010 TTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATA
66 TTGAGGCTCAACTCACCTCTCACAACATGAGTTGATTTTTTGAA-TAAAACAGAAATTG-AAACA
111403075 GAAATGGAAAACACCTCAGCGTCTTGAGGT
129 GAAATGGAAAACACCTCAGCGTCTTGAGGT
* *
111403105 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-A-ATAAATTGAAAA
111403159 AAAAGGAATT
Statistics
Matches: 182, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
152 15 0.08
153 1 0.01
154 4 0.02
155 67 0.37
156 7 0.04
157 1 0.01
159 50 0.27
160 8 0.04
161 18 0.10
163 11 0.06
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (158 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATGTCAC
TTGAGGCTCAACTCACCTCTCACAACATGAGTTGATTTTTTGAATAAAACAGAAATTGAAACAGA
AATGGAAAACACCTCAGCGTCTTGAGGT
Found at i:111403293 original size:75 final size:74
Alignment explanation
Indices: 111403202--111403485 Score: 351
Period size: 77 Copynumber: 3.8 Consensus size: 74
111403192 CGACGTGTGG
* *
111403202 CCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAA-CAAAAATTGAAAATAC
111403267 CTCAGCGTGT
65 CTCAGCGTGT
* *
111403277 CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGATAAAA-ATAGAATTTGAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-A-AAAACA-A-AAATTGAAAA
*
111403341 TATCTCAGCGTGT
62 TACCTCAGCGTGT
* * * *
111403354 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTGAAAATACC
111403418 TCAGC--GT
66 TCAGCGTGT
** * ** * *
111403425 CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTGAAAA
111403486 AACGAAAATT
Statistics
Matches: 183, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
71 36 0.20
72 18 0.10
73 16 0.09
74 4 0.02
75 43 0.23
76 7 0.04
77 59 0.32
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (74 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTGAAAATACC
TCAGCGTGT
Found at i:111403431 original size:416 final size:416
Alignment explanation
Indices: 111402790--111403545 Score: 1003
Period size: 416 Copynumber: 1.8 Consensus size: 416
111402780 TAAGCCAAGG
* *
111402790 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
*
111402855 GTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATT
66 GTGAGGCTCAACTCACCTCTCACAACATGAGTTGATTTTTGAAAAACATAAATT--G-AGAAATT
* * **
111402920 GAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGA
128 GAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACA
* * *
111402985 TAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTT
193 AAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
* * * *
111403050 TGAATTAAAACAGAAATTGAAAATA-G-AAATGGAAAACACCTCAGC-GTCTTGAGGTTCAACTC
258 T---TTAAAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCGGTCCTGAGGCTCAACTC
111403112 ACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGGAATTAAAAATAG
320 ACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGGAATTAAAAATAG
111403177 AATTTGAAAGGACCTCGACGTGTGGCCCGAGA
385 AATTTGAAAGGACCTCGACGTGTGGCCCGAGA
*
111403209 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT-AAAAAGCAAAAATTGAAAATACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAA-CAAAAATTGAAAACACCTCAGC
* * *** * *
111403273 GTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGATA-A-AAA-T-AGAAT
64 ATGT---GAGGCTCAACTCACCTCTCACAACATGAGTTGATTTTTGAAAAACATAAATTGAGAAA
* * *
111403334 TTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAC
126 TTGAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--
* * * *
111403398 AAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
189 -AACAAAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
* * * *
111403461 TTTTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
253 TTTTTTTTAAAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCG-GTCCTGAGGCTCAA
111403526 CTCACCTCTCGCAATATGAG
317 CTCACCTCTCGCAATATGAG
111403546 TTGAAATTAA
Statistics
Matches: 292, Mismatches: 33, Indels: 26
0.83 0.09 0.07
Matches are distributed among these distances:
413 17 0.06
414 1 0.00
415 23 0.08
416 96 0.33
417 33 0.11
418 17 0.06
419 36 0.12
420 27 0.09
421 3 0.01
422 1 0.00
423 38 0.13
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (416 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCACCTCTCACAACATGAGTTGATTTTTGAAAAACATAAATTGAGAAATTGAA
AATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAA
ATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTT
AAAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCGGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGGAATTAAAAATAGAATTTG
AAAGGACCTCGACGTGTGGCCCGAGA
Found at i:111403594 original size:72 final size:73
Alignment explanation
Indices: 111403476--111403617 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
111403466 TTTGAAACAT
* * *
111403476 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
111403541 ATGAGTTG
66 ATGAGTTG
* * *
111403549 AAATT-AAAACACAAAAATTGAAAATATCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
111403613 ATGAG
66 ATGAG
111403618 CTGATTTTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 58 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:111403644 original size:160 final size:157
Alignment explanation
Indices: 111403209--111403631 Score: 483
Period size: 160 Copynumber: 2.7 Consensus size: 157
111403199 TGGCCCGAGA
** *
111403209 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TAATTGAAAAA-CAAAAATTGAAAATACCTCAGC-
* * ** *
111403274 TGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT------TTGA-TAAAAATA-G
63 -GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAATAAATTAAAAAAACG
* *
111403331 -AATTTGAAAATATCTCAGCGTGTCCTGAGG
127 AAAATTGAAAATACCTCAGCGTGTCCTGAGG
** * *
111403361 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTC
** * * *
111403426 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAACGA
66 CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAAAAATAAATTAAAAAAACGA
111403491 AAATTGAAAATACCTCAGCGTGTCCTGAGG
128 AAATTGAAAATACCTCAGCGTGTCCTGAGG
*
111403521 CTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATATCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGT
*
111403584 GCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAAAAA
65 --CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA
111403632 GTAGAAATTA
Statistics
Matches: 232, Mismatches: 24, Indels: 25
0.83 0.09 0.09
Matches are distributed among these distances:
148 34 0.15
150 21 0.09
151 13 0.06
152 29 0.12
157 11 0.05
158 10 0.04
159 26 0.11
160 57 0.25
161 31 0.13
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (157 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTC
CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAATAAATTAAAAAAACGAAAA
TTGAAAATACCTCAGCGTGTCCTGAGG
Found at i:111403859 original size:78 final size:76
Alignment explanation
Indices: 111403771--111404110 Score: 449
Period size: 72 Copynumber: 4.5 Consensus size: 76
111403761 AGTGTGTAAT
*
111403771 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
*
111403836 CTCAGCATGTGAAC
66 CTCAGC--GTG-TC
* * *
111403850 C-AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
*
111403914 CTCAACGTGTC
66 CTCAGCGTGTC
* ** * * * *
111403925 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA----ATTTTGAAAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
111403986 CTCAGCGTGTC
66 CTCAGCGTGTC
** * *
111403997 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
111404061 CTCAGCGTGTC
66 CTCAGCGTGTC
*
111404072 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
111404111 GAAAAACAAA
Statistics
Matches: 235, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
72 67 0.29
75 67 0.29
76 36 0.15
78 64 0.27
79 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
CTCAGCGTGTC
Found at i:111404075 original size:75 final size:74
Alignment explanation
Indices: 111403771--111404110 Score: 443
Period size: 75 Copynumber: 4.5 Consensus size: 74
111403761 AGTGTGTAAT
*
111403771 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT-AAAACAGAAATTGAAAATAC
*
111403836 CTCAGCATGTGAAC
64 CTCAGC--GTG-TC
* *
111403850 C-AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT-AAAACAGAAATTGAAAATAC
*
111403914 CTCAACGTGTC
64 CTCAGCGTGTC
* ** * * * *
111403925 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCT
111403988 CAGCGTGTC
66 CAGCGTGTC
** *
111403997 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATTGAAAATACC
111404062 TCAGCGTGTC
65 TCAGCGTGTC
*
111404072 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
111404111 GAAAAACAAA
Statistics
Matches: 236, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
72 62 0.26
73 4 0.02
74 6 0.03
75 66 0.28
76 33 0.14
78 64 0.27
79 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:111404077 original size:147 final size:148
Alignment explanation
Indices: 111403771--111404128 Score: 429
Period size: 147 Copynumber: 2.4 Consensus size: 148
111403761 AGTGTGTAAT
* * * *
111403771 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA-----TTTTGAAAACAGAAATTGAAAATAC
111403836 CTCAGCATGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAG
61 CTCAGCA-GTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAG
111403901 AAATTGAAAATACCTCAACGTGTC
125 AAATTGAAAATACCTCAACGTGTC
* ** * *
111403925 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTG-ATTTTGAAAACAGAAATTGAAAATACCTCA
* * ** *
111403990 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTT-AACAACAGAAA
65 GCAGTGAACC-AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAA-AACAGAAA
* *
111404051 TTGAAATTACCTCAGCGTGTC
128 TTGAAAATACCTCAACGTGTC
* *
111404072 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTG-AAAACAGAAATTGAAAA
111404129 GGCTTAACTC
Statistics
Matches: 179, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
146 11 0.06
147 77 0.43
148 32 0.18
150 29 0.16
154 29 0.16
155 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (148 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAG
CAGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTG
AAAATACCTCAACGTGTC
Found at i:111404275 original size:70 final size:70
Alignment explanation
Indices: 111404128--111404302 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
111404118 AAAAATTAAA
* * * * * *
111404128 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAGCGTG
111404192 CCCCG
66 CCCCG
* *
111404197 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCATCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAGCGT
* **
111404261 GTCTTG
65 GCCCCG
111404267 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
111404303 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAGCGTG
CCCCG
Found at i:111412624 original size:16 final size:15
Alignment explanation
Indices: 111412603--111412650 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
111412593 GATGTGAATA
111412603 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
111412619 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
111412634 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
111412650 A
1 A
111412651 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:111412633 original size:8 final size:8
Alignment explanation
Indices: 111412599--111412650 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
111412589 CAATGATGTG
*
111412599 AATAATAA
1 AATATTAA
111412607 AATATATAA
1 AATAT-TAA
111412616 AATA-TAA
1 AATATTAA
111412623 AATATTAA
1 AATATTAA
*
111412631 AATATCAA
1 AATATTAA
*
111412639 AATATTAG
1 AATATTAA
111412647 AATA
1 AATA
111412651 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:111412650 original size:24 final size:24
Alignment explanation
Indices: 111412598--111412654 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
111412588 ACAATGATGT
*
111412598 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
111412622 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
111412646 GAATAATAA
1 GAATAATAA
111412655 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:111412829 original size:25 final size:25
Alignment explanation
Indices: 111412801--111412865 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
111412791 CGTGATAATA
*
111412801 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
111412826 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
111412849 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
111412866 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:111412916 original size:25 final size:25
Alignment explanation
Indices: 111412888--111413019 Score: 84
Period size: 25 Copynumber: 5.6 Consensus size: 25
111412878 AAAAATATAT
111412888 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * *
111412913 ATATATAAATAAAATAGTA-TAATAT
1 ATATATAAATAATATAATATTAA-AG
** *
111412938 ATATATACGTAATATAGA-ATTTAA-
1 ATATATAAATAATATA-ATATTAAAG
** *
111412962 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
111412984 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
111413007 AAATAT-AATAATA
1 ATATATAAATAATA
111413020 ACAAAAAAGG
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.29
24 9 0.11
25 33 0.39
26 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:111426154 original size:11 final size:11
Alignment explanation
Indices: 111426138--111426168 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
111426128 ATACCCATAC
111426138 CCCATACCTTG
1 CCCATACCTTG
*
111426149 CCCATACCTTT
1 CCCATACCTTG
111426160 CCCATACCT
1 CCCATACCT
111426169 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:111426742 original size:18 final size:18
Alignment explanation
Indices: 111426715--111426807 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
111426705 TACGACCGTT
111426715 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
111426733 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
111426751 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
111426769 TATGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
111426787 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
111426805 TAC
1 TAC
111426808 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:111430877 original size:11 final size:11
Alignment explanation
Indices: 111430861--111430891 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
111430851 ATACCCATAC
111430861 CCCATACCTTG
1 CCCATACCTTG
*
111430872 CCCATACCTTT
1 CCCATACCTTG
111430883 CCCATACCT
1 CCCATACCT
111430892 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Done.