Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 343 of 343
Found at i:109885930 original size:117 final size:119
Alignment explanation
Indices: 109885707--109885934 Score: 336
Period size: 117 Copynumber: 1.9 Consensus size: 119
109885697 TAAATTAGAT
* *
109885707 TATTCCAAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAA
1 TATTCCAAAAACATGGGATTTAGGCATATCCTCTACTATCCATAATAACAACACATACAGCTCAA
* * ** * *
109885772 AAATGGATCATTAATGGGGTTCAAAAGAAGGTTATATGAACAATTTCGGTCAAA
66 AAATGGATCATCAATGGGGGTCAAAAGAAAATCATAAGAACAATTTCGGTCAAA
*
109885826 TATTCCAAAAATATGGGATTTAGG-A-ATCCTCTACTATCCAT-ATAACAACACATAACAGCTCA
1 TATTCCAAAAACATGGGATTTAGGCATATCCTCTACTATCCATAATAACAACACAT-ACAGCTCA
*
109885888 AAAATGGATCATCAGTGGGGGTCAAAAGAAAATCATAAGAACAATTT
65 AAAATGGATCATCAATGGGGGTCAAAAGAAAATCATAAGAACAATTT
109885935 AGGTTTTAGA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
116 12 0.12
117 63 0.64
118 1 0.01
119 22 0.22
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (119 bp):
TATTCCAAAAACATGGGATTTAGGCATATCCTCTACTATCCATAATAACAACACATACAGCTCAA
AAATGGATCATCAATGGGGGTCAAAAGAAAATCATAAGAACAATTTCGGTCAAA
Found at i:109890142 original size:28 final size:28
Alignment explanation
Indices: 109890101--109890162 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
109890091 CGTTTGGAAT
109890101 TTTTTAAAAATTATATATTT-TTATATA
1 TTTTTAAAAATTATATATTTGTTATATA
* * * *
109890128 TTTTTAATAATTTATTTATTTGTTTTGTA
1 TTTTTAA-AAATTATATATTTGTTATATA
109890157 TTTTTA
1 TTTTTA
109890163 GATTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 11 0.38
29 11 0.38
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTAAAAATTATATATTTGTTATATA
Found at i:109894460 original size:110 final size:107
Alignment explanation
Indices: 109894186--109894479 Score: 329
Period size: 110 Copynumber: 2.7 Consensus size: 107
109894176 TAATAATGTA
*
109894186 TGTTTGTTTTAG-GTTTTAGGAA-GA--ACTGAACCAGTTTATATGTAACAAAACGCTGGACATG
1 TGTTTGTTTTAGTGTTTTA--AATGAGGACTAAACCAGTTTATATGT-A-AAAA--CTGGACATG
*
109894247 TTT-AAGCTTTAGCTTGGTGTCTGTAATCTAAGCTATAGCCCTGTTGAC
60 TTTAAAGC-TTAGCTTGGTGTCTGTAATCTAAGCTAGAGCCCTGTTGAC
* * *
109894295 GGTTTGTTTTAGTG--TT--ATTAGGACTAAACCAGTTTACATGTAAAAACTGGACATGTTTAAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
* * *
109894356 GCTTAGCTTGGTGTCTGTAATCTAAGCTGGAG-CTTAGTTTTTTAC
66 GCTTAGCTTGGTGTCTGTAATCTAAGCTAGAGCCCT-G---TTGAC
* *
109894401 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAGAACTGGGCATGTTTAAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
109894466 GCTTAGCTTGGTGT
66 GCTTAGCTTGGTGT
109894480 GTTTATATAT
Statistics
Matches: 159, Mismatches: 13, Indels: 25
0.81 0.07 0.13
Matches are distributed among these distances:
102 2 0.01
103 41 0.26
104 5 0.03
105 5 0.03
106 18 0.11
107 17 0.11
108 4 0.03
109 11 0.07
110 56 0.35
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (107 bp):
TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
GCTTAGCTTGGTGTCTGTAATCTAAGCTAGAGCCCTGTTGAC
Found at i:109894792 original size:193 final size:193
Alignment explanation
Indices: 109894430--109894844 Score: 624
Period size: 193 Copynumber: 2.2 Consensus size: 193
109894420 AATGAGGACT
*
109894430 AAACCAGTTTATATGTAAGAACTGGGCATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
1 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
*
109894495 TAGTGTTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAA
66 TAGTGTTTTAACCGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAA
*
109894560 AATCATCTCCCACAACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
131 AATCATCTACCAC-ACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
* *
109894624 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAATCTTAGCTTGGTGTGTTTCTATATGGACC
1 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
* *
109894689 TA-TCG-TTTAACCGTTAAATGATGGAGTTACCATTGCTGAATCTAAGTTCAGCACCAGAAGCTA
66 TAGT-GTTTTAACCGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTA
*
109894752 AAATCATCTACC-C-C-GACCCTAGCTAGTCTTTATATAT--A--T--AT--GGAGCTTTGACA
130 AAATCATCTACCACACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
* *
109894805 AAACCAATTTACATGTAAGAACTGGACATGTTT-AAGCTTA
1 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTA
109894845 TAAACTTGGT
Statistics
Matches: 209, Mismatches: 11, Indels: 16
0.89 0.05 0.07
Matches are distributed among these distances:
180 6 0.03
181 42 0.20
183 2 0.01
185 1 0.00
187 1 0.00
189 23 0.11
190 1 0.00
192 1 0.00
193 67 0.32
194 65 0.31
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (193 bp):
AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
TAGTGTTTTAACCGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAA
AATCATCTACCACACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
Found at i:109895138 original size:26 final size:24
Alignment explanation
Indices: 109895109--109895171 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 24
109895099 TAATACTAAT
109895109 TTTAATTTTTAATATTTATATATTGG
1 TTTAATTTTTAATATTTAT-TATT-G
* *
109895135 TTTAATTTTTTAATTTTTATTATTT
1 TTTAA-TTTTTAATATTTATTATTG
109895160 TTTAATATTTTA
1 TTTAAT-TTTTA
109895172 GCCTGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 1 0.03
25 10 0.30
26 9 0.27
27 13 0.39
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
TTTAATTTTTAATATTTATTATTG
Found at i:109916745 original size:18 final size:18
Alignment explanation
Indices: 109916724--109916763 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
109916714 TGTTATTCTT
*
109916724 GTTGTTGCTATTGTTGCC
1 GTTGTTGCTACTGTTGCC
* *
109916742 GTTGTTGTTACTGTTGCT
1 GTTGTTGCTACTGTTGCC
109916760 GTTG
1 GTTG
109916764 CGGATGCCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.30, T:0.53
Consensus pattern (18 bp):
GTTGTTGCTACTGTTGCC
Found at i:109916763 original size:6 final size:6
Alignment explanation
Indices: 109916735--109916792 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
109916725 TTGTTGCTAT
* * * * * * *
109916735 TGTTGC CGTTGT TGTTAC TGTTGC TGTTGC GGATGC CGTTGC TTTTGC
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC
109916783 TGTTGC TGTT
1 TGTTGC TGTT
109916793 TCATGCGATG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.03, C:0.17, G:0.31, T:0.48
Consensus pattern (6 bp):
TGTTGC
Found at i:109920665 original size:18 final size:18
Alignment explanation
Indices: 109920606--109920667 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
109920596 TATCAGTTTC
* *
109920606 ATTCAGTAGCAATTAGTT
1 ATTCAGTAGCAGTCAGTT
* * *
109920624 ATTCAGCAACAGTCATTT
1 ATTCAGTAGCAGTCAGTT
**
109920642 GCTCAGTAGCAGTCAGTT
1 ATTCAGTAGCAGTCAGTT
109920660 ATTCAGTA
1 ATTCAGTA
109920668 ACAATCAATT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
ATTCAGTAGCAGTCAGTT
Found at i:109920700 original size:18 final size:18
Alignment explanation
Indices: 109920658--109920723 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 18
109920648 TAGCAGTCAG
* * *
109920658 TTATTCAGTAACAATCAA
1 TTATTCAATAATAATTAA
* *
109920676 TTTTTCAATAATAATTGA
1 TTATTCAATAATAATTAA
* *
109920694 TTATTCAATAACAGTTAA
1 TTATTCAATAATAATTAA
*
109920712 TTATTCAGTAAT
1 TTATTCAATAAT
109920724 GATCAGTCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (18 bp):
TTATTCAATAATAATTAA
Found at i:109920939 original size:23 final size:23
Alignment explanation
Indices: 109920850--109920939 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
109920840 ACCTAATCAG
*
109920850 TATACGACACAT-AAGTTCCTGA
1 TATACGACACATAAAGTGCCTGA
** *
109920872 -A-ACGACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
109920893 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
109920916 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
109920939 T
1 T
109920940 CGACAAAACC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.14
21 9 0.16
22 1 0.02
23 40 0.69
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:109924504 original size:17 final size:19
Alignment explanation
Indices: 109924463--109924504 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
109924453 AACCTTCAAC
109924463 CTTCAAGCTCCTCCTTTTT
1 CTTCAAGCTCCTCCTTTTT
109924482 CTTTCAAGCTCCT-C-TTTT
1 C-TTCAAGCTCCTCCTTTTT
109924500 CTTCA
1 CTTCA
109924505 TTCGACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 2 0.09
20 11 0.50
ACGTcount: A:0.12, C:0.36, G:0.05, T:0.48
Consensus pattern (19 bp):
CTTCAAGCTCCTCCTTTTT
Found at i:109924570 original size:39 final size:39
Alignment explanation
Indices: 109924527--109924622 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 39
109924517 TTCTCTACTT
*
109924527 TCTGCATTCTTCCTTCAAGC-TCCAGATTACTTCAAGCTC
1 TCTGCTTTCTTCCTTCAAGCTTCC-GATTACTTCAAGCTC
* *
109924566 TCTGCTTTCTTCGTTCAAGCTTCCGATTCCTTCAAGCTC
1 TCTGCTTTCTTCCTTCAAGCTTCCGATTACTTCAAGCTC
* *
109924605 ACTACTTTCTTCCTTCAA
1 TCTGCTTTCTTCCTTCAA
109924623 CCCTTCTCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 47 0.94
40 3 0.06
ACGTcount: A:0.18, C:0.33, G:0.09, T:0.40
Consensus pattern (39 bp):
TCTGCTTTCTTCCTTCAAGCTTCCGATTACTTCAAGCTC
Found at i:109930033 original size:98 final size:98
Alignment explanation
Indices: 109929864--109930067 Score: 408
Period size: 98 Copynumber: 2.1 Consensus size: 98
109929854 TTCCACTCAT
109929864 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
1 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
109929929 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
66 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
109929962 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
1 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
109930027 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
66 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
109930060 ACAAATTC
1 ACAAATTC
109930068 TGTATAAAAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 106 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (98 bp):
ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
Found at i:109930900 original size:10 final size:10
Alignment explanation
Indices: 109930869--109930950 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
109930859 TTAGTTTTTT
109930869 AAAATTTT-A
1 AAAATTTTAA
**
109930878 AAAATTCAAAA
1 AAAATT-TTAA
109930889 AAAATTTTAAA
1 AAAATTTT-AA
109930900 AACAATTTTAA
1 AA-AATTTTAA
109930911 AAAA--TT-A
1 AAAATTTTAA
* *
109930918 ACAATATTAA
1 AAAATTTTAA
*
109930928 AAAATTATAA
1 AAAATTTTAA
*
109930938 AAACTTTTAA
1 AAAATTTTAA
109930948 AAA
1 AAA
109930951 TTAATTAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
7 4 0.07
8 2 0.04
9 8 0.14
10 21 0.38
11 15 0.27
12 6 0.11
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:109930913 original size:13 final size:12
Alignment explanation
Indices: 109930885--109930914 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
109930875 TTAAAAATTC
109930885 AAAAAAAATTTT
1 AAAAAAAATTTT
*
109930897 AAAAACAATTTT
1 AAAAAAAATTTT
109930909 AAAAAA
1 AAAAAA
109930915 TTAACAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAAAAATTTT
Found at i:109930922 original size:17 final size:17
Alignment explanation
Indices: 109930900--109930934 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
109930890 AAATTTTAAA
*
109930900 AACAATTTTAAAAAATT
1 AACAATATTAAAAAATT
109930917 AACAATATTAAAAAATT
1 AACAATATTAAAAAATT
109930934 A
1 A
109930935 TAAAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
AACAATATTAAAAAATT
Found at i:109931200 original size:18 final size:19
Alignment explanation
Indices: 109931162--109931200 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
109931152 ACCTTCAACC
*
109931162 TTCAAGCTCCTCTTTTTTCT
1 TTCAAGCTCCTC-TCTTTCT
109931182 TTCAAGCTCCTC-CTTTCT
1 TTCAAGCTCCTCTCTTTCT
109931200 T
1 T
109931201 CATTCGACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.05, T:0.51
Consensus pattern (19 bp):
TTCAAGCTCCTCTCTTTCT
Found at i:109931261 original size:17 final size:17
Alignment explanation
Indices: 109931239--109931281 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
109931229 GCACTCTTCT
109931239 TTCAAGCTCCCGATTAC
1 TTCAAGCTCCCGATTAC
*
109931256 TTCAAGCTCCCGATTCC
1 TTCAAGCTCCCGATTAC
109931273 TTCAAGCTC
1 TTCAAGCTC
109931282 ACTACTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.37, G:0.12, T:0.30
Consensus pattern (17 bp):
TTCAAGCTCCCGATTAC
Found at i:109940171 original size:12 final size:12
Alignment explanation
Indices: 109940114--109940185 Score: 54
Period size: 12 Copynumber: 6.0 Consensus size: 12
109940104 GCCATTTTTA
**
109940114 TTGTCGTTGTCA
1 TTGTCGTTGTTG
*
109940126 TTGTCATTGTTG
1 TTGTCGTTGTTG
* * * *
109940138 TTGTTGCTATTT
1 TTGTCGTTGTTG
*
109940150 TTGCCGTTGTTG
1 TTGTCGTTGTTG
*
109940162 TTGTCGTTGTAG
1 TTGTCGTTGTTG
*
109940174 TTGTCATTGTTG
1 TTGTCGTTGTTG
109940186 CTGTTGCCGT
Statistics
Matches: 43, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.07, C:0.11, G:0.26, T:0.56
Consensus pattern (12 bp):
TTGTCGTTGTTG
Found at i:109940171 original size:48 final size:48
Alignment explanation
Indices: 109940100--109940192 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
109940090 TAGTCTCTCC
* *
109940100 TTTTGCCATTTTTATTGTCGTTGTCA-TTGTCATTGTTGTTGTTGCTAT
1 TTTTGCCATTGTTATTGTCGTTGT-AGTTGTCATTGTTGCTGTTGCTAT
* *
109940148 TTTTGCCGTTGTTGTTGTCGTTGTAGTTGTCATTGTTGCTGTTGC
1 TTTTGCCATTGTTATTGTCGTTGTAGTTGTCATTGTTGCTGTTGC
109940193 CGTTGCCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.08, C:0.13, G:0.24, T:0.56
Consensus pattern (48 bp):
TTTTGCCATTGTTATTGTCGTTGTAGTTGTCATTGTTGCTGTTGCTAT
Found at i:109940199 original size:6 final size:6
Alignment explanation
Indices: 109940189--109940234 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
109940179 ATTGTTGCTG
* * *
109940189 TTGCCG TTGCCT TTGCCT TTACCG TTGCCT TTGCCT TTGCCT TTGC
1 TTGCCT TTGCCT TTGCCT TTGCCT TTGCCT TTGCCT TTGCCT TTGC
109940235 ATGCGATGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.46
Consensus pattern (6 bp):
TTGCCT
Found at i:109940204 original size:12 final size:12
Alignment explanation
Indices: 109940183--109940234 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
109940173 GTTGTCATTG
* *
109940183 TTGCTGTTGCCG
1 TTGCCGTTGCCT
*
109940195 TTGCCTTTGCCT
1 TTGCCGTTGCCT
*
109940207 TTACCGTTGCCT
1 TTGCCGTTGCCT
*
109940219 TTGCCTTTGCCT
1 TTGCCGTTGCCT
109940231 TTGC
1 TTGC
109940235 ATGCGATGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.02, C:0.31, G:0.21, T:0.46
Consensus pattern (12 bp):
TTGCCGTTGCCT
Found at i:109940234 original size:18 final size:18
Alignment explanation
Indices: 109940189--109940234 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
109940179 ATTGTTGCTG
109940189 TTGCCGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
*
109940207 TTACCGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
*
109940225 TTGCCTTTGC
1 TTGCCGTTGC
109940235 ATGCGATGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.46
Consensus pattern (18 bp):
TTGCCGTTGCCTTTGCCT
Found at i:109947040 original size:21 final size:21
Alignment explanation
Indices: 109947014--109947054 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109947004 AGACGAGCAA
* *
109947014 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
109947035 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
109947055 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:109949938 original size:36 final size:36
Alignment explanation
Indices: 109949898--109950021 Score: 203
Period size: 36 Copynumber: 3.4 Consensus size: 36
109949888 CTGGTGTCCC
109949898 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
**
109949934 GACAAGATTGCCTGAATTTGCACGATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
* *
109949970 GACAAGATTGCCTGAATTTGTGCAATTTCAAAGTGG
1 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
*
109950006 GACAACATTGCCTGAA
1 GACAAGATTGCCTGAA
109950022 GAAGTGAAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 81 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (36 bp):
GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
Found at i:109950033 original size:36 final size:36
Alignment explanation
Indices: 109949958--109950033 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
109949948 AATTTGCACG
* * *** *
109949958 ATTTCAAGGTGGGACAAGATTGCCTGAATTTGTGCA
1 ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
109949994 ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
1 ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
109950030 ATTT
1 ATTT
109950034 GAAATGTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (36 bp):
ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
Found at i:109957412 original size:33 final size:33
Alignment explanation
Indices: 109957334--109957412 Score: 137
Period size: 30 Copynumber: 2.5 Consensus size: 33
109957324 CTGGTGTCCC
109957334 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
109957367 GAC---ATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
109957397 GACAAGATTGCCTGAA
1 GACAAGATTGCCTGAA
109957413 GGAGTGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
30 30 0.70
33 13 0.30
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (33 bp):
GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
Found at i:109957671 original size:28 final size:26
Alignment explanation
Indices: 109957621--109957673 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
109957611 GAAGTGTCTC
* *
109957621 GCCACCAAAGAAATGTTTAGCATTTA
1 GCCACCAAAGAAATGCTAAGCATTTA
109957647 GCCACCAAAGCCAAATGCTAAGCATTT
1 GCCACCAAAG--AAATGCTAAGCATTT
109957674 CCTTGGTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
28 13 0.57
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (26 bp):
GCCACCAAAGAAATGCTAAGCATTTA
Found at i:109958979 original size:33 final size:33
Alignment explanation
Indices: 109958901--109958979 Score: 137
Period size: 30 Copynumber: 2.5 Consensus size: 33
109958891 CTGGTGTCCC
109958901 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
109958934 GAC---ATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
109958964 GACAAGATTGCCTGAA
1 GACAAGATTGCCTGAA
109958980 GGAGTGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
30 30 0.70
33 13 0.30
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (33 bp):
GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
Found at i:109959238 original size:28 final size:26
Alignment explanation
Indices: 109959188--109959240 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
109959178 GAAGTGTCTC
* *
109959188 GCCACCAAAGAAATGTTTAGCATTTA
1 GCCACCAAAGAAATGCTAAGCATTTA
109959214 GCCACCAAAGCCAAATGCTAAGCATTT
1 GCCACCAAAG--AAATGCTAAGCATTT
109959241 CCTTGGTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
28 13 0.57
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (26 bp):
GCCACCAAAGAAATGCTAAGCATTTA
Found at i:109964990 original size:28 final size:28
Alignment explanation
Indices: 109964939--109964998 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
109964929 CCAAATTTAG
*
109964939 AATTTAGTCTCTATATTTTTATTTTCAGA
1 AATTTAGTCTATATATTTTTATTTTCA-A
109964968 AATTTAGT-TATAT-TTTTATATTTTCAA
1 AATTTAGTCTATATATTTT-TATTTTCAA
109964995 AATT
1 AATT
109964999 CAAGTCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 9 0.31
28 12 0.41
29 8 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (28 bp):
AATTTAGTCTATATATTTTTATTTTCAA
Found at i:109967127 original size:26 final size:26
Alignment explanation
Indices: 109967097--109967150 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
109967087 TCCAAGCCTT
109967097 AAATTATTCAAGTCTGATTTAAGAAA
1 AAATTATTCAAGTCTGATTTAAGAAA
* * * *
109967123 AAATTATTTAGGTTTGGTTTAAGAAA
1 AAATTATTCAAGTCTGATTTAAGAAA
109967149 AA
1 AA
109967151 TGTGATTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (26 bp):
AAATTATTCAAGTCTGATTTAAGAAA
Found at i:109968363 original size:27 final size:28
Alignment explanation
Indices: 109968333--109968400 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 28
109968323 AATCCTTTAT
*
109968333 TTAATTTTTTTTAAATTAAAAAGAT-AA
1 TTAATTTTTTTTAAATTAAAAAAATGAA
** * *
109968360 TTAA-TTGATTT-AGTTAAAAAAATGAT
1 TTAATTTTTTTTAAATTAAAAAAATGAA
109968386 TTAATTTTTTTTAAA
1 TTAATTTTTTTTAAA
109968401 AGGTTAATGG
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 9 0.30
28 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (28 bp):
TTAATTTTTTTTAAATTAAAAAAATGAA
Found at i:109974660 original size:7 final size:7
Alignment explanation
Indices: 109974648--109974673 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
109974638 CAGGCCATGC
109974648 TCATCTA
1 TCATCTA
109974655 TCATCTA
1 TCATCTA
109974662 TCATCTA
1 TCATCTA
109974669 TCATC
1 TCATC
109974674 GTTACAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATCTA
Found at i:109977375 original size:13 final size:14
Alignment explanation
Indices: 109977359--109977394 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
109977349 CAATCTCATA
109977359 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
109977372 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
109977385 TCTC-ATTTCA
1 TCTCAATTTCA
109977395 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:109977384 original size:18 final size:19
Alignment explanation
Indices: 109977346--109977386 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
109977336 TGGTTCATGT
109977346 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
109977365 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
109977383 TTTC
1 TTTC
109977387 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:109977908 original size:18 final size:19
Alignment explanation
Indices: 109977882--109977920 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
109977872 TTTCAATTCA
109977882 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
109977901 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
109977919 AT
1 AT
109977921 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:109979235 original size:5 final size:5
Alignment explanation
Indices: 109979225--109979277 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
109979215 TTACTTATTT
* *
109979225 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
109979273 ATATA
1 ATATA
109979278 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:109979241 original size:12 final size:12
Alignment explanation
Indices: 109979224--109979279 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
109979214 TTTACTTATT
109979224 TATATAATATAA
1 TATATAATATAA
109979236 TATATAATATAATA
1 TATATAATAT-A-A
109979250 TACTATAATATAA
1 TA-TATAATATAA
*
109979263 TA-ATAATTTAA
1 TATATAATATAA
109979274 TATATA
1 TATATA
109979280 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:109982536 original size:27 final size:28
Alignment explanation
Indices: 109982506--109982573 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 28
109982496 AATCCTTTAT
*
109982506 TTAATTTTTTTTAAATTAAAAAGAT-AA
1 TTAATTTTTTTTAAATTAAAAAAATGAA
** * *
109982533 TTAA-TTGATTT-AGTTAAAAAAATGAT
1 TTAATTTTTTTTAAATTAAAAAAATGAA
109982559 TTAATTTTTTTTAAA
1 TTAATTTTTTTTAAA
109982574 AGGTTAATGG
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 9 0.30
28 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (28 bp):
TTAATTTTTTTTAAATTAAAAAAATGAA
Found at i:109984912 original size:18 final size:18
Alignment explanation
Indices: 109984885--109984975 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
109984875 TACGACCGTT
109984885 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
109984903 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
109984921 TA--GTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
109984937 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
109984955 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
109984973 TAC
1 TAC
109984976 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
16 15 0.23
18 51 0.77
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:109984932 original size:34 final size:35
Alignment explanation
Indices: 109984889--109984975 Score: 149
Period size: 34 Copynumber: 2.5 Consensus size: 35
109984879 ACCGTTTACG
109984889 GTACTATTCACGTATACGGCACTATTCACGTATA-
1 GTACTATTCACGTATACGGCACTATTCACGTATAC
109984923 GTACTATTCACGTATACGGCACTATTCACGTATAC
1 GTACTATTCACGTATACGGCACTATTCACGTATAC
*
109984958 GGTACTGTTCACGTATAC
1 -GTACTATTCACGTATAC
109984976 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 34 0.68
36 16 0.32
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (35 bp):
GTACTATTCACGTATACGGCACTATTCACGTATAC
Found at i:109993527 original size:7 final size:7
Alignment explanation
Indices: 109993515--109993540 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
109993505 CAGGCCATGC
109993515 TCATCTA
1 TCATCTA
109993522 TCATCTA
1 TCATCTA
109993529 TCATCTA
1 TCATCTA
109993536 TCATC
1 TCATC
109993541 GTTACAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATCTA
Found at i:109996241 original size:13 final size:14
Alignment explanation
Indices: 109996225--109996260 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
109996215 CAATCTCATA
109996225 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
109996238 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
109996251 TCTC-ATTTCA
1 TCTCAATTTCA
109996261 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:109996250 original size:18 final size:19
Alignment explanation
Indices: 109996212--109996252 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
109996202 TGGTTCATGT
109996212 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
109996231 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
109996249 TTTC
1 TTTC
109996253 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:109996441 original size:39 final size:38
Alignment explanation
Indices: 109996374--109996508 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
109996364 ACCAATATGG
* * *
109996374 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
109996413 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
109996451 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
109996492 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
109996509 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:109996774 original size:18 final size:19
Alignment explanation
Indices: 109996748--109996786 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
109996738 TTTCAATTCA
109996748 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
109996767 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
109996785 AT
1 AT
109996787 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:109998103 original size:5 final size:5
Alignment explanation
Indices: 109998093--109998145 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
109998083 TTACTTATTT
* *
109998093 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
109998141 ATATA
1 ATATA
109998146 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:109998109 original size:12 final size:12
Alignment explanation
Indices: 109998092--109998147 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
109998082 TTTACTTATT
109998092 TATATAATATAA
1 TATATAATATAA
109998104 TATATAATATAATA
1 TATATAATAT-A-A
109998118 TACTATAATATAA
1 TA-TATAATATAA
*
109998131 TA-ATAATTTAA
1 TATATAATATAA
109998142 TATATA
1 TATATA
109998148 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:110007195 original size:20 final size:19
Alignment explanation
Indices: 110007155--110007192 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
110007145 AAAATTTGCC
110007155 TTTAAAAAAACAGCATTAA
1 TTTAAAAAAACAGCATTAA
110007174 TTTAAAAAAACAGCATTAA
1 TTTAAAAAAACAGCATTAA
110007193 ATTATCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (19 bp):
TTTAAAAAAACAGCATTAA
Found at i:110019548 original size:14 final size:14
Alignment explanation
Indices: 110019529--110019556 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
110019519 AGTTGTTGGC
110019529 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
110019543 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
110019557 AAGTTCTAGG
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:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TGCTTAAAAAGGTT
Found at i:110050275 original size:99 final size:99
Alignment explanation
Indices: 110050100--110050297 Score: 234
Period size: 99 Copynumber: 2.0 Consensus size: 99
110050090 AAATGGCTCT
* * * *
110050100 AAAGTCTTTAATGTTAGCTCTGGAAGTTGAGACAACCTTAACACCTCTAACTGATAGCATGCCGA
1 AAAGTCTTTAATGTCAGCTCTGGAAGTTCAGACAACCTTAACACCTCTAACTGAGAGAATGCCGA
* *
110050165 TGTGTGCCTTTCCTCATTGATGAGTCCTTCAGAC
66 TGTATGCCTTTCCTCATGGATGAGTCCTTCAGAC
* ** * ** * *
110050199 AAAGTCTTTAATGTCATCTCTGTTAGTTCAGACAAGCTTAATTCCTTTAACTGAGAGAATGCTGA
1 AAAGTCTTTAATGTCAGCTCTGGAAGTTCAGACAACCTTAACACCTCTAACTGAGAGAATGCCGA
* ** *
110050264 TGTATGTCTTTCCTTGTGGCTGAGTCCTTCAGAC
66 TGTATGCCTTTCCTCATGGATGAGTCCTTCAGAC
110050298 CGTACCATTT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
99 81 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (99 bp):
AAAGTCTTTAATGTCAGCTCTGGAAGTTCAGACAACCTTAACACCTCTAACTGAGAGAATGCCGA
TGTATGCCTTTCCTCATGGATGAGTCCTTCAGAC
Found at i:110057996 original size:30 final size:30
Alignment explanation
Indices: 110057956--110058020 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
110057946 ATTGATGTTT
* *
110057956 GAAAATAACATAGTGCATAATTAGCTGCTC
1 GAAAACAACATAGAGCATAATTAGCTGCTC
*
110057986 GAAAACAACATAGAGCATAATTAGCTGCTT
1 GAAAACAACATAGAGCATAATTAGCTGCTC
110058016 GAAAA
1 GAAAA
110058021 TAATGTGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (30 bp):
GAAAACAACATAGAGCATAATTAGCTGCTC
Found at i:110062666 original size:3 final size:3
Alignment explanation
Indices: 110062658--110062682 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
110062648 ATGAAAACTG
110062658 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
110062683 AACACAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:110063562 original size:24 final size:24
Alignment explanation
Indices: 110063535--110063582 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
110063525 AAAAAGTGTT
*
110063535 AGAATATAATAAGTAAATAGATAA
1 AGAATATAATAAATAAATAGATAA
110063559 AGAATATAATAAATAAATAGATAA
1 AGAATATAATAAATAAATAGATAA
110063583 TTATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (24 bp):
AGAATATAATAAATAAATAGATAA
Found at i:110068871 original size:19 final size:19
Alignment explanation
Indices: 110068835--110068872 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
110068825 TAAAAAGATA
*
110068835 AAATTTTCCTTGTAAAAAC
1 AAATTTTCCATGTAAAAAC
110068854 AAATATTTCCATGTAAAAA
1 AAAT-TTTCCATGTAAAAA
110068873 TCTAAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATTTTCCATGTAAAAAC
Found at i:110072759 original size:38 final size:38
Alignment explanation
Indices: 110072700--110072805 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
110072690 CATTTTTAAG
*
110072700 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
110072737 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
110072775 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
110072806 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:110073186 original size:19 final size:18
Alignment explanation
Indices: 110073162--110073222 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
110073152 AGTATATACA
110073162 ATATAATATTAGAAAATAT
1 ATATAATATT-GAAAATAT
*
110073181 ATATAATAGTGTAAAATAT
1 ATATAATATTG-AAAATAT
110073200 AACTAATAATATT-AAAATAT
1 -A-T-ATAATATTGAAAATAT
110073220 ATA
1 ATA
110073223 CAATGATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 17 0.47
20 8 0.22
21 1 0.03
22 7 0.19
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (18 bp):
ATATAATATTGAAAATAT
Found at i:110073247 original size:15 final size:16
Alignment explanation
Indices: 110073216--110073253 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
110073206 TAATATTAAA
*
110073216 ATATATACAATGATAT
1 ATATATACAAAGATAT
110073232 ATATATA-AAAGATAT
1 ATATATACAAAGATAT
*
110073247 ATGTATA
1 ATATATA
110073254 TATAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (16 bp):
ATATATACAAAGATAT
Found at i:110073501 original size:3 final size:3
Alignment explanation
Indices: 110073487--110073521 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
110073477 AAACATAAAC
*
110073487 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110073522 CATTGGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:110073640 original size:23 final size:23
Alignment explanation
Indices: 110073621--110073684 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
110073611 TGTATACACG
110073621 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
*
110073644 TACATAATAATAATACTAATACTAA
1 TACATAATAAAAATA-T-ATACTAA
* *
110073669 TA-ATACTAATAATATA
1 TACATAATAAAAATATA
110073685 AAAATAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 15 0.41
24 12 0.32
25 9 0.24
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:110073655 original size:3 final size:3
Alignment explanation
Indices: 110073624--110073691 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
110073614 ATACACGTAC
* * * *
110073624 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA CTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
110073671 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
110073692 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:110074170 original size:11 final size:12
Alignment explanation
Indices: 110074154--110074189 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
110074144 AGAAAAAAAA
110074154 GAAGAGAG-AGG
1 GAAGAGAGAAGG
110074165 GAAGAGAGAAGG
1 GAAGAGAGAAGG
110074177 G-AGAGAGAAGG
1 GAAGAGAGAAGG
110074188 GA
1 GA
110074190 GGGGGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:110074297 original size:6 final size:6
Alignment explanation
Indices: 110074286--110074333 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
110074276 AAAAAAATAT
* *
110074286 TTTTTA TTTTTA TTTTTA TTTTT- TTGTTTA TATTATA TTGTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA T-TTTTA TTTTTA TTTTT
110074334 TATATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.06
6 27 0.77
7 5 0.14
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:110074310 original size:20 final size:22
Alignment explanation
Indices: 110074285--110074342 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 22
110074275 AAAAAAAATA
110074285 TTTTTTATTTTTAT-TT-TTAT
1 TTTTTTATTTTTATATTGTTAT
*
110074305 TTTTTTGTTTATATTATATTGTTAT
1 TTTTTT-ATT-T-TTATATTGTTAT
110074330 TTTTTATATTTTT
1 TTTTT-TATTTTT
110074343 TTAGTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 6 0.20
21 2 0.07
22 1 0.03
23 6 0.20
24 3 0.10
25 11 0.37
26 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTTTTATTTTTATATTGTTAT
Found at i:110074329 original size:25 final size:24
Alignment explanation
Indices: 110074288--110074334 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
110074278 AAAAATATTT
* *
110074288 TTTATTTTTATTTTTATTTTTTTG
1 TTTATTTATATTGTTATTTTTTTG
110074312 TTTATATTATATTGTTATTTTTT
1 TTTAT-TTATATTGTTATTTTTT
110074335 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTATTTATATTGTTATTTTTTTG
Found at i:110076636 original size:23 final size:22
Alignment explanation
Indices: 110076603--110076651 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
110076593 ATTTTGAAGG
110076603 TTAATGATTAAAGTTATAAAAAAA
1 TTAATGATTAAA-TTA-AAAAAAA
*
110076627 TTAAT-ATTAAATTAACAAAAA
1 TTAATGATTAAATTAAAAAAAA
110076648 TTAA
1 TTAA
110076652 ACATTAGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.42
22 3 0.12
23 6 0.25
24 5 0.21
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
TTAATGATTAAATTAAAAAAAA
Found at i:110087509 original size:15 final size:17
Alignment explanation
Indices: 110087485--110087518 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
110087475 TCATGTGTAG
110087485 TTTTTCTTAATATT-TA
1 TTTTTCTTAATATTCTA
110087501 TTTTT-TTAATATTCTA
1 TTTTTCTTAATATTCTA
110087517 TT
1 TT
110087519 ATACCTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTCTTAATATTCTA
Found at i:110087852 original size:26 final size:26
Alignment explanation
Indices: 110087796--110087852 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
110087786 TTTAAAATTC
* * *
110087796 AATTATCTAATAGATTCTCCTATATG
1 AATTATCTAATAGATTCACCAATACG
*
110087822 GATTATCTAATAGATTCACCAATACG
1 AATTATCTAATAGATTCACCAATACG
110087848 AATTA
1 AATTA
110087853 ATTAGTGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (26 bp):
AATTATCTAATAGATTCACCAATACG
Found at i:110088810 original size:21 final size:22
Alignment explanation
Indices: 110088775--110088822 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
110088765 ATAATTTTAA
110088775 ATTTTTATTGAATTTTTTAAAAT
1 ATTTTTATT-AATTTTTTAAAAT
110088798 ATTTTTATT-ATTTTTTAAAAT
1 ATTTTTATTAATTTTTTAAAAT
110088819 -TTTT
1 ATTTT
110088823 ATGATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.16
21 12 0.48
23 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTATTAATTTTTTAAAAT
Found at i:110124832 original size:3 final size:3
Alignment explanation
Indices: 110124824--110124858 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
110124814 TTTACAAATG
110124824 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
110124859 AAGAACAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:110129869 original size:18 final size:18
Alignment explanation
Indices: 110129846--110129938 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
110129836 CCCAACTACT
*
110129846 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * *
110129864 GTATACATGAATAGTGCA
1 GTATACGTGAATAGTACC
*
110129882 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
110129900 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
110129918 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
110129936 GTA
1 GTA
110129939 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:110129898 original size:36 final size:36
Alignment explanation
Indices: 110129846--110129938 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
110129836 CCCAACTACT
*
110129846 GTATACGTGAACAGTACCGTATACATGAATAGTGCA
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCA
* * *
110129882 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCA
110129918 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
110129939 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGCA
Found at i:110154983 original size:61 final size:62
Alignment explanation
Indices: 110154915--110155038 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 62
110154905 TTTCACATTA
*
110154915 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGA-AAGCAGGATT
1 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGATAAGCAAGATT
*
110154976 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTTAAGTGAACATTGGGGATAAGCAAGATT
1 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGATAAGCAAGATT
110155038 C
1 C
110155039 AATGAAGGAT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 50 0.83
62 10 0.17
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (62 bp):
CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGATAAGCAAGATT
Found at i:110160851 original size:9 final size:9
Alignment explanation
Indices: 110160837--110160867 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
110160827 AAATTGAAAC
110160837 TTTATAAAG
1 TTTATAAAG
110160846 TTTATAAAG
1 TTTATAAAG
110160855 TTTATAAAG
1 TTTATAAAG
110160864 TTTA
1 TTTA
110160868 GTCTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (9 bp):
TTTATAAAG
Found at i:110161182 original size:88 final size:89
Alignment explanation
Indices: 110161040--110161219 Score: 290
Period size: 88 Copynumber: 2.0 Consensus size: 89
110161030 TGTATTGCCC
*
110161040 ATTCTATCGACTTTGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
1 ATTCTATCGACTTGGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
*
110161105 AAAAGGAGATTATAAAATCAAGTA
66 AAAAAGAGATTATAAAATCAAGTA
* * **
110161129 ATTCTATTGACTTGGGGGACTTAGTGGATG-ATTTTTTTTTTGGCACTTTTGCAGGTAATTTCCA
1 ATTCTATCGACTTGGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
*
110161193 AAAAAGAGGTTATAAAATCAAGTA
66 AAAAAGAGATTATAAAATCAAGTA
110161217 ATT
1 ATT
110161220 AATCTAAACT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 57 0.68
89 27 0.32
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (89 bp):
ATTCTATCGACTTGGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
AAAAAGAGATTATAAAATCAAGTA
Found at i:110161765 original size:29 final size:27
Alignment explanation
Indices: 110161715--110161769 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
110161705 ATACTTATTT
110161715 AAAAAAAATATATTTTTAAAGTTATGGC
1 AAAAAAAATATATTTTTAAAG-TATGGC
110161743 AAAAAAAATATTATTTATT-AAGTATGG
1 AAAAAAAATA-TATTT-TTAAAGTATGG
110161770 ACACTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 15 0.60
29 8 0.32
30 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (27 bp):
AAAAAAAATATATTTTTAAAGTATGGC
Found at i:110164138 original size:39 final size:39
Alignment explanation
Indices: 110164033--110164336 Score: 376
Period size: 39 Copynumber: 7.6 Consensus size: 39
110164023 TGGGGTTTCA
* * *
110164033 GTTTAGCTCTGGTGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
110164072 GTTTAGCACTT-CGTGCTTCAGTCAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
110164110 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* **
110164149 GTTTAGCACTTCTGTGCTTCAGGCAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
110164188 GTTTAGCACTTGTGTGCTTCACTTAGCCTTTGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
*
110164227 GTTTAGCACTTGTGTGCTTCAGTTAAGTTAGCCTTTGGGCTTCC
1 GTTTAGCACTTGTGTGCTTC-----AGTTAGCCTTCGGGCTTCC
* **
110164271 ATTTAGCACTTGTGTGCTTCAGTTAAGTTAGCCCCCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTC-----AGTTAGCCTTCGGGCTTCC
*
110164315 GTTTAGCACTTATGTGCTTCAG
1 GTTTAGCACTTGTGTGCTTCAG
110164337 CTAAACTTCA
Statistics
Matches: 237, Mismatches: 22, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
38 35 0.15
39 126 0.53
44 76 0.32
ACGTcount: A:0.12, C:0.26, G:0.25, T:0.37
Consensus pattern (39 bp):
GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:110164258 original size:25 final size:25
Alignment explanation
Indices: 110164229--110164302 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
110164219 GGGCTTCCGT
110164229 TTAGCACTTGTGTGCTTCAGTTAAG
1 TTAGCACTTGTGTGCTTCAGTTAAG
*
110164254 TTAGC-CTT-TGGGCTTCCA--T---
1 TTAGCACTTGTGTGCTT-CAGTTAAG
110164273 TTAGCACTTGTGTGCTTCAGTTAAG
1 TTAGCACTTGTGTGCTTCAGTTAAG
110164298 TTAGC
1 TTAGC
110164303 CCCCGGGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
19 5 0.13
20 5 0.13
21 6 0.15
22 2 0.05
23 6 0.15
24 5 0.13
25 10 0.26
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (25 bp):
TTAGCACTTGTGTGCTTCAGTTAAG
Found at i:110169064 original size:27 final size:27
Alignment explanation
Indices: 110169026--110169080 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
110169016 TATTTTTTTT
* *
110169026 AATAATGTTGACTACTTGCTTGCACTA
1 AATAATGTTGACTACTGGCTTACACTA
110169053 AATAATGTTGACTACTGGCTTACACTA
1 AATAATGTTGACTACTGGCTTACACTA
110169080 A
1 A
110169081 CATATTGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (27 bp):
AATAATGTTGACTACTGGCTTACACTA
Found at i:110173083 original size:46 final size:46
Alignment explanation
Indices: 110173030--110173232 Score: 289
Period size: 46 Copynumber: 4.3 Consensus size: 46
110173020 TGACAAGTGG
* * *
110173030 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
110173076 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
110173122 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
**
110173174 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
110173220 AAAGTGATAAGTG
1 AAAGTGATAAGTG
110173233 GCTATACTTG
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
Found at i:110173139 original size:98 final size:98
Alignment explanation
Indices: 110172959--110173232 Score: 404
Period size: 98 Copynumber: 2.7 Consensus size: 98
110172949 TTTGAGTACT
* * *
110172959 TCTGATCAAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTACACTTATCTGATCAAGTGAC
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGC-TT--C-A-GCTACACTTATCTGATCAAGTGAC
*
110173024 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
61 AAGTGAAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
110173062 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
110173127 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
110173160 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
*
110173225 GATAAGTG
65 GAAAAGTG
110173233 GCTATACTTG
Statistics
Matches: 159, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
98 115 0.72
99 11 0.07
100 1 0.01
102 2 0.01
103 30 0.19
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:110173250 original size:37 final size:37
Alignment explanation
Indices: 110173196--110173341 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
110173186 GATAGCTTTA
*
110173196 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
110173233 GCTATACTTGTCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
110173270 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
110173307 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
110173342 ATCACACGTA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 85 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:110179305 original size:10 final size:10
Alignment explanation
Indices: 110179293--110179357 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
110179283 AAGAAACTTT
*
110179293 AAAAATATTT
1 AAAAATATTA
110179303 AAAAAT-TATA
1 AAAAATAT-TA
**
110179313 AAAAATACAA
1 AAAAATATTA
*
110179323 AAAAATATTT
1 AAAAATATTA
*
110179333 AAAATTATTA
1 AAAAATATTA
*
110179343 AAAAAT-TAA
1 AAAAATATTA
110179352 AAAAAT
1 AAAAAT
110179358 TATACAAACA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
9 9 0.21
10 34 0.79
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATATTA
Found at i:110179327 original size:30 final size:29
Alignment explanation
Indices: 110179293--110179357 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
110179283 AAGAAACTTT
110179293 AAAAATATTTAAAAATTA-TAAAAAATACAA
1 AAAAATATTT-AAAATTATTAAAAAAT-CAA
*
110179323 AAAAATATTTAAAATTATTAAAAAATTAA
1 AAAAATATTTAAAATTATTAAAAAATCAA
110179352 AAAAAT
1 AAAAAT
110179358 TATACAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (29 bp):
AAAAATATTTAAAATTATTAAAAAATCAA
Found at i:110179655 original size:17 final size:19
Alignment explanation
Indices: 110179633--110179671 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
110179623 TATGATTTAT
110179633 AAATTTC-AA-AAATATTA
1 AAATTTCTAATAAATATTA
*
110179650 AAATTTCTAATATATATTA
1 AAATTTCTAATAAATATTA
110179669 AAA
1 AAA
110179672 GTTTTAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTCTAATAAATATTA
Found at i:110179780 original size:18 final size:20
Alignment explanation
Indices: 110179730--110179780 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
110179720 TTTTCTATTT
110179730 TTAAT-TATTTTTGTAATTA
1 TTAATATATTTTTGTAATTA
*
110179749 TTAAATAAATTTTTGTAATT-
1 TT-AATATATTTTTGTAATTA
110179769 TT-ATATATTTTT
1 TTAATATATTTTT
110179781 TCATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 5 0.18
21 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTAATATATTTTTGTAATTA
Found at i:110183059 original size:42 final size:42
Alignment explanation
Indices: 110183007--110183104 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
110182997 GTATAATAAT
* * *
110183007 AACAAGATAACACTGTTGTGTACGTGTAACTAGTAAATTAAC
1 AACAAAATAACACTGTTGTGTAAGTGTAACCAGTAAATTAAC
*
110183049 AACAAAATAACACTGTTGTGTAAGTGTAACCAGTAAATTAAT
1 AACAAAATAACACTGTTGTGTAAGTGTAACCAGTAAATTAAC
110183091 AACAAAATAACACT
1 AACAAAATAACACT
110183105 TCTATTGGCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (42 bp):
AACAAAATAACACTGTTGTGTAAGTGTAACCAGTAAATTAAC
Found at i:110195302 original size:14 final size:14
Alignment explanation
Indices: 110195277--110195311 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
110195267 ATTCACTATG
110195277 CATTTATATTATTAA
1 CATTT-TATTATTAA
110195292 CATTTTATTATTAA
1 CATTTTATTATTAA
110195306 CATTTT
1 CATTTT
110195312 CTAGACAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (14 bp):
CATTTTATTATTAA
Found at i:110202916 original size:14 final size:15
Alignment explanation
Indices: 110202891--110202919 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
110202881 AACAATCAAC
110202891 AGAACAAAAAGAAAA
1 AGAACAAAAAGAAAA
110202906 AGAAC-AAAAGAAAA
1 AGAACAAAAAGAAAA
110202920 GAGCTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (15 bp):
AGAACAAAAAGAAAA
Found at i:110205189 original size:9 final size:9
Alignment explanation
Indices: 110205175--110205201 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
110205165 ATTTCTAAGT
110205175 TTTTTTTTA
1 TTTTTTTTA
110205184 TTTTTTTTA
1 TTTTTTTTA
110205193 TTTTTTTTA
1 TTTTTTTTA
110205202 CTTAGGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:110226852 original size:21 final size:21
Alignment explanation
Indices: 110226826--110226866 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110226816 AGACGAGCAA
* *
110226826 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
110226847 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
110226867 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:110236342 original size:21 final size:21
Alignment explanation
Indices: 110236316--110236356 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110236306 AGACGAGCAA
* *
110236316 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
110236337 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
110236357 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:110245467 original size:50 final size:50
Alignment explanation
Indices: 110245413--110245512 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
110245403 TAAATTTCGC
* * *
110245413 TGCATGCATCTGTAAGTGAAATGTGTATGTATATATTCTTTTGATATATT
1 TGCATGCATCTGTAAGTGAAATGTGCATATATATATTATTTTGATATATT
110245463 TGCATGCATCTGTAAGTGAAATGTGCATATATATATTATTTTGATATATT
1 TGCATGCATCTGTAAGTGAAATGTGCATATATATATTATTTTGATATATT
110245513 CTTTCTTTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (50 bp):
TGCATGCATCTGTAAGTGAAATGTGCATATATATATTATTTTGATATATT
Found at i:110245555 original size:50 final size:52
Alignment explanation
Indices: 110245496--110245622 Score: 177
Period size: 50 Copynumber: 2.5 Consensus size: 52
110245486 TGCATATATA
* *
110245496 TATTATTTTGATATATTCTTTCTTTCTATCTGTTTGTGTGTGTATATGT-TT
1 TATTATTTTGATATATTCTTTCTTTCTATCTGTATGTGTGTATATATGTATT
* * *
110245547 T-TTCTTTTGATATATTCTTTCTTTCTATCTGTATGTGTGTATTTGTGTATT
1 TATTATTTTGATATATTCTTTCTTTCTATCTGTATGTGTGTATATATGTATT
*
110245598 TATTATTTTGATATAATTCTATCTT
1 TATTATTTTGATAT-ATTCTTTCTT
110245623 CCACATAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 42 0.64
51 4 0.06
52 11 0.17
53 9 0.14
ACGTcount: A:0.17, C:0.09, G:0.12, T:0.62
Consensus pattern (52 bp):
TATTATTTTGATATATTCTTTCTTTCTATCTGTATGTGTGTATATATGTATT
Found at i:110247195 original size:51 final size:51
Alignment explanation
Indices: 110247119--110247224 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
110247109 GTTCGATTCT
110247119 GAAATTGACCACCAAACCATTATAAAGAAAGTTAATTATAATAATTTTTCA
1 GAAATTGACCACCAAACCATTATAAAGAAAGTTAATTATAATAATTTTTCA
*
110247170 GAAATTGACCACCAAACCATTATAAAGAAATTTAATTATAATAATTTTTCA
1 GAAATTGACCACCAAACCATTATAAAGAAAGTTAATTATAATAATTTTTCA
110247221 GAAA
1 GAAA
110247225 GATCCTTTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (51 bp):
GAAATTGACCACCAAACCATTATAAAGAAAGTTAATTATAATAATTTTTCA
Found at i:110258174 original size:1 final size:1
Alignment explanation
Indices: 110258168--110258195 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
110258158 TTATATACTG
110258168 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
110258196 CTGAATCGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:110272155 original size:11 final size:11
Alignment explanation
Indices: 110272129--110272166 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
110272119 CATGTATTTG
110272129 ATATTTTTTAA
1 ATATTTTTTAA
110272140 A-ATTTTTTAA
1 ATATTTTTTAA
110272150 ATA-TTTTTAA
1 ATATTTTTTAA
110272160 TATATTT
1 -ATATTT
110272167 AAGAGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 17 0.71
11 5 0.21
12 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTTTTTAA
Found at i:110276613 original size:10 final size:11
Alignment explanation
Indices: 110276588--110276614 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
110276578 TTTCCGATTT
110276588 AAAAATATTGC
1 AAAAATATTGC
110276599 AAAAATATTGC
1 AAAAATATTGC
110276610 AAAAA
1 AAAAA
110276615 GATATAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (11 bp):
AAAAATATTGC
Found at i:110278589 original size:21 final size:21
Alignment explanation
Indices: 110278535--110278589 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
110278525 TCCTATTCCA
* *
110278535 GTTCAGTATTTTTATTGCCCG
1 GTTCAGCAGTTTTATTGCCCG
*
110278556 GTTCAGCATTTTTATTGCCCG
1 GTTCAGCAGTTTTATTGCCCG
*
110278577 GTTCAGCGGTTTT
1 GTTCAGCAGTTTT
110278590 GGTAACCGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (21 bp):
GTTCAGCAGTTTTATTGCCCG
Found at i:110278589 original size:22 final size:21
Alignment explanation
Indices: 110278535--110278583 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
110278525 TCCTATTCCA
*
110278535 GTTCAGTATTTTTATTGCCCG
1 GTTCAGCATTTTTATTGCCCG
110278556 GTTCAGCATTTTTATTGCCCG
1 GTTCAGCATTTTTATTGCCCG
110278577 GTTCAGC
1 GTTCAGC
110278584 GGTTTTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (21 bp):
GTTCAGCATTTTTATTGCCCG
Found at i:110281572 original size:47 final size:47
Alignment explanation
Indices: 110281516--110281615 Score: 141
Period size: 47 Copynumber: 2.1 Consensus size: 47
110281506 TAGAGTCCTA
*
110281516 ATGT-ACAAAGCTTGATTAGGTGAG-CTGAATCAGGTAGAGATATTGT
1 ATGTAACAAAGCTTGATTAGGTG-GTCTGAATCAGGTAAAGATATTGT
* * *
110281562 ATGTAACAAAGCTTGATTATGTGGTTTGAATTAGGTAAAGATATTGT
1 ATGTAACAAAGCTTGATTAGGTGGTCTGAATCAGGTAAAGATATTGT
110281609 ATGTAAC
1 ATGTAAC
110281616 TTTATTGAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
46 5 0.10
47 43 0.90
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (47 bp):
ATGTAACAAAGCTTGATTAGGTGGTCTGAATCAGGTAAAGATATTGT
Found at i:110283039 original size:48 final size:48
Alignment explanation
Indices: 110282983--110283083 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 48
110282973 CTGAGGTTGA
* *
110282983 AATTTTTAGCTTTTTAACCTCTTAGTTTGATTTCTATTTGTGAATGTT
1 AATTTTTAGCTTTTTAACCTATTAGTTTGATTTCTATTTGCGAATGTT
110283031 AATTTTTAGCTTTTTAACCTATTAGTTTGATTTCTATTTGCGAATGTT
1 AATTTTTAGCTTTTTAACCTATTAGTTTGATTTCTATTTGCGAATGTT
110283079 AATTT
1 AATTT
110283084 ATGTTATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (48 bp):
AATTTTTAGCTTTTTAACCTATTAGTTTGATTTCTATTTGCGAATGTT
Found at i:110288483 original size:27 final size:27
Alignment explanation
Indices: 110288445--110288499 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
110288435 CAGCTATTTT
110288445 TTAATGTCTGGACCGGCCAACCTGTCA
1 TTAATGTCTGGACCGGCCAACCTGTCA
110288472 TTAATGTCTGGACCGGCCAACCTGTCA
1 TTAATGTCTGGACCGGCCAACCTGTCA
110288499 T
1 T
110288500 ACTTATTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (27 bp):
TTAATGTCTGGACCGGCCAACCTGTCA
Found at i:110300679 original size:7 final size:7
Alignment explanation
Indices: 110300665--110302142 Score: 1834
Period size: 7 Copynumber: 208.4 Consensus size: 7
110300655 TGCACTTAGT
110300665 TTTA-GG
1 TTTAGGG
110300671 TTTAGGG
1 TTTAGGG
110300678 -TTAGGG
1 TTTAGGG
110300684 TTT-GGG
1 TTTAGGG
110300690 TTTAGGG
1 TTTAGGG
110300697 TTTA-GG
1 TTTAGGG
110300703 TTTAGGG
1 TTTAGGG
110300710 TTTAGGG
1 TTTAGGG
110300717 TTTAGGG
1 TTTAGGG
110300724 TTTAGGG
1 TTTAGGG
110300731 TTTTAGGG
1 -TTTAGGG
110300739 TTTAGGG
1 TTTAGGG
110300746 TTTAGGG
1 TTTAGGG
110300753 TTATAGGG
1 TT-TAGGG
110300761 TTTA-GG
1 TTTAGGG
110300767 TTTAGGG
1 TTTAGGG
110300774 -TTAGGG
1 TTTAGGG
110300780 -TTAGGG
1 TTTAGGG
110300786 TTTA-GG
1 TTTAGGG
*
110300792 TTTAGGT
1 TTTAGGG
110300799 TTTAGGG
1 TTTAGGG
110300806 TTTAGGG
1 TTTAGGG
*
110300813 TTTAGGTT
1 TTTAGG-G
*
110300821 TTTAGGT
1 TTTAGGG
110300828 TTTAGGG
1 TTTAGGG
110300835 TTTAGGG
1 TTTAGGG
110300842 TTTA-GG
1 TTTAGGG
110300848 TTTAGGG
1 TTTAGGG
110300855 TTTAGGG
1 TTTAGGG
110300862 TTTTAGGG
1 -TTTAGGG
110300870 TTTTAGGG
1 -TTTAGGG
110300878 TTTAGGG
1 TTTAGGG
110300885 -TTAGGG
1 TTTAGGG
110300891 --TAGGG
1 TTTAGGG
110300896 TTTAGGG
1 TTTAGGG
110300903 -TTAGGG
1 TTTAGGG
110300909 TTTA-GG
1 TTTAGGG
110300915 TTTAGGG
1 TTTAGGG
110300922 TTTAGGG
1 TTTAGGG
110300929 TTTTA-GG
1 -TTTAGGG
110300936 TTTAGGG
1 TTTAGGG
110300943 TTTAGGG
1 TTTAGGG
110300950 TTTAGGG
1 TTTAGGG
110300957 TTTAGGG
1 TTTAGGG
110300964 TTTAGGG
1 TTTAGGG
110300971 -TTAGGG
1 TTTAGGG
110300977 TTTAGGGG
1 TTTA-GGG
110300985 TTTAGGG
1 TTTAGGG
110300992 TTTTAGGG
1 -TTTAGGG
110301000 TTTTAGGG
1 -TTTAGGG
110301008 TTTAGGG
1 TTTAGGG
110301015 TTTAGGG
1 TTTAGGG
110301022 TTTAGGG
1 TTTAGGG
110301029 TTTTAGGG
1 -TTTAGGG
110301037 TTTTAGGG
1 -TTTAGGG
110301045 TTTTAGGGG
1 -TTTA-GGG
*
110301054 TTTAGGT
1 TTTAGGG
110301061 TTTAGGG
1 TTTAGGG
110301068 TTTAGGG
1 TTTAGGG
110301075 TTTA-GG
1 TTTAGGG
110301081 TTTAGGG
1 TTTAGGG
110301088 TTTTTAGGG
1 --TTTAGGG
110301097 TTTAGGG
1 TTTAGGG
110301104 TTTAGGG
1 TTTAGGG
110301111 TTTAGGG
1 TTTAGGG
110301118 TTTTAGGCG
1 -TTTAGG-G
110301127 TTTAGGG
1 TTTAGGG
110301134 TTTAGGG
1 TTTAGGG
110301141 TTTAGGG
1 TTTAGGG
110301148 TTTAGGG
1 TTTAGGG
110301155 TTTAGGG
1 TTTAGGG
110301162 TTTAGGG
1 TTTAGGG
110301169 TTTAGGG
1 TTTAGGG
110301176 TTTA-GG
1 TTTAGGG
110301182 TTTAGGG
1 TTTAGGG
110301189 -TTAGGG
1 TTTAGGG
110301195 TTTAGGG
1 TTTAGGG
110301202 TTTAGGG
1 TTTAGGG
110301209 TTTAGGG
1 TTTAGGG
110301216 TTTAGGG
1 TTTAGGG
110301223 TTTTAGGG
1 -TTTAGGG
110301231 TTTAGGG
1 TTTAGGG
110301238 TTTTA-GG
1 -TTTAGGG
110301245 TTTAGGG
1 TTTAGGG
110301252 TTTTAGGG
1 -TTTAGGG
110301260 TTTAGGG
1 TTTAGGG
110301267 TTTTAGGG
1 -TTTAGGG
110301275 TTTA-GG
1 TTTAGGG
110301281 TTTA-GG
1 TTTAGGG
110301287 -TTAGGG
1 TTTAGGG
110301293 TTTAGGTG
1 TTTAGG-G
110301301 TTTA-GG
1 TTTAGGG
110301307 TTTAGGG
1 TTTAGGG
110301314 TTTAGGG
1 TTTAGGG
110301321 TTTAGGG
1 TTTAGGG
110301328 TTTAGGG
1 TTTAGGG
110301335 TTTAGGG
1 TTTAGGG
110301342 TTTAGGG
1 TTTAGGG
110301349 TTTAGGG
1 TTTAGGG
110301356 TTTTA-GG
1 -TTTAGGG
110301363 TTTAGGG
1 TTTAGGG
110301370 TTTAGGG
1 TTTAGGG
110301377 TTTAGGG
1 TTTAGGG
110301384 TTTAGGG
1 TTTAGGG
110301391 TTTTTAGGGG
1 --TTTA-GGG
*
110301401 TTTAGGTTT
1 TTTAGG--G
110301410 TTTAGGG
1 TTTAGGG
110301417 -TTAGGG
1 TTTAGGG
*
110301423 -TTATGG
1 TTTAGGG
110301429 TTTAGGG
1 TTTAGGG
110301436 TTT--GG
1 TTTAGGG
110301441 TTTA-GG
1 TTTAGGG
110301447 TTTAGGG
1 TTTAGGG
110301454 TTTTAGGG
1 -TTTAGGG
110301462 TTTAGGG
1 TTTAGGG
110301469 TTTAGGG
1 TTTAGGG
110301476 TTTAGGG
1 TTTAGGG
*
110301483 TTTAGGT
1 TTTAGGG
110301490 TTTAGGG
1 TTTAGGG
110301497 TTTTAGGG
1 -TTTAGGG
110301505 TTTAGGG
1 TTTAGGG
110301512 TTTAGGG
1 TTTAGGG
110301519 TTTAGGG
1 TTTAGGG
110301526 TTTAGGG
1 TTTAGGG
110301533 TTTAGGG
1 TTTAGGG
110301540 TTTA-GG
1 TTTAGGG
*
110301546 TTTAGGT
1 TTTAGGG
110301553 TTTAGGG
1 TTTAGGG
*
110301560 -GTAGGG
1 TTTAGGG
110301566 TTTAGGG
1 TTTAGGG
110301573 TTTAGGG
1 TTTAGGG
110301580 TTTAGGG
1 TTTAGGG
110301587 TTTAGGG
1 TTTAGGG
110301594 TTTAGGTG
1 TTTAGG-G
110301602 TTTTAGGGG
1 -TTTA-GGG
110301611 TTTTAGGG
1 -TTTAGGG
110301619 TTTAGGG
1 TTTAGGG
110301626 -TTAGGG
1 TTTAGGG
110301632 -TTA-GG
1 TTTAGGG
110301637 -TTAGGGG
1 TTTA-GGG
110301644 TTTTAGGGG
1 -TTTA-GGG
110301653 TTTTAGGG
1 -TTTAGGG
110301661 TTTTAGGG
1 -TTTAGGG
**
110301669 --GGGGG
1 TTTAGGG
110301674 TTTAGGG
1 TTTAGGG
110301681 TTTTAGGG
1 -TTTAGGG
110301689 TTTTAGGG
1 -TTTAGGG
110301697 TTTTAGGG
1 -TTTAGGG
*
110301705 TTTTGGG
1 TTTAGGG
110301712 TTTA-GG
1 TTTAGGG
*
110301718 TTTTGGG
1 TTTAGGG
110301725 TTTTA-GG
1 -TTTAGGG
110301732 TTTAGGG
1 TTTAGGG
110301739 -TTAGGG
1 TTTAGGG
110301745 TTTAGGG
1 TTTAGGG
110301752 -TTAGGG
1 TTTAGGG
110301758 TTTAGGG
1 TTTAGGG
110301765 -TTAGGG
1 TTTAGGG
110301771 TTTTAGGG
1 -TTTAGGG
110301779 TTTAGGG
1 TTTAGGG
110301786 TTTAGGG
1 TTTAGGG
110301793 TTTAGGG
1 TTTAGGG
110301800 TTTAGGG
1 TTTAGGG
110301807 TTTAGGG
1 TTTAGGG
110301814 TTTTAGGG
1 -TTTAGGG
110301822 TTTTTAGGG
1 --TTTAGGG
110301831 TTCTAGGG
1 TT-TAGGG
110301839 TTTAGGG
1 TTTAGGG
110301846 TTTAGGG
1 TTTAGGG
110301853 TTTAGGG
1 TTTAGGG
110301860 TTTTAGGG
1 -TTTAGGG
110301868 TTTAGGG
1 TTTAGGG
*
110301875 TTTTTTAGGT
1 ---TTTAGGG
110301885 TTTAGGG
1 TTTAGGG
*
110301892 TTTAGGTT
1 TTTAGG-G
110301900 TTTAGGG
1 TTTAGGG
110301907 TTTAGGG
1 TTTAGGG
110301914 TTTTTAGGG
1 --TTTAGGG
110301923 TTTTTAGGG
1 --TTTAGGG
110301932 TTTTAGGG
1 -TTTAGGG
110301940 TTT--GG
1 TTTAGGG
110301945 TTTAGGG
1 TTTAGGG
110301952 TTTA-GG
1 TTTAGGG
110301958 TTTAGGG
1 TTTAGGG
110301965 TTTAGGG
1 TTTAGGG
110301972 TTTAGGG
1 TTTAGGG
110301979 TTTAGGTGGG
1 TTTA---GGG
110301989 TTTAGGGGG
1 TTTA--GGG
110301998 TTTAGGG
1 TTTAGGG
110302005 TTTAGGG
1 TTTAGGG
110302012 TTTTAGGG
1 -TTTAGGG
110302020 TTTAGGG
1 TTTAGGG
110302027 TTTAGGG
1 TTTAGGG
110302034 TTTAGGG
1 TTTAGGG
110302041 TTTAGGG
1 TTTAGGG
110302048 TTTTAGGG
1 -TTTAGGG
110302056 TTTAGGG
1 TTTAGGG
110302063 TTTAGGG
1 TTTAGGG
110302070 TTTAGGGTG
1 TTTA-GG-G
110302079 TTTAGGG
1 TTTAGGG
110302086 TTTAGGG
1 TTTAGGG
110302093 TTTTA-GG
1 -TTTAGGG
110302100 TTTA-GG
1 TTTAGGG
110302106 TTTAGGG
1 TTTAGGG
110302113 -TT--GG
1 TTTAGGG
110302117 TTTAGGG
1 TTTAGGG
110302124 TTTTAGGG
1 -TTTAGGG
110302132 TTTTAGGG
1 -TTTAGGG
110302140 TTT
1 TTT
110302143 TATTCTCTTT
Statistics
Matches: 1347, Mismatches: 29, Indels: 191
0.86 0.02 0.12
Matches are distributed among these distances:
4 2 0.00
5 28 0.02
6 203 0.15
7 748 0.56
8 268 0.20
9 80 0.06
10 18 0.01
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:110302337 original size:7 final size:7
Alignment explanation
Indices: 110302314--110302390 Score: 63
Period size: 7 Copynumber: 11.1 Consensus size: 7
110302304 TAGTTAGGAT
110302314 GGGTTTA
1 GGGTTTA
110302321 CGGCGTTTA
1 -GG-GTTTA
110302330 GGGTTTA
1 GGGTTTA
110302337 -GGTTTA
1 GGGTTTA
*
110302343 -GGTGT-
1 GGGTTTA
110302348 -GGTTTA
1 GGGTTTA
*
110302354 TGGTTTA
1 GGGTTTA
*
110302361 GGTTTTGA
1 GGGTTT-A
*
110302369 TGGTTTA
1 GGGTTTA
110302376 GGGTTTA
1 GGGTTTA
110302383 GGGTTTA
1 GGGTTTA
110302390 G
1 G
110302391 TAGGTAGGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
5 4 0.07
6 10 0.17
7 30 0.52
8 9 0.16
9 5 0.09
ACGTcount: A:0.13, C:0.03, G:0.39, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:110302373 original size:15 final size:14
Alignment explanation
Indices: 110302325--110302390 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 14
110302315 GGTTTACGGC
110302325 GTTTAGGGTTTA-G
1 GTTTAGGGTTTATG
110302338 GTTTAGGTGTGGTTTATG
1 GTTTA---G-GGTTTATG
*
110302356 GTTTAGGTTTTGATG
1 GTTTAGGGTTT-ATG
*
110302371 GTTTAGGGTTTAGG
1 GTTTAGGGTTTATG
110302385 GTTTAG
1 GTTTAG
110302391 TAGGTAGGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 5 0.11
14 12 0.27
15 14 0.32
16 1 0.02
17 6 0.14
18 6 0.14
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:110302469 original size:26 final size:25
Alignment explanation
Indices: 110302409--110302466 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
110302399 GGTGTATTGC
* * *
110302409 AGGGTTTATGGGGTTTCTAGGGGTT
1 AGGGTTTAGGGGGTTCCCAGGGGTT
*
110302434 AGGAGTTTAGGGGGTTCCCAGGGTTT
1 AGG-GTTTAGGGGGTTCCCAGGGGTT
110302460 AGGGTTT
1 AGGGTTT
110302467 TAGAGGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.14, C:0.07, G:0.43, T:0.36
Consensus pattern (25 bp):
AGGGTTTAGGGGGTTCCCAGGGGTT
Found at i:110302524 original size:13 final size:13
Alignment explanation
Indices: 110302506--110302535 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
110302496 TGGTTTAGCC
110302506 GTTAGGCTTTAGG
1 GTTAGGCTTTAGG
*
110302519 GTTAGGGTTTAGG
1 GTTAGGCTTTAGG
110302532 GTTA
1 GTTA
110302536 AGGGGGTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.40, T:0.40
Consensus pattern (13 bp):
GTTAGGCTTTAGG
Found at i:110302749 original size:16 final size:17
Alignment explanation
Indices: 110302720--110302751 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
110302710 AGGGTTTTGT
110302720 AGGGTTTCAGGGTTTAA
1 AGGGTTTCAGGGTTTAA
110302737 AGGGTTT-AGGGTTTA
1 AGGGTTTCAGGGTTTA
110302752 GGCGTGTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.22, C:0.03, G:0.38, T:0.38
Consensus pattern (17 bp):
AGGGTTTCAGGGTTTAA
Done.