Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 107 of 109
Found at i:34477865 original size:22 final size:22
Alignment explanation
Indices: 34477817--34477873 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
34477807 AAATTTTTTA
* **
34477817 AATTTTTAAAATACTTTTTTTT
1 AATTTTTAAAATAATTTTTGGT
34477839 AATTTTTAAAATAAATTTTTGGT
1 AATTTTTAAAAT-AATTTTTGGT
*
34477862 ATTTTATTAAAA
1 AATTT-TTAAAA
34477874 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.41
23 11 0.38
24 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
AATTTTTAAAATAATTTTTGGT
Found at i:34481064 original size:11 final size:11
Alignment explanation
Indices: 34481048--34481076 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
34481038 AATATTTTAG
34481048 TTTTTTTAAAT
1 TTTTTTTAAAT
34481059 TTTTTTTAAAT
1 TTTTTTTAAAT
34481070 TTTTTTT
1 TTTTTTT
34481077 GGCAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:34482841 original size:6 final size:6
Alignment explanation
Indices: 34482830--34482910 Score: 54
Period size: 6 Copynumber: 13.5 Consensus size: 6
34482820 TAGAGATAGT
* * * * * * *
34482830 AGATGA AGATGA AGATGA TGATGT GGACGA GGACGA GGATGA AGATGA
1 AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA
* * * * *
34482878 AGATGA CGATGA CGATGA TGAGGA TGATGA AGA
1 AGATGA AGATGA AGATGA AGATGA AGATGA AGA
34482911 AAGTAAGACC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.40, C:0.05, G:0.38, T:0.17
Consensus pattern (6 bp):
AGATGA
Found at i:34482885 original size:27 final size:29
Alignment explanation
Indices: 34482837--34482904 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
34482827 AGTAGATGAA
*
34482837 GATGAAGATGATGATGTGGACGAGGACGAG
1 GATGAAGATGAAGA-GTGGACGAGGACGAG
* *
34482867 GATGAAGATGAAGA-T-GACGATGACGAT
1 GATGAAGATGAAGAGTGGACGAGGACGAG
*
34482894 GATGAGGATGA
1 GATGAAGATGA
34482905 TGAAGAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.59
28 1 0.03
30 13 0.38
ACGTcount: A:0.37, C:0.06, G:0.40, T:0.18
Consensus pattern (29 bp):
GATGAAGATGAAGAGTGGACGAGGACGAG
Found at i:34482907 original size:36 final size:36
Alignment explanation
Indices: 34482831--34482910 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
34482821 AGAGATAGTA
* **
34482831 GATGAAGATGAAGATGATGATGTGGACGAGGACGAG
1 GATGAAGATGAAGATGACGATGACGACGAGGACGAG
* * * *
34482867 GATGAAGATGAAGATGACGATGACGATGATGAGGAT
1 GATGAAGATGAAGATGACGATGACGACGAGGACGAG
34482903 GATGAAGA
1 GATGAAGA
34482911 AAGTAAGACC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.05, G:0.39, T:0.17
Consensus pattern (36 bp):
GATGAAGATGAAGATGACGATGACGACGAGGACGAG
Found at i:34484520 original size:113 final size:112
Alignment explanation
Indices: 34484403--34484732 Score: 526
Period size: 113 Copynumber: 3.0 Consensus size: 112
34484393 AAAAAAAAAA
*
34484403 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAATTTTTTTATTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAATTTTTTATTTTTTTT
* *
34484468 CGTGTCAGAATTAGATAAAAAAATACGAAAAAAAATTTTAAAAATTTT
66 CGTGTCAGAATCAGATAAAAAAATACGAAAAAAAA-ATTAAAAATTTT
* * *
34484516 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATAGACAGTACAAAAAAATTTTTA-TTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AAAAATTTTTTATTTTTTT
*
34484580 TCGTGTCAGAATCAGATAAAAAAATGCGAAAAAAAAATTAAAAATTTT
65 TCGTGTCAGAATCAGATAAAAAAATACGAAAAAAAAATTAAAAATTTT
*
34484628 TTTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTACACAG-A-AAAAATTTTTTATTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAATTTTTTA-TTTTTTT
34484691 TCGTGTCAGAATCAGATAAAAAAATACG--AAAAAAATTAAAAA
65 TCGTGTCAGAATCAGATAAAAAAATACGAAAAAAAAATTAAAAA
34484733 AAAATTTTGG
Statistics
Matches: 202, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
109 25 0.12
111 34 0.17
112 50 0.25
113 83 0.41
114 10 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (112 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAATTTTTTATTTTTTTT
CGTGTCAGAATCAGATAAAAAAATACGAAAAAAAAATTAAAAATTTT
Found at i:34484848 original size:109 final size:108
Alignment explanation
Indices: 34484748--34485020 Score: 408
Period size: 109 Copynumber: 2.5 Consensus size: 108
34484738 TTTGGGGTGC
*
34484748 TTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTGTACTGTGTACTAGGTGCCGGCC
1 TTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTGTACTGTGTACT-GGTGCCAGCC
34484813 ATTGACAGGCCAGCACCCAAA-AATTTTTTTTAATTTTTTTCGTA
65 ATTGACAGGCCAGCACCCAAATAATTTTTTTTAA-TTTTTTCGTA
* *
34484857 TTTTTTTATCTGATTCTGACACG-AAAAAAATAATTTTTTCTTTGTACTGCGTACTGGTGCCAGC
1 TTTTTTTATCTGATTCTGACACGAAAAAAAATAA-ATTTT-TTTGTACTGTGTACTGGTGCCAGC
** *
34484921 CATTGACAGGCCAGCACCCAAATTTTTTTTTTTATTTTTTTCGTA
64 CATTGACAGGCCAGCACCCAAATAATTTTTTTTAATTTTTTCGTA
* *
34484966 TTTTTTTATCTGATTCAGACACGAAAAAAAATAAAATTTTTTT-TTCTGTGTACTG
1 TTTTTTTATCTGATTCTGACACGAAAAAAAAT-AAATTTTTTTGTACTGTGTACTG
34485021 TGTACTGGGT
Statistics
Matches: 149, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
108 20 0.13
109 92 0.62
110 35 0.23
111 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (108 bp):
TTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTGTACTGTGTACTGGTGCCAGCCA
TTGACAGGCCAGCACCCAAATAATTTTTTTTAATTTTTTCGTA
Found at i:34486214 original size:11 final size:10
Alignment explanation
Indices: 34486191--34486223 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
34486181 TTTGAGTAAA
34486191 TAAATTAATT
1 TAAATTAATT
34486201 TAAATTATATT
1 TAAATTA-ATT
34486212 TAAA-TAATT
1 TAAATTAATT
34486221 TAA
1 TAA
34486224 TATAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 9 0.41
11 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAAATTAATT
Found at i:34486215 original size:25 final size:25
Alignment explanation
Indices: 34486187--34486241 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
34486177 TGAATTTGAG
*
34486187 TAAATAAATTAATTTAAATTATATT-
1 TAAATAAATTAATATAAATTAT-TTA
*
34486212 TAAATAATTTAATATAAATTATTTA
1 TAAATAAATTAATATAAATTATTTA
34486237 TAAAT
1 TAAAT
34486242 TTAATGATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATAAATTAATATAAATTATTTA
Found at i:34486902 original size:20 final size:18
Alignment explanation
Indices: 34486877--34486931 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 18
34486867 AAATTTACTT
34486877 ATAATTTGTATATTTTTTAA
1 ATAATTT-TA-ATTTTTTAA
34486897 ATAATTTTAATTTTTTAA
1 ATAATTTTAATTTTTTAA
*
34486915 AT--TTTTAATATTTTAA
1 ATAATTTTAATTTTTTAA
34486931 A
1 A
34486932 AAGTTAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 14 0.41
18 11 0.32
19 2 0.06
20 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATAATTTTAATTTTTTAA
Found at i:34487173 original size:17 final size:17
Alignment explanation
Indices: 34487142--34487175 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34487132 AATGATATTT
**
34487142 AAATAATTTTTTATAAA
1 AAATAATTTAATATAAA
34487159 AAATAATTTAATATAAA
1 AAATAATTTAATATAAA
34487176 TTTTAAATAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAATTTAATATAAA
Found at i:34492951 original size:16 final size:16
Alignment explanation
Indices: 34492922--34492963 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
34492912 ATCTGAGCTA
34492922 AAAATTAACCTAAACTC
1 AAAA-TAACCTAAACTC
*
34492939 AAAATAACTTAAACTC
1 AAAATAACCTAAACTC
*
34492955 AAATTAACC
1 AAAATAACC
34492964 CGATCCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAACCTAAACTC
Found at i:34497506 original size:82 final size:84
Alignment explanation
Indices: 34497415--34497581 Score: 302
Period size: 82 Copynumber: 2.0 Consensus size: 84
34497405 AATATAAAAT
34497415 ATCATTATTAGATTAAATAAAAAATGAAGGACTTGTAAATAAATATTAATAAATTTATTTAAAC-
1 ATCATTATTAGATTAAATAAAAAATGAAGGACTTGTAAATAAATATTAATAAATTTATTTAAACA
* *
34497479 TTATTTAGC-TTAATTATA
66 TAATTAAGCATTAATTATA
34497497 ATCATTATTAGATTAAATAAAAAATGAAGGACTTGTAAATAAATATTAATAAATTTATTTAAACA
1 ATCATTATTAGATTAAATAAAAAATGAAGGACTTGTAAATAAATATTAATAAATTTATTTAAACA
34497562 TAATTAAGCATTAATTATA
66 TAATTAAGCATTAATTATA
34497581 A
1 A
34497582 CTATTATAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
82 64 0.79
83 7 0.09
84 10 0.12
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (84 bp):
ATCATTATTAGATTAAATAAAAAATGAAGGACTTGTAAATAAATATTAATAAATTTATTTAAACA
TAATTAAGCATTAATTATA
Found at i:34498952 original size:14 final size:14
Alignment explanation
Indices: 34498933--34498968 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
34498923 TCAAATGACT
34498933 AAATAATAAATAAA
1 AAATAATAAATAAA
* *
34498947 AAATAAAAAATTAA
1 AAATAATAAATAAA
34498961 AAATAATA
1 AAATAATA
34498969 TGTTTGAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAATAAATAAA
Found at i:34506108 original size:26 final size:28
Alignment explanation
Indices: 34506073--34506125 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
34506063 TAACAGTTAC
*
34506073 AAAATAGAATTAA-ATCAATATAAAACA
1 AAAATAGAATTAAGAACAATATAAAACA
*
34506100 AAAAT-GAATTAAGAACATTATAAAAC
1 AAAATAGAATTAAGAACAATATAAAAC
34506126 TTACCTACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (28 bp):
AAAATAGAATTAAGAACAATATAAAACA
Found at i:34513648 original size:1 final size:1
Alignment explanation
Indices: 34513642--34513695 Score: 108
Period size: 1 Copynumber: 54.0 Consensus size: 1
34513632 TTCTAATGGC
34513642 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34513696 CATGTGGAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:34515917 original size:3 final size:3
Alignment explanation
Indices: 34515909--34515941 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34515899 GTCTAGAAGG
34515909 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34515942 AAAAGACCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:34523183 original size:60 final size:60
Alignment explanation
Indices: 34523064--34523185 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
34523054 TATATATAAA
* * * * **
34523064 TTTATATTTTAGCCACTCAACTTCAAAAAATTACAAAATAATTATTAAATTATTCGAAAG
1 TTTATATTTTAACCACTCAACTTCAAAAAATTACAAAACAATGACTAAACAATTCGAAAG
* * * * *
34523124 TTTATATTTTAATCGCTCAACTTCAAAAAGTTACAAAACGATGACTAAACAATTTGAAAG
1 TTTATATTTTAACCACTCAACTTCAAAAAATTACAAAACAATGACTAAACAATTCGAAAG
34523184 TT
1 TT
34523186 CTCATTCAAG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (60 bp):
TTTATATTTTAACCACTCAACTTCAAAAAATTACAAAACAATGACTAAACAATTCGAAAG
Found at i:34537682 original size:27 final size:28
Alignment explanation
Indices: 34537632--34537687 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
34537622 CTTGTAGAAA
34537632 AACTAAATTTCTAAAAATAAAAAAAATT
1 AACTAAATTTCTAAAAATAAAAAAAATT
**
34537660 AACTAAA-TTCTAAATTTATAAAAAAATT
1 AACTAAATTTCTAAAAATA-AAAAAAATT
34537688 TAAATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (28 bp):
AACTAAATTTCTAAAAATAAAAAAAATT
Found at i:34537883 original size:243 final size:244
Alignment explanation
Indices: 34537455--34537943 Score: 971
Period size: 243 Copynumber: 2.0 Consensus size: 244
34537445 TTAGTTTTTG
34537455 TATTTTTATTTTAAGTAATTCGGGGTTTTTTTTTACCTTTCAGAATAAAAATATAAATTCAATCG
1 TATTTTTATTTTAAGTAATTCGGGGTTTTTTTTTACCTTTCAGAATAAAAATATAAATTCAATCG
34537520 TTAACATTGTTAAAATTGTTTTGTTAAATTTAGATTCATTATCACGCCATTTTTTCAATTACATA
66 TTAACATTGTTAAAATTGTTTTGTTAAATTTAGATTCATTATCACGCCATTTTTTCAATTACATA
34537585 GCTATCAAGTGAAGTTTTTTTTTTAATTTCAATTAAACTTGTAGAAAAACTAAATTTCTAAAAAT
131 GCTATCAAGTGAAGTTTTTTTTTTAATTTCAATTAAACTTGTAGAAAAACTAAATTTCTAAAAAT
34537650 AAAAAAAATTAACTAAATTCTAAATTTATAAAAAAATT-TAAATATTTA
196 AAAAAAAATTAACTAAATTCTAAATTTATAAAAAAATTATAAATATTTA
34537698 TATTTTTATTTTAAGTAATTCGGGGTTTTTTTTTACCTTTCAGAATAAAAATATAAATTCAATCG
1 TATTTTTATTTTAAGTAATTCGGGGTTTTTTTTTACCTTTCAGAATAAAAATATAAATTCAATCG
34537763 TTAACATTGTTAAAATTGTTTTGTTAAATTTAGATTCATTATCACGCCATTTTTTCAATTACATA
66 TTAACATTGTTAAAATTGTTTTGTTAAATTTAGATTCATTATCACGCCATTTTTTCAATTACATA
34537828 GCTATCAAGTGAAGTTTTTTTTTTAATTTCAATTAAACTTGTAGAAAAACTAAATTTCTAAAAAT
131 GCTATCAAGTGAAGTTTTTTTTTTAATTTCAATTAAACTTGTAGAAAAACTAAATTTCTAAAAAT
34537893 AAAAAAAATTAACTAAATTCTAAATTTATAAAAAAATTATAAATATTTA
196 AAAAAAAATTAACTAAATTCTAAATTTATAAAAAAATTATAAATATTTA
34537942 TA
1 TA
34537944 ACATATTTTA
Statistics
Matches: 245, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
243 233 0.95
244 12 0.05
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (244 bp):
TATTTTTATTTTAAGTAATTCGGGGTTTTTTTTTACCTTTCAGAATAAAAATATAAATTCAATCG
TTAACATTGTTAAAATTGTTTTGTTAAATTTAGATTCATTATCACGCCATTTTTTCAATTACATA
GCTATCAAGTGAAGTTTTTTTTTTAATTTCAATTAAACTTGTAGAAAAACTAAATTTCTAAAAAT
AAAAAAAATTAACTAAATTCTAAATTTATAAAAAAATTATAAATATTTA
Found at i:34537925 original size:27 final size:28
Alignment explanation
Indices: 34537875--34537931 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
34537865 CTTGTAGAAA
34537875 AACTAAATTTCTAAAAATAAAAAAAATT
1 AACTAAATTTCTAAAAATAAAAAAAATT
**
34537903 AACTAAA-TTCTAAATTTATAAAAAAATT
1 AACTAAATTTCTAAAAATA-AAAAAAATT
34537931 A
1 A
34537932 TAAATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (28 bp):
AACTAAATTTCTAAAAATAAAAAAAATT
Found at i:34538806 original size:30 final size:30
Alignment explanation
Indices: 34538771--34538830 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
34538761 ACAATCCATT
34538771 GACTTAAATAAAAACTTTCAAATAGTTCAA
1 GACTTAAATAAAAACTTTCAAATAGTTCAA
* *
34538801 GACTTAAATGAAAACTTTTAAATAGTTCAA
1 GACTTAAATAAAAACTTTCAAATAGTTCAA
34538831 TGACCATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
GACTTAAATAAAAACTTTCAAATAGTTCAA
Found at i:34543270 original size:18 final size:18
Alignment explanation
Indices: 34543247--34543281 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34543237 AATATTGTTC
34543247 CTGTTTAAAGATTTGACA
1 CTGTTTAAAGATTTGACA
34543265 CTGTTTAAAGATTTGAC
1 CTGTTTAAAGATTTGAC
34543282 TTGACTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
CTGTTTAAAGATTTGACA
Found at i:34548056 original size:3 final size:3
Alignment explanation
Indices: 34548050--34548079 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34548040 TTTTTTATTT
34548050 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
34548080 ATTATTGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:34555054 original size:10 final size:11
Alignment explanation
Indices: 34555034--34555075 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
34555024 AATTTTATGC
34555034 AATATAAATAA
1 AATATAAATAA
34555045 AATA-AAATAA
1 AATATAAATAA
*
34555055 AATATATTATAAA
1 AATATA-AAT-AA
34555068 AATATAAA
1 AATATAAA
34555076 ATCATTGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 3 0.12
13 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATATAAATAA
Found at i:34560662 original size:42 final size:43
Alignment explanation
Indices: 34560599--34560684 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 43
34560589 AAACATATAT
34560599 ATATATATATCATTCACAACCATACTTCAAATTTAGCTCTTTTC
1 ATATATATAT-ATTCACAACCATACTTCAAATTTAGCTCTTTTC
*
34560643 ATATATATAT-TTCATAACCATACTTCAAATTTAGCTCTTTTC
1 ATATATATATATTCACAACCATACTTCAAATTTAGCTCTTTTC
34560685 TAATCCATCC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 31 0.76
44 10 0.24
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (43 bp):
ATATATATATATTCACAACCATACTTCAAATTTAGCTCTTTTC
Found at i:34561117 original size:21 final size:21
Alignment explanation
Indices: 34561093--34561161 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
34561083 CACAGAAGCA
* *
34561093 CATAAGTGCTAAACGGAAACC
1 CATAAGAGCTGAACGGAAACC
* * *
34561114 CATAAGGGTTGAAC-GAAAGCT
1 CATAAGAGCTGAACGGAAA-CC
*
34561135 CATAGGAGCTGAACGGAAACC
1 CATAAGAGCTGAACGGAAACC
34561156 CATAAG
1 CATAAG
34561162 GATTAATCTG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
20 4 0.11
21 29 0.78
22 4 0.11
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
CATAAGAGCTGAACGGAAACC
Found at i:34561163 original size:22 final size:22
Alignment explanation
Indices: 34561104--34561163 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
34561094 ATAAGTGCTA
*
34561104 AACGGAAACCCATAAGG-GTTG
1 AACGGAAACCCATAAGGAGCTG
*
34561125 AAC-GAAAGCTCAT-AGGAGCTG
1 AACGGAAA-CCCATAAGGAGCTG
34561146 AACGGAAACCCATAAGGA
1 AACGGAAACCCATAAGGA
34561164 TTAATCTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.22
21 17 0.53
22 8 0.25
ACGTcount: A:0.42, C:0.20, G:0.27, T:0.12
Consensus pattern (22 bp):
AACGGAAACCCATAAGGAGCTG
Found at i:34561186 original size:42 final size:42
Alignment explanation
Indices: 34561104--34561257 Score: 138
Period size: 42 Copynumber: 3.7 Consensus size: 42
34561094 ATAAGTGCTA
* * * *
34561104 AACGGAAACCCATAAGGGTTGAA-C-GAAAGCTCATAGGAGCTG
1 AACGGAAACCCATAAGGATT-AATCTG-AAGGTCAAAAGAGCTG
34561146 AACGGAAACCCATAAGGATTAATCTGAAGGTCAAAAGAGCT-
1 AACGGAAACCCATAAGGATTAATCTGAAGGTCAAAAGAGCTG
* * * *
34561187 ACACTGAAACCCATTAGGGTTAAACTG-AGGCTCAAAAGAGCTG
1 A-ACGGAAACCCATAAGGATTAATCTGAAGG-TCAAAAGAGCTG
* *
34561230 AACTGAAACCCAGAA-GAGTTAATCTGAA
1 AACGGAAACCCATAAGGA-TTAATCTGAA
34561258 ACTCATATGA
Statistics
Matches: 93, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 7 0.08
42 83 0.89
43 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (42 bp):
AACGGAAACCCATAAGGATTAATCTGAAGGTCAAAAGAGCTG
Found at i:34561256 original size:21 final size:20
Alignment explanation
Indices: 34561230--34561277 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
34561220 AAAAGAGCTG
34561230 AACTGAAACCCAGAAGAGTT
1 AACTGAAACCCAGAAGAGTT
* * *
34561250 AATCTGAAACTCATATGAGTT
1 AA-CTGAAACCCAGAAGAGTT
34561271 AACTGAA
1 AACTGAA
34561278 GCTCATGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (20 bp):
AACTGAAACCCAGAAGAGTT
Found at i:34561282 original size:20 final size:21
Alignment explanation
Indices: 34561245--34561283 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34561235 AAACCCAGAA
34561245 GAGTTAATCTGAAACTCATAT
1 GAGTTAATCTGAAACTCATAT
*
34561266 GAGTTAA-CTGAAGCTCAT
1 GAGTTAATCTGAAACTCAT
34561284 GAGAGCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (21 bp):
GAGTTAATCTGAAACTCATAT
Found at i:34563008 original size:34 final size:34
Alignment explanation
Indices: 34562939--34563013 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
34562929 ACATTTACAA
** * *
34562939 GTTCGCATGAAATATAGGCTTACATGTACCTAGG
1 GTTCGCATGAAATATAGGCACACATGCACCAAGG
* *
34562973 GTTCGCATGACATATAGGCACGCATGCACCAAGG
1 GTTCGCATGAAATATAGGCACACATGCACCAAGG
34563007 GTTCGCA
1 GTTCGCA
34563014 CATAGGCTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (34 bp):
GTTCGCATGAAATATAGGCACACATGCACCAAGG
Found at i:34564487 original size:23 final size:21
Alignment explanation
Indices: 34564460--34564524 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 21
34564450 GCTTTGTCGA
34564460 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCAC-TTATGTGTCGTAT
**
34564482 CTCAGGCACCTCGTGTGTCGT-T
1 -TCAGGCA-CTTATGTGTCGTAT
* *
34564504 ACAGGCACTTATGGGTCGTAT
1 TCAGGCACTTATGTGTCGTAT
34564525 ACTGATCAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 9 0.26
21 7 0.21
22 1 0.03
23 16 0.47
24 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (21 bp):
TCAGGCACTTATGTGTCGTAT
Found at i:34565534 original size:29 final size:29
Alignment explanation
Indices: 34565476--34565584 Score: 110
Period size: 29 Copynumber: 3.8 Consensus size: 29
34565466 GGGGTCTTAC
* * * **
34565476 GGTTCACATGTAGGCTTGCATGTTCCTAA
1 GGTTCGCATATAGGCTCGCATAATCCTAA
* * **
34565505 GGTTCGCATATAGCCTCGTATAATTTTAA
1 GGTTCGCATATAGGCTCGCATAATCCTAA
* *
34565534 GGTTCACATATAGGCTCGCATAATCCTAG
1 GGTTCGCATATAGGCTCGCATAATCCTAA
*
34565563 GGTTCGCCTATAGGCTCGCATA
1 GGTTCGCATATAGGCTCGCATA
34565585 TAATAATACA
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (29 bp):
GGTTCGCATATAGGCTCGCATAATCCTAA
Found at i:34568367 original size:19 final size:18
Alignment explanation
Indices: 34568332--34568386 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
34568322 ACAAAAGTTA
*
34568332 TAAAATCATTTTTAAAATT
1 TAAAAT-ATTTTAAAAATT
34568351 TAAAATATTTATAAAAATT
1 TAAAATATTT-TAAAAATT
*
34568370 TCAAAAAATTTTAAAAA
1 T-AAAATATTTTAAAAA
34568387 ATATGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.12
19 20 0.62
20 8 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATATTTTAAAAATT
Found at i:34568376 original size:10 final size:9
Alignment explanation
Indices: 34568345--34568388 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
34568335 AATCATTTTT
34568345 AAAATTTAA
1 AAAATTTAA
*
34568354 AATATTTATA
1 AAAATTTA-A
34568364 AAAATTTCAA
1 AAAATTT-AA
34568374 AAAATTTTAA
1 AAAA-TTTAA
34568384 AAAAT
1 AAAAT
34568389 ATGTAACGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.27
10 18 0.60
11 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAATTTAA
Found at i:34570507 original size:20 final size:20
Alignment explanation
Indices: 34570465--34570507 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34570455 TTTTTCATTA
* *
34570465 ATATAAAATTGGACCGAATT
1 ATATAAAATTGGACAGAAGT
* *
34570485 ATATAAAATTTGATAGAAGT
1 ATATAAAATTGGACAGAAGT
34570505 ATA
1 ATA
34570508 ATAGAGGACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (20 bp):
ATATAAAATTGGACAGAAGT
Found at i:34571825 original size:19 final size:19
Alignment explanation
Indices: 34571803--34571840 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34571793 TATAAATTTA
*
34571803 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
34571822 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
34571841 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:34572063 original size:27 final size:27
Alignment explanation
Indices: 34572025--34572101 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
34572015 CCGGCCCGGC
*
34572025 CCATTGGCGCCTCTCAGA-ATGGCACCA
1 CCATTGGCGCCTCCCAGATA-GGCACCA
*
34572052 CCATTGGCGCCTCCCAGGTAGGCACCA
1 CCATTGGCGCCTCCCAGATAGGCACCA
*
34572079 CCATTGGCGCCTCCTAGATAGGC
1 CCATTGGCGCCTCCCAGATAGGC
34572102 GCCAATACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.18
Consensus pattern (27 bp):
CCATTGGCGCCTCCCAGATAGGCACCA
Found at i:34574524 original size:31 final size:31
Alignment explanation
Indices: 34574489--34574548 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
34574479 AATTAATTCT
*
34574489 TAAACTTGGCAATAATTCCCATATTAAGGCC
1 TAAACTTGACAATAATTCCCATATTAAGGCC
* * *
34574520 TAAACTTGACAATTATTCTCATTTTAAGG
1 TAAACTTGACAATAATTCCCATATTAAGG
34574549 TTTGAACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (31 bp):
TAAACTTGACAATAATTCCCATATTAAGGCC
Found at i:34578172 original size:3 final size:3
Alignment explanation
Indices: 34578164--34578191 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
34578154 CTCACAGTTA
34578164 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
34578192 CCTTTATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:34585598 original size:10 final size:10
Alignment explanation
Indices: 34585577--34585619 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
34585567 ATTTTTCTTT
*
34585577 AATTATTAAA
1 AATTATAAAA
34585587 AATTATAAAAA
1 AATTAT-AAAA
34585598 AATATATAGAAA
1 AAT-TATA-AAA
34585610 AATTATAAAA
1 AATTATAAAA
34585620 TTTTCCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 9 0.31
11 11 0.38
12 9 0.31
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AATTATAAAA
Found at i:34585600 original size:11 final size:11
Alignment explanation
Indices: 34585584--34585619 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
34585574 TTTAATTATT
34585584 AAAAATTATAA
1 AAAAATTATAA
*
34585595 AAAAATATATAG
1 AAAAAT-TATAA
34585607 AAAAATTATAA
1 AAAAATTATAA
34585618 AA
1 AA
34585620 TTTTCCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:34602190 original size:19 final size:21
Alignment explanation
Indices: 34602152--34602194 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
34602142 AAACTCACTT
34602152 AAAATATAAGAGAGTTCGAATA
1 AAAATATAAGAGAGTTCGAA-A
34602174 AAAATAT-AG-GA-TTCGAAA
1 AAAATATAAGAGAGTTCGAAA
34602192 AAA
1 AAA
34602195 TGGATTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 2 0.10
21 2 0.10
22 7 0.33
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (21 bp):
AAAATATAAGAGAGTTCGAAA
Found at i:34603384 original size:23 final size:24
Alignment explanation
Indices: 34603321--34603385 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
34603311 TATTCATTTT
34603321 TTATTTTTATAATAAAAAACCTTCAA
1 TTATTTTTAT-ATAAAAAACC-TCAA
34603347 TTATTTATT-TA-AAAAAACC-CAA
1 TTATTT-TTATATAAAAAACCTCAA
34603369 TT-TTTTTATCATAAAAA
1 TTATTTTTAT-ATAAAAA
34603386 TCATTTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
20 2 0.06
21 4 0.11
22 6 0.17
23 5 0.14
24 8 0.23
25 1 0.03
26 7 0.20
27 2 0.06
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATTTTTATATAAAAAACCTCAA
Found at i:34621640 original size:178 final size:178
Alignment explanation
Indices: 34621387--34621914 Score: 656
Period size: 177 Copynumber: 3.0 Consensus size: 178
34621377 TTGAAAAAGT
* * * *
34621387 ATTTTCTATGTGTTTGAATTTAGAAATTGGGTCATTTTGTTGGCAGCTTTGAGGTACTTTTTAAT
1 ATTTTCTATGTGTTTTAATTTAGAAATTGGGTC-TTTTTTTGGCAGTTTTGAGGTACTCTTTAAT
* * * **
34621452 TACTCACCATTACTTGGTGTTTGTTTGCTGAGAAAGTAGTCGGAGAATTTGTTGAAATTAATAAG
65 TACCCACCATTACTTGGTGTTTGTTTGCTGAGAAAGTAGTAGGAGAAGTTGTAAAAATTAATAAG
34621517 GTTTAATAAAAATTATACAAA-GGTATTTGAAAAAAATGTTTAG-TTTGC
130 GTTT-ATAAAAATTATACAAACGGTATTTGAAAAAAATGTTTAGCTTTGC
* * *
34621565 ATTTTTTATGTGTTTTAAATTAGAAATTGGGTCGTTTTTTTGGCAGTTTTGTGGTACTCTTTAAT
1 ATTTTCTATGTGTTTTAATTTAGAAATTGGGTC-TTTTTTTGGCAGTTTTGAGGTACTCTTTAAT
* * * *
34621630 TACCCACCATTACCTGGTGTTTGTTTGCTGAGAAAGTAG-AGGGGAAGTTGTACAAATTAGTAAG
65 TACCCACCATTACTTGGTGTTTGTTTGCTGAGAAAGTAGTAGGAGAAGTTGTAAAAATTAATAAG
* * * * * * *
34621694 GTTTGTAAAATATTCTGCAAACGGTATTTG-AAGAAGTGCTT-GCTTTGT
130 GTTTATAAAA-ATTATACAAACGGTATTTGAAAAAAATGTTTAGCTTTGC
*
34621742 ATTTTCTATGTGTTTTAATTTAGAAATTGGGTCATTTTTTGGCA-TCTTTGAGGTACTCTTTAAT
1 ATTTTCTATGTGTTTTAATTTAGAAATTGGGTCTTTTTTTGGCAGT-TTTGAGGTACTCTTTAAT
* * * *
34621806 TACCCACCATTACTTGGTGTTTGTTTCCTGAGAAAGTACTGGGTA-AAGTTGAAAAAATTAATAA
65 TACCCACCATTACTTGGTGTTTGTTTGCTGAGAAAGTAGTAGG-AGAAGTTGTAAAAATTAATAA
* * *
34621870 GGTTTATAAAAAAATGTACAAAGGGTATTTGAAAAATAATGTTTA
129 GGTTTAT-AAAAATTATACAAACGGTATTTGAAAAA-AATGTTTA
34621915 ATGTACAAAG
Statistics
Matches: 297, Mismatches: 43, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
175 1 0.00
176 69 0.23
177 113 0.38
178 109 0.37
179 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (178 bp):
ATTTTCTATGTGTTTTAATTTAGAAATTGGGTCTTTTTTTGGCAGTTTTGAGGTACTCTTTAATT
ACCCACCATTACTTGGTGTTTGTTTGCTGAGAAAGTAGTAGGAGAAGTTGTAAAAATTAATAAGG
TTTATAAAAATTATACAAACGGTATTTGAAAAAAATGTTTAGCTTTGC
Found at i:34621945 original size:31 final size:32
Alignment explanation
Indices: 34621882--34621945 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
34621872 TTTATAAAAA
34621882 AATGTACAAAGGGTATTTGAAAAATAATGTTT
1 AATGTACAAAGGGTATTTGAAAAATAATGTTT
34621914 AATGTACAAAGGGTATTTGAAAAA-AATGTTT
1 AATGTACAAAGGGTATTTGAAAAATAATGTTT
34621945 A
1 A
34621946 CTTTGTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (32 bp):
AATGTACAAAGGGTATTTGAAAAATAATGTTT
Found at i:34629353 original size:22 final size:22
Alignment explanation
Indices: 34629323--34629377 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
34629313 TTAAAAATAA
34629323 TAAAGAAATTAGTCT-TTTCTAAT
1 TAAA-AAATTA-TCTATTTCTAAT
* *
34629346 TAAAAAATTATCTATTTTTATT
1 TAAAAAATTATCTATTTCTAAT
*
34629368 TTAAAAATTA
1 TAAAAAATTA
34629378 ATATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 21 0.75
23 4 0.14
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAAAAATTATCTATTTCTAAT
Found at i:34641876 original size:18 final size:19
Alignment explanation
Indices: 34641838--34641881 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34641828 AACATGCCGT
* *
34641838 AGAAATAAAGTGAATCCAA
1 AGAAAAAAAGTGAATCAAA
34641857 AGAAAAAAAG-GAATCAAA
1 AGAAAAAAAGTGAATCAAA
34641875 AGCAAAA
1 AG-AAAA
34641882 TGTAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.66, C:0.09, G:0.16, T:0.09
Consensus pattern (19 bp):
AGAAAAAAAGTGAATCAAA
Found at i:34652361 original size:4 final size:4
Alignment explanation
Indices: 34652352--34652383 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
34652342 AAGAGAAAAT
*
34652352 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
34652384 TAAGCTACAT
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:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:34654445 original size:20 final size:20
Alignment explanation
Indices: 34654413--34654455 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
34654403 TAAAAAAATT
34654413 TAAATAACTTCAA-CTCAAAA
1 TAAATAACTTCAACCT-AAAA
34654433 TAAATAA-TATCAACCTAAAA
1 TAAATAACT-TCAACCTAAAA
34654453 TAA
1 TAA
34654456 TTATTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.05
20 18 0.86
21 2 0.10
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAATAACTTCAACCTAAAA
Found at i:34672942 original size:15 final size:16
Alignment explanation
Indices: 34672909--34672944 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
34672899 CATTCAAAAT
34672909 AAAAATTTTAATATTAA
1 AAAAATTTTAATA-TAA
34672926 AAAAATTTTAATA-AA
1 AAAAATTTTAATATAA
34672941 AAAA
1 AAAA
34672945 TATTGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
17 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATTTTAATATAA
Found at i:34672944 original size:17 final size:17
Alignment explanation
Indices: 34672904--34672944 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34672894 TATTTCATTC
*
34672904 AAAATAAAAATTTTAAT
1 AAAAAAAAAATTTTAAT
**
34672921 ATTAAAAAAATTTTAAT
1 AAAAAAAAAATTTTAAT
34672938 AAAAAAA
1 AAAAAAA
34672945 TATTGAATAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAAAAAAATTTTAAT
Found at i:34680569 original size:30 final size:30
Alignment explanation
Indices: 34680535--34680597 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
34680525 ACTTATTTTA
*
34680535 TTGTTAATTTTATTATTATTTTAAAGGTAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* *
34680565 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
34680595 TTG
1 TTG
34680598 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:34680641 original size:29 final size:29
Alignment explanation
Indices: 34680599--34680658 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
34680589 AGGCATTTGC
34680599 TTGTTAAGTTGCATCTATCTTAATATTAT
1 TTGTTAAGTTGCATCTATCTTAATATTAT
* *
34680628 TTGTTAAGTTGCATCTATCTTAGTGTTAT
1 TTGTTAAGTTGCATCTATCTTAATATTAT
34680657 TT
1 TT
34680659 AAGTATACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.53
Consensus pattern (29 bp):
TTGTTAAGTTGCATCTATCTTAATATTAT
Found at i:34719459 original size:23 final size:24
Alignment explanation
Indices: 34719414--34719459 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
34719404 ACTATTAAAT
* * *
34719414 AAAATTAATTTATTTATTTTTATC
1 AAAAATAATTTATTTAATATTATC
34719438 AAAAATAATTT-TTTAATATTAT
1 AAAAATAATTTATTTAATATTAT
34719460 TTTTAATCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
AAAAATAATTTATTTAATATTATC
Found at i:34724651 original size:138 final size:139
Alignment explanation
Indices: 34724403--34724679 Score: 547
Period size: 138 Copynumber: 2.0 Consensus size: 139
34724393 AAAATTTCAC
34724403 GTATAACATTATACATTAAACAAAAAGTCTGTGTAGTTTTGAGATTTATTCTAAAGAAAAATGAA
1 GTATAACATTATACATTAAACAAAAAGTCTGTGTAGTTTTGAGATTTATTCTAAAGAAAAATGAA
34724468 AAACTCAATTCAATATTGTTGGAGCTAGGGGAGCCTTTGCCCCTAAAATTTTGGAAAAATTTT-T
66 AAACTCAATTCAATATTGTTGGAGCTAGGGGAGCCTTTGCCCCTAAAATTTTGGAAAAATTTTAT
34724532 TATGCCCTT
131 TATGCCCTT
34724541 GTATAACATTATACATTAAACAAAAAGTCTGTGTAGTTTTGAGATTTATTCTAAAGAAAAATGAA
1 GTATAACATTATACATTAAACAAAAAGTCTGTGTAGTTTTGAGATTTATTCTAAAGAAAAATGAA
34724606 AAACTCAATTCAATATTGTTGGAGCTAGGGGAGCCTTTGCCCCTAAAATTTTGGAAAAATTTTAT
66 AAACTCAATTCAATATTGTTGGAGCTAGGGGAGCCTTTGCCCCTAAAATTTTGGAAAAATTTTAT
34724671 TATGCCCTT
131 TATGCCCTT
34724680 TAAAATTAAA
Statistics
Matches: 138, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 128 0.93
139 10 0.07
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (139 bp):
GTATAACATTATACATTAAACAAAAAGTCTGTGTAGTTTTGAGATTTATTCTAAAGAAAAATGAA
AAACTCAATTCAATATTGTTGGAGCTAGGGGAGCCTTTGCCCCTAAAATTTTGGAAAAATTTTAT
TATGCCCTT
Found at i:34727257 original size:15 final size:15
Alignment explanation
Indices: 34727234--34727267 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34727224 ATTTGGGTAG
* *
34727234 ATTTTTTTTTAAAGA
1 ATTTCTTTTTAAACA
34727249 ATTTCTTTTTAAACA
1 ATTTCTTTTTAAACA
34727264 ATTT
1 ATTT
34727268 TATTAGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTTCTTTTTAAACA
Found at i:34730071 original size:4 final size:4
Alignment explanation
Indices: 34730064--34730098 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
34730054 GCATGCATGC
* *
34730064 ATGT ATGT ATGT GTGT ATGT ATGC ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
34730099 GTAAGAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:34730080 original size:12 final size:12
Alignment explanation
Indices: 34730043--34730098 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
34730033 TCATCATCAT
*
34730043 TATGTATGCAAG
1 TATGTATGCATG
* *
34730055 CATGCATGCATG
1 TATGTATGCATG
**
34730067 TATGTATGTGTG
1 TATGTATGCATG
34730079 TATGTATGCATG
1 TATGTATGCATG
34730091 TATGTATG
1 TATGTATG
34730099 GTAAGAAACC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.39
Consensus pattern (12 bp):
TATGTATGCATG
Found at i:34737007 original size:6 final size:6
Alignment explanation
Indices: 34736996--34737022 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34736986 GGTTTGTCAA
34736996 TAACCT TAACCT TAACCT TAACCT TAA
1 TAACCT TAACCT TAACCT TAACCT TAA
34737023 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (6 bp):
TAACCT
Found at i:34737142 original size:2 final size:2
Alignment explanation
Indices: 34737135--34737159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34737125 TTCATGCAAG
34737135 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34737160 TATGGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34737535 original size:39 final size:39
Alignment explanation
Indices: 34737488--34737565 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
34737478 AAATTCGATA
* * *
34737488 ATCTAAATTTAAAATAATTTAAAT-GTATAATTTTAAATT
1 ATCTAAATTCAAAATAATTCAAATAATA-AATTTTAAATT
*
34737527 ATCTAAATTCATAATAATTCAAATAATAAATTTTAAATT
1 ATCTAAATTCAAAATAATTCAAATAATAAATTTTAAATT
34737566 GATCCGAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (39 bp):
ATCTAAATTCAAAATAATTCAAATAATAAATTTTAAATT
Found at i:34743291 original size:81 final size:82
Alignment explanation
Indices: 34743156--34743320 Score: 323
Period size: 81 Copynumber: 2.0 Consensus size: 82
34743146 GATGTGAGTT
34743156 CAAGTGTTTAAAAACGCATTATTTTCCTATTTAGGGGTTAGGAAGAAACTATAAATAATTTTAAA
1 CAAGTGTTTAAAAACGCATTATTTTCCTATTTAGGGGTTAGGAAGAAACTATAAATAATTTTAAA
34743221 TATTAT-TAAAAAAATA
66 TATTATGTAAAAAAATA
34743237 CAAGTGTTTAAAAACGCATTATTTTCCTATTTAGGGGTTAGGAAGAAACTATAAATAATTTTAAA
1 CAAGTGTTTAAAAACGCATTATTTTCCTATTTAGGGGTTAGGAAGAAACTATAAATAATTTTAAA
34743302 TATTATGTAAAAAAATA
66 TATTATGTAAAAAAATA
34743319 CA
1 CA
34743321 TATATAATCG
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 71 0.86
82 12 0.14
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (82 bp):
CAAGTGTTTAAAAACGCATTATTTTCCTATTTAGGGGTTAGGAAGAAACTATAAATAATTTTAAA
TATTATGTAAAAAAATA
Found at i:34743548 original size:22 final size:22
Alignment explanation
Indices: 34743523--34743564 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34743513 TATTGAACTA
34743523 ATTTTTCCT-ATTTTGATTATTC
1 ATTTTT-CTAATTTTGATTATTC
*
34743545 ATTTTTCTAATTTTTATTAT
1 ATTTTTCTAATTTTGATTAT
34743565 AAAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTCTAATTTTGATTATTC
Found at i:34748294 original size:18 final size:17
Alignment explanation
Indices: 34748271--34748318 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 17
34748261 TTATTATGTT
34748271 TTATTATTATATATGATA
1 TTATTATTATATAT-ATA
34748289 TTATTATTATAT-TATA
1 TTATTATTATATATATA
34748305 TTA-TATTATATATA
1 TTATTATTATATATA
34748319 AAGTAGAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.28
16 8 0.28
17 1 0.03
18 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTATTATTATATATATA
Found at i:34748301 original size:5 final size:5
Alignment explanation
Indices: 34748257--34748315 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
34748247 AATAATAAAG
* * *
34748257 ATATT -TATT ATGTT TTATT AT-TAT ATATG ATATT ATTATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT A-TATT ATATT ATATT
34748307 ATATT ATAT
1 ATATT ATAT
34748316 ATAAAGTAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 5 0.11
5 33 0.75
6 6 0.14
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:34754093 original size:133 final size:133
Alignment explanation
Indices: 34753855--34754119 Score: 521
Period size: 133 Copynumber: 2.0 Consensus size: 133
34753845 TAAATTGAAA
*
34753855 TTGGGATGAAAGTAAAATAGAAATTCAAGTATTAGATGAAATTTTTATATTGTATTAATGATTAT
1 TTGGGATGAAAGTAAAATAGAAATTCAAGTATTAGATGAAAATTTTATATTGTATTAATGATTAT
34753920 GGAATTTATCTTAATTTTTCGTAGCTAATATCGCACCCGAGGCATCCACGAAGAAAGGAAAAAAA
66 GGAATTTATCTTAATTTTTCGTAGCTAATATCGCACCCGAGGCATCCACGAAGAAAGGAAAAAAA
34753985 AAG
131 AAG
34753988 TTGGGATGAAAGTAAAATAGAAATTCAAGTATTAGATGAAAATTTTATATTGTATTAATGATTAT
1 TTGGGATGAAAGTAAAATAGAAATTCAAGTATTAGATGAAAATTTTATATTGTATTAATGATTAT
34754053 GGAATTTATCTTAATTTTTCGTAGCTAATATCGCACCCGAGGCATCCACGAAGAAAGGAAAAAAA
66 GGAATTTATCTTAATTTTTCGTAGCTAATATCGCACCCGAGGCATCCACGAAGAAAGGAAAAAAA
34754118 AA
131 AA
34754120 AGTGGACGAG
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 131 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (133 bp):
TTGGGATGAAAGTAAAATAGAAATTCAAGTATTAGATGAAAATTTTATATTGTATTAATGATTAT
GGAATTTATCTTAATTTTTCGTAGCTAATATCGCACCCGAGGCATCCACGAAGAAAGGAAAAAAA
AAG
Found at i:34754811 original size:7 final size:7
Alignment explanation
Indices: 34754799--34754837 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
34754789 TTGTTATTGT
34754799 TGAAATA
1 TGAAATA
34754806 TGAAATA
1 TGAAATA
34754813 TGAAATA
1 TGAAATA
34754820 TGAAATA
1 TGAAATA
*
34754827 TGAAATT
1 TGAAATA
34754834 TGAA
1 TGAA
34754838 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (7 bp):
TGAAATA
Found at i:34756052 original size:3 final size:3
Alignment explanation
Indices: 34756044--34756081 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34756034 AAATTAAAAA
34756044 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
34756082 ATAAAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:34757644 original size:15 final size:15
Alignment explanation
Indices: 34757626--34757655 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34757616 GGATTTTAAT
34757626 TTTTTATAATTTATA
1 TTTTTATAATTTATA
34757641 TTTTTATAATTTATA
1 TTTTTATAATTTATA
34757656 AAGGATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:34758308 original size:14 final size:16
Alignment explanation
Indices: 34758277--34758315 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
34758267 AGATGAAACC
34758277 ATATAAACATAAATAT
1 ATATAAACATAAATAT
34758293 ATATAAACATAAATAT
1 ATATAAACATAAATAT
34758309 ATATAAA
1 ATATAAA
34758316 AAATAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (16 bp):
ATATAAACATAAATAT
Found at i:34764998 original size:9 final size:9
Alignment explanation
Indices: 34764984--34765008 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34764974 AAATTGAAAT
34764984 TTATTATAA
1 TTATTATAA
34764993 TTATTATAA
1 TTATTATAA
34765002 TTATTAT
1 TTATTAT
34765009 TATTTATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATTATAA
Found at i:34767863 original size:51 final size:49
Alignment explanation
Indices: 34767808--34767977 Score: 223
Period size: 51 Copynumber: 3.3 Consensus size: 49
34767798 CGATTTGCAC
* *
34767808 GCCAGCAAGGTTAACTGAACAATTCAAACTAATTTTTAGACAGGTCAGCAT
1 GCCAGCAAGGTTAAC-AAACAATT-AAACTAATTATTAGACAGGTCAGCAT
* *
34767859 GCCAGTAAGGTTAACCAAACAATTAAAACTAATTATTACACAGGTCAGCAT
1 GCCAGCAAGGTTAA-CAAACAATT-AAACTAATTATTAGACAGGTCAGCAT
* *
34767910 GCCAACAAGGTTAAACAAACAATTAAGACTAATTATTAGACAGATCAGCAT
1 GCCAGCAAGGTT-AACAAACAATTAA-ACTAATTATTAGACAGGTCAGCAT
*
34767961 GCTAGCAAGGTTAACAA
1 GCCAGCAAGGTTAACAA
34767978 TATGTCACGT
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
50 7 0.07
51 95 0.90
52 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (49 bp):
GCCAGCAAGGTTAACAAACAATTAAACTAATTATTAGACAGGTCAGCAT
Found at i:34773113 original size:3 final size:3
Alignment explanation
Indices: 34773105--34773130 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34773095 ATTTAAAATT
34773105 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
34773131 CTCAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:34774692 original size:25 final size:25
Alignment explanation
Indices: 34774663--34774777 Score: 91
Period size: 25 Copynumber: 4.8 Consensus size: 25
34774653 GCATTATTCT
*
34774663 GTACTATTAAACAGAGAGCACTAAA
1 GTACTAATAAACAGAGAGCACTAAA
34774688 GTACT-AT--ACAGAGAGCA-TAAA
1 GTACTAATAAACAGAGAGCACTAAA
* * *
34774709 -TA--AGCTAAACGGAGAGCACTAAT
1 GTACTA-ATAAACAGAGAGCACTAAA
* * *
34774732 GTGCTAATAATCAGAGAGCACTAAC
1 GTACTAATAAACAGAGAGCACTAAA
* *
34774757 GTGCTAATAATCAGAGAGCAC
1 GTACTAATAAACAGAGAGCAC
34774778 GCTAAGGTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
20 3 0.04
21 4 0.05
22 19 0.26
23 3 0.04
24 2 0.03
25 41 0.56
26 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.19
Consensus pattern (25 bp):
GTACTAATAAACAGAGAGCACTAAA
Found at i:34774701 original size:22 final size:22
Alignment explanation
Indices: 34774673--34774755 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 22
34774663 GTACTATTAA
34774673 ACAGAGAGCACTAAAGTACTAT
1 ACAGAGAGCACTAAAGTACTAT
*
34774695 ACAGAGAGCA-TAAA-TAAGCTAA
1 ACAGAGAGCACTAAAGT-A-CTAT
* * *
34774717 ACGGAGAGCACTAATGTGCTAAT
1 ACAGAGAGCACTAAAGTACT-AT
34774740 AATCAGAGAGCACTAA
1 -A-CAGAGAGCACTAA
34774756 CGTGCTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 5 0.10
22 24 0.50
23 4 0.08
24 2 0.04
25 12 0.25
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (22 bp):
ACAGAGAGCACTAAAGTACTAT
Found at i:34774782 original size:27 final size:25
Alignment explanation
Indices: 34774720--34774777 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
34774710 AAGCTAAACG
*
34774720 GAGAGCACTAATGTGCTAATAATCA
1 GAGAGCACTAACGTGCTAATAATCA
34774745 GAGAGCACTAACGTGCTAATAATCA
1 GAGAGCACTAACGTGCTAATAATCA
34774770 GAGAGCAC
1 GAGAGCAC
34774778 GCTAAGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (25 bp):
GAGAGCACTAACGTGCTAATAATCA
Found at i:34775451 original size:23 final size:23
Alignment explanation
Indices: 34775425--34775469 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34775415 ATTCACATAA
* *
34775425 TGTAATATCTCGAAAATTACTAT
1 TGTAATACCCCGAAAATTACTAT
34775448 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
34775470 CAGTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAT
Found at i:34775475 original size:23 final size:23
Alignment explanation
Indices: 34775426--34775475 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
34775416 TTCACATAAT
* * **
34775426 GTAATATCTCGAAAATTACTATT
1 GTAATACCCCGAAAATTACTACA
34775449 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
34775472 GTAA
1 GTAA
34775476 GAAAATAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:34776859 original size:3 final size:3
Alignment explanation
Indices: 34776851--34776876 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34776841 AGGATGTGGA
34776851 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
34776877 AAATATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:34784621 original size:24 final size:24
Alignment explanation
Indices: 34784586--34784634 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
34784576 ACCCTAAATC
34784586 ATACGATAATAATCTAAATTTATA
1 ATACGATAATAATCTAAATTTATA
*
34784610 ATACGATGATAATCTAAATTTATA
1 ATACGATAATAATCTAAATTTATA
34784634 A
1 A
34784635 ATGTTATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
ATACGATAATAATCTAAATTTATA
Found at i:34785781 original size:21 final size:22
Alignment explanation
Indices: 34785744--34785784 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34785734 TTTTGAAATG
34785744 TTATATAAAAAATTATTTTTAT
1 TTATATAAAAAATTATTTTTAT
*
34785766 TTATTTAAAAAA-TATTTTT
1 TTATATAAAAAATTATTTTT
34785785 GAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATATAAAAAATTATTTTTAT
Found at i:34786833 original size:2 final size:2
Alignment explanation
Indices: 34786826--34786853 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34786816 TATGCTAACT
34786826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34786854 GTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34799538 original size:18 final size:18
Alignment explanation
Indices: 34799515--34799552 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
34799505 TAAATATATT
34799515 TATTTTTAAATTTTAAAA
1 TATTTTTAAATTTTAAAA
*
34799533 TATTTTTAATTTTTAAAA
1 TATTTTTAAATTTTAAAA
34799551 TA
1 TA
34799553 AAATTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTTTAAATTTTAAAA
Found at i:34800030 original size:14 final size:15
Alignment explanation
Indices: 34800011--34800039 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34800001 GAAGCAATAA
34800011 TTGAAAA-AAAGAGG
1 TTGAAAATAAAGAGG
34800025 TTGAAAATAAAGAGG
1 TTGAAAATAAAGAGG
34800040 AAAGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (15 bp):
TTGAAAATAAAGAGG
Found at i:34808839 original size:23 final size:23
Alignment explanation
Indices: 34808793--34808840 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
34808783 AAATAAAAAT
*
34808793 AATTATTACAAACCCAAAATAAA
1 AATTATTACAAACCCAAAACAAA
* *
34808816 AATTATTACAAGCCCAAAGCAAA
1 AATTATTACAAACCCAAAACAAA
34808839 AA
1 AA
34808841 AAAATCCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.19, G:0.04, T:0.19
Consensus pattern (23 bp):
AATTATTACAAACCCAAAACAAA
Found at i:34808843 original size:26 final size:23
Alignment explanation
Indices: 34808787--34808842 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
34808777 GAAATAAAAT
*
34808787 AAAAATAATTATTACAAACCCAA
1 AAAAAAAATTATTACAAACCCAA
* *
34808810 AATAAAAATTATTACAAGCCCAA
1 AAAAAAAATTATTACAAACCCAA
34808833 AGCAAAAAAA
1 A--AAAAAAA
34808843 AATCCTAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 21 0.78
25 6 0.22
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAAAAAATTATTACAAACCCAA
Found at i:34811995 original size:44 final size:44
Alignment explanation
Indices: 34811932--34812954 Score: 875
Period size: 44 Copynumber: 23.1 Consensus size: 44
34811922 AGTTATCATG
* * * **
34811932 ACAAATCCTATCTCCCTGAAGTTGCAGAGGAGCAAATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
34811976 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * *
34812020 AGCAAATTTTATCTCCCTGAAGCTGCAGTAGAGCAGATTAAAGAT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * **
34812065 AGCAAATCTTATCT-CCTGAAGTTGCAGAGGAGCATATTAAAGCC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* *
34812109 ACAAATCTTATCTCTCT-AAGTTGCAGTGGAGCAGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * *
34812152 AACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGAT
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * **
34812197 AGCAAATCTTATCT-CTTGAAGTTGTAGTGGAGCAGATTAAAGCC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * * * **
34812241 ATAAATATTATCCCCCTAAAGTTGTAGTGGAGCAAATTGAAAGGC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
* * * *
34812286 ACAAATCTTATCCCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * **
34812330 AGCAAATCTTATCT-CCTAAAGTTGCAGTCGAGCAGATTAAAGCC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
34812374 ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCGGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * **
34812418 AGCAAATCTTATCT-CCTAAAGTTGCAGTCGAGCAGATTAAAGCC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
34812462 ACAAATCTTATCTCCCTAAAGTTGTAATGAAGCAAATTGAAA-AT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
* **
34812506 AGCAAATCTTATCT-CCTGAAGTTACAGTGGAGCAGATTAAAGCC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* *
34812550 ACAAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * **
34812594 AGCAAATCTTATCT-CCTGAAATTGTAGAGGAGCAGATTAAAGCC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
34812638 ATAAATCTTATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* *** * *
34812682 AGCAAATCTTGTCTCTAAGAAGTTGCAGTAGAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * * ** *
34812727 ATAAATCTTATCTCCTTAAAGTTACAGTAGAAAAGATTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* *
34812771 ACAAATCTTATCTCCCTGAAG-T--AGTGGAGCAGATTGAATAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * ** * * *
34812812 GCGAATCTTATTTCCCTGAAGTTATAGTGGAACATATTAAAAATACAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGAT
*
34812863 ACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAA-AT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TT-AAAGAT
* * * * ** *
34812907 GCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
34812951 ACAA
1 ACAA
34812955 GTCGCAAATC
Statistics
Matches: 790, Mismatches: 158, Indels: 62
0.78 0.16 0.06
Matches are distributed among these distances:
41 33 0.04
42 1 0.00
43 95 0.12
44 411 0.52
45 216 0.27
46 1 0.00
50 3 0.00
51 30 0.04
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
Found at i:34812764 original size:133 final size:133
Alignment explanation
Indices: 34811933--34812822 Score: 920
Period size: 133 Copynumber: 6.7 Consensus size: 133
34811923 GTTATCATGA
* * * * *
34811933 CAAATCCTATCTCCCTGAAGTTGCAG-AGGAGCAAATTAAAGCCACAAATCTTATCTCTCTGAAG
1 CAAATCTTATCTCCTTAAAGTTGCAGTA-GAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAG
* * * * * *
34811997 TTGCAGTAGAGTAGATTGAAGATAGCAAATTTTATCTCCCTGAAGCTGCAGTAGAGCAGATTAAA
65 TTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCT-CCTAAAGTTGCAGTGGAGCAGATTAAA
34812062 GATAG
129 GATAG
* * *
34812067 CAAATCTTATCTCC-TGAAGTTGCAG-AGGAGCATATTAAAGCCACAAATCTTATCTCTCT-AAG
1 CAAATCTTATCTCCTTAAAGTTGCAGTA-GAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAG
* * *
34812129 TTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAA
65 TTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCT-CCTAAAGTTGCAGTGGAGCAGATTAAA
34812194 GATAG
129 GATAG
* * * * * * *
34812199 CAAATCTTATCT-CTTGAAGTTGTAGTGGAGCAGATTAAAGCCATAAATATTATCCCCCTAAAGT
1 CAAATCTTATCTCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGT
* * ** * * *
34812263 TGTAGTGGAGCAAATTGAAAGGCA-CAAATCTTATCCCCCTAAAGTTGCAGTGGAGCGGATTGAA
66 TGCAGTGGAGCAGATTG-AAGATAGCAAATCTTAT-CTCCTAAAGTTGCAGTGGAGCAGATTAAA
34812327 GATAG
129 GATAG
* *
34812332 CAAATCTTATCTCC-TAAAGTTGCAGTCGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAAGT
1 CAAATCTTATCTCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGT
* * * *
34812396 TGTAGTGGAGCGGATTGAAGATAGCAAATCTTATCTCCTAAAGTTGCAGTCGAGCAGATTAAAGC
66 TGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTAAAGTTGCAGTGGAGCAGATTAAAGA
*
34812461 CA-
131 TAG
* * * * **
34812463 CAAATCTTATCTCCCTAAAGTTGTAAT-GAAGCAAATTGAAA-ATAGCAAATCTTATCT-CCTGA
1 CAAATCTTATCTCCTTAAAGTTGCAGTAG-AGCAGATT-AAAGCCA-CAAATCTTATCTCCCTGA
* * ** * *
34812525 AGTTACAGTGGAGCAGATTAAAGCCA-CAAATATTATCTCCTTGAAGTTGCAGTGGAGCAGATTA
63 AGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCC-TAAAGTTGCAGTGGAGCAGATTA
34812589 AAGATAG
127 AAGATAG
* * *
34812596 CAAATCTTATCTCCTGAAA-TTGTAG-AGGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAAG
1 CAAATCTTATCTCCTTAAAGTTGCAGTA-GAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAG
* * * *
34812659 TTGCAGTAGAGCATATTGAAGATAGCAAATCTTGTCT-CTAAGAAGTTGCAGTAGAGCAGATTAA
65 TTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCT-A-AAGTTGCAGTGGAGCAGATTAA
*
34812723 AGCTA-
128 AGATAG
* * ** * **
34812728 TAAATCTTATCTCCTTAAAGTTACAGTAGAAAAGATTGAAGATACAAATCTTATCTCCCTGAAG-
1 CAAATCTTATCTCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGT
* *
34812792 T--AGTGGAGCAGATTGAATAT-GCGAATCTTAT
66 TGCAGTGGAGCAGATTGAAGATAGCAAATCTTAT
34812823 TTCCCTGAAG
Statistics
Matches: 643, Mismatches: 91, Indels: 49
0.82 0.12 0.06
Matches are distributed among these distances:
129 9 0.01
130 16 0.02
131 44 0.07
132 268 0.42
133 286 0.44
134 20 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (133 bp):
CAAATCTTATCTCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGT
TGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTAAAGTTGCAGTGGAGCAGATTAAAGA
TAG
Found at i:34812977 original size:95 final size:95
Alignment explanation
Indices: 34812771--34812964 Score: 252
Period size: 95 Copynumber: 2.1 Consensus size: 95
34812761 GATTGAAGAT
* * *
34812771 ACAAATCTTATCTCCCTGAAG-T--AGTGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAG
1 ACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATGCGAATCTTATTTCCCTAAAG
* * *
34812833 TTATAGTGGAACATATTAAAAATACAAGTT
66 TTACAGTGGAACAGATTAAAAATACAAGTC
34812863 ACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAAATGCGAATCTTATTTCCCTAAA
1 ACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAAATGCGAATCTTATTTCCCTAAA
* * **
34812927 GTTGCAGTGGAATAGATTAAAGCTACAAGTC
65 GTTACAGTGGAACAGATTAAAAATACAAGTC
*
34812958 GCAAATC
1 ACAAATC
34812965 ATATACCCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
92 20 0.23
93 1 0.01
94 1 0.01
95 65 0.75
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (95 bp):
ACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATGCGAATCTTATTTCCCTAAAG
TTACAGTGGAACAGATTAAAAATACAAGTC
Found at i:34812998 original size:95 final size:94
Alignment explanation
Indices: 34812771--34812988 Score: 212
Period size: 95 Copynumber: 2.3 Consensus size: 94
34812761 GATTGAAGAT
* * * * *
34812771 ACAAATCTTATCTCCCTG-AAGT--AGTGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAG
1 ACAAATCTAATCTCCCTGAAATTACAATGGAGC-GATTGAAAATGCGAATCTTATTTCCCTAAAG
* * *
34812833 TTATAGTGGAACATATTAAAAATACAAGTT
65 TTACAGTGGAACAGATTAAAAATACAAGTC
* * * *
34812863 ACAAATCTAATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAAATGCGAATCTTATTTCCCTAAAG
1 ACAAATCTAATCTCCCTGAAATTACAATGGAGCGA-TTGAAAATGCGAATCTTATTTCCCTAAAG
* * **
34812928 TTGCAGTGGAATAGATTAAAGCTACAAGTC
65 TTACAGTGGAACAGATTAAAAATACAAGTC
*
34812958 GCAAATC-ATATAC-CCCTGAAATTACAATGGA
1 ACAAATCTA-AT-CTCCCTGAAATTACAATGGA
34812989 ATGGATTGAA
Statistics
Matches: 103, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
92 17 0.17
93 2 0.02
94 2 0.02
95 81 0.79
96 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (94 bp):
ACAAATCTAATCTCCCTGAAATTACAATGGAGCGATTGAAAATGCGAATCTTATTTCCCTAAAGT
TACAGTGGAACAGATTAAAAATACAAGTC
Found at i:34813099 original size:44 final size:44
Alignment explanation
Indices: 34813013--34813244 Score: 142
Period size: 44 Copynumber: 5.0 Consensus size: 44
34813003 TTGTGGCGAG
* *
34813013 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAA
* * ** *
34813057 TCTTATTTTCCTGAAGTTGTAGTGGATTAGATTAAAGCTACAAGTCGCAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCT---A----CAAA
* * * * * *
34813108 TCCTATAC-CCCTGAAATTGCAGTGGAACAGATTGAAGTCATTGTAACGAG
1 TCTTAT-CTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-C----T-ACAAA
* *
34813158 TCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAA
* * * ** *
34813202 TCTTATTTTCCTGAAGTTGCAGTGGATTAGATTAAAGCTACAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAA
34813245 GTCGCAAATC
Statistics
Matches: 141, Mismatches: 33, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
44 70 0.50
45 1 0.01
47 1 0.01
49 1 0.01
50 32 0.23
51 32 0.23
52 1 0.01
54 2 0.01
56 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAA
Found at i:34813132 original size:51 final size:49
Alignment explanation
Indices: 34813066--34813292 Score: 142
Period size: 51 Copynumber: 4.6 Consensus size: 49
34813056 ATCTTATTTT
* * *
34813066 CCTGAAGTTGTAGTGGATTAGATTAAAGCTACAAGTCGCAAATCCTATACC
1 CCTGAAGTTGCAGTGGATCAGATTAAAG-T-CAAGTCACAAATCCTATACC
* * * * * * * *
34813117 CCTGAAATTGCAGTGGAACAGATTGAAGTCATTGTAACGAGTCTTAT-CTC
1 CCTGAAGTTGCAGTGGATCAGATTAAAGTCA-AGTCACAAATCCTATAC-C
* * * * * ***
34813167 CCTGAAGTTGTAGTGAAGCAGATT---G--AAGTTACAAATCTTATTTT
1 CCTGAAGTTGCAGTGGATCAGATTAAAGTCAAGTCACAAATCCTATACC
* *
34813211 CCTGAAGTTGCAGTGGATTAGATTAAAGCTACAAGTCGCAAATCCTATACC
1 CCTGAAGTTGCAGTGGATCAGATTAAAG-T-CAAGTCACAAATCCTATACC
* * *
34813262 CCTGAAATTGCAGTGGAACAGATTGAAGTCA
1 CCTGAAGTTGCAGTGGATCAGATTAAAGTCA
34813293 TTGTGGCGAG
Statistics
Matches: 131, Mismatches: 35, Indels: 22
0.70 0.19 0.12
Matches are distributed among these distances:
44 31 0.24
45 1 0.01
47 2 0.02
49 5 0.04
50 32 0.24
51 60 0.46
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (49 bp):
CCTGAAGTTGCAGTGGATCAGATTAAAGTCAAGTCACAAATCCTATACC
Found at i:34813141 original size:145 final size:145
Alignment explanation
Indices: 34812872--34813325 Score: 710
Period size: 145 Copynumber: 3.1 Consensus size: 145
34812862 TACAAATCTA
* * ** * * * *
34812872 ATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAAATGCGAATCTTATTTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTTACAAATCTTATTTTCCTGAAGTTGCAGTGG
* * * * **
34812937 AATAGATTAAAGCTACAAGTCGCAAATCATATACCCCTGAAATTACAATGGAATGGATTGAAGTC
66 ATTAGATTAAAGCTACAAGTCGCAAATCCTATACCCCTGAAATTGCAGTGGAACAGATTGAAGTC
34813002 ATTGTGGCGAGTCTT
131 ATTGTGGCGAGTCTT
*
34813017 ATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTTACAAATCTTATTTTCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTTACAAATCTTATTTTCCTGAAGTTGCAGTGG
34813082 ATTAGATTAAAGCTACAAGTCGCAAATCCTATACCCCTGAAATTGCAGTGGAACAGATTGAAGTC
66 ATTAGATTAAAGCTACAAGTCGCAAATCCTATACCCCTGAAATTGCAGTGGAACAGATTGAAGTC
**
34813147 ATTGTAACGAGTCTT
131 ATTGTGGCGAGTCTT
* *
34813162 ATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGTTACAAATCTTATTTTCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTTACAAATCTTATTTTCCTGAAGTTGCAGTGG
34813227 ATTAGATTAAAGCTACAAGTCGCAAATCCTATACCCCTGAAATTGCAGTGGAACAGATTGAAGTC
66 ATTAGATTAAAGCTACAAGTCGCAAATCCTATACCCCTGAAATTGCAGTGGAACAGATTGAAGTC
34813292 ATTGTGGCGAGTCTT
131 ATTGTGGCGAGTCTT
* * *
34813307 ATTTTCCTAAAGTTGTAGT
1 ATCTCCCTGAAGTTGTAGT
34813326 CGAATAGATT
Statistics
Matches: 284, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
145 284 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (145 bp):
ATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTTACAAATCTTATTTTCCTGAAGTTGCAGTGG
ATTAGATTAAAGCTACAAGTCGCAAATCCTATACCCCTGAAATTGCAGTGGAACAGATTGAAGTC
ATTGTGGCGAGTCTT
Found at i:34813636 original size:6 final size:6
Alignment explanation
Indices: 34813625--34813654 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
34813615 AGTGCATGGC
34813625 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
34813655 TATTGTACAA
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:34817816 original size:20 final size:18
Alignment explanation
Indices: 34817772--34817818 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 18
34817762 TGAAACTAAT
*
34817772 TGATTTGATTTTTTAAAA
1 TGATTTAATTTTTTAAAA
34817790 T--TTTAATTTTATTATAAA
1 TGATTTAATTTT-TTA-AAA
34817808 TGATTTAATTT
1 TGATTTAATTT
34817819 AAAAGCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 8 0.33
17 3 0.12
18 5 0.21
20 8 0.33
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TGATTTAATTTTTTAAAA
Found at i:34824464 original size:14 final size:16
Alignment explanation
Indices: 34824426--34824467 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 16
34824416 TTCAATCATG
34824426 AAATAAAAAGTGTTGAA
1 AAATAAAAA-TGTTGAA
34824443 AAAGTAAAAATG-T-AA
1 AAA-TAAAAATGTTGAA
34824458 AAATAAAAAT
1 AAATAAAAAT
34824468 CGAAATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 1 0.04
17 5 0.21
18 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAATAAAAATGTTGAA
Found at i:34828606 original size:13 final size:14
Alignment explanation
Indices: 34828588--34828616 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34828578 TGATGATCAA
34828588 AGGGTTT-TTTTTG
1 AGGGTTTGTTTTTG
34828601 AGGGTTTGTTTTTG
1 AGGGTTTGTTTTTG
34828615 AG
1 AG
34828617 CTGAGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.10, C:0.00, G:0.34, T:0.55
Consensus pattern (14 bp):
AGGGTTTGTTTTTG
Found at i:34831601 original size:23 final size:22
Alignment explanation
Indices: 34831575--34831617 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
34831565 AAATTCATTC
*
34831575 AACCTAAATTTGAAAATGACTTG
1 AACCCAAATTTG-AAATGACTTG
*
34831598 AACCCAATTTTGAAATGACT
1 AACCCAAATTTGAAATGACT
34831618 GGATCATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (22 bp):
AACCCAAATTTGAAATGACTTG
Found at i:34832502 original size:2 final size:2
Alignment explanation
Indices: 34832495--34832526 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34832485 TTAGATATGT
34832495 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34832527 AAAGAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34833591 original size:2 final size:2
Alignment explanation
Indices: 34833584--34833615 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34833574 ATAGATATGT
34833584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34833616 AAAGTGAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34835929 original size:22 final size:22
Alignment explanation
Indices: 34835904--34835948 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
34835894 AGTAAGTTAT
34835904 AAAATGATCA-TTAAATTAATTG
1 AAAATGATCATTTAAA-TAATTG
**
34835926 AAAATTTTCATTTAAATAATTG
1 AAAATGATCATTTAAATAATTG
34835948 A
1 A
34835949 GTTGTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (22 bp):
AAAATGATCATTTAAATAATTG
Found at i:34848101 original size:18 final size:18
Alignment explanation
Indices: 34848080--34848121 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34848070 TAAATTATAT
*
34848080 ATTTTTATTATTTTAAT-A
1 ATTTTTATT-TTTAAATAA
*
34848098 ATTTATATTTTTAAATAA
1 ATTTTTATTTTTAAATAA
34848116 ATTTTT
1 ATTTTT
34848122 TTACTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTATTTTTAAATAA
Found at i:34849284 original size:19 final size:21
Alignment explanation
Indices: 34849238--34849284 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 21
34849228 TAACTTTTCC
34849238 TTAAATTT-TTTTATATCTTT
1 TTAAATTTATTTTATATCTTT
34849258 TT-AA--TATTTT-TAT-TTT
1 TTAAATTTATTTTATATCTTT
34849274 TTAAATTTATT
1 TTAAATTTATT
34849285 AATTTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 4 0.17
19 6 0.26
20 2 0.09
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTAAATTTATTTTATATCTTT
Found at i:34861420 original size:9 final size:9
Alignment explanation
Indices: 34861403--34861444 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
34861393 ATAAACTTAA
34861403 ATATTTTAT
1 ATATTTTAT
*
34861412 ATTTTTTAT
1 ATATTTTAT
34861421 ATATTTTAT
1 ATATTTTAT
34861430 A-A-TTTA-
1 ATATTTTAT
34861436 ATATTTTAT
1 ATATTTTAT
34861445 TTAAAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 1 0.04
7 5 0.18
8 5 0.18
9 17 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
ATATTTTAT
Found at i:34877505 original size:41 final size:41
Alignment explanation
Indices: 34877399--34877515 Score: 136
Period size: 41 Copynumber: 3.0 Consensus size: 41
34877389 CCTCATCAGA
* * *
34877399 TAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCG-GT
1 TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAAT
* * *
34877439 TAAACCG-A--AGTAAATT-AGCAACCAGTGCCTCATCGAAT
1 TAATCCGAAGTAGTAAATTGA-CACCCAGTGTCTCATCGAAT
34877477 TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGA
1 TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGA
34877516 GTCGAAATCG
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
36 1 0.02
37 22 0.35
38 7 0.11
39 2 0.03
40 5 0.08
41 24 0.39
42 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (41 bp):
TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAAT
Found at i:34878350 original size:16 final size:17
Alignment explanation
Indices: 34878329--34878383 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
34878319 GAAACCCTAA
34878329 CTTTTC-TCCTTTCTTT
1 CTTTTCTTCCTTTCTTT
*
34878345 CTTTTCTTCTTTTCTTT
1 CTTTTCTTCCTTTCTTT
* *
34878362 CTTTCCTT-CTTTGTTT
1 CTTTTCTTCCTTTCTTT
34878378 CGTTTT
1 C-TTTT
34878384 TTTCTCTCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (17 bp):
CTTTTCTTCCTTTCTTT
Found at i:34878360 original size:17 final size:17
Alignment explanation
Indices: 34878329--34878373 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
34878319 GAAACCCTAA
*
34878329 CTTTTC-TCCTTTCTTT
1 CTTTTCTTCTTTTCTTT
34878345 CTTTTCTTCTTTTCTTT
1 CTTTTCTTCTTTTCTTT
*
34878362 CTTTCCTTCTTT
1 CTTTTCTTCTTT
34878374 GTTTCGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTTTCTTCTTTTCTTT
Found at i:34880969 original size:23 final size:23
Alignment explanation
Indices: 34880943--34880991 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
34880933 CTACTAAAAT
34880943 GAAAACAAATCCATGGTTTCAAA
1 GAAAACAAATCCATGGTTTCAAA
34880966 GAAAACAAATCCATGGTTTCAAA
1 GAAAACAAATCCATGGTTTCAAA
34880989 GAA
1 GAA
34880992 GTGTAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (23 bp):
GAAAACAAATCCATGGTTTCAAA
Found at i:34884343 original size:21 final size:20
Alignment explanation
Indices: 34884319--34884360 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
34884309 AAAATTTAGT
34884319 TTTTATTCTTTA-TTTTCAGAA
1 TTTT-TTCTTTACTTTTC-GAA
*
34884340 TTTTTTTTTTACTTTTCGAA
1 TTTTTTCTTTACTTTTCGAA
34884360 T
1 T
34884361 AAAAAATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTTCTTTACTTTTCGAA
Found at i:34901869 original size:197 final size:195
Alignment explanation
Indices: 34901432--34901877 Score: 468
Period size: 196 Copynumber: 2.3 Consensus size: 195
34901422 AATTATTTAT
* * *
34901432 ACTAACTAATGACATTAAAAAAGTTGAGGTACCAAATTATGTCACAAATTAAAGTATGAGATTAA
1 ACTAAC-AATGACATTATAAAAGTTGAGGTACCAAATAATGTTA-AAATTAAAGTATGAGATTAA
* * *
34901497 ATTTCAAAATTAAGCAAAGCATAAGGACCAAAATTGAAATTTGACCACTGTTATGTAATCTGAAA
64 ATTTCAAAATTAAGCAAAGCATAAGGACCAAAATTGAAATTTGACCACTATTATATAATCTAAAA
* * * ** * *
34901562 AAAGCAATAAAAGCTTGTGTATTTGGACATGTATACGTCAACATTTTAATCAGAAGGAAGTATTT
129 AAAGCAATAAAAGCTCGTGTATATGGACATGTAGACCCCAACATTTTAATCAGAACGAAGTATAT
*
34901627 GG
194 AG
* ** * * * *
34901629 ACTGATTATGACAGTATAAAAGTTGAGGTACCAAATGATGTTAAATTTTAAGTATTGAGATTAAA
1 ACTAACAATGACATTATAAAAGTTGAGGTACCAAATAATGTTAAAATTAAAGTA-TGAGATTAAA
* * * * * * * * *
34901694 TTTCAAATTTGAGCATAA-TATATGGATCTAAATTGAAATTTTACCATTATTATATTATCTTAAA
65 TTTCAAAATTAAGCA-AAGCATAAGGACCAAAATTGAAATTTGACCACTATTATATAATC-TAAA
* * *
34901758 AAATATGTAA-AAAGGC-CGTGTATATGGACATGTGGACCCCAACATTTTAATCAGAACGAAGTA
128 AAA-A-GCAATAAAAGCTCGTGTATATGGACATGTAGACCCCAACATTTTAATCAGAACGAAGTA
34901821 TATAG
191 TATAG
* *
34901826 AGTAACAATGACATTATAGAAA-TTGAGGTACTAAATAATGTTAAAAATTAAA
1 ACTAACAATGACATTATA-AAAGTTGAGGTACCAAATAATGTT-AAAATTAAA
34901878 TTGAATATTC
Statistics
Matches: 201, Mismatches: 41, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
195 9 0.04
196 87 0.43
197 86 0.43
198 16 0.08
199 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (195 bp):
ACTAACAATGACATTATAAAAGTTGAGGTACCAAATAATGTTAAAATTAAAGTATGAGATTAAAT
TTCAAAATTAAGCAAAGCATAAGGACCAAAATTGAAATTTGACCACTATTATATAATCTAAAAAA
AGCAATAAAAGCTCGTGTATATGGACATGTAGACCCCAACATTTTAATCAGAACGAAGTATATAG
Found at i:34902890 original size:21 final size:21
Alignment explanation
Indices: 34902849--34902892 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
34902839 TTAAATTTAA
34902849 AAATTTTAAAAATAAAAATAT
1 AAATTTTAAAAATAAAAATAT
34902870 AAATTTTAAAAATAAAAATAT
1 AAATTTTAAAAATAAAAATAT
34902891 AA
1 AA
34902893 TGATTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATTTTAAAAATAAAAATAT
Found at i:34902899 original size:21 final size:21
Alignment explanation
Indices: 34902849--34902900 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
34902839 TTAAATTTAA
*
34902849 AAATTTTAAAAATAAAAATAT
1 AAATATTAAAAATAAAAATAT
*
34902870 AAATTTTAAAAATAAAAATAT
1 AAATATTAAAAATAAAAATAT
34902891 -AATGATTAAA
1 AAAT-ATTAAA
34902901 TTTTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATATTAAAAATAAAAATAT
Found at i:34921125 original size:9 final size:9
Alignment explanation
Indices: 34921111--34921142 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
34921101 AACTTGGTGC
34921111 ATTTTGTTT
1 ATTTTGTTT
34921120 ATTTTGTTT
1 ATTTTGTTT
34921129 ATTTTGTTT
1 ATTTTGTTT
34921138 ATTTT
1 ATTTT
34921143 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:34921223 original size:23 final size:23
Alignment explanation
Indices: 34921193--34921244 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
34921183 TGCAACTTGG
34921193 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
34921216 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
34921239 TTTCAT
1 TTTCAT
34921245 CTTTTGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:34921256 original size:59 final size:59
Alignment explanation
Indices: 34921193--34921308 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
34921183 TGCAACTTGG
*
34921193 TTTCATAATAATAGCTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTTGC
1 TTTCATAATAATAGCTAATATGCTTTCATAATGATAGCTACAATGCTTTCATCTTTTGC
* * *
34921252 TTTCATAATGATAGCTAATATGCTTTCATAATGGTAGTTACAATGCTTTCATCTTTT
1 TTTCATAATAATAGCTAATATGCTTTCATAATGATAGCTACAATGCTTTCATCTTTT
34921309 TAATTATTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (59 bp):
TTTCATAATAATAGCTAATATGCTTTCATAATGATAGCTACAATGCTTTCATCTTTTGC
Found at i:34921277 original size:23 final size:23
Alignment explanation
Indices: 34921249--34921303 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
34921239 TTTCATCTTT
34921249 TGCTTTCATAATGATAGCTA-ATA
1 TGCTTTCATAATGATAGCTACA-A
* *
34921272 TGCTTTCATAATGGTAGTTACAA
1 TGCTTTCATAATGATAGCTACAA
34921295 TGCTTTCAT
1 TGCTTTCAT
34921304 CTTTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (23 bp):
TGCTTTCATAATGATAGCTACAA
Found at i:34926022 original size:14 final size:14
Alignment explanation
Indices: 34926003--34926032 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34925993 TTCAAATGAC
34926003 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
*
34926017 AAAAAAGAAAAGAA
1 AAAAAAAAAAAGAA
34926031 AA
1 AA
34926033 GAGTTTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:34926330 original size:27 final size:27
Alignment explanation
Indices: 34926290--34926351 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
34926280 AATTACGCAT
* *
34926290 TGGCGCCTCCCTATGAGACACTTTTAA
1 TGGCGCCTCCCTATGAGACACATTCAA
* * *
34926317 TGGCGCCTCTCTATGAGGCACATTCAT
1 TGGCGCCTCCCTATGAGACACATTCAA
34926344 TGGCGCCT
1 TGGCGCCT
34926352 ACCTGACAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGACACATTCAA
Done.