Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold211
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: 2193984
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 112243 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:2028639 original size:18 final size:17
Alignment explanation
Indices: 2028611--2028645 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2028601 ATTATTAAGA
*
2028611 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2028628 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2028646 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2028867 original size:44 final size:44
Alignment explanation
Indices: 2028804--2028900 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
2028794 CTATTACTCC
*
2028804 TCCATTCCATTCAACCAAACACA-AGAATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATACTATTACGCCTCTAT
** * *
2028848 TCCATTACATTCAACCAAACAATTTATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATACTATTACGCCTCTAT
2028892 TCCATTACA
1 TCCATTACA
2028901 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 46 0.98
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (44 bp):
TCCATTACATTCAACCAAACAATAGAATACTATTACGCCTCTAT
Found at i:2029526 original size:81 final size:81
Alignment explanation
Indices: 2029439--2029602 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
2029429 ATGATATTTG
*
2029439 GTTAAAAAATTATATTTGATATATTGATAGAGAATAATTTTGTACATAATTAATAAATAAAATGA
1 GTTAAAAAATTATATTTGATATATTGATAGAGAATAATTTTGTACATAATTAATAAATAAAAGGA
*
2029504 TGACATGTTATTAAAA
66 TAACATGTTATTAAAA
2029520 GTTAAAAAATTATATTTGATATATTGATAGAGAATAATTTTGTACATAATTAATAAATAAAAGGA
1 GTTAAAAAATTATATTTGATATATTGATAGAGAATAATTTTGTACATAATTAATAAATAAAAGGA
2029585 TAACATGTTATTAAAA
66 TAACATGTTATTAAAA
2029601 GT
1 GT
2029603 ATTTTTAAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (81 bp):
GTTAAAAAATTATATTTGATATATTGATAGAGAATAATTTTGTACATAATTAATAAATAAAAGGA
TAACATGTTATTAAAA
Found at i:2033178 original size:8 final size:8
Alignment explanation
Indices: 2033153--2033195 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
2033143 TTATTTATTC
2033153 TCTTTTCTT
1 TCTTTT-TT
2033162 TCTTTTTTT
1 TC-TTTTTT
2033171 TCTTTTTT
1 TCTTTTTT
*
2033179 TCGTTTTT
1 TCTTTTTT
2033187 TCTTTTTT
1 TCTTTTTT
2033195 T
1 T
2033196 TCAGCTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 21 0.68
9 6 0.19
10 4 0.13
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (8 bp):
TCTTTTTT
Found at i:2033196 original size:9 final size:9
Alignment explanation
Indices: 2033153--2033197 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
2033143 TTATTTATTC
*
2033153 TCTTTTCTT
1 TCTTTTTTT
2033162 TCTTTTTTT
1 TCTTTTTTT
2033171 TC-TTTTTT
1 TCTTTTTTT
*
2033179 TC-GTTTTT
1 TCTTTTTTT
2033187 TCTTTTTTT
1 TCTTTTTTT
2033196 TC
1 TC
2033198 AGCTAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
8 15 0.47
9 17 0.53
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:2035392 original size:22 final size:22
Alignment explanation
Indices: 2035367--2035414 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
2035357 AAAAGATGGC
2035367 TAGGATGTGATAGGCGAAAGCT
1 TAGGATGTGATAGGCGAAAGCT
* * * *
2035389 TAGGATTTGATGGGTGAAAGGT
1 TAGGATGTGATAGGCGAAAGCT
2035411 TAGG
1 TAGG
2035415 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.40, T:0.27
Consensus pattern (22 bp):
TAGGATGTGATAGGCGAAAGCT
Found at i:2035623 original size:6 final size:6
Alignment explanation
Indices: 2035612--2035674 Score: 94
Period size: 6 Copynumber: 10.8 Consensus size: 6
2035602 ATAAAAATAG
2035612 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT --AATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* *
2035658 AGAATA AAAATT AAAAT
1 AAAATT AAAATT AAAAT
2035675 CTGTAATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
4 4 0.08
6 48 0.92
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:2035667 original size:16 final size:16
Alignment explanation
Indices: 2035605--2035671 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 16
2035595 GCAAAATATA
2035605 AAAATAGAAAATTAAAATT
1 AAAATA-AAAATT--AATT
*
2035624 AAAATTAAAATTAAAATT
1 AAAATAAAAATT--AATT
*
2035642 AAAATTAAAATTAATT
1 AAAATAAAAATTAATT
*
2035658 AGAATAAAAATTAA
1 AAAATAAAAATTAA
2035672 AATCTGTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 16 0.36
18 24 0.53
19 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAATAAAAATTAATT
Found at i:2041668 original size:21 final size:21
Alignment explanation
Indices: 2041644--2041687 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2041634 AAACAAATAA
*
2041644 TAAAAACAG-TTAAATAAATCT
1 TAAAAAAAGATTAAATAAA-CT
*
2041665 TAAAAAAAGATTAATTAAACT
1 TAAAAAAAGATTAAATAAACT
2041686 TA
1 TA
2041688 GCTCAGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAAAAAGATTAAATAAACT
Found at i:2044592 original size:37 final size:37
Alignment explanation
Indices: 2044523--2044594 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
2044513 GTTTTAAATT
* **
2044523 ATTATGTCTTGTTTAATTACATGTTTAATATGTGTTA
1 ATTATGTCTAGTTTAATTACATCATTAATATGTGTTA
*
2044560 ATTATGTCCTAGTTT-ATTACATCATTATTATGTGT
1 ATTATGT-CTAGTTTAATTACATCATTAATATGTGT
2044595 CTTAAGCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 24 0.80
38 6 0.20
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.53
Consensus pattern (37 bp):
ATTATGTCTAGTTTAATTACATCATTAATATGTGTTA
Found at i:2049240 original size:9 final size:9
Alignment explanation
Indices: 2049222--2049259 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
2049212 GTTTCCCACG
*
2049222 TTAGGTTTT
1 TTAGGGTTT
2049231 TTAGGGTTT
1 TTAGGGTTT
*
2049240 TTAGGATTT
1 TTAGGGTTT
2049249 TTAGGGTTT
1 TTAGGGTTT
2049258 TT
1 TT
2049260 GGAGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (9 bp):
TTAGGGTTT
Found at i:2049249 original size:18 final size:18
Alignment explanation
Indices: 2049222--2049259 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2049212 GTTTCCCACG
*
2049222 TTAGGTTTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
2049240 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
2049258 TT
1 TT
2049260 GGAGAAAAAA
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:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (18 bp):
TTAGGATTTTTAGGGTTT
Found at i:2049599 original size:126 final size:126
Alignment explanation
Indices: 2049374--2049816 Score: 617
Period size: 126 Copynumber: 3.5 Consensus size: 126
2049364 GATAAAATTA
* * * * * * * *
2049374 AAGCAGGATGAT-TTATCAGAAGGATTTTTGAAGTCGCGCTCACATGAACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
*
2049438 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAACAACGCTGC
65 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
*
2049500 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGTGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
2049565 AGGTCCTAAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATAACGCTGC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
* * * *
2049626 AAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGATGCGCTTTTGTTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
2049691 AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATC-A--CTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-CAACGCTGC
* *
2049750 TAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
2049814 TAG
65 TAG
2049817 CATGTTTGGG
Statistics
Matches: 283, Mismatches: 31, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
123 2 0.01
124 61 0.22
126 218 0.77
127 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (126 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
Found at i:2052891 original size:53 final size:53
Alignment explanation
Indices: 2052824--2052927 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
2052814 ATATTTTTTC
* ** *
2052824 AATTATTAATTGATAATTGTATTAATTTTTAGTAAAATTATCAAATTATATCA
1 AATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATATCA
2052877 AATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATAT
1 AATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATAT
2052928 TTAAGTTAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (53 bp):
AATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATATCA
Found at i:2053006 original size:43 final size:43
Alignment explanation
Indices: 2052927--2053290 Score: 437
Period size: 43 Copynumber: 8.5 Consensus size: 43
2052917 GCAAATTATA
* *
2052927 TTTAAGTTAAGGG-TTAGGGTTTTTTATTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACGGTT
* * ** *
2052969 TTAAAGTTAAGGGTTTAGGATTTTTATTTTAATGGTTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACGGTT
* * *
2053012 TTTAAGTTAAGGGTTTAGGGATTTTAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACGGTT
** **
2053055 TTTAAGTTAAGGGTTTAGGGTTTTTATTTTAAGGGTTACATTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACGGTT
* *
2053098 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACGGTT
* * * * *
2053141 TTTCAGTTAAGGATTTATGATTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTACGGTT
* *
2053185 TTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTACGGTT
* * *
2053228 TTTAAGTTAATGATTTAGGGTTTTTAATTTAAGGGTTA-GTGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACG-GTT
*
2053271 TTTAATTTAAGGGTTTAGGG
1 TTTAAGTTAAGGGTTTAGGG
2053291 GTAGGGTTTT
Statistics
Matches: 275, Mismatches: 43, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
42 13 0.05
43 225 0.82
44 37 0.13
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACGGTT
Found at i:2053087 original size:65 final size:65
Alignment explanation
Indices: 2052927--2053287 Score: 417
Period size: 65 Copynumber: 5.6 Consensus size: 65
2052917 GCAAATTATA
* * *
2052927 TTTAAGTTAAGGGTTAGGGTTTTTTATTTAAGGG-TTACGG-TTTTAAAGTTAAGGGTTTAGGAT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTACGGATTTT-AAGTTAAGGGTTTAGGGT
2052990 T
65 T
** * * * *
2052991 TTTATTTTAATGGTTACGGTTTTTAAGTTAAGGGTTTAGGGATTTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTACGGATTTTAAGTTAAGGGTTTAGGGTT
** ***
2053055 TTTAAGTTAAGGGTTTAGGGTTTTTATTTTAAGGG-TTACATTTTTTAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTACGGATTTTAAGTTAAGGGTTTAGGGT
2053119 T
65 T
* * * * *
2053120 TTTAAGTTAATGGTTAGGGTTTTTCAGTTAAGGATTTA-TGATTTTTAAGTTAAGGGTTTAAGGT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTACGGA-TTTTAAGTTAAGGGTTTAGGGT
2053184 T
65 T
* * * * *
2053185 TTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAATGATTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTACGGATTTTAAGTTAAGGGTTTAGGGTT
* * *
2053250 TTTAATTTAAGGGTTAGTGTTTTTAATTTAAGGGTTTA
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA
2053288 GGGGTAGGGT
Statistics
Matches: 248, Mismatches: 42, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
64 78 0.31
65 165 0.67
66 5 0.02
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (65 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTACGGATTTTAAGTTAAGGGTTTAGGGTT
Found at i:2053589 original size:21 final size:21
Alignment explanation
Indices: 2053565--2053608 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2053555 TCCAGCTTCT
2053565 GGCGGCGG-TTGTGGTTCCTCC
1 GGCGG-GGATTGTGGTTCCTCC
* *
2053586 GGCGGGGATTTTGGTTCTTCC
1 GGCGGGGATTGTGGTTCCTCC
2053607 GG
1 GG
2053609 TAGGACATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.02, C:0.23, G:0.43, T:0.32
Consensus pattern (21 bp):
GGCGGGGATTGTGGTTCCTCC
Found at i:2054562 original size:7 final size:7
Alignment explanation
Indices: 2054547--2054578 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
2054537 TATTAGTTAT
*
2054547 ATACAAA
1 ATACTAA
2054554 ATACTAA
1 ATACTAA
2054561 ATACTAA
1 ATACTAA
2054568 ATACTAA
1 ATACTAA
2054575 ATAC
1 ATAC
2054579 CAATTGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (7 bp):
ATACTAA
Found at i:2054780 original size:20 final size:20
Alignment explanation
Indices: 2054743--2054780 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2054733 TTAATTTTTA
*
2054743 AAAATCTACATAATAATTGT
1 AAAATCTACATAAGAATTGT
2054763 AAAATCTA-ATATAGAATT
1 AAAATCTACATA-AGAATT
2054781 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAGAATTGT
Found at i:2055792 original size:11 final size:11
Alignment explanation
Indices: 2055778--2055854 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
2055768 TTATATATGG
2055778 ATTTGAGAGAA
1 ATTTGAGAGAA
*
2055789 ATTTG-GAAGGA
1 ATTTGAG-AGAA
2055800 ATTTGAGAGTAA
1 ATTTGAGAG-AA
2055812 A-TTGAGAGGAA
1 ATTTGAGA-GAA
2055823 ATTT-AGAGGAA
1 ATTTGAGA-GAA
*
2055834 A-ATGAGATGAA
1 ATTTGAGA-GAA
2055845 ATTTGAGAGA
1 ATTTGAGAGA
2055855 GGATTAATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 2 0.04
11 41 0.76
12 11 0.20
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:2055840 original size:33 final size:35
Alignment explanation
Indices: 2055778--2055853 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 35
2055768 TTATATATGG
* **
2055778 ATTTGAGA-GAAATTTGGAAGGAATTTGAGA-GTAA
1 ATTTGAGAGGAAATTTAGAAGGAAAATGAGATG-AA
2055812 A-TTGAGAGGAAATTTAG-AGGAAAATGAGATGAA
1 ATTTGAGAGGAAATTTAGAAGGAAAATGAGATGAA
2055845 ATTTGAGAG
1 ATTTGAGAG
2055854 AGGATTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 19 0.53
34 17 0.47
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.26
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAAATGAGATGAA
Found at i:2056108 original size:40 final size:40
Alignment explanation
Indices: 2056033--2056109 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
2056023 ACGTGGACAC
* * * * **
2056033 AAATCGCGCTTACGTGGATGCTATTTGCTGCCACGTCAGA
1 AAATCACGCTGACGTGAACGCTATTTGCTAACACGTCAGA
2056073 AAATCACGCTGACGTGAACGCTATTTGCTAACACGTC
1 AAATCACGCTGACGTGAACGCTATTTGCTAACACGTC
2056110 CCCTGACATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
AAATCACGCTGACGTGAACGCTATTTGCTAACACGTCAGA
Found at i:2056614 original size:11 final size:10
Alignment explanation
Indices: 2056598--2056636 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
2056588 TTTTTAAAAA
2056598 TATTATTTTCT
1 TATTATTTT-T
2056609 TATTATTTTT
1 TATTATTTTT
*
2056619 TAGTATTTTT
1 TATTATTTTT
2056629 TATATATT
1 TAT-TATT
2056637 ATATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 12 0.48
11 13 0.52
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (10 bp):
TATTATTTTT
Found at i:2056669 original size:12 final size:12
Alignment explanation
Indices: 2056648--2056681 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2056638 TATATATTTT
*
2056648 AAAATTATATAA
1 AAAATAATATAA
2056660 AAAATAATATAA
1 AAAATAATATAA
*
2056672 AAATTAATAT
1 AAAATAATAT
2056682 GGGTAGGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:2057037 original size:20 final size:21
Alignment explanation
Indices: 2057006--2057048 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
2056996 AATTCATTTG
*
2057006 AAGAATATATAAAAAAAACTT
1 AAGAATATATAAAAAAAAATT
2057027 AAGAA-ATATAAAAAAAAATT
1 AAGAATATATAAAAAAAAATT
2057047 AA
1 AA
2057049 AAACCCTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
AAGAATATATAAAAAAAAATT
Found at i:2058698 original size:20 final size:21
Alignment explanation
Indices: 2058673--2058711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2058663 TGTTTGTTTG
*
2058673 GAATTTTA-AAGAAAATTTTA
1 GAATTTTATAAAAAAATTTTA
2058693 GAATTTTATAAAAAAATTT
1 GAATTTTATAAAAAAATTT
2058712 ATGAGCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (21 bp):
GAATTTTATAAAAAAATTTTA
Found at i:2058733 original size:45 final size:45
Alignment explanation
Indices: 2058684--2058774 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
2058674 AATTTTAAAG
2058684 AAAATTTTAGAATTTTATAAAAAAATTTATGAGCTTTAGATTGGT
1 AAAATTTTAGAATTTTATAAAAAAATTTATGAGCTTTAGATTGGT
*
2058729 AAAATTTTAGAATTTTATAAAAAATTTTATGAGCTTTAGATTGGT
1 AAAATTTTAGAATTTTATAAAAAAATTTATGAGCTTTAGATTGGT
2058774 A
1 A
2058775 TGGTTGTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.43
Consensus pattern (45 bp):
AAAATTTTAGAATTTTATAAAAAAATTTATGAGCTTTAGATTGGT
Found at i:2058754 original size:20 final size:20
Alignment explanation
Indices: 2058673--2058757 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 20
2058663 TGTTTGTTTG
2058673 GAATTTTA-AAGAAAATTTTA
1 GAATTTTATAA-AAAATTTTA
*
2058693 GAATTTTATAAAAAAATTTA
1 GAATTTTATAAAAAATTTTA
* * **
2058713 TGAGCTTTAGATTGGTAAAATTTTA
1 -GA-ATTT-TA-T-AAAAAATTTTA
2058738 GAATTTTATAAAAAATTTTA
1 GAATTTTATAAAAAATTTTA
2058758 TGAGCTTTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
20 25 0.51
21 5 0.10
22 4 0.08
23 4 0.08
24 3 0.06
25 8 0.16
ACGTcount: A:0.46, C:0.01, G:0.11, T:0.42
Consensus pattern (20 bp):
GAATTTTATAAAAAATTTTA
Found at i:2059171 original size:25 final size:24
Alignment explanation
Indices: 2059137--2059190 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 24
2059127 ATTTTATATC
*
2059137 AATATTTATAATAATATTAAATAA
1 AATAATTATAATAATATTAAATAA
2059161 ATATAATTATAATAATATTAAATAA
1 A-ATAATTATAATAATATTAAATAA
2059186 AATAA
1 AATAA
2059191 AAATCCGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATAATTATAATAATATTAAATAA
Found at i:2060778 original size:32 final size:32
Alignment explanation
Indices: 2060742--2060810 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
2060732 GCCTTGTTGT
* * *
2060742 TAGGCGACACCACTTTGGTGAAGCCTCTCTAA
1 TAGGCGACACCACTCTAGTGAAGCCTCCCTAA
** *
2060774 TAGGCGGTACCACTCTAGTGAAGCCTCCCTGA
1 TAGGCGACACCACTCTAGTGAAGCCTCCCTAA
2060806 TAGGC
1 TAGGC
2060811 AGCACCGGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (32 bp):
TAGGCGACACCACTCTAGTGAAGCCTCCCTAA
Found at i:2061067 original size:11 final size:11
Alignment explanation
Indices: 2061039--2061092 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
2061029 AGATTAGTAT
*
2061039 AGAAGATAG-A
1 AGAAGAAAGAA
2061049 AG-AGAAAGAA
1 AGAAGAAAGAA
2061059 AGAAGAAAGAA
1 AGAAGAAAGAA
* *
2061070 AGGAGAAGGAA
1 AGAAGAAAGAA
2061081 A-AAGAAAAGAA
1 AGAAG-AAAGAA
2061092 A
1 A
2061093 AACACATAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 5 0.14
10 7 0.19
11 24 0.67
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.02
Consensus pattern (11 bp):
AGAAGAAAGAA
Found at i:2061081 original size:22 final size:22
Alignment explanation
Indices: 2061050--2061092 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2061040 GAAGATAGAA
2061050 GAGAAAGAAAGAAG-AAAGAAAG
1 GAGAAAGAAA-AAGAAAAGAAAG
*
2061072 GAGAAGGAAAAAGAAAAGAAA
1 GAGAAAGAAAAAGAAAAGAAA
2061093 AACACATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
GAGAAAGAAAAAGAAAAGAAAG
Found at i:2061406 original size:13 final size:13
Alignment explanation
Indices: 2061390--2061414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2061380 TTTTTTTATT
2061390 TATTTTTGTAAGG
1 TATTTTTGTAAGG
2061403 TATTTTTGTAAG
1 TATTTTTGTAAG
2061415 AAATATAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
TATTTTTGTAAGG
Found at i:2061841 original size:11 final size:11
Alignment explanation
Indices: 2061824--2061858 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2061814 TTTTTAATCA
2061824 AATATATATTT
1 AATATATATTT
* *
2061835 TATATATATTA
1 AATATATATTT
2061846 AATATATATTT
1 AATATATATTT
2061857 AA
1 AA
2061859 AATGGGTCGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AATATATATTT
Found at i:2061846 original size:26 final size:24
Alignment explanation
Indices: 2061799--2061846 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
2061789 ATTATATATT
* *
2061799 AAATATATTTTTTTATTTTTAATC
1 AAATATATTTTTATATTATTAATC
2061823 AAATATATATTTTATATATATTAA
1 AAATATAT-TTTTATAT-TATTAA
2061847 ATATATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 7 0.35
26 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATATATTTTTATATTATTAATC
Found at i:2063341 original size:41 final size:41
Alignment explanation
Indices: 2063280--2063641 Score: 383
Period size: 41 Copynumber: 8.9 Consensus size: 41
2063270 TTCTTACCTT
* * * *
2063280 TCGGGGCTTTAGCGGTGTTTTCGAAAAAGCGCCGCTAATAC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
2063321 TCGGGGTTTTAGCGGCGTTTTTTAAAATGCGTCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * ** * *
2063362 TCGGGGTTTTAGTGGCGTTTTTGGAAAATTGCTGCTAATTC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
2063403 TCGGTGTTTTAGCGGCATTTTT-CAAAAGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* **
2063443 TTGGGGTTTTAGCGGCGTTTTTGAAAATTCGCCGCT-ATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * *
2063483 TGGGGGCTTTAACGGCATTTTTGATAAAGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
2063524 TC--GGTGTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
2063563 TGGGGGTATTAGCAGCGTTTTTGAAAAAGCGCCGCTAATAC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
2063604 T-GGAGGCTTTAGCGGTGTTTTTGAAAATGCGCCGCTAA
1 TCGG-GGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
2063642 AAACATTTTA
Statistics
Matches: 262, Mismatches: 54, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
39 32 0.12
40 67 0.26
41 163 0.62
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (41 bp):
TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:2063462 original size:81 final size:79
Alignment explanation
Indices: 2063282--2063641 Score: 328
Period size: 80 Copynumber: 4.4 Consensus size: 79
2063272 CTTACCTTTC
* * * ** * *
2063282 GGGGCTTTAGCGGTGTTTTCGAAAAAGCGCCGCTAATACTCGGGGTTTTAGCGGCGTTTTTTAAA
1 GGGGTTTTAGCGGCGTTTTTG-AAAATTGCCGCTAATGCTCGGGGTTTTAGCGGC-ATTTTTAAA
* *
2063347 ATGCGTCGCTAATGCT
64 AAGCGCCGCTAATGCT
* * * * *
2063363 CGGGGTTTTAGTGGCGTTTTTGGAAAATTGCTGCTAATTCTCGGTGTTTTAGCGGCATTTTTCAA
1 -GGGGTTTTAGCGGCGTTTTT-GAAAATTGCCGCTAATGCTCGGGGTTTTAGCGGCATTTTTAAA
2063428 AAGCGCCGCTAATGCTT
64 AAGCGCCGCTAATGC-T
* * * *
2063445 GGGGTTTTAGCGGCGTTTTTGAAAATTCGCCGCT-ATGCTGGGGGCTTTAACGGCATTTTTGATA
1 GGGGTTTTAGCGGCGTTTTTGAAAATT-GCCGCTAATGCTCGGGGTTTTAGCGGCATTTTT-AAA
2063509 AAGCGCCGCTAATGCT
64 AAGCGCCGCTAATGCT
* * * ** * * * *
2063525 -CGGTGTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTGGGGGTATTAGCAGCGTTTTTGAAA
1 GGGGTTTTAGCGGCG-TTTTTGAAAATTGCCGCTAATGCTCGGGGTTTTAGCGGCATTTTT-AAA
*
2063589 AAGCGCCGCTAATACT
64 AAGCGCCGCTAATGCT
* * *
2063605 GGAGGCTTTAGCGGTGTTTTTGAAAATGCGCCGCTAA
1 GG-GGTTTTAGCGGCGTTTTTGAAAAT-TGCCGCTAA
2063642 AAACATTTTA
Statistics
Matches: 229, Mismatches: 40, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
79 18 0.08
80 77 0.34
81 69 0.30
82 64 0.28
83 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (79 bp):
GGGGTTTTAGCGGCGTTTTTGAAAATTGCCGCTAATGCTCGGGGTTTTAGCGGCATTTTTAAAAA
GCGCCGCTAATGCT
Found at i:2063897 original size:15 final size:15
Alignment explanation
Indices: 2063877--2063921 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
2063867 ATTTAAGGCC
*
2063877 GGTTTAGGGAGTATG
1 GGTTTAGGGATTATG
2063892 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
*
2063906 GGATTAGGGATTATG
1 GGTTTAGGGATTATG
2063921 G
1 G
2063922 ATTAGGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:2063914 original size:14 final size:14
Alignment explanation
Indices: 2063880--2063928 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
2063870 TAAGGCCGGT
* *
2063880 TTAGGGAGTATGGGT
1 TTAGGGATTAT-GGA
2063895 TTAGGGATTATGGA
1 TTAGGGATTATGGA
2063909 TTAGGGATTATGGA
1 TTAGGGATTATGGA
2063923 TTAGGG
1 TTAGGG
2063929 TTGGGATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:2064185 original size:15 final size:15
Alignment explanation
Indices: 2064162--2064240 Score: 67
Period size: 15 Copynumber: 5.5 Consensus size: 15
2064152 TATTTTAAGG
*
2064162 TTTAGGGAGTATGGA
1 TTTAAGGAGTATGGA
*
2064177 TTTAAGGAGTATGAA
1 TTTAAGGAGTATGGA
* *
2064192 TTTAGGGATTATGGA
1 TTTAAGGAGTATGGA
* *
2064207 -TTATGGATTATGG-
1 TTTAAGGAGTATGGA
2064220 TTTAAGG-GT-TGGGA
1 TTTAAGGAGTAT-GGA
2064234 TTTAAGG
1 TTTAAGG
2064241 TTTAAGGGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
12 1 0.02
13 3 0.06
14 24 0.45
15 25 0.47
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (15 bp):
TTTAAGGAGTATGGA
Found at i:2064243 original size:21 final size:22
Alignment explanation
Indices: 2064218--2064287 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 22
2064208 TATGGATTAT
2064218 GGTTTAAGGGTT-GGGATTTAA
1 GGTTTAAGGGTTAGGGATTTAA
* *
2064239 GGTTTAAGGGTTAGGG-GTTAG
1 GGTTTAAGGGTTAGGGATTTAA
* *
2064260 GGGTTAAGAGTTAGGGATTTAA
1 GGTTTAAGGGTTAGGGATTTAA
2064282 GGTTTA
1 GGTTTA
2064288 GGGATTAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 29 0.73
22 11 0.28
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGATTTAA
Found at i:2066167 original size:47 final size:47
Alignment explanation
Indices: 2066092--2066182 Score: 157
Period size: 47 Copynumber: 1.9 Consensus size: 47
2066082 TACTAGCTCG
2066092 TTTTAGCTCACTGAAGCAAAGAGAAGAAGTGTGTATGGAAAATATTC
1 TTTTAGCTCACTGAAGCAAAGAGAAGAAGTGTGTATGGAAAATATTC
*
2066139 TTTTTGCTCACTGAAGCAAAGA-ATAGAAGTGTGTATGGAAAATA
1 TTTTAGCTCACTGAAGCAAAGAGA-AGAAGTGTGTATGGAAAATA
2066183 AGTTTAAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (47 bp):
TTTTAGCTCACTGAAGCAAAGAGAAGAAGTGTGTATGGAAAATATTC
Found at i:2069336 original size:43 final size:43
Alignment explanation
Indices: 2069289--2069515 Score: 323
Period size: 43 Copynumber: 5.3 Consensus size: 43
2069279 GAACAGTACT
* **
2069289 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATATTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGCTC
* * *
2069332 TTTAGTGGCGTCTGTAATAAAAGCGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGCTC
* *
2069375 TTTAGCGGCATTTGTGATAAAAGCGCAGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGCTC
* *
2069418 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATG-TC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGCTC
*
2069460 TTTAGCGGCGTTTGTGGAT-AAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGCTC
*
2069503 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
2069516 TTTCACATTA
Statistics
Matches: 164, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 36 0.22
43 128 0.78
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGCTC
Found at i:2071100 original size:44 final size:44
Alignment explanation
Indices: 2070972--2071100 Score: 159
Period size: 44 Copynumber: 2.9 Consensus size: 44
2070962 ATACATGCAA
* * *
2070972 AAATTAGATGCATTGAAAGAAATTTGGAACAAACTTTATAATTT
1 AAATTAGATGCATTGAAACAAAATTGGAACAAACTTTGTAATTT
* * ***
2071016 AAATGAGATGTATTGCTCCAAAATTGGAACAAACTTTGTAATTT
1 AAATTAGATGCATTGAAACAAAATTGGAACAAACTTTGTAATTT
* * *
2071060 AAATTAGATGCATTGGAACAAACTTGGAACAAACTCTGTAA
1 AAATTAGATGCATTGAAACAAAATTGGAACAAACTTTGTAA
2071101 AATATATATA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (44 bp):
AAATTAGATGCATTGAAACAAAATTGGAACAAACTTTGTAATTT
Found at i:2074528 original size:22 final size:22
Alignment explanation
Indices: 2074500--2074544 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2074490 TGGATTATAT
2074500 ACCAAAATGGTATACCCATGCA
1 ACCAAAATGGTATACCCATGCA
2074522 ACCAAAATGGTATACCCATGCA
1 ACCAAAATGGTATACCCATGCA
2074544 A
1 A
2074545 GTGGAGAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.27, G:0.13, T:0.18
Consensus pattern (22 bp):
ACCAAAATGGTATACCCATGCA
Found at i:2076019 original size:25 final size:25
Alignment explanation
Indices: 2075991--2076048 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
2075981 CTCAGCTCAT
2075991 ATGAGCTTCCCGTTATTCATCTCGC
1 ATGAGCTTCCCGTTATTCATCTCGC
* *
2076016 ATGAGCTTTCCGTTATTCATCTCGG
1 ATGAGCTTCCCGTTATTCATCTCGC
*
2076041 AAGAGCTT
1 ATGAGCTT
2076049 ATTGTTTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCATCTCGC
Found at i:2080590 original size:33 final size:35
Alignment explanation
Indices: 2080515--2080590 Score: 111
Period size: 33 Copynumber: 2.2 Consensus size: 35
2080505 AGATTTAAAC
2080515 AAATTAATTACTAACACTTATTTAAAGATGAACTA
1 AAATTAATTACTAACACTTATTTAAAGATGAACTA
* *
2080550 AAATTAATT-CTAACACTTATTT-GAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAAGATGAACTA
*
2080583 AATTTAAT
1 AAATTAAT
2080591 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 16 0.42
34 13 0.34
35 9 0.24
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.37
Consensus pattern (35 bp):
AAATTAATTACTAACACTTATTTAAAGATGAACTA
Found at i:2081775 original size:31 final size:31
Alignment explanation
Indices: 2081740--2081799 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
2081730 TTTCTAACTC
* *
2081740 ATTTTC-TCTTCATTCTTCAATTTCTTTTTCA
1 ATTTTCTTCTTCACTC-TCAATCTCTTTTTCA
*
2081771 ATTTTCTTGTTCACTCTCAATCTCTTTTT
1 ATTTTCTTCTTCACTCTCAATCTCTTTTT
2081800 TCTCTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.15, C:0.23, G:0.02, T:0.60
Consensus pattern (31 bp):
ATTTTCTTCTTCACTCTCAATCTCTTTTTCA
Found at i:2081825 original size:18 final size:18
Alignment explanation
Indices: 2081797--2081840 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
2081787 TCAATCTCTT
2081797 TTTTCTCTTTTTC-ATTCTC
1 TTTT-TCTTTTTCGATT-TC
*
2081816 TTTTTCTTTTTCGGTTTC
1 TTTTTCTTTTTCGATTTC
2081834 TTTTTCT
1 TTTTTCT
2081841 GTCTTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTCTTTTTCGATTTC
Found at i:2088921 original size:25 final size:25
Alignment explanation
Indices: 2088881--2088949 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
2088871 GACACACCAT
*
2088881 AGCTCTTATGAGCTTCCCGATACTC
1 AGCTCGTATGAGCTTCCCGATACTC
* * *
2088906 AGGTCGTATGAGCTTCCCGTTATTC
1 AGCTCGTATGAGCTTCCCGATACTC
*
2088931 AGCTCGCATGAGCTTCCCG
1 AGCTCGTATGAGCTTCCCG
2088950 TTATTCATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.30, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTCCCGATACTC
Found at i:2088950 original size:25 final size:25
Alignment explanation
Indices: 2088888--2088970 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
2088878 CATAGCTCTT
* * * *
2088888 ATGAGCTTCCCGATACTCAGGTCGT
1 ATGAGCTTCCCGTTATTCAGCTCGA
*
2088913 ATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGA
*
2088938 ATGAGCTTCCCGTTATTCATCTCGA
1 ATGAGCTTCCCGTTATTCAGCTCGA
*
2088963 AAGAGCTT
1 ATGAGCTT
2088971 ACTGTTTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGA
Found at i:2090260 original size:27 final size:27
Alignment explanation
Indices: 2090218--2090296 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
2090208 GGGTGTTATA
* *
2090218 GCACTAGTGACCCCTATCTGATAGGTG
1 GCACTGGTGACTCCTATCTGATAGGTG
2090245 GCACTGGTGACTCCTATCTGATAGGTG
1 GCACTGGTGACTCCTATCTGATAGGTG
2090272 GCACTGGTGACTCCTATCTGATAGG
1 GCACTGGTGACTCCTATCTGATAGG
2090297 CGCCACCAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTGGTGACTCCTATCTGATAGGTG
Found at i:2090404 original size:26 final size:27
Alignment explanation
Indices: 2090375--2090432 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
2090365 AAAAGATAGC
* *
2090375 AGAAAAT-AAGGAAG-AAGAGAGGGAGA
1 AGAAAATAAAGAAAGAAAGA-AAGGAGA
2090401 AG-AAATAAAGAAAGAAAGAAAGGAGA
1 AGAAAATAAAGAAAGAAAGAAAGGAGA
2090427 AGAAAA
1 AGAAAA
2090433 AGAAGGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 4 0.15
26 16 0.59
27 7 0.26
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (27 bp):
AGAAAATAAAGAAAGAAAGAAAGGAGA
Found at i:2090586 original size:25 final size:26
Alignment explanation
Indices: 2090540--2090588 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
2090530 GTTTTTAATT
*
2090540 TATTTTAAAGTTATTTTGTTAGTTAC
1 TATTATAAAGTTATTTTGTTAGTTAC
2090566 TATTATAAA-TTA-TTTGTTTAGTT
1 TATTATAAAGTTATTTTG-TTAGTT
2090589 TAATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (26 bp):
TATTATAAAGTTATTTTGTTAGTTAC
Found at i:2090674 original size:16 final size:16
Alignment explanation
Indices: 2090655--2090685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2090645 ATTTATTTTA
*
2090655 AAGTTTTTTTATTAGT
1 AAGTTTTTTGATTAGT
2090671 AAGTTTTTTGATTAG
1 AAGTTTTTTGATTAG
2090686 GTTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (16 bp):
AAGTTTTTTGATTAGT
Found at i:2092773 original size:3 final size:3
Alignment explanation
Indices: 2092765--2092795 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2092755 TATATTTTAC
*
2092765 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2092796 TGCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2096002 original size:14 final size:15
Alignment explanation
Indices: 2095976--2096008 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2095966 TGCCAAACTG
*
2095976 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
2095991 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
2096005 GGAA
1 GGAA
2096009 AAGCGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:2096138 original size:15 final size:15
Alignment explanation
Indices: 2096092--2096138 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
2096082 ATTTCATAAA
*
2096092 AAAAAGAGAAAAGAAA
1 AAAAAGA-AAAAGAAG
2096108 AGAAAAGAAAAAGAAG
1 A-AAAAGAAAAAGAAG
*
2096124 AAAAAGAAAAGGAAG
1 AAAAAGAAAAAGAAG
2096139 GCCAAGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 13 0.46
16 9 0.32
17 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGAAG
Found at i:2097340 original size:45 final size:46
Alignment explanation
Indices: 2097228--2097341 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 46
2097218 GAAGATCATA
* *
2097228 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATAC
1 ACAATCCTTATCTCCTTGAAGTTGCAGTGGAACAGGATAAAAATAC
* * * * **
2097274 ACAAACCTTATCTTCTTGAAGTTGCAGTGGAACAGGTTGAAGTTAC
1 ACAATCCTTATCTCCTTGAAGTTGCAGTGGAACAGGATAAAAATAC
*
2097320 -CAATTCTTATCTCCTTGAAGTT
1 ACAATCCTTATCTCCTTGAAGTT
2097342 CCAGCGGAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
45 19 0.33
46 38 0.67
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (46 bp):
ACAATCCTTATCTCCTTGAAGTTGCAGTGGAACAGGATAAAAATAC
Found at i:2097454 original size:179 final size:179
Alignment explanation
Indices: 2097228--2097832 Score: 908
Period size: 179 Copynumber: 3.4 Consensus size: 179
2097218 GAAGATCATA
* * *
2097228 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTTCTTGA
1 ACAATCCTTATCTCCCTGAAATTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCCTGA
*
2097293 AGTTGCAGTGGAACAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCG
66 AGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCG
* * *
2097358 AAGCTACAAATCTCTTCTCCCTAAAATTAAATTGGAGTAGATCAAAGCC
131 AAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATCGAAGCC
* ** * *
2097407 ATAATCCTTATCTCATTGAAATTGAAGTGAAGCAGGATAAAAATACACAAACCTTATCTCCCTGA
1 ACAATCCTTATCTCCCTGAAATTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCCTGA
* * * *
2097472 AGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCCCCTTGAAGTTCCAACGGAGTATATCG
66 AGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCG
*
2097537 AAGCTACAAATCTCTTCTCCCTAAAATTACATTGAAGCAGATCGAAGCC
131 AAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATCGAAGCC
* * * *
2097586 ACAATCCTTATCTCCTTAAAATTTTC-GTTGAGCAGGATAAAAATACACAAACCTTATCTCCCTG
1 ACAATCCTTATCTCCCTGAAA-TTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCCTG
2097650 AAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATC
65 AAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATC
* *
2097715 GAAGCTACAAATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGAAGCC
130 GAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATCGAAGCC
* * * * * ** *
2097765 ACAATCCTTTTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC-CAATTCTTATCTCCTTGA
1 ACAATCCTTATCTCCCTGAAATTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCCTGA
2097829 AGTT
66 AGTT
2097833 ACAACGGAGT
Statistics
Matches: 381, Mismatches: 43, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
178 22 0.06
179 357 0.94
180 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (179 bp):
ACAATCCTTATCTCCCTGAAATTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCCTGA
AGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCG
AAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATCGAAGCC
Found at i:2097798 original size:44 final size:44
Alignment explanation
Indices: 2097228--2097799 Score: 233
Period size: 44 Copynumber: 12.8 Consensus size: 44
2097218 GAAGATCATA
** **
2097228 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATAC
1 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-CGAAGCC
* * * * * * **
2097274 ACAAACCTTATCTTCTTGAAGTTGCAGTGGAACAGGTTGAAGTT
1 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
* * * * * *
2097318 ACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCT
1 A-CAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
* * ** * * *
2097363 ACAAAT-CTCT-TCTCCCTAAAATTAAATTGGAGTAGATCAAAGCC
1 AC-AATCCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
* ** * * * ** **
2097407 ATAATCCTTATCTCATTGAAATTGAAGTGAAGCAGGATAAAAATAC
1 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-CGAAGCC
* * * * **
2097453 ACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTT
1 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
* * ** * * *
2097497 ACCAATTCTTATC-CCCTTGAAGTTCCAACGGAGTATATCGAAGCT
1 A-CAATCCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATCGAAGCC
* * * * *
2097542 ACAAAT-CTCT-TCTCCCTAAAATTACATTGAAGCAGATCGAAGCC
1 AC-AATCCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
* * * * * ** **
2097586 ACAATCCTTATCTCCTTAAAATTTTC-GTTGAGCAGGATAAAAATAC
1 ACAATCCTTATCTCCCT-GAAGTTGCAGTGGAGCA-GAT-CGAAGCC
* * * **
2097632 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
1 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
* * * * * *
2097676 ACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCT
1 A-CAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
* * * *
2097721 ACAAAT-CTCT-TCTCCCTGAAATTACATTAGAGCAGATCGAAGCC
1 AC-AATCCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
*
2097765 ACAATCCTTTTCTCCCTGAAGTTGCAGTGGAGCAG
1 ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAG
2097800 GTTGAAATTA
Statistics
Matches: 387, Mismatches: 116, Indels: 48
0.70 0.21 0.09
Matches are distributed among these distances:
43 12 0.03
44 153 0.40
45 137 0.35
46 85 0.22
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
ACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCC
Found at i:2097800 original size:133 final size:133
Alignment explanation
Indices: 2097631--2097894 Score: 438
Period size: 133 Copynumber: 2.0 Consensus size: 133
2097621 GATAAAAATA
*
2097631 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGA
* *
2097696 AGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGA
66 AGTTACAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGA
2097761 AGC
131 AGC
* *
2097764 CACAATCCTTTTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGA
* * * * *
2097829 AGTTACAACGGAGTAGATCGAAGCTGCAAGTCTCTTCTCCCTGGAATTACATTGGAGCGGATCGA
66 AGTTACAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGA
2097894 A
131 A
2097895 ACACCAATTC
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 121 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (133 bp):
CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGA
AGTTACAACGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTAGAGCAGATCGA
AGC
Found at i:2099483 original size:21 final size:21
Alignment explanation
Indices: 2099457--2099496 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2099447 TGCAAATTGT
2099457 TTTATTCATT-AGTTTATTTTA
1 TTTATTCATTCA-TTTATTTTA
*
2099478 TTTATTTATTCATTTATTT
1 TTTATTCATTCATTTATTT
2099497 ATTATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTATTCATTCATTTATTTTA
Found at i:2099492 original size:12 final size:12
Alignment explanation
Indices: 2099457--2099503 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
2099447 TGCAAATTGT
2099457 TTTATTCA-TTA
1 TTTATTCATTTA
*
2099468 GTTTATTTTATTTA
1 -TTTA-TTCATTTA
2099482 TTTATTCATTTA
1 TTTATTCATTTA
2099494 TTTATT-ATTT
1 TTTATTCATTT
2099504 CTTCAACCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.13
12 17 0.55
13 7 0.23
14 3 0.10
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTATTCATTTA
Found at i:2104731 original size:48 final size:48
Alignment explanation
Indices: 2104667--2104777 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
2104657 TAATGTAATC
* * *
2104667 CAATGTATGTAATTTATATTACAAAGTTTGTTCCTTATTTTAATGTTG
1 CAATGAATCTAATTTATATTACAAAGTTTGTTCCTCATTTTAATGTTG
* *
2104715 CAATTAATCTAATTTATATTACAAAGTTTGTTCCTCGTTTTAATGTTG
1 CAATGAATCTAATTTATATTACAAAGTTTGTTCCTCATTTTAATGTTG
*
2104763 TAATGAATCTCAATT
1 CAATGAATCT-AATT
2104778 AAATAAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (48 bp):
CAATGAATCTAATTTATATTACAAAGTTTGTTCCTCATTTTAATGTTG
Found at i:2108690 original size:43 final size:43
Alignment explanation
Indices: 2108628--2108745 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
2108618 TGTAATCTCG
*
2108628 TATTGATGCCAATAGCCCAGCCATGGTCTTACACGAAATCACA
1 TATTGATGCCAATAGCCCAGACATGGTCTTACACGAAATCACA
* * *
2108671 TATTGATGCCAAT-GTCCCAGACATGGTCTTACATGAATTCTCA
1 TATTGATGCCAATAG-CCCAGACATGGTCTTACACGAAATCACA
* * * *
2108714 TATCGATGCC-ATATCCCAAATATGGTCTTACA
1 TATTGATGCCAATAGCCCAGACATGGTCTTACA
2108746 TGTAATCTCG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 19 0.29
43 46 0.71
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
TATTGATGCCAATAGCCCAGACATGGTCTTACACGAAATCACA
Found at i:2115671 original size:21 final size:23
Alignment explanation
Indices: 2115646--2115693 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2115636 AAATTTATCA
*
2115646 ATTTAA-GTTTTAAAA-CCAATG
1 ATTTAAGGTTTTAAAATCCAAAG
2115667 ATTTAAGTGTTTTAAAATCCAAAG
1 ATTTAAG-GTTTTAAAATCCAAAG
2115691 ATT
1 ATT
2115694 ATGCATGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
23 9 0.39
24 8 0.35
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (23 bp):
ATTTAAGGTTTTAAAATCCAAAG
Found at i:2116024 original size:199 final size:198
Alignment explanation
Indices: 2115784--2116182 Score: 674
Period size: 199 Copynumber: 2.0 Consensus size: 198
2115774 ACAATCCCAA
* *
2115784 AAGAGTTTTAAAAACTTTATTTTAAAATGAATCTGAGAATCTCCTCCAATTGT-TGCATCCAAGT
1 AAGAGTTTTAAAAACTTTATTTTAAAATAAATCTGAGAATCTCCTCAAATT-TATGCATCCAAGT
* *
2115848 TCTATCCTTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCCAGTG
65 CCTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCCAGTG
* * *
2115913 TGAGTTTTATATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATGAAACAAAAATATTATTAAG
130 CGAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGAT-AAACAAAAATATTATTAAG
2115978 CACAT
194 CACAT
* * *
2115983 AAGAGTTTTAAATACTTTATTTTAAAATAAATTTGAGAATCTCCTCAAATTTATGTATCCAAGTC
1 AAGAGTTTTAAAAACTTTATTTTAAAATAAATCTGAGAATCTCCTCAAATTTATGCATCCAAGTC
*
2116048 CTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCTAGTGC
66 CTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCCAGTGC
2116113 GAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATAAACAAAAATATTATTAAGCA
131 GAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATAAACAAAAATATTATTAAGCA
2116178 CAT
196 CAT
2116181 AA
1 AA
2116183 TAATCAAACA
Statistics
Matches: 188, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
198 27 0.14
199 161 0.86
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (198 bp):
AAGAGTTTTAAAAACTTTATTTTAAAATAAATCTGAGAATCTCCTCAAATTTATGCATCCAAGTC
CTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCCAGTGC
GAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATAAACAAAAATATTATTAAGCA
CAT
Found at i:2120674 original size:27 final size:27
Alignment explanation
Indices: 2120603--2120674 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 27
2120593 TTCTCGAGAA
* *
2120603 TCATGAATATCAAGTA-TTTTGACAATT
1 TCATGAA-ATCAAATATTTTTAACAATT
2120630 TGCA--AAAT-AAGATGATTTTTAACAATT
1 T-CATGAAATCAA-AT-ATTTTTAACAATT
2120657 TCATGAAATCAAATATTT
1 TCATGAAATCAAATATTT
2120675 AAAAAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
24 2 0.06
25 3 0.08
26 5 0.14
27 16 0.44
28 8 0.22
29 2 0.06
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (27 bp):
TCATGAAATCAAATATTTTTAACAATT
Found at i:2121073 original size:16 final size:17
Alignment explanation
Indices: 2121054--2121091 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2121044 AATTAAGATT
2121054 AGAA-AAAATTATAAAA
1 AGAATAAAATTATAAAA
*
2121070 AGAATAATATTATAAAA
1 AGAATAAAATTATAAAA
2121087 AGAAT
1 AGAAT
2121092 GTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (17 bp):
AGAATAAAATTATAAAA
Found at i:2122940 original size:50 final size:49
Alignment explanation
Indices: 2122881--2123360 Score: 294
Period size: 50 Copynumber: 9.6 Consensus size: 49
2122871 AACTTTTGGA
* * *
2122881 AAGTAAGATTCGCCCTTGTAGCTTCAATCTTATTAACTGCATTGTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATCTT-TTAACTGCAATGTCGGGG
* * * ** ** * *
2122931 AAGTAAGATTTGTCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATCT-TTTAACTGCAATGTCGGGG
* * *
2122981 AAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATC-TTTTAACTGCAATGTCGGGG
* * * * * * ** * * * *
2123031 AAGCATGATTTGCCATTGTGGCTTCAATCTGTTCCACTACACTGCCTGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATCT-TTTAACTGCAATGTCGGGG
* **
2123081 AAGTAAGATTCACTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATC-TTTTAACTGCAATGTCGGGG
* * * ** * ** * *
2123131 AAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCCACCGCACCGCCTGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATCT-TTTAACTGCAATGTCGGGG
* * * *
2123181 AAGTAAGATTCACTGTTGTAGTTTTAATCTTTTTAACTGCAATGTCGAGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATC-TTTTAACTGCAATGTCGGGG
* * * * ** * ** * *
2123231 AAGCAAGATTCGCCGTTTTGGCTTTAGTCTGTTCCACTACACCGCCTGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATCT-TTTAACTGCAATGTCGGGG
* ** * *
2123281 AAGTAAGATACGTTGTTGTAGCTTTAATCTTTTTAACTGTAATGTTGGGG
1 AAGTAAGATTCGCCGTTGTAGCTTTAATC-TTTTAACTGCAATGTCGGGG
* *** *
2123331 AAGCAAGATTCATTGTTGTGGCTTTAATCT
1 AAGTAAGATTCGCCGTTGTAGCTTTAATCT
2123361 GTTCCATCGC
Statistics
Matches: 311, Mismatches: 111, Indels: 17
0.71 0.25 0.04
Matches are distributed among these distances:
49 4 0.01
50 302 0.97
51 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (49 bp):
AAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTAACTGCAATGTCGGGG
Found at i:2123054 original size:100 final size:100
Alignment explanation
Indices: 2122881--2123389 Score: 696
Period size: 100 Copynumber: 5.1 Consensus size: 100
2122871 AACTTTTGGA
* ** * * * * *
2122881 AAGTAAGATTCGCCCTTGTAGCTTCAATCTTATTAACTGCATTGTCGGGGAAGTAAGATTTGTCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCG
2122946 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * * * * *
2122981 AAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCATGATTTGCCA
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCG
* * *
2123046 TTGTGGCTTCAATCTGTTCCACTACACTGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
*
2123081 AAGTAAGATTCACTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCG
*
2123146 TTGTGGCTTTAATCTGTTCCACCGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * *
2123181 AAGTAAGATTCACTGTTGTAGTTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCGCCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCG
* * *
2123246 TTTTGGCTTTAGTCTGTTCCACTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* ** * * * *
2123281 AAGTAAGATACGTTGTTGTAGCTTTAATCTTTTTAACTGTAATGTTGGGGAAGCAAGATTCATTG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCG
*
2123346 TTGTGGCTTTAATCTGTTCCA-TCGCATCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACT-GCACCGCCTGGG
2123381 AAGTAAGAT
1 AAGTAAGAT
2123390 CTGTAATTTT
Statistics
Matches: 362, Mismatches: 46, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
99 1 0.00
100 361 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (100 bp):
AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCG
TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
Found at i:2123849 original size:44 final size:43
Alignment explanation
Indices: 2123801--2124243 Score: 154
Period size: 44 Copynumber: 10.1 Consensus size: 43
2123791 TTCGATCTGC
* *
2123801 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAGTTT-CAATCTAT
** * * * * * * *
2123845 TCCACCGCTGAC-CAGGGAGATAGGA-CTAGTGGCTTAAAACTGTT
1 TCCACTACTG-CTTAGGGAGATAAGATCT-GTAGTTTCAATCT-AT
* * * * * * **
2123889 TCC-CTACTCCTGAGGAAGATAAGATTTGTCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAGT-TTCAATCTAT
* *
2123932 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAGTTT-CAATCTAT
* * * * * * *
2123976 TCCACTGCTTAC-CAGGGAGATAGGA-CTTGTAGCTTAAATCTGCT
1 TCCACTAC-TGCTTAGGGAGATAAGATC-TGTAGTTTCAATCT-AT
* * * ** **
2124020 TCC-CTACT-CCTGGGGAAGATAAGAT-TCGTCGTCTTGGATCTGC
1 TCCACTACTGCTTAGGG-AGATAAGATCT-GTAGT-TTCAATCTAT
* *
2124063 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAGTTT-CAATCTAT
* * * * * * *
2124107 TCCACTGCTTAC-CAGGGAGATAGGA-CTTGTAGCTTAAATCTGCT
1 TCCACTAC-TGCTTAGGGAGATAAGATC-TGTAGTTTCAATCT-AT
* ** * * **
2124151 TCC-CTACTCCTGGGGGAGATAAGAT-TCGTCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGATCT-GTAGT-TTCAATCTAT
* *
2124194 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAGTTT-CAATCTAT
2124238 TCCACT
1 TCCACT
2124244 GCTGACCAGG
Statistics
Matches: 278, Mismatches: 91, Indels: 60
0.65 0.21 0.14
Matches are distributed among these distances:
41 1 0.00
42 9 0.03
43 76 0.27
44 180 0.65
45 12 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGTAGTTTCAATCTAT
Found at i:2124279 original size:131 final size:131
Alignment explanation
Indices: 2123455--2124280 Score: 1341
Period size: 131 Copynumber: 6.3 Consensus size: 131
2123445 AACTTATTTT
* * * * * *
2123455 ACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTTCTTCCCTATTCTTGGGAAAGATATGA
1 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
* ** *
2123520 TTTG-CTGTCTTCGATCTATTCCACTACTGCTTAGGGAGATAAAATCTGTAATTTCCAACCTATT
66 TTCGTC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATT
2123584 CC
130 CC
* *
2123586 ACT-CTTGACCAGGGAGATAGGACTTGTGGCTTAAATTTGCTTCCCTATTCCTGGGGAAGATAAG
1 ACTGC-TGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAG
* *
2123650 ATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATT
65 ATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATT
2123715 CC
130 CC
* * *
2123717 ATTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATTTGCTTCCCTATTCCTGGGGAAGATAAGA
1 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
* *
2123782 TTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
66 TTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
2123847 C
131 C
* * * * *
2123848 ACCGCTGACCAGGGAGATAGGACTAGTGGCTTAAAACTGTTTCCCTACTCCTGAGGAAGATAAGA
1 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
*
2123913 TTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
66 TTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
2123978 C
131 C
* *
2123979 ACTGCTTACCAGGGAGATAGGACTTGTAGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
1 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
*
2124044 TTCGTCGTCTTGGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
66 TTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
2124109 C
131 C
* * *
2124110 ACTGCTTACCAGGGAGATAGGACTTGTAGCTTAAATCTGCTTCCCTACTCCTGGGGGAGATAAGA
1 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
2124175 TTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
66 TTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
2124240 C
131 C
2124241 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
1 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGC
2124281 CCCAGATATC
Statistics
Matches: 656, Mismatches: 36, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
130 1 0.00
131 653 1.00
132 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (131 bp):
ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGA
TTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTC
C
Found at i:2125488 original size:27 final size:25
Alignment explanation
Indices: 2125458--2125532 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 25
2125448 CGCCTTGGCC
2125458 TTTCCTTTTCTTTTTTCTTTTTGTCAT
1 TTTCCTTTT-TTTTTTCTTTTTGTC-T
* * ** *
2125485 TTTCATTTTGATTTTGATTTTTTTCT
1 TTTCCTTTT-TTTTTTCTTTTTGTCT
*
2125511 TTTTCTTTTTTTCTTTCTTTTT
1 TTTCCTTTTTTT-TTTCTTTTT
2125533 TTGATTTTTG
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
25 2 0.06
26 15 0.42
27 19 0.53
ACGTcount: A:0.05, C:0.13, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTCCTTTTTTTTTTCTTTTTGTCT
Found at i:2125519 original size:41 final size:43
Alignment explanation
Indices: 2125463--2125549 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 43
2125453 TGGCCTTTCC
2125463 TTTTCTTTTTTCTTTTTGTCATTT-TCATTTTGA-TTTTGATTT
1 TTTTCTTTTTTCTTTTTGTC-TTTCTCATTTTGATTTTTGATTT
* **
2125505 TTTTC-TTTTTCTTTTTTTCTTTCTTTTTTTGATTTTTGATTT
1 TTTTCTTTTTTCTTTTTGTCTTTCTCATTTTGATTTTTGATTT
2125547 TTT
1 TTT
2125550 GATTTTGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 3 0.08
41 20 0.50
42 17 0.43
ACGTcount: A:0.07, C:0.09, G:0.06, T:0.78
Consensus pattern (43 bp):
TTTTCTTTTTTCTTTTTGTCTTTCTCATTTTGATTTTTGATTT
Found at i:2125523 original size:35 final size:35
Alignment explanation
Indices: 2125468--2125541 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
2125458 TTTCCTTTTC
*
2125468 TTTTTTCTTTTTGTCATTTTCATTT-TGATTTTGAT
1 TTTTTTCTTTTTCTCATTTTC-TTTCTGATTTTGAT
** **
2125503 TTTTTTCTTTTTCTTTTTTTCTTTCTTTTTTTGAT
1 TTTTTTCTTTTTCTCATTTTCTTTCTGATTTTGAT
2125538 TTTT
1 TTTT
2125542 GATTTTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.78
Consensus pattern (35 bp):
TTTTTTCTTTTTCTCATTTTCTTTCTGATTTTGAT
Found at i:2125540 original size:8 final size:8
Alignment explanation
Indices: 2125529--2125574 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
2125519 TTTTCTTTCT
2125529 TTTTTTGA
1 TTTTTTGA
2125537 -TTTTTGA
1 TTTTTTGA
2125544 TTTTTTGA
1 TTTTTTGA
*
2125552 TTTTGTT-T
1 TTTT-TTGA
2125560 TTTTATTGA
1 TTTT-TTGA
2125569 TTTTTT
1 TTTTTT
2125575 ATTCCGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
7 7 0.22
8 19 0.59
9 6 0.19
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTTTTGA
Found at i:2125573 original size:41 final size:41
Alignment explanation
Indices: 2125490--2125574 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
2125480 GTCATTTTCA
* * **
2125490 TTTTGATTTTGATTTTTTTCTTTTTCTTTTTTTCTTTCTTT
1 TTTTGATTTTGATTTTTTTCATTTTCTTTTTTTATTGATTT
* *
2125531 TTTTGATTTTTGA-TTTTTTGATTTTGTTTTTTTATTGATTT
1 TTTTGA-TTTTGATTTTTTTCATTTTCTTTTTTTATTGATTT
2125572 TTT
1 TTT
2125575 ATTCCGATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 31 0.84
42 6 0.16
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.79
Consensus pattern (41 bp):
TTTTGATTTTGATTTTTTTCATTTTCTTTTTTTATTGATTT
Found at i:2125585 original size:25 final size:25
Alignment explanation
Indices: 2125540--2125588 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2125530 TTTTTGATTT
**
2125540 TTGATTTTTTGATTTTGTTTTTTTA
1 TTGATTTTTTGATTCCGTTTTTTTA
2125565 TTGATTTTTT-ATTCCGATTTTTTT
1 TTGATTTTTTGATTCCG-TTTTTTT
2125589 TATTTCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.73
Consensus pattern (25 bp):
TTGATTTTTTGATTCCGTTTTTTTA
Found at i:2125589 original size:15 final size:15
Alignment explanation
Indices: 2125569--2125598 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2125559 TTTTTATTGA
2125569 TTTTTTATTCCGATT
1 TTTTTTATTCCGATT
*
2125584 TTTTTTATTTCGATT
1 TTTTTTATTCCGATT
2125599 GTGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTTTATTCCGATT
Found at i:2128386 original size:22 final size:22
Alignment explanation
Indices: 2128349--2128427 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
2128339 TAAATAATGA
*
2128349 TATGATAAGTTT-AAATAGTACT
1 TATGATAA-TTTAAAATAATACT
*
2128371 TATGATAATTTAAAATAATA-G
1 TATGATAATTTAAAATAATACT
*
2128392 TATGAT-A-TTAAAATAAAACT
1 TATGATAATTTAAAATAATACT
*
2128412 AATGATAAATTTAAAA
1 TATGAT-AATTTAAAA
2128428 CAATGTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.21
20 6 0.13
21 9 0.19
22 16 0.34
23 6 0.13
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.37
Consensus pattern (22 bp):
TATGATAATTTAAAATAATACT
Found at i:2128406 original size:41 final size:43
Alignment explanation
Indices: 2128319--2128432 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 43
2128309 CACACTAAAA
*
2128319 AAAATAGTAC-ATGATAAATCT-AAATAATGATATGATAAGTT
1 AAAATAGTACTATGATAAATTTAAAATAATGATATGATAAGTT
*
2128360 TAAATAGTACTTATGAT-AATTTAAAATAAT-AGTATGAT-A-TT
1 AAAATAGTAC-TATGATAAATTTAAAATAATGA-TATGATAAGTT
** *
2128401 AAAATAAAACTAATGATAAATTTAAAACAATG
1 AAAATAGTACT-ATGATAAATTTAAAATAATG
2128433 TTAAGATTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
40 1 0.02
41 23 0.38
42 18 0.30
43 18 0.30
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (43 bp):
AAAATAGTACTATGATAAATTTAAAATAATGATATGATAAGTT
Found at i:2128418 original size:20 final size:19
Alignment explanation
Indices: 2128380--2128418 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2128370 TTATGATAAT
* *
2128380 TTAAAATAATAGTATGATA
1 TTAAAATAAAACTATGATA
2128399 TTAAAATAAAACTAATGATA
1 TTAAAATAAAACT-ATGATA
2128419 AATTTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (19 bp):
TTAAAATAAAACTATGATA
Found at i:2129409 original size:27 final size:27
Alignment explanation
Indices: 2129357--2129409 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
2129347 ATTTTTCCCC
* *
2129357 TATTTTTCTTTTCTGTTGCTATTTTGT
1 TATTTTTCTTTTCTCTTGCTAGTTTGT
*
2129384 TATTTTTCCTTTTCTCTTTCT-GTTTG
1 TATTTTT-CTTTTCTCTTGCTAGTTTG
2129410 CTGCTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.06, C:0.15, G:0.09, T:0.70
Consensus pattern (27 bp):
TATTTTTCTTTTCTCTTGCTAGTTTGT
Found at i:2133789 original size:15 final size:16
Alignment explanation
Indices: 2133765--2133805 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
2133755 AACTTTCGGA
2133765 TCAAGCCCAAGCT-GG
1 TCAAGCCCAAGCTAGG
* *
2133780 TCATGCCCAAGTTAGG
1 TCAAGCCCAAGCTAGG
2133796 TCAAGCCCAA
1 TCAAGCCCAA
2133806 TACCTATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.17
Consensus pattern (16 bp):
TCAAGCCCAAGCTAGG
Found at i:2137648 original size:21 final size:21
Alignment explanation
Indices: 2137614--2137653 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2137604 TGAAGTTGAT
* * *
2137614 TTAATGCTTTGTGTGAACATG
1 TTAATGCCTAGTGTAAACATG
2137635 TTAATGCCTAGTGTAAACA
1 TTAATGCCTAGTGTAAACA
2137654 CCATTAGGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (21 bp):
TTAATGCCTAGTGTAAACATG
Found at i:2139306 original size:18 final size:18
Alignment explanation
Indices: 2139283--2139317 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2139273 GAAATTGTGA
2139283 AAAGAGAAAAATGAAAAG
1 AAAGAGAAAAATGAAAAG
* *
2139301 AAAGAGGAAATTGAAAA
1 AAAGAGAAAAATGAAAA
2139318 AAAAAAAGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.09
Consensus pattern (18 bp):
AAAGAGAAAAATGAAAAG
Found at i:2142815 original size:30 final size:28
Alignment explanation
Indices: 2142748--2142815 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
2142738 TAAAATCTGT
*
2142748 AAAAATAAAAAATTCAAAATTTTAAAAA
1 AAAAATAAAAAATTCAAAAATTTAAAAA
* *
2142776 AATATATAAAAAGTTCATAAAATTTAAAAA
1 AA-AAATAAAAAATTCA-AAAATTTAAAAA
2142806 AAAACATAAA
1 AAAA-ATAAA
2142816 GTACACTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 13 0.39
30 18 0.55
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (28 bp):
AAAAATAAAAAATTCAAAAATTTAAAAA
Found at i:2159742 original size:17 final size:18
Alignment explanation
Indices: 2159714--2159749 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
2159704 ATATAGTGTT
2159714 AAAAATATTATTTTTAAA
1 AAAAATATTATTTTTAAA
2159732 AAAAATA-TATTTTTAAA
1 AAAAATATTATTTTTAAA
2159749 A
1 A
2159750 TTTTTAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATATTATTTTTAAA
Found at i:2160610 original size:31 final size:32
Alignment explanation
Indices: 2160575--2160635 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
2160565 AAAATGAATC
2160575 TAGACAATAATTTG-TCCTG-TTCATTTTAATT
1 TAGACAATAATTTGTTCC-GATTCATTTTAATT
*
2160606 TAGACAATCATTTGTTCCGATTCATTTTAA
1 TAGACAATAATTTGTTCCGATTCATTTTAA
2160636 ATGCATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.46
Consensus pattern (32 bp):
TAGACAATAATTTGTTCCGATTCATTTTAATT
Found at i:2161711 original size:18 final size:20
Alignment explanation
Indices: 2161688--2161731 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
2161678 NNNNNNNNAA
2161688 ATTAAAAAAAT-AAAAA-TT
1 ATTAAAAAAATAAAAAATTT
2161706 ATT-AAAAAATAAAAAATTT
1 ATTAAAAAAATAAAAAATTT
2161725 ATTAAAA
1 ATTAAAA
2161732 TTGATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 5 0.22
20 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATTAAAAAAATAAAAAATTT
Found at i:2161714 original size:17 final size:19
Alignment explanation
Indices: 2161692--2161731 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2161682 NNNNAAATTA
2161692 AAAAAAT-AAAAA-TTATT
1 AAAAAATAAAAAATTTATT
2161709 AAAAAATAAAAAATTTATT
1 AAAAAATAAAAAATTTATT
2161728 AAAA
1 AAAA
2161732 TTGATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 5 0.24
19 9 0.43
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAATAAAAAATTTATT
Found at i:2162249 original size:29 final size:29
Alignment explanation
Indices: 2162194--2162300 Score: 83
Period size: 29 Copynumber: 3.6 Consensus size: 29
2162184 GATTTTTTTT
* *
2162194 TACTTTTTATAACTTTATATCAA-TTTTAA
1 TACTTTTTATAATTTTTTAT-AATTTTTAA
* *
2162223 TACTTTGTATAATTTTTTATAATTTTTTA
1 TACTTTTTATAATTTTTTATAATTTTTAA
*
2162252 TGA-TTTTTATAAATTTATTTTCTAATTTTTAA
1 T-ACTTTTTAT-AA-TT-TTTTATAATTTTTAA
**
2162284 TAAATTTTATATATTTT
1 TACTTTTTATA-ATTTT
2162301 CTATTAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.03
29 29 0.46
30 5 0.08
31 6 0.10
32 21 0.33
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (29 bp):
TACTTTTTATAATTTTTTATAATTTTTAA
Found at i:2162258 original size:9 final size:10
Alignment explanation
Indices: 2162177--2162300 Score: 58
Period size: 10 Copynumber: 12.3 Consensus size: 10
2162167 CCAGTTAAAG
*
2162177 TTTTTATGAT
1 TTTTTATAAT
* * *
2162187 TTTTTTTTAC
1 TTTTTATAAT
*
2162197 TTTTTATAAC
1 TTTTTATAAT
*
2162207 TTTATATCAA-
1 TTTTTAT-AAT
* *
2162217 TTTTAAT-AC
1 TTTTTATAAT
*
2162226 TTTGTATAAT
1 TTTTTATAAT
2162236 TTTTTATAAT
1 TTTTTATAAT
*
2162246 TTTTTATGA-
1 TTTTTATAAT
2162255 TTTTTATAAATT
1 TTTTTAT-AA-T
*
2162267 TATTTTCTAAT
1 T-TTTTATAAT
*
2162278 TTTTAATAA-
1 TTTTTATAAT
*
2162287 ATTTTATATAT
1 TTTTTATA-AT
2162298 TTT
1 TTT
2162301 CTATTAAAAT
Statistics
Matches: 85, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
8 1 0.01
9 18 0.21
10 52 0.61
11 6 0.07
12 3 0.04
13 5 0.06
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:2162281 original size:32 final size:32
Alignment explanation
Indices: 2162237--2162299 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
2162227 TTGTATAATT
* * *
2162237 TTTTATAATTTTTTATGATTTTTATAAATTTA
1 TTTTATAATTTTTAATAAATTTTATAAATTTA
* *
2162269 TTTTCTAATTTTTAATAAATTTTATATATTT
1 TTTTATAATTTTTAATAAATTTTATAAATTT
2162300 TCTATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (32 bp):
TTTTATAATTTTTAATAAATTTTATAAATTTA
Found at i:2165397 original size:22 final size:22
Alignment explanation
Indices: 2165369--2165412 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2165359 GTATGATTAT
*
2165369 ACATAGCCAAAGACGACTTTGA
1 ACATAGCCAAAGACGACGTTGA
*
2165391 ACATAGCTAAAGACGACGTTGA
1 ACATAGCCAAAGACGACGTTGA
2165413 GCTATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (22 bp):
ACATAGCCAAAGACGACGTTGA
Found at i:2170077 original size:15 final size:15
Alignment explanation
Indices: 2170051--2170122 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
2170041 CTCAATCTCA
2170051 ATTTTC-TTTTCTTC
1 ATTTTCTTTTTCTTC
*
2170065 ATTTTCTTTTTCTCCC
1 ATTTTCTTTTTCT-TC
2170081 AGTTTT-TTTTAT-TTC
1 A-TTTTCTTTT-TCTTC
*
2170096 TTTTTCTTTTTCTTC
1 ATTTTCTTTTTCTTC
*
2170111 TTTTTCATTTTT
1 ATTTTC-TTTTT
2170123 ATTACAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
14 11 0.23
15 20 0.42
16 12 0.25
17 5 0.10
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (15 bp):
ATTTTCTTTTTCTTC
Found at i:2170105 original size:16 final size:17
Alignment explanation
Indices: 2170086--2170125 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
2170076 CTCCCAGTTT
2170086 TTTTTATTTCTTTTTC-
1 TTTTTATTTCTTTTTCA
*
2170102 TTTTT-CTTCTTTTTCA
1 TTTTTATTTCTTTTTCA
2170118 TTTTTATT
1 TTTTTATT
2170126 ACAATATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.45
16 10 0.50
17 1 0.05
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTATTTCTTTTTCA
Found at i:2170992 original size:18 final size:18
Alignment explanation
Indices: 2170965--2171005 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2170955 TTTCTTTTTG
*
2170965 TTTC-TTTTTTTTATACT
1 TTTCGTTTTTTTTATAAT
2170982 TTTCGTTTTTTTTATAAT
1 TTTCGTTTTTTTTATAAT
2171000 TTTCGT
1 TTTCGT
2171006 AACTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTCGTTTTTTTTATAAT
Found at i:2176722 original size:18 final size:18
Alignment explanation
Indices: 2176676--2176714 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2176666 AAAATATGAA
2176676 GTTATCACTATGAGTAAT
1 GTTATCACTATGAGTAAT
2176694 GTTATCACTATGAGTAAT
1 GTTATCACTATGAGTAAT
2176712 GTT
1 GTT
2176715 GTGACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (18 bp):
GTTATCACTATGAGTAAT
Found at i:2179262 original size:22 final size:20
Alignment explanation
Indices: 2179237--2179291 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
2179227 AAAAAAATTC
*
2179237 AACAAAAAGAAATATGAAATAT
1 AACAAAAAGAAA-AT-AAAAAT
*
2179259 AACATAAAGAAAATAAAAAT
1 AACAAAAAGAAAATAAAAAT
2179279 AA-AAATAAGAAAA
1 AACAAA-AAGAAAA
2179292 AAAGAAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.48
21 2 0.07
22 11 0.38
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (20 bp):
AACAAAAAGAAAATAAAAAT
Found at i:2181453 original size:18 final size:18
Alignment explanation
Indices: 2181419--2181453 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2181409 ACCCTAAGTG
2181419 AAAACTAAGAATGAAATA
1 AAAACTAAGAATGAAATA
2181437 AAAACCTAAGAAT-AAAT
1 AAAA-CTAAGAATGAAAT
2181454 TTTGTCTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAACTAAGAATGAAATA
Found at i:2190792 original size:516 final size:516
Alignment explanation
Indices: 2189618--2192821 Score: 5162
Period size: 516 Copynumber: 6.2 Consensus size: 516
2189608 NNNNNNNNNN
2189618 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCAT
1 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCAT
* * *
2189683 GAACCGTTTCATATTTATCAAGTATTTCCTATTTTACGGTTTGATCCATTTTATATAAAAAGCCG
66 GAACCGTTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCA
*
2189748 TTAAATCTACAATTATATATATTTAATATATATACAACAACACGATCAAAATATAATACGAAAAT
131 TTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAAAT
* **
2189813 GCAGAAACTTCCACATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCGGGGACTAATCATCA
196 GCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCATCA
* *
2189878 CAGATTGCTATATAATGATCCG-ATCTGCTCACTCGAGCTGTCAAGAATCCACAATTTGTGCTGG
261 CAGATTGCTATATAATGATCCGAAACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGG
*
2189942 ATCTCAACCATCGAATAAGTCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACT
326 ATCTCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACT
2190007 TTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTC
391 TTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTC
* * *
2190072 AAACTCCCT-A----ATACACACATTAGTTATTTTGAATAAAAATTCTCCATACATTTTAA
456 AAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
* *
2190128 ATTTGCAACATCATCATAAACAAGCTATCCAACAACATAGCATTCCCACATCCA-TTCAATGTCA
1 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACAT-CAGTTCAATGTCA
*
2190192 TGAATCTC-TTT-ATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATTTTATATAAAAAG
65 TGAA-C-CGTTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAG
* *
2190255 CTATTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACAAA
128 CCATTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAA
2190320 AATGCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCA
193 AATGCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCA
* * *
2190385 TCACATATTGCTATATAATGATCCGAAACTGCTCACACGAGATGTCGAGAATCCACAATTTGTGC
258 TCACAGATTGCTATATAATGATCCGAAACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGC
*
2190450 TGGATCTCAACCATCAAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATC
323 TGGATCTCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATC
2190515 ACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCAT
388 ACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCAT
* * *
2190580 TTCAAACTCCCTAATTGTATACACACATTAGTTATTTTGAATAAGAATTCTCTATGCATTTTAA
453 TTCAAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
*
2190644 ATTTGCAACATCATCGTAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCAT
1 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCAT
* * *
2190709 GAACCGTTTCATATTTATCAAGTATTTCCTATTTTACGGTTTGATCCATTTTATATAAAAAGCCG
66 GAACCGTTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCA
2190774 TTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAAAT
131 TTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAAAT
* *
2190839 GCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTC-AGGAACTAATCATC
196 GCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGG-ACTAATCATC
* * * *
2190903 ACAGATTGCTATATAATGATCCGATACTACTCAGTCGAGCTGTCGAGAATCCAAAATTT-TGCTG
260 ACAGATTGCTATATAATGATCCGAAACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTG
*
2190967 GATCTTCAACCATCGAATAAGTCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCA
325 GATC-TCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCA
2191032 CTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATT
389 CTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATT
*
2191097 TCAAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAG
454 TCAAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
*
2191160 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCATATCAGTTCAATGTCAT
1 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCAT
* * * *
2191225 GAATCGCTTCATATTTATCAAGTATTTCTTATTTTCCGATTTGATCCACTTTATATAAAAAGCCA
66 GAACCGTTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCA
*
2191290 TTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACAAAAAT
131 TTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAAAT
2191355 GCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCATCA
196 GCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCATCA
* * *
2191420 CATATTGCTATATAATGATCCGAAACTGCTCACACGAGATGTCGAGAATCCACAATTTGTGCTGG
261 CAGATTGCTATATAATGATCCGAAACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGG
*
2191485 ATCTCAACCATCAAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACT
326 ATCTCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACT
*
2191550 TTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTC
391 TTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTC
*
2191615 AAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
456 AAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
* *
2191676 ATTTGCAACATCATCATAAACATGCTATCCAACAACATAGCATTCCCACATCAATTCAATGTCAT
1 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCAT
2191741 GAATCTC-TTT-ATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
66 GAA-C-CGTTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
* * * *
2191804 CATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAACTAAAATATAACACGAAA
129 CATTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAA
* * * *
2191869 ATACAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCAT
194 ATGCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCAT
* * *
2191934 CACAGAGTGCTATATAATGATCCGATACTGCTCAGTCGAGCTGTCGAGAATCCACAATTTGTGCT
259 CACAGATTGCTATATAATGATCCGAAACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCT
* * * *
2191999 GGATCTCAACCGTCGAATAAATCTCTAATCACGATTCCCATTTTCCCTGTTTATAACCATAATCA
324 GGATCTCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCA
** * * * * *
2192064 CTTTCCATTCTTATCTAAACCATTTGAGAAATTCGTGCAGGTTCTTTTACCAATTTCGTGTCATT
389 CTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATT
* * *
2192129 TCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATACCAAGTCTCTATACATTTTAA
454 TCAAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
* * *
2192192 ATTTGCAACATCATCATATACATGCTATCCAGCAACATACCACTCCCACATCCA-TTCAATGTCA
1 ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACAT-CAGTTCAATGTCA
* * * * *
2192256 TGAATC-TCTTCATATTTATCAAGTATTTATTATTTTATGATTTGATCCAATTTATATAAAAGGC
65 TGAACCGT-TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
* * *
2192320 CATTAAATCTACAATTATATATATTTAATATCTATACAAAAACACAATTAAAATATAATACGAAA
129 CATTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAA
* ** * * * * *
2192385 ATGCAGTAACTTCCATATGAACTTTCCTAGAAAATAGCAACAAGAACGTTTCAGGGGCTAATCAT
194 ATGCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCAT
* * * * * *
2192450 CACAGATTGCTATATAATGATCCGATACTGCTCACTGGAGCCGTCGAGAATCCATAAGTTCTGCT
259 CACAGATTGCTATATAATGATCCGAAACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCT
* *
2192515 GGATCTCAACCATCGAATAAATCTCTAATCAGGATTCTCATTTTTCTTTTTTATAACCATAATCA
324 GGATCTCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCA
* *
2192580 CTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACTGATTTCGTATCATT
389 CTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATT
* * *
2192645 TCAAACTCTTTAATTGTATACACACTTTAGTTATTTTGAATAACAATTCTCTGTACATTTTAA
454 TCAAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
* * * * *
2192708 ATCTGCAACATCATCATAAACATGCTAT-CATACAACATAGCATTCCCACATTAATTTAATGTCA
1 ATTTGCAACATCATCATAAACATGCTATCCA-ACAACATACCATTCCCACATCAGTTCAATGTCA
* * *
2192772 TGAATCGCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCAT
65 TGAACCGTTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCAT
2192822 NNNNNNNNNN
Statistics
Matches: 2511, Mismatches: 159, Indels: 42
0.93 0.06 0.02
Matches are distributed among these distances:
510 259 0.10
511 181 0.07
512 2 0.00
514 3 0.00
515 23 0.01
516 2026 0.81
517 16 0.01
518 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (516 bp):
ATTTGCAACATCATCATAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCAT
GAACCGTTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCA
TTAAATCTACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAAAT
GCAGAAACTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCATCA
CAGATTGCTATATAATGATCCGAAACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGG
ATCTCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACT
TTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTC
AAACTCTCTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAA
Done.