Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 81 of 356
Found at i:25442691 original size:3 final size:3
Alignment explanation
Indices: 25442683--25442719 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
25442673 CACTGTAGTT
* *
25442683 GTG GTG GTG GTG GTG GTG GTG GTG GGG GTG GAG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
25442720 AAATGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.70, T:0.27
Consensus pattern (3 bp):
GTG
Found at i:25448823 original size:5 final size:5
Alignment explanation
Indices: 25448815--25448848 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
25448805 TTGTTTTTGC
25448815 AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATA
25448849 ATATTCCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:25453047 original size:131 final size:130
Alignment explanation
Indices: 25452857--25453255 Score: 485
Period size: 131 Copynumber: 3.0 Consensus size: 130
25452847 GATGAGATCG
* * *
25452857 TTCATGATTTTAAATCGAATGAACTTAGGCTATAATATTAAATTAGCGAGCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAGCGAGCCTTAACATTATTAG
* * *
25452922 CTGTGATATTAAATCAGTGAGCTATTTAGAGTATCAATATTAAATCAACTAACTCAAATAAAATT
66 CTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAAAAAAATT
* * * * *
25452987 ATTTATGATATTGAATCGAATGAACTTGGGTTGTAATATTAAATC-GACGAGCCTTAACATTATC
1 -TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAG-CGAGCCTTAACATTATT
** * * * * * * *
25453051 AGCTGCAATATTAAATCAATAAGTTAATTAAAGTAGCGGTATTAAATCAACTAACTCAAAGAAAA
64 AGCTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAA-AAAA
25453116 ATT
128 ATT
* * * *
25453119 TTCATGATATTAAATTGAATGAACTTAGGCTGTGATTTTAAATCAGCGATCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAGCGAGCCTTAACATTATTAG
* * * * * *
25453184 TTGTGATATTAAATCAGCGAACTATTTAGAGTAACGATATTAAATTAGCTAACTCAAAGAAAATT
66 CTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAAAAAAATT
25453249 GTTCATG
1 -TTCATG
25453256 TTAGATAAAC
Statistics
Matches: 221, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
130 7 0.03
131 207 0.94
132 7 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (130 bp):
TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAGCGAGCCTTAACATTATTAG
CTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAAAAAAATT
Found at i:25459059 original size:25 final size:25
Alignment explanation
Indices: 25459009--25459059 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
25458999 GGTTCGCCTA
* *
25459009 CATGGTGATGCGAACTCACGTCGTG
1 CATGGTGATGCGAACCCACATCGTG
* *
25459034 CATGGTGGTGCGAACCCACATGGTG
1 CATGGTGATGCGAACCCACATCGTG
25459059 C
1 C
25459060 GATCCCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (25 bp):
CATGGTGATGCGAACCCACATCGTG
Found at i:25459211 original size:18 final size:18
Alignment explanation
Indices: 25459188--25459224 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25459178 GAGTAAGATT
25459188 TTCAATGTCAATTATTTA
1 TTCAATGTCAATTATTTA
25459206 TTCAATGTCAATTATTTA
1 TTCAATGTCAATTATTTA
25459224 T
1 T
25459225 AGCAGTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (18 bp):
TTCAATGTCAATTATTTA
Found at i:25460929 original size:17 final size:16
Alignment explanation
Indices: 25460909--25460968 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
25460899 TGTTTAAACC
25460909 TATTTTTAATATAA-T
1 TATTTTTAATATAATT
* *
25460924 TATATTTAGT-TAATT
1 TATTTTTAATATAATT
25460939 CTCATTTTTAAATATAATT
1 -T-ATTTTT-AATATAATT
25460958 TATTTCTTAAT
1 TATTT-TTAAT
25460969 TTTTATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
14 3 0.09
15 9 0.26
16 1 0.03
17 12 0.34
18 5 0.14
19 5 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (16 bp):
TATTTTTAATATAATT
Found at i:25460977 original size:31 final size:32
Alignment explanation
Indices: 25460909--25460977 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
25460899 TGTTTAAACC
*
25460909 TATTTTTAATATAATTATATTTAGTTAATTCT
1 TATTTTTAATATAATTATATTTACTTAATTCT
* *
25460941 CATTTTTAAATATAATT-TATTT-CTTAATTTT
1 TATTTTT-AATATAATTATATTTACTTAATTCT
25460972 TATTTT
1 TATTTT
25460978 ATATTTCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 12 0.38
32 11 0.34
33 9 0.28
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (32 bp):
TATTTTTAATATAATTATATTTACTTAATTCT
Found at i:25472774 original size:29 final size:31
Alignment explanation
Indices: 25472711--25472777 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 31
25472701 AAAATATAAT
25472711 GACTAAAATTAATCAATATGTAAAGTACAGA
1 GACTAAAATTAATCAATATGTAAAGTACAGA
* *
25472742 GACTAAAATTGATCAA-AT-TAAAGTACAGG
1 GACTAAAATTAATCAATATGTAAAGTACAGA
25472771 GACTAAA
1 GACTAAA
25472778 CTCACAACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 17 0.50
30 2 0.06
31 15 0.44
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (31 bp):
GACTAAAATTAATCAATATGTAAAGTACAGA
Found at i:25473733 original size:35 final size:35
Alignment explanation
Indices: 25473687--25473757 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
25473677 CAACAATAAA
25473687 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
1 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
25473722 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
1 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
25473757 G
1 G
25473758 ATTGAGAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (35 bp):
GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
Found at i:25473925 original size:28 final size:28
Alignment explanation
Indices: 25473893--25473948 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25473883 TAAGATAGAA
25473893 CTAAGATCTTATTAAATCAAGGGATGAT
1 CTAAGATCTTATTAAATCAAGGGATGAT
25473921 CTAAGATCTTATTAAATCAAGGGATGAT
1 CTAAGATCTTATTAAATCAAGGGATGAT
25473949 TCAACCTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (28 bp):
CTAAGATCTTATTAAATCAAGGGATGAT
Found at i:25526791 original size:26 final size:24
Alignment explanation
Indices: 25526747--25526796 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
25526737 ATTTGTTTTA
*
25526747 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
25526771 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
25526797 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:25530399 original size:10 final size:10
Alignment explanation
Indices: 25530386--25530441 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
25530376 ATAAATATAT
25530386 TAAAAAATCA
1 TAAAAAATCA
*
25530396 T-AAAAATTA
1 TAAAAAATCA
*
25530405 TCAAAAATCA
1 TAAAAAATCA
*
25530415 TAAAAATTAT-T
1 TAAAAA--ATCA
25530426 TAAAAAATCA
1 TAAAAAATCA
25530436 TAAAAA
1 TAAAAA
25530442 TTATAATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 10 0.27
10 19 0.51
11 6 0.16
12 2 0.05
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATCA
Found at i:25530400 original size:9 final size:9
Alignment explanation
Indices: 25530388--25530447 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
25530378 AAATATATTA
25530388 AAAAATCAT
1 AAAAATCAT
*
25530397 AAAAATTAT
1 AAAAATCAT
25530406 CAAAAATCAT
1 -AAAAATCAT
*
25530416 AAAAATTATTT
1 AAAAATCA--T
25530427 AAAAAATCAT
1 -AAAAATCAT
*
25530437 AAAAATTAT
1 AAAAATCAT
25530446 AA
1 AA
25530448 TATCATTTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 25 0.60
10 9 0.21
11 1 0.02
12 7 0.17
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATCAT
Found at i:25530410 original size:19 final size:19
Alignment explanation
Indices: 25530386--25530447 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
25530376 ATAAATATAT
25530386 TAAAAAATCATAAAAATTA
1 TAAAAAATCATAAAAATTA
*
25530405 TCAAAAATCATAAAAATTA
1 TAAAAAATCATAAAAATTA
25530424 TTTAAAAAATCATAAAAATTA
1 --TAAAAAATCATAAAAATTA
25530445 TAA
1 TAA
25530448 TATCATTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 21 0.54
21 18 0.46
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAAATCATAAAAATTA
Found at i:25532600 original size:20 final size:21
Alignment explanation
Indices: 25532571--25532609 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25532561 ATACATCATT
25532571 TTTTTATTTTATT-TTATTTA
1 TTTTTATTTTATTATTATTTA
*
25532591 TTTTTCTTTTATTATTATT
1 TTTTTATTTTATTATTATT
25532610 GCTTAGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTATTATTATTTA
Found at i:25537465 original size:10 final size:10
Alignment explanation
Indices: 25537452--25537477 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
25537442 TACAAATAAA
25537452 TAAAGACAAT
1 TAAAGACAAT
25537462 TAAAGACAAT
1 TAAAGACAAT
25537472 TAAAGA
1 TAAAGA
25537478 TAAATGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (10 bp):
TAAAGACAAT
Found at i:25543867 original size:71 final size:71
Alignment explanation
Indices: 25543784--25543925 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
25543774 CAAACAATCC
* * *
25543784 CAAAATGTACAAACAGTCCAAAAATAACAAAACTCATAAAGTCAAAGCAAATAGAATAATTAACT
1 CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
25543849 AATTAA
66 AATTAA
*
25543855 CAAAATGTACAAATAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
1 CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
25543920 AATTAA
66 AATTAA
25543926 GTTTTAATCG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.58, C:0.15, G:0.07, T:0.19
Consensus pattern (71 bp):
CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
AATTAA
Found at i:25550014 original size:6 final size:6
Alignment explanation
Indices: 25550005--25550051 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
25549995 GAAGTCTAAG
* *
25550005 AAAATA AAAATA AACATA GAAATA AAAAT- AAAAT- AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
25550050 AA
1 AA
25550052 TGGACTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:25550029 original size:18 final size:16
Alignment explanation
Indices: 25550005--25550051 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 16
25549995 GAAGTCTAAG
25550005 AAAATAAAAATAAACAT
1 AAAATAAAAATAAA-AT
25550022 AGAAATAAAAATAAAAT
1 A-AAATAAAAATAAAAT
25550039 AAAAT-AAAATAAA
1 AAAATAAAAATAAA
25550052 TGGACTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.28
16 4 0.14
17 4 0.14
18 13 0.45
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:25550039 original size:5 final size:5
Alignment explanation
Indices: 25550005--25550051 Score: 58
Period size: 5 Copynumber: 8.6 Consensus size: 5
25549995 GAAGTCTAAG
25550005 AAAAT AAAAAT AAACAT AGAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT AAA-AT A-AAAT -AAAAT AAAAT AAAAT AAAAT AAA
25550052 TGGACTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 21 0.55
6 14 0.37
7 3 0.08
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:25553776 original size:6 final size:6
Alignment explanation
Indices: 25553746--25553876 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
25553736 AAGAAACATT
* * * *
25553746 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGG ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
25553795 ATCAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
25553844 ATCAGT ATCAGATA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAG--A ATCAGA ATCAGA ATCAGA AT
25553877 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 6 0.06
6 77 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:25553802 original size:31 final size:31
Alignment explanation
Indices: 25553767--25553876 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
25553757 AATCAAAATG
*
25553767 AGAATCAGAATCAGGATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
25553798 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* * * *
25553835 AGAATCAGAATCAGTATCAGATAATAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
25553866 AAAATCAGAAT
1 AGAATCAGAAT
25553877 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
31 36 0.55
37 29 0.45
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:25553808 original size:37 final size:37
Alignment explanation
Indices: 25553755--25553855 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
25553745 TATCAGAACT
* * *
25553755 AGAATCAAAATGAGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
25553792 AGAATCAGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
25553829 AGAATTAGAATCAGAATCAGTATCAGA
1 AGAATCAGAATCAGAATCAGAATCAGA
25553856 TAATAGAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:25553876 original size:37 final size:36
Alignment explanation
Indices: 25553730--25553876 Score: 101
Period size: 37 Copynumber: 4.2 Consensus size: 36
25553720 TAGCCCATTA
* * * *
25553730 CAGAATAAGAAACATTATCAGAACTAGAATCAAAAT
1 CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
* * * *
25553766 GAGAATCAGAATCAGGATCAG--GT-G-A-CAGAAT
1 CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
* * *
25553797 CAGAATCAGAATCAGAATCA-AAATTAG-GTGACAGAAT
1 CAGAATCAGAATCAGTATCAGAAA-TAGAAT--CAAAAT
*
25553834 TAGAATCAGAATCAGTATCAGATAATAGAATCAAAAT
1 CAGAATCAGAATCAGTATCAGA-AATAGAATCAAAAT
25553871 CAGAAT
1 CAGAAT
25553877 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
31 23 0.27
32 1 0.01
33 2 0.02
34 2 0.02
36 16 0.19
37 34 0.40
38 4 0.05
39 3 0.04
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.20
Consensus pattern (36 bp):
CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
Found at i:25554042 original size:27 final size:26
Alignment explanation
Indices: 25553994--25554051 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
25553984 GCGAGGCTGC
*
25553994 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
25554021 CAGATATTGTGGCGGAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
25554047 CAGAT
1 CAGAT
25554052 GTATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25554142 original size:27 final size:26
Alignment explanation
Indices: 25554095--25554145 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
25554085 CGAGGTTGCT
*
25554095 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
25554121 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
25554146 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:25554411 original size:27 final size:27
Alignment explanation
Indices: 25554381--25554978 Score: 687
Period size: 27 Copynumber: 22.2 Consensus size: 27
25554371 AACACCCTAG
*
25554381 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
25554408 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
25554435 GGGTAAAATTGTAATTTT-TAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554461 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554488 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
25554515 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
25554542 GGGTAAAACGATAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
25554569 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554596 GGGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
25554623 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** *
25554650 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
25554677 GGATAAAATAGTAATTTTGTAGATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554704 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
25554731 AGGTAAAACGATAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554758 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** *
25554785 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554812 GGGTAAAATAGTAATTTTGTAATTC-A
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554838 TGGGTAAAACGGTAATTCTGTAAATCGA
1 -GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554866 GGGTAAAATTGTAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25554893 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
25554920 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* ** * *
25554947 TGGTAAAACAGTAATTCTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
25554974 GGGTA
1 GGGTA
25554979 CTTTGGTAAT
Statistics
Matches: 492, Mismatches: 76, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.05
27 467 0.95
28 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:25556627 original size:29 final size:29
Alignment explanation
Indices: 25556585--25556649 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
25556575 CTAGTACTCA
*
25556585 CCACAAAGGCTTTC-TTATCCAGAGTTGTG
1 CCACAAAAGCTTTCATT-TCCAGAGTTGTG
* *
25556614 CCACAAAAGCTTTCATTTCCGGAGTTTTG
1 CCACAAAAGCTTTCATTTCCAGAGTTGTG
25556643 CCACAAA
1 CCACAAA
25556650 GGTTGTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (29 bp):
CCACAAAAGCTTTCATTTCCAGAGTTGTG
Found at i:25556890 original size:53 final size:53
Alignment explanation
Indices: 25556833--25556958 Score: 173
Period size: 53 Copynumber: 2.4 Consensus size: 53
25556823 TTAGTTGCAA
* * *
25556833 TCTTACATGATATGGTCTTTTTTCCATATGAT-TTCATAACCCATCAGTTACGG
1 TCTTACACGATATGGTCTTCTTTCCATATGATGTT-ATAACCCACCAGTTACGG
* * * *
25556886 TCTTACACAATATGGTATTCTTTCCATATGATGTTGTAACCCACCAGTTATGG
1 TCTTACACGATATGGTCTTCTTTCCATATGATGTTATAACCCACCAGTTACGG
25556939 TCTTACACGATATGGTCTTC
1 TCTTACACGATATGGTCTTC
25556959 AGCGTCATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 61 0.97
54 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (53 bp):
TCTTACACGATATGGTCTTCTTTCCATATGATGTTATAACCCACCAGTTACGG
Found at i:25561516 original size:15 final size:15
Alignment explanation
Indices: 25561495--25561537 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
25561485 TATTTTACAA
25561495 CGTTATTATTATTGT
1 CGTTATTATTATTGT
*
25561510 TGTTATTATTATTGT
1 CGTTATTATTATTGT
*
25561525 CGTCATTATTATT
1 CGTTATTATTATT
25561538 ACCTTTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (15 bp):
CGTTATTATTATTGT
Found at i:25562693 original size:65 final size:65
Alignment explanation
Indices: 25562589--25562719 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
25562579 TTTCTAAACT
25562589 GATTAATGAAGCTTCCTAAAAGTATGGTTCTTTATATCTTAATTAAGGATTTAATTCACATAGAA
1 GATTAATGAAGCTTCCTAAAAGTATGGTTCTTTATATCTTAATTAAGGATTTAATTCACATAGAA
25562654 GATTAATGAAGCTTCCTAAAAGTATGGTTCTTTATATCTTAATTAAGGATTTAATTCACATAGAA
1 GATTAATGAAGCTTCCTAAAAGTATGGTTCTTTATATCTTAATTAAGGATTTAATTCACATAGAA
25562719 G
1 G
25562720 GGCAGAAGCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (65 bp):
GATTAATGAAGCTTCCTAAAAGTATGGTTCTTTATATCTTAATTAAGGATTTAATTCACATAGAA
Found at i:25566609 original size:16 final size:16
Alignment explanation
Indices: 25566588--25566618 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25566578 GTATAACATC
25566588 ATAACACACCAAAATA
1 ATAACACACCAAAATA
25566604 ATAACACACCAAAAT
1 ATAACACACCAAAAT
25566619 GCTATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (16 bp):
ATAACACACCAAAATA
Found at i:25575071 original size:17 final size:17
Alignment explanation
Indices: 25575050--25575089 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
25575040 TAAAGAAATA
25575050 ATATTATTAAAAATATTT
1 ATATTA-TAAAAATATTT
*
25575068 -TATTATATAAATATTT
1 ATATTATAAAAATATTT
25575084 ATATTA
1 ATATTA
25575090 AAGTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTATAAAAATATTT
Found at i:25583620 original size:16 final size:16
Alignment explanation
Indices: 25583583--25583622 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
25583573 ATTTTGATGA
*
25583583 TATTTTTAATTATTTT
1 TATTTTTAATTATGTT
25583599 TATTTTTAATTAATGTT
1 TATTTTTAATT-ATGTT
25583616 T-TTTTTA
1 TATTTTTA
25583623 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTTTTAATTATGTT
Found at i:25583620 original size:22 final size:21
Alignment explanation
Indices: 25583553--25583629 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
25583543 TGTTTCAAGC
25583553 TTTTTTTATTTTTAATTAATAT
1 TTTTTTTATTTTTAATTAAT-T
** * *
25583575 TTTGATGATATTT--TTAA-T
1 TTTTTTTATTTTTAATTAATT
*
25583593 TATTTTTATTTTTAATTAATGT
1 TTTTTTTATTTTTAATTAAT-T
25583615 TTTTTTTATTTTTAA
1 TTTTTTTATTTTTAA
25583630 ATTTTAACCA
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
18 9 0.22
20 8 0.20
22 24 0.59
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTTTATTTTTAATTAATT
Found at i:25586125 original size:13 final size:12
Alignment explanation
Indices: 25586091--25586133 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
25586081 GCCGAGGTAT
25586091 TTTTAATTTCTG
1 TTTTAATTTCTG
25586103 TTTTCCAATTTCTG
1 TTTT--AATTTCTG
*
25586117 CTTTTAATTTCTA
1 -TTTTAATTTCTG
25586130 TTTT
1 TTTT
25586134 TCAAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 8 0.30
15 4 0.15
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.65
Consensus pattern (12 bp):
TTTTAATTTCTG
Found at i:25586204 original size:100 final size:100
Alignment explanation
Indices: 25586030--25586297 Score: 387
Period size: 100 Copynumber: 2.7 Consensus size: 100
25586020 TTCAATTTTG
* * *
25586030 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
* * *
25586095 AATTTCTGTTTTCCAATTTCTGCTTTTAATTTCTA
66 AATTTCTGTTTTCCAATTTCTCCTTATAAATTCTA
* * *
25586130 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGGCACGCTAAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
* * *
25586195 AATTTCTGTTTTTCAATTTTTCCTTATAAATTCTG
66 AATTTCTGTTTTCCAATTTCTCCTTATAAATTCTA
* * *
25586230 CTTTTC--AAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
25586293 AATTT
66 AATTT
25586298 TCATTTTTTT
Statistics
Matches: 150, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
98 57 0.38
100 93 0.62
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (100 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
AATTTCTGTTTTCCAATTTCTCCTTATAAATTCTA
Found at i:25586305 original size:98 final size:96
Alignment explanation
Indices: 25586023--25586386 Score: 345
Period size: 100 Copynumber: 3.8 Consensus size: 96
25586013 CCGTTTTTTC
* * * * *
25586023 AATTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGG
1 AATTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * *
25586088 TATTTTTAATTTCTGTTTTCCAATTTCTGCTTTTA
65 TATTTTCAATTTCT-TTTT-CAATTTAT-CTTATA
* ** * * *
25586123 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGGCACGCTAAGG
1 AATTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
25586188 TATTTTTAATTTCTGTTTTTCAATTTTTCCTTATA
65 TATTTTCAATTTC--TTTTTCAATTTAT-CTTATA
*
25586223 AATTCTGCTTTTC-AAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGT
1 AATTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
25586287 ATTTTCAA-----TTTTC-ATTT-T-TT-TA
66 ATTTTCAATTTCTTTTTCAATTTATCTTATA
* * * *
25586309 ATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGA
1 AATTCTGCTTT-T--CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
25586373 AGTAATTTCAATTT
63 GGTATTTTCAATTT
25586387 TTGTTTGTCA
Statistics
Matches: 228, Mismatches: 27, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
85 3 0.01
86 8 0.04
87 2 0.01
89 56 0.25
90 4 0.02
91 5 0.02
98 54 0.24
100 91 0.40
101 4 0.02
102 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (96 bp):
AATTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCAATTTCTTTTTCAATTTATCTTATA
Found at i:25586499 original size:148 final size:146
Alignment explanation
Indices: 25586303--25586912 Score: 744
Period size: 148 Copynumber: 4.1 Consensus size: 146
25586293 AATTTTCATT
* * * * *
25586303 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * * *
25586367 CGCTGAAGTAATTTCAATTTTTGTTTGTCAAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
*
25586432 TCAAGACACGTTGAGGTA
131 TCAAG--ACGCTGAGGTA
* * *
25586450 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
25586515 CGCTGAGGTAATTTCAATTT-TGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCT-GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
25586579 CTCAAGACACGTTGAGGTA
130 CTCAAG--ACGCTGAGGTA
* * * *
25586598 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
25586663 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAA
66 CGCTGAGGTAATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAA
*
25586728 CCTCAAGACGCAGAGGTA
129 CCTCAAGACGCTGAGGTA
* * * *
25586746 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
25586809 CGTTGAGGTATTTTCAATTTCTGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
66 CGCTGAGGTAATTTCAATTTCTGT-TTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
25586873 ACCTCAAGACGCTGAGATG
128 ACCTCAAGACGCTGAGGTA
* *
25586892 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
25586913 TTTCTGTGTT
Statistics
Matches: 408, Mismatches: 45, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
146 126 0.31
147 18 0.04
148 225 0.55
149 1 0.00
150 38 0.09
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (146 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
TCAAGACGCTGAGGTA
Found at i:25586515 original size:75 final size:75
Alignment explanation
Indices: 25586303--25586912 Score: 758
Period size: 75 Copynumber: 8.3 Consensus size: 75
25586293 AATTTTCATT
* * * * *
25586303 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
25586367 CGCTGAAGTA
66 CGCTGAGGTA
* * * * * *
25586377 ATTTCAATTTTTGTTTGTC--AAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
25586440 CGTTGAGGTA
66 CGCTGAGGTA
* * *
25586450 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
25586515 CGCTGAGGTA
66 CGCTGAGGTA
* *
25586525 ATTTCAATTT-TGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
25586587 ACGTTGAGGTA
65 ACGCTGAGGTA
* * * *
25586598 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
25586663 CGTTGAGGTA
66 CGCTGAGGTA
* * *
25586673 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
25586736 CGCAGAGGTA
66 CGCTGAGGTA
* * * *
25586746 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
25586809 CGTTGAGGTA
66 CGCTGAGGTA
* * * *
25586819 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
25586882 CGCTGAGATG
66 CGCTGAGGTA
* *
25586892 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
25586913 TTTCTGTGTT
Statistics
Matches: 461, Mismatches: 64, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
71 37 0.08
73 199 0.43
74 16 0.03
75 209 0.45
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTA
Found at i:25586764 original size:221 final size:222
Alignment explanation
Indices: 25586323--25586912 Score: 904
Period size: 221 Copynumber: 2.7 Consensus size: 222
25586313 ATGTTTCTAA
* * * * * *
25586323 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * * * *
25586388 TGT-TTGT--CAAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
* *
25586450 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
130 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCCATAGGTGAGTTGAACCTCA-GACA
*
25586515 CGCTGAGGTAATTTCAATTTTGGTTTGTC
194 CGCAGAGGTAATTTCAATTTTGGTTTGTC
25586544 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
25586609 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
66 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
* *
25586674 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCA-AGACG
131 TTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCCATAGGTGAGTTGAACCTCAGACACG
*
25586738 CAGAGGTAATTTCAATTTTTGTTTGTC
196 CAGAGGTAATTTCAATTTTGGTTTGTC
*
25586765 AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * *
25586830 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGATGT
66 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
* *
25586893 TTTCCATTTCTGTTCTTCAA
131 TTTCAATTTCTGTTTTTCAA
25586913 TTTCTGTGTT
Statistics
Matches: 342, Mismatches: 24, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
219 27 0.08
221 207 0.61
222 2 0.01
223 106 0.31
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (222 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCCATAGGTGAGTTGAACCTCAGACACG
CAGAGGTAATTTCAATTTTGGTTTGTC
Found at i:25587019 original size:15 final size:14
Alignment explanation
Indices: 25586983--25587015 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
25586973 CGCTGAGGTA
*
25586983 TTTTCAAGTTTTGT
1 TTTTCAAATTTTGT
25586997 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
25587011 TTTTC
1 TTTTC
25587016 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (14 bp):
TTTTCAAATTTTGT
Found at i:25587132 original size:90 final size:89
Alignment explanation
Indices: 25586839--25587330 Score: 373
Period size: 91 Copynumber: 5.4 Consensus size: 89
25586829 CTGTCTTTAA
* * * * *
25586839 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGACGCTGAGATGTTTTCCATTTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGATATTTTCAATTTC
* * * *
25586903 --TGTTCTTCAATTTCTGTGTTTTA
66 TTTGTTTTTCAATTTATGT-TTGTC
* * ** *
25586926 AAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAA-
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTGAGATATTTTCAAT
* *
25586990 GT-TTTGTTTTTCAAATTT-TGTTTTTCC
63 TTCTTTGTTTTTC-AATTTATGTTTGT-C
*
25587017 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGATATTTTCAATTT
*
25587082 CTTTTTTTTTCAATTTATGTTTGTC
65 CTTTGTTTTTCAATTTATGTTTGTC
* * *
25587107 AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACATGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CAC--GCTGAGATATTTTC-A-
* *
25587172 TGATTTTATTTTATTTTTTTCAATTTATGCTTTG-C
61 --A--TT-TCTT-TGTTTTTCAATTTATG-TTTGTC
* * * ** * * *
25587207 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG--ACACGCTGAGATATTTTCAAT
* *
25587271 ATC--TGTTTTACAAATTT-TGTTT-T-
63 TTCTTTGTTTTTC-AATTTATGTTTGTC
*
25587294 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
25587331 TGGCTCACGT
Statistics
Matches: 338, Mismatches: 38, Indels: 58
0.78 0.09 0.13
Matches are distributed among these distances:
87 69 0.20
88 5 0.01
89 29 0.09
90 60 0.18
91 75 0.22
92 18 0.05
93 1 0.00
95 1 0.00
96 1 0.00
98 3 0.01
99 51 0.15
100 18 0.05
101 6 0.02
102 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGATATTTTCAATTTC
TTTGTTTTTCAATTTATGTTTGTC
Found at i:25587164 original size:181 final size:178
Alignment explanation
Indices: 25586839--25587170 Score: 452
Period size: 181 Copynumber: 1.8 Consensus size: 178
25586829 CTGTCTTTAA
* * * * *
25586839 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGATGTTTTCCATTTCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAATTTCT
* * * * * *
25586904 GTTCTTCAATTTCTGTGTTTTAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACT
66 GTTCTTCAATTTATGTGTTGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTAGACT
*
25586969 CACACGCTGAGGTATTTTCAAGTTTTGTTTTTCAAATTTTGTTTTTCC
131 CACACGCCGAGGTATTTTCAAGTTTTGTTTTTCAAATTTTGTTTTTCC
*
25587017 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCA--ACACGCTGAGATATTTTCAATTT
* * *
25587082 CTTTTTTTTTCAATTTATGT-TTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
64 C--TGTTCTTCAATTTATGTGTTGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-
*
25587146 AGA-TCACATGCCGAGGTATTTTCAA
126 AGACTCACACGCCGAGGTATTTTCAA
25587171 TTGATTTTAT
Statistics
Matches: 132, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
178 37 0.28
180 21 0.16
181 58 0.44
182 16 0.12
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (178 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAATTTCT
GTTCTTCAATTTATGTGTTGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTAGACT
CACACGCCGAGGTATTTTCAAGTTTTGTTTTTCAAATTTTGTTTTTCC
Found at i:25587234 original size:99 final size:100
Alignment explanation
Indices: 25587085--25587269 Score: 293
Period size: 99 Copynumber: 1.9 Consensus size: 100
25587075 TCAATTTCTT
*
25587085 TTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGAT
1 TTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGAT
*
25587150 CACATGCCGAGGTATTTTCAATTGATTTTATTTTA
66 CACATACCGAGGTATTTTCAATTGATTTTATTTTA
* * * *
25587185 TTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGG
1 TTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGA
25587248 TCACATACCGAGGTATTTTCAA
65 TCACATACCGAGGTATTTTCAA
25587270 AATCTGTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 57 0.73
100 17 0.22
101 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (100 bp):
TTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGAT
CACATACCGAGGTATTTTCAATTGATTTTATTTTA
Found at i:25587353 original size:87 final size:87
Alignment explanation
Indices: 25587207--25587434 Score: 230
Period size: 87 Copynumber: 2.6 Consensus size: 87
25587197 TATGCTTTGC
* * * *
25587207 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGCTCACATACCGAGCTATTTTCAAAA
*
25587272 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTATTTT--AAATGTTTAGTTTT
* * * *
25587294 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCGGCTCACATACCGAGCTATTTTCAAA
* *
25587358 TTCTATTTTTAATGTTTAGTTTT
65 ATCTATTTTAAATGTTTAGTTTT
* * * * * *
25587381 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAGC-TCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCTTC-GGCTCACATACCGAG
25587435 TAAAGAATAA
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
85 3 0.03
86 4 0.03
87 68 0.58
88 42 0.36
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGCTCACATACCGAGCTATTTTCAAAA
TCTATTTTAAATGTTTAGTTTT
Found at i:25588070 original size:18 final size:18
Alignment explanation
Indices: 25588047--25588100 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
25588037 CCACCACCAA
25588047 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
25588065 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
25588077 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
25588095 CTCCAC
1 CTCCAC
25588101 CACCTACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:25588073 original size:30 final size:30
Alignment explanation
Indices: 25588037--25588135 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
25588027 CTAGCCTTTG
25588037 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
25588067 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
25588097 CCACCACCTACTCTATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
25588127 CCATCACCA
1 CCACCACCA
25588136 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.25, C:0.48, G:0.06, T:0.20
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:25588648 original size:23 final size:23
Alignment explanation
Indices: 25588611--25588738 Score: 86
Period size: 23 Copynumber: 5.5 Consensus size: 23
25588601 CTCTTTTTGT
*
25588611 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
25588634 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
* *
25588656 TATTA-AGTATATTCTAAATTCTA
1 TATTATA-TATATTCTTAATACTA
*
25588679 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATACTA
* *
25588702 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
25588727 TATTATTTATAT
1 TATTATATATAT
25588739 ATATTTTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
21 6 0.07
22 17 0.21
23 29 0.36
24 8 0.10
25 20 0.25
26 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:25588714 original size:25 final size:25
Alignment explanation
Indices: 25588676--25588744 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
25588666 ATTCTAAATT
*
25588676 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
25588699 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
*
25588724 CTATATTATTTATATATATTT
1 CTATATTATGTATATATATTT
25588745 TTTTTTCTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.39
24 2 0.05
25 21 0.55
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:25588734 original size:30 final size:28
Alignment explanation
Indices: 25588703--25588813 Score: 81
Period size: 29 Copynumber: 4.0 Consensus size: 28
25588693 ATTATACTAT
25588703 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** * *
25588732 TTTATATATAT-TTTTTTTTCTACATGTTA
1 TTTATGTATATATTTTAATACT--ATATTA
25588761 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
25588788 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
25588813 T
1 T
25588814 GTACATATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 12 0.18
28 1 0.02
29 17 0.26
30 9 0.14
31 5 0.08
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:25588814 original size:25 final size:24
Alignment explanation
Indices: 25588764--25588826 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
25588754 CATGTTATCT
*
25588764 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
25588790 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
25588815 TACATATTTTTT
1 TATGTATTTTTT
25588827 TATAACTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:25588834 original size:27 final size:25
Alignment explanation
Indices: 25588781--25588840 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
25588771 ATATTTTAAT
** *
25588781 TATATTATGTATGTATTTTTTACAC
1 TATATTATGTACATATTTTTTAAAC
25588806 TATATTATGTACATATTTTTTTATAAC
1 TATATTATGTACATA-TTTTTTA-AAC
*
25588833 TATTTTAT
1 TATATTAT
25588841 ACATATGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 13 0.45
26 7 0.24
27 9 0.31
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (25 bp):
TATATTATGTACATATTTTTTAAAC
Found at i:25601069 original size:18 final size:18
Alignment explanation
Indices: 25601046--25601085 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25601036 TTTTAATTTT
25601046 ATAATTCGAATAACTCAA
1 ATAATTCGAATAACTCAA
* *
25601064 ATAATTTGAATAACTCGA
1 ATAATTCGAATAACTCAA
25601082 ATAA
1 ATAA
25601086 CAGATTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (18 bp):
ATAATTCGAATAACTCAA
Found at i:25601911 original size:3 final size:3
Alignment explanation
Indices: 25601903--25601933 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25601893 TACTAAAGTA
25601903 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25601934 TTACTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25610266 original size:43 final size:42
Alignment explanation
Indices: 25610197--25610360 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 42
25610187 AGCTCGTACA
* * * *
25610197 ATGCC-ATATCCCAGATATGGTTTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA-ATATCG
* * * * *
25610239 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCGATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-AATATCG
* * *
25610282 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATAT-CG
* * *
25610325 ATGCTAATGTTCCAGACATAGTCTTACATGTAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
25610361 CATCTCGGTA
Statistics
Matches: 98, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 7 0.07
43 90 0.92
44 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATATCG
Found at i:25612694 original size:23 final size:23
Alignment explanation
Indices: 25612664--25612726 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
25612654 GCTTTGCCGA
25612664 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACTTTATGTGTCATATT
*
25612687 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCATATT
* * *
25612710 TTAGGCACCTCATGTGT
1 TCAGGCACTTTATGTGT
25612727 GTATCAGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCATATT
Found at i:25612754 original size:21 final size:21
Alignment explanation
Indices: 25612712--25612779 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
25612702 GTCGTATTTT
* *
25612712 AGGCACCTCATGTGT-GTATC
1 AGGCACCTCGTGTGTCATATC
*
25612732 AGGCATCTCGTGTGTCATATC
1 AGGCACCTCGTGTGTCATATC
* *
25612753 AGGTACCTCGTGTGTCATTTC
1 AGGCACCTCGTGTGTCATATC
25612774 AGGCAC
1 AGGCAC
25612780 TTATGTGTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 13 0.32
21 27 0.68
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCATATC
Found at i:25612787 original size:41 final size:41
Alignment explanation
Indices: 25612683--25612789 Score: 99
Period size: 41 Copynumber: 2.5 Consensus size: 41
25612673 TTATGTGTCA
* *
25612683 TATTTCAGGCACTTTATGTGTCGTATTTTAGGCACCTCATGTG
1 TATTTCAGGCAC-TTATGTGTCG-ATATCAGGCACCTCATGTG
* * ** * *
25612726 TGTATCAGGCATCTCGTGTGTC-ATATCAGGTACCTCGTGTG
1 TATTTCAGGCA-CTTATGTGTCGATATCAGGCACCTCATGTG
25612767 TCATTTCAGGCACTTATGTGTCG
1 T-ATTTCAGGCACTTATGTGTCG
25612790 TATACTGATC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
41 24 0.49
42 8 0.16
43 16 0.33
44 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (41 bp):
TATTTCAGGCACTTATGTGTCGATATCAGGCACCTCATGTG
Found at i:25625851 original size:14 final size:14
Alignment explanation
Indices: 25625832--25625859 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25625822 AACCAGAAAG
25625832 AAAACTAAAATAAT
1 AAAACTAAAATAAT
25625846 AAAACTAAAATAAT
1 AAAACTAAAATAAT
25625860 CAAGTCCAAT
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:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAACTAAAATAAT
Found at i:25626153 original size:12 final size:13
Alignment explanation
Indices: 25626131--25626162 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
25626121 GCAATGAAAT
25626131 TTTTA-TTATTTA
1 TTTTATTTATTTA
25626143 -TTTATTTATTTA
1 TTTTATTTATTTA
25626155 TTTTATTT
1 TTTTATTT
25626163 TTTCAGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 7 0.39
13 7 0.39
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:25632708 original size:18 final size:18
Alignment explanation
Indices: 25632676--25632710 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25632666 AGATAAATTT
*
25632676 TAAAAAAAATCAAAAAAA
1 TAAAAAAAAACAAAAAAA
*
25632694 TAAAAAAAAAGAAAAAA
1 TAAAAAAAAACAAAAAA
25632711 GAAAAGGAGA
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:0.86, C:0.03, G:0.03, T:0.09
Consensus pattern (18 bp):
TAAAAAAAAACAAAAAAA
Found at i:25633906 original size:64 final size:64
Alignment explanation
Indices: 25633828--25634083 Score: 395
Period size: 64 Copynumber: 4.0 Consensus size: 64
25633818 TCATTCATAA
* * *
25633828 CACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
25633892 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
25633956 TACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
25634020 CACATCTGGTTAGGAGTATTTGATTCATTTTGATCATAGTATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
25634084 GATACATGGA
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 174 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:25634064 original size:128 final size:128
Alignment explanation
Indices: 25633829--25634083 Score: 456
Period size: 128 Copynumber: 2.0 Consensus size: 128
25633819 CATTCATAAC
25633829 ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
1 ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
25633894 CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATT
66 CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATT
* *
25633957 ACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
1 ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
* * * *
25634022 CATCTGGTTAGGAGTATTTGATTCATTTTGATCATAGTATCCTAATTATTTGGCATAAGCAT
66 CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
25634084 GATACATGGA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 121 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (128 bp):
ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATT
Found at i:25634215 original size:45 final size:44
Alignment explanation
Indices: 25634151--25634276 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 44
25634141 GAGGTCAGAT
* *
25634151 CTTATTTCTCTGAAGTTGCAGTAGAGTAGATCGAAGATTA-CAAAC
1 CTTATTTCCCTGAAGTTGCAGTGGAGTAGAT-GAAGA-TAGCAAAC
* * * *
25634196 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCGAAT
1 CTTATTTCCCTGAAGTTGCAGTGGAGTAG-ATGAAGATAGCAAAC
* *
25634241 CTTATTTCCCTGAAGTTGTAGTGGAATAGATAGAAG
1 CTTATTTCCCTGAAGTTGCAGTGGAGTAGAT-GAAG
25634277 TTATAAATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.06
45 62 0.91
46 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (44 bp):
CTTATTTCCCTGAAGTTGCAGTGGAGTAGATGAAGATAGCAAAC
Found at i:25634949 original size:177 final size:177
Alignment explanation
Indices: 25634646--25635328 Score: 902
Period size: 177 Copynumber: 3.9 Consensus size: 177
25634636 CCACTAGTAG
* * * *
25634646 GAGAGCAGGTTGGCGATTGTAGTCTTATTTTCCTGAGGTAGCAAGGAAGCATACTGAAGATTGAT
1 GAGAGCAGGTTGGTGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
* * * * * *
25634711 GTTTTTATCTCCTTGAGCAACTGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGG
66 GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG
* * * *
25634776 CAATGGAGTAAATTTTAGCCACTAGCCATATCTCTTTGAGGTACCAA
131 CAATGGAGCAGATTTTAGCCACTAGCCATATCTCTCTGAGGTAGCAA
* * *
25634823 GAGAGCAGGTTGGTGATTGTACTTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGAA
1 GAGAGCAGGTTGGTGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
* * * * * * * * *
25634888 GATCTTATCTCCTTCAGCAGCTGTGGGGAAAATCGAAGATGGCGAATTTTATTTTCATGTATCAG
66 GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG
* * *
25634953 CAATAGAGCAGATTTTAGCGACTACCCA-AGTCTCTCTGAGGTAGCAA
131 CAATGGAGCAGATTTTAGCCACTAGCCATA-TCTCTCTGAGGTAGCAA
* *
25635000 GAGAGAAGGTTGGTGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGGATTGAA
1 GAGAGCAGGTTGGTGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
* * *
25635065 GATCTTATCTCCCTAAGCAGTTGTAGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGA
66 GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG
* * **
25635130 CAATGGAGCAGATTTTAGCCATTAGCCTTATCTCTCCAAGGTAGCAA
131 CAATGGAGCAGATTTTAGCCACTAGCCATATCTCTCTGAGGTAGCAA
* * * *
25635177 GAGAGCAGGTTGGAGATTGTAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAA
1 GAGAGCAGGTTGGTGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
* * * *
25635242 AATCTTATCTCCCTAAGCAGTTGTGGAGTAGATC-AAGGATGGCGAATCTTATCTCCATGTATTG
66 GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAA-GATGGCGAATCTTATCTCCATGTATCG
* *
25635306 GAAATGGAGCAGATTTAAGCCAC
130 GCAATGGAGCAGATTTTAGCCAC
25635329 CAGTCCTATT
Statistics
Matches: 439, Mismatches: 64, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
176 3 0.01
177 435 0.99
178 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (177 bp):
GAGAGCAGGTTGGTGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG
CAATGGAGCAGATTTTAGCCACTAGCCATATCTCTCTGAGGTAGCAA
Found at i:25635238 original size:44 final size:45
Alignment explanation
Indices: 25635156--25635258 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 45
25635146 AGCCATTAGC
* * ** * * *
25635156 CTTATCTCTCC-AAGGTAGCAAGAGAGCAGGTTGGAGATTG-TAGT
1 CTTATCT-TCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
25635200 CTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
1 CTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
*
25635245 CTTATCTCCCTAAG
1 CTTATCTTCCTAAG
25635259 CAGTTGTGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 3 0.06
44 31 0.63
45 15 0.31
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
CTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
Found at i:25635836 original size:12 final size:13
Alignment explanation
Indices: 25635814--25635845 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
25635804 GCAATGAAAT
25635814 TTTTA-TTATTTA
1 TTTTATTTATTTA
25635826 -TTTATTTATTTA
1 TTTTATTTATTTA
25635838 TTTTATTT
1 TTTTATTT
25635846 TTTCAGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 7 0.39
13 7 0.39
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:25644856 original size:46 final size:46
Alignment explanation
Indices: 25644796--25645158 Score: 469
Period size: 46 Copynumber: 7.9 Consensus size: 46
25644786 TTTGACATGA
* * * ** *
25644796 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * **
25644842 TGCCATGGTATCTTTCAACCATGGTATTATTCATTTCATATCAATT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
25644888 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
25644934 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
* * * * *
25644980 TTCCATGGTATCTTTCAACCATGTTCTTACACATTTCCTACCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
25645026 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
25645072 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
25645118 TGCCATGGTATCTTTCAACCATGGTTTTACACGTTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
25645159 TAGAGAGAAC
Statistics
Matches: 287, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 5 0.02
46 282 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:25646987 original size:11 final size:11
Alignment explanation
Indices: 25646971--25647015 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
25646961 CTTTATATAC
*
25646971 TAATAAAATAA
1 TAATAAAATAT
25646982 TAATAAAATATCT
1 TAATAAAATA--T
*
25646995 TATTAAAATAT
1 TAATAAAATAT
25647006 TAATAAAATA
1 TAATAAAATA
25647016 GTATTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 20 0.69
13 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:25647056 original size:31 final size:31
Alignment explanation
Indices: 25646986--25647056 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
25646976 AAATAATAAT
*
25646986 AAAATATCTTATTAAAATATTAATAAAATAG
1 AAAATATCTAATTAAAATATTAATAAAATAG
* **
25647017 TATTTATCTAATT-AAATAATT-ATAAAATAG
1 AAAATATCTAATTAAAAT-ATTAATAAAATAG
25647047 CAAAATATCT
1 -AAAATATCT
25647057 CTAGCGTCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATATCTAATTAAAATATTAATAAAATAG
Found at i:25648194 original size:24 final size:24
Alignment explanation
Indices: 25648143--25648194 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
25648133 TAAAAGATTT
** *
25648143 CCATCAATTATTATCAATATATTG
1 CCATCAACAATTATCAATATACTG
25648167 CCATCAACAATTATCAATAT-CTG
1 CCATCAACAATTATCAATATACTG
25648190 ACCAT
1 -CCAT
25648195 GAGAATTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (24 bp):
CCATCAACAATTATCAATATACTG
Found at i:25659802 original size:49 final size:49
Alignment explanation
Indices: 25659730--25659917 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
25659720 TGAGGTCACG
** **
25659730 TGTGTAGTACTAAGTATAGGCTACTATGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * * *
25659779 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAA-T-TGGTCGCA
* * *
25659830 TGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
25659879 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
25659918 GCTTCGGCTA
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 73 0.63
50 6 0.05
51 36 0.31
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:25659898 original size:100 final size:100
Alignment explanation
Indices: 25659725--25659912 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
25659715 TATTGTGAGG
* * * **
25659725 TCACGTGTGTAGTACTAAGTATAGGCTACTATGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGCAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
25659790 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
* *
25659825 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGCAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
25659890 AAGTGCAGGCTACTATGTGTACC
66 AAGTGCAGGCTACTATGCGTACC
25659913 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGCAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
Found at i:25666487 original size:36 final size:38
Alignment explanation
Indices: 25666438--25666518 Score: 148
Period size: 36 Copynumber: 2.2 Consensus size: 38
25666428 TTGAACTTTG
25666438 TGTATATTATTTCATATTCATTACCCC-TTTTTTTATA
1 TGTATATTATTTCATATTCATTACCCCTTTTTTTTATA
25666475 T-TATATTATTTCATATTCATTACCCCTTTTTTTTATA
1 TGTATATTATTTCATATTCATTACCCCTTTTTTTTATA
25666512 TGTATAT
1 TGTATAT
25666519 ACATTTTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 25 0.60
37 12 0.29
38 5 0.12
ACGTcount: A:0.25, C:0.15, G:0.02, T:0.58
Consensus pattern (38 bp):
TGTATATTATTTCATATTCATTACCCCTTTTTTTTATA
Found at i:25667328 original size:20 final size:19
Alignment explanation
Indices: 25667303--25667369 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
25667293 TAAATTTGAT
25667303 ACATGATTGATATGATATGC
1 ACATGATTG-TATGATATGC
*
25667323 ACATGATAGGTATGATATGC
1 ACATGAT-TGTATGATATGC
*
25667343 ACATGATATGTATGAAATGC
1 ACATGAT-TGTATGATATGC
25667363 ACATGAT
1 ACATGAT
25667370 GAATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
ACATGATTGTATGATATGC
Found at i:25667461 original size:26 final size:26
Alignment explanation
Indices: 25667419--25667513 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
25667409 GAGAAAGTGC
**
25667419 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
25667444 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
25667470 AAAAGGGCTTATG-CCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
25667495 AAAAGGG-TT-TGCCCGAGTT
1 AAAAGGGCTTATGCCCCAGTT
25667514 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.03
24 8 0.12
25 27 0.42
26 28 0.43
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:25669179 original size:67 final size:64
Alignment explanation
Indices: 25669036--25669219 Score: 201
Period size: 64 Copynumber: 2.8 Consensus size: 64
25669026 CATAATTTTG
* * * * * * * *
25669036 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTA-GTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGCA
* * *
25669099 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
25669164 CA
63 CA
* *
25669166 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
25669220 CATAATGTCT
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 29 0.29
66 25 0.25
67 28 0.28
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGCA
Found at i:25671484 original size:17 final size:17
Alignment explanation
Indices: 25671462--25671494 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25671452 CTTCAAAGAG
25671462 GTGCAGCTAAGAGGATT
1 GTGCAGCTAAGAGGATT
25671479 GTGCAGCTAAGAGGAT
1 GTGCAGCTAAGAGGAT
25671495 GGTGTTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (17 bp):
GTGCAGCTAAGAGGATT
Found at i:25692176 original size:93 final size:93
Alignment explanation
Indices: 25692017--25692187 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
25692007 GGATGGTTGA
* * * * *
25692017 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGCCCAAACGCGTTGAGT
*
25692082 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* * *
25692110 GCATCTGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGCCCGAGCGCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGCCCAAACGCGTTGAGT
25692175 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
25692188 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGCCCAAACGCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:25695659 original size:13 final size:13
Alignment explanation
Indices: 25695622--25695660 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
25695612 AAATATTTGA
25695622 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
25695635 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
*
25695649 CTTGTTTTTAAT
1 CTTGTTCTTAAT
25695661 ATTTCAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:25700599 original size:14 final size:14
Alignment explanation
Indices: 25700580--25700609 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25700570 TTAAACCGAG
25700580 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
25700594 ACCAATCCAATTCA
1 ACCAATCCAAATCA
25700608 AC
1 AC
25700610 ACATTTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:25714955 original size:6 final size:6
Alignment explanation
Indices: 25714923--25715054 Score: 85
Period size: 6 Copynumber: 21.8 Consensus size: 6
25714913 AACCAAAATG
* * * *
25714923 AGAACC AGAATT AGAATC AGTAA-C AGAATC AGAACC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
25714971 AGTAA-C AAAATC AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
25715019 AAAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
25715055 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 8 0.08
6 80 0.83
7 6 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:25714957 original size:30 final size:30
Alignment explanation
Indices: 25714923--25715054 Score: 133
Period size: 30 Copynumber: 4.4 Consensus size: 30
25714913 AACCAAAATG
* *
25714923 AGAACCAGAATTAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* * *
25714953 AGAACCAGAATCA-ATATTAGTAACAAAATC
1 AGAATCAGAATCAGA-ATCAGTAACAGAATC
**
25714983 AGAATCAGAATCAGAATCAGTATTAGTAA-C
1 AGAATCAGAATCAGAATCAGTAACAG-AATC
* * *
25715013 AGAATCAAAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATCA-GTAACAGAATC
25715044 AGAATCAGAAT
1 AGAATCAGAAT
25715055 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
29 1 0.01
30 64 0.77
31 18 0.22
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:25714972 original size:36 final size:36
Alignment explanation
Indices: 25714946--25715028 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
25714936 GAATCAGTAA
25714946 CAGAATCAGAACCAGAATCAATATTAGTAACAAAAT
1 CAGAATCAGAACCAGAATCAATATTAGTAACAAAAT
* * *
25714982 CAGAATCAGAATCAGAATCAGTATTAGTAACAGAAT
1 CAGAATCAGAACCAGAATCAATATTAGTAACAAAAT
*
25715018 CAAAATCAGAA
1 CAGAATCAGAA
25715029 TTACGTGACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.19
Consensus pattern (36 bp):
CAGAATCAGAACCAGAATCAATATTAGTAACAAAAT
Found at i:25715024 original size:24 final size:25
Alignment explanation
Indices: 25714988--25715054 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
25714978 AAATCAGAAT
*
25714988 CAGAATCAGAATCAGTATTA-GTAA
1 CAGAATCAGAATCAGAATTACGTAA
* *
25715012 CAGAATCAAAATCAGAATTACGTGA
1 CAGAATCAGAATCAGAATTACGTAA
25715037 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
25715055 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
24 18 0.47
25 20 0.53
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTACGTAA
Found at i:25715209 original size:27 final size:26
Alignment explanation
Indices: 25715172--25715237 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
25715162 AGCATGGCTG
*
25715172 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
25715198 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
25715225 CCAGAATCAGATA
1 CCAGAA-CAGATA
25715238 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:25715242 original size:27 final size:27
Alignment explanation
Indices: 25715172--25715245 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
25715162 AGCATGGCTG
* *
25715172 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
25715198 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
25715225 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
25715246 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:25715252 original size:27 final size:27
Alignment explanation
Indices: 25715196--25715253 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
25715186 GTGACAGAGT
* * *
25715196 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
25715223 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
25715250 CACC
1 CACC
25715254 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:25715624 original size:27 final size:26
Alignment explanation
Indices: 25715558--25715637 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
25715548 ATCGGTCAAT
* *
25715558 AGATATTGTGACAGAGTCACCA-AATTC
1 AGATATTGTGGCAGAGCCACCAGAA--C
*
25715585 AGATATTGCGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
25715611 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
25715638 GCTTCCTCCG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 6 0.13
27 38 0.83
28 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:25715898 original size:26 final size:27
Alignment explanation
Indices: 25715835--25715922 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
25715825 AGGGGCAAAA
* *
25715835 TGGTAATTCTACCCCACAAGGGTATCT
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
25715862 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
25715889 TGGTAA-TCTATCCTATAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
25715915 TAGTAATT
1 TGGTAATT
25715923 TCACAATCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 22 0.43
27 29 0.57
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAAGGGTATTT
Found at i:25716000 original size:27 final size:27
Alignment explanation
Indices: 25715927--25716308 Score: 479
Period size: 27 Copynumber: 14.2 Consensus size: 27
25715917 GTAATTTCAC
*
25715927 AATCAAGGGTAAAACGGTAATTCTG-A
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
25715953 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
25715980 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
25716007 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
25716034 AATCGAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
25716061 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
25716088 AA-CTGAGGGT-AAACTGGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
**
25716115 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
25716142 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
25716169 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
25716196 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
25716223 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
25716250 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
25716277 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
25716304 AATCG
1 AATCG
25716309 GGAGTACTTT
Statistics
Matches: 302, Mismatches: 43, Indels: 21
0.83 0.12 0.06
Matches are distributed among these distances:
26 30 0.10
27 265 0.88
28 7 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:25718805 original size:22 final size:22
Alignment explanation
Indices: 25718779--25718831 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
25718769 CCAGCTTTAT
25718779 TTCCAAGAACTCGCTCTCGCTA
1 TTCCAAGAACTCGCTCTCGCTA
25718801 TTCCAAGAACTCGCTCTCGCTA
1 TTCCAAGAACTCGCTCTCGCTA
*
25718823 ATCCAAGAA
1 TTCCAAGAA
25718832 TTTCATCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.34, G:0.13, T:0.25
Consensus pattern (22 bp):
TTCCAAGAACTCGCTCTCGCTA
Found at i:25724862 original size:28 final size:27
Alignment explanation
Indices: 25724812--25724865 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
25724802 CATCTGATGC
* *
25724812 TGATTCTGTAATGGGTTTAGGCCCACT
1 TGATTCTGTAATGGGCTAAGGCCCACT
*
25724839 TGATTCTGTTATTGGGCTAAGGCCCAC
1 TGATTCTG-TAATGGGCTAAGGCCCAC
25724866 CTAATACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (27 bp):
TGATTCTGTAATGGGCTAAGGCCCACT
Found at i:25731250 original size:23 final size:23
Alignment explanation
Indices: 25731181--25731271 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
25731171 TTTGTGAACA
* * * *
25731181 TAAATGAACATGTTCGCAAATGT
1 TAAACGAACATGTTCACGAACGT
** *
25731204 TAAACGAACATGTTCGTGATCGT
1 TAAACGAACATGTTCACGAACGT
25731227 TAAACGAACATGTTCACGAACGT
1 TAAACGAACATGTTCACGAACGT
* *
25731250 TAAAATGAAAATGTTCACGAAC
1 T-AAACGAACATGTTCACGAAC
25731272 ACTAAAAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
23 39 0.68
24 18 0.32
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (23 bp):
TAAACGAACATGTTCACGAACGT
Found at i:25731323 original size:23 final size:23
Alignment explanation
Indices: 25731273--25731323 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
25731263 TTCACGAACA
25731273 CTAAAAAAACATATTTGCAAACG
1 CTAAAAAAACATATTTGCAAACG
* * * * *
25731296 TTAAACAAACATGTTTGCGAATG
1 CTAAAAAAACATATTTGCAAACG
25731319 CTAAA
1 CTAAA
25731324 TGTATTGATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (23 bp):
CTAAAAAAACATATTTGCAAACG
Found at i:25735539 original size:515 final size:516
Alignment explanation
Indices: 25734568--25735602 Score: 1874
Period size: 515 Copynumber: 2.0 Consensus size: 516
25734558 TTTAATTAAC
25734568 TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
1 TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
* *
25734633 ATAAAAATATTTATGACTCGATTTATGAAATTGAGGTCTCGATACCTTGTTTTCAAAACTAATTA
66 ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTCGATACCTCGTTTTCAAAACTAATTA
*
25734698 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAGC
131 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAAC
25734763 TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
196 TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
*
25734828 TTTTGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
261 TTTCGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
*
25734893 AATACGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGTAGAAAGCTTAGATTCAATAAA
326 AATACGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
*
25734958 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAATGATTAATCTGTATTGATACC
391 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAACGATTAATCTGTATTGATACC
** * *
25735023 AAA-CTCAATTCTGTTTCTTGTATGTTTTAATTCATAGAGGTATTGATTTTTAAAGCCCAA
456 AAAGCTCAATTCTGTTTCTTGTACATTTTAATTCATAAAGGTATCGATTTTTAAAGCCCAA
** * *
25735083 TATCCAAATGTTAAAATGTTCTAACGAAACTTTAATACTAATTTAATGGCACTCTGTAAATATTT
1 TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
* *
25735148 ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTTGATACCTCGTTTTCGAAACTAATTA
66 ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTCGATACCTCGTTTTCAAAACTAATTA
*
25735213 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGTCTAAAATCACACTTAAC
131 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAAC
*
25735278 TCATAATTAATGATTAAAAAAATTTTCGAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
196 TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
* *
25735343 TTTCGACACCACTAAAAATTAGGCTGTTACATAACACCCTATACTCGGCTTGGTCGCCAAGCCCA
261 TTTCGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
25735408 AATACGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
326 AATACGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
25735473 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAACGATTAATCTGTATTGATACC
391 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAACGATTAATCTGTATTGATACC
*
25735538 AAAGCTCTATTCTGTTTCTTGTACATTTTAATTCATAAAGGTATCGATTTTTAAAGCCCAA
456 AAAGCTCAATTCTGTTTCTTGTACATTTTAATTCATAAAGGTATCGATTTTTAAAGCCCAA
25735599 TATC
1 TATC
25735603 GATACCTCTG
Statistics
Matches: 498, Mismatches: 21, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
515 442 0.89
516 56 0.11
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (516 bp):
TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTCGATACCTCGTTTTCAAAACTAATTA
ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAAC
TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
TTTCGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
AATACGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAACGATTAATCTGTATTGATACC
AAAGCTCAATTCTGTTTCTTGTACATTTTAATTCATAAAGGTATCGATTTTTAAAGCCCAA
Found at i:25739934 original size:15 final size:15
Alignment explanation
Indices: 25739896--25739927 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25739886 CTCCAATTTC
*
25739896 TCCCTTTTCTTTCTT
1 TCCCTTTTTTTTCTT
25739911 TCCCTTTTTTTTCTT
1 TCCCTTTTTTTTCTT
25739926 TC
1 TC
25739928 TTTTTTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TCCCTTTTTTTTCTT
Found at i:25747075 original size:40 final size:40
Alignment explanation
Indices: 25747031--25747141 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
25747021 TGAGTTACCA
* *
25747031 TAGTGAATTAGGAACAAATCCTATCCACTTTATATAT-TTC
1 TAGTGAATCAGGAACAAATCCTATTCACTTTA-ATATCTTC
* * *
25747071 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTTT
1 TAGTGAATCAGGAACAAATCCTATTCACTTTAATATCTTC
25747111 TAGTGAATCAGGAATC-AATCCTATTCACTTT
1 TAGTGAATCAGGAA-CAAATCCTATTCACTTT
25747142 TAATTCTCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.95
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (40 bp):
TAGTGAATCAGGAACAAATCCTATTCACTTTAATATCTTC
Found at i:25748020 original size:4 final size:4
Alignment explanation
Indices: 25748011--25748100 Score: 56
Period size: 4 Copynumber: 20.8 Consensus size: 4
25748001 ATTTCTCCCT
** *
25748011 TTTC TTTC TTTCCC TTT- TTTC TTTC TTTC TTTC TCCCC TATTT TTTC
1 TTTC TTTC TTT--C TTTC TTTC TTTC TTTC TTTC T-TTC T-TTC TTTC
* *
25748058 GTTTC TATTC TGTTC TTCC TTTT TTTC TTTC TTTC GTTTC TTT
1 -TTTC T-TTC T-TTC TTTC TTTC TTTC TTTC TTTC -TTTC TTT
25748101 TGTTTATTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
3 3 0.04
4 41 0.61
5 19 0.28
6 4 0.06
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:25748044 original size:25 final size:24
Alignment explanation
Indices: 25748011--25748099 Score: 97
Period size: 25 Copynumber: 3.4 Consensus size: 24
25748001 ATTTCTCCCT
25748011 TTTCTTTCTTTCCCTTTTTTCTTTC
1 TTTCTTTC-TTCCCTTTTTTCTTTC
*
25748036 TTTCTTTCTCCCCTATTTTTTCGTTTC
1 TTTCTTTCTTCCC--TTTTTTC-TTTC
*
25748063 TATTCTGTTCTTCCTTTTTTTCTTTC
1 T-TTCT-TTCTTCCCTTTTTTCTTTC
25748089 TTTCGTTTCTT
1 TTTC-TTTCTT
25748100 TTGTTTATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
24 4 0.07
25 16 0.29
26 13 0.24
27 12 0.22
28 4 0.07
29 6 0.11
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTCTTTCTTCCCTTTTTTCTTTC
Found at i:25751323 original size:6 final size:6
Alignment explanation
Indices: 25751305--25751336 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25751295 GTTACAGAGA
*
25751305 CTGGGT CTAGGT CTGGGT CTGGGT CTGGGT CT
1 CTGGGT CTGGGT CTGGGT CTGGGT CTGGGT CT
25751337 CATGACCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.19, G:0.44, T:0.34
Consensus pattern (6 bp):
CTGGGT
Found at i:25763140 original size:39 final size:39
Alignment explanation
Indices: 25763082--25763305 Score: 313
Period size: 39 Copynumber: 5.7 Consensus size: 39
25763072 TTCCAACACA
*
25763082 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * *
25763121 AATACCTTCGGGACTTAGCCCGGTTATAACACCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * * *
25763160 AATACCTTCAGAACTTAGCCCAGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
**
25763199 AATGCCTTCGGGACTTTTCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * * *
25763238 AATGCCTTCGGAACTTATCCCAGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
25763277 AATGCCTTCGAGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
25763306 ATCTCACACA
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 161 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:25771314 original size:41 final size:41
Alignment explanation
Indices: 25771263--25771465 Score: 255
Period size: 41 Copynumber: 5.0 Consensus size: 41
25771253 TTATAAAATA
* * *
25771263 CAGAGCAATAGCGGCGTTTTTTGCTAAAACGCCGCTAAAAA-
1 CAGAGCATTAGCGGCG-CTTTCGCTAAAACGCCGCTAAAAAC
* * * *
25771304 TAGAGCAATAGCGGCGCTTTCGGTAAAACACCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTCGCTAAAACGCCGCTAAAAAC
* * *
25771345 CAGCGCATTAGCGGCGCTTTCGATAAAACGCCTCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTCGCTAAAACGCCGCTAAAAAC
* *
25771386 CAGAGCATTAGCGGCACTTTCGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTCGCTAAAACGCCGCTAAAAAC
* * *
25771427 CAGAGCATTAGCGACGCTTTTGCTAAAACGCCACTAAAA
1 CAGAGCATTAGCGGCGCTTTCGCTAAAACGCCGCTAAAA
25771466 GTCATATAAC
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 20 0.14
41 121 0.86
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTCGCTAAAACGCCGCTAAAAAC
Found at i:25771647 original size:7 final size:7
Alignment explanation
Indices: 25771637--25771683 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
25771627 TATTATTATA
25771637 GTTTAAG
1 GTTTAAG
*
25771644 GTTTATG
1 GTTTAAG
25771651 GTTTAAG
1 GTTTAAG
* * *
25771658 ATATATG
1 GTTTAAG
25771665 GTTTAAG
1 GTTTAAG
25771672 GTTTAAG
1 GTTTAAG
25771679 GTTTA
1 GTTTA
25771684 GGAGTTAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (7 bp):
GTTTAAG
Found at i:25771654 original size:14 final size:14
Alignment explanation
Indices: 25771632--25771683 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
25771622 TTAATTATTA
*
25771632 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
25771646 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
*
25771660 ATATGGTTTAAGGT
1 TTATGGTTTAAGGT
*
25771674 TTAAGGTTTA
1 TTATGGTTTA
25771684 GGAGTTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:25771750 original size:7 final size:7
Alignment explanation
Indices: 25771738--25771856 Score: 62
Period size: 7 Copynumber: 16.7 Consensus size: 7
25771728 GAGATTATGT
25771738 TTTAGGG
1 TTTAGGG
25771745 TTTAGGG
1 TTTAGGG
*
25771752 -TTAGAG
1 TTTAGGG
*
25771758 TTTAAGG
1 TTTAGGG
*
25771765 TGTAAGGG
1 T-TTAGGG
*
25771773 TTTAGTG
1 TTTAGGG
*
25771780 TTAAGGG
1 TTTAGGG
* *
25771787 TTAAGGA
1 TTTAGGG
*
25771794 TTTAAGG
1 TTTAGGG
25771801 TTTAGGG
1 TTTAGGG
* *
25771808 TTAAGTG
1 TTTAGGG
*
25771815 TTTAGTG
1 TTTAGGG
25771822 TTTATGGG
1 TTTA-GGG
*
25771830 -ATAGGGG
1 TTTA-GGG
* *
25771837 TTAAAAGG
1 TT-TAGGG
25771845 TTTAGGG
1 TTTAGGG
25771852 TTTAG
1 TTTAG
25771857 ATTAATTAGT
Statistics
Matches: 82, Mismatches: 25, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
6 5 0.06
7 65 0.79
8 11 0.13
9 1 0.01
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.39
Consensus pattern (7 bp):
TTTAGGG
Found at i:25771824 original size:21 final size:20
Alignment explanation
Indices: 25771738--25771825 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 20
25771728 GAGATTATGT
* * *
25771738 TTTAGGGTTTAGGGTTAGAG
1 TTTAGGGTTAAGGTTTAGTG
*
25771758 TTTAAGGTGTAAGGGTTTAGTG
1 TTTAGGGT-TAA-GGTTTAGTG
*
25771780 TTAAGGGTTAAGGATTTAAG-G
1 TTTAGGGTTAAGG-TTT-AGTG
25771801 TTTAGGGTTAAGTGTTTAGTG
1 TTTAGGGTTAAG-GTTTAGTG
25771822 TTTA
1 TTTA
25771826 TGGGATAGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 11 0.20
21 28 0.51
22 16 0.29
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.42
Consensus pattern (20 bp):
TTTAGGGTTAAGGTTTAGTG
Found at i:25771825 original size:28 final size:27
Alignment explanation
Indices: 25771738--25771825 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 27
25771728 GAGATTATGT
*
25771738 TTTAGGGTTTAGGGTTAGAGT-TTAAGG
1 TTTAAGGTTTAGGGTTA-AGTGTTAAGG
* * *
25771765 TGTAAGGGTTTAGTGTTAAGGGTTAAGG
1 TTTAA-GGTTTAGGGTTAAGTGTTAAGG
*
25771793 ATTTAAGGTTTAGGGTTAAGTGTTTAGTG
1 -TTTAAGGTTTAGGGTTAAGTGTTAAG-G
25771822 TTTA
1 TTTA
25771826 TGGGATAGGG
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 5 0.10
28 39 0.80
29 5 0.10
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.42
Consensus pattern (27 bp):
TTTAAGGTTTAGGGTTAAGTGTTAAGG
Found at i:25776292 original size:22 final size:22
Alignment explanation
Indices: 25776260--25776303 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25776250 GATTAATATT
*
25776260 TTATATTTAATATTTATAAATA
1 TTATATATAATATTTATAAATA
* *
25776282 TTATATATAATTTTTTTAAATA
1 TTATATATAATATTTATAAATA
25776304 ACAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATAATATTTATAAATA
Found at i:25782432 original size:17 final size:18
Alignment explanation
Indices: 25782412--25782445 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25782402 AAGTGAATTG
25782412 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
25782429 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
25782446 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:25783184 original size:10 final size:10
Alignment explanation
Indices: 25783157--25783216 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
25783147 TGAAATTCTA
25783157 AAAGATAAAT
1 AAAGATAAAT
*
25783167 ACAA-ATAATT
1 A-AAGATAAAT
*
25783177 AAAGATAACT
1 AAAGATAAAT
25783187 AAAGATAAAT
1 AAAGATAAAT
25783197 AAAGATAAAT
1 AAAGATAAAT
25783207 GAAA-ATAAAT
1 -AAAGATAAAT
25783217 CCTAGAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:25783944 original size:40 final size:40
Alignment explanation
Indices: 25783900--25783980 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
25783890 GAAAGTGCGT
25783900 TCAGGGGTACAAAAGCACAAACAGGGGCACATATGTGCAA
1 TCAGGGGTACAAAAGCACAAACAGGGGCACATATGTGCAA
** * * *
25783940 TCAGGGGTACCGAAGTACAAATAGGGGCACTTATGTGCAA
1 TCAGGGGTACAAAAGCACAAACAGGGGCACATATGTGCAA
25783980 T
1 T
25783981 AATTCAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (40 bp):
TCAGGGGTACAAAAGCACAAACAGGGGCACATATGTGCAA
Found at i:25792773 original size:25 final size:25
Alignment explanation
Indices: 25792745--25792850 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
25792735 CAGCTCTTAT
* * *
25792745 GAGCTTCCCGTTATTTAGCTTGCAA
1 GAGCTTCCCATTATTCAGCTCGCAA
* * *
25792770 GAGCTTCCCATTATTTAGCTCGTAT
1 GAGCTTCCCATTATTCAGCTCGCAA
** * * *
25792795 GAGCTTCCTGTTATTCAACTTGCAT
1 GAGCTTCCCATTATTCAGCTCGCAA
* *
25792820 GAGCTTTCCATTATTCAGCTCGAAA
1 GAGCTTCCCATTATTCAGCTCGCAA
25792845 GAGCTT
1 GAGCTT
25792851 ACTATTTACA
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (25 bp):
GAGCTTCCCATTATTCAGCTCGCAA
Found at i:25792817 original size:50 final size:50
Alignment explanation
Indices: 25792735--25792850 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
25792725 GAACACACCA
* * *
25792735 CAGCTCTTATGAGCTTCCCGTTATTTAGCTTGCAAGAGCTTCCCATTATT
1 CAGCTCGTATGAGCTTCCCGTTATTCAACTTGCAAGAGCTTCCCATTATT
* * * *
25792785 TAGCTCGTATGAGCTTCCTGTTATTCAACTTGCATGAGCTTTCCATTATT
1 CAGCTCGTATGAGCTTCCCGTTATTCAACTTGCAAGAGCTTCCCATTATT
* *
25792835 CAGCTCGAAAGAGCTT
1 CAGCTCGTATGAGCTT
25792851 ACTATTTACA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTCCCGTTATTCAACTTGCAAGAGCTTCCCATTATT
Found at i:25801199 original size:20 final size:21
Alignment explanation
Indices: 25801174--25801213 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
25801164 TACCTTCTGT
25801174 GGTATCACGATATCC-CCTTG
1 GGTATCACGATATCCACCTTG
*
25801194 GGTATCAGGATATCCACCTT
1 GGTATCACGATATCCACCTT
25801214 CTAAGGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (21 bp):
GGTATCACGATATCCACCTTG
Found at i:25801972 original size:42 final size:43
Alignment explanation
Indices: 25801894--25801980 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 43
25801884 TCAAAAAAAA
25801894 TTCAAAAATCCAAAAAATATTTTCCATC-TTTGTTTTTAATTT
1 TTCAAAAATCCAAAAAATATTTTCCATCTTTTGTTTTTAATTT
* * *
25801936 TTCAAAAATCC-AAAATTAATTTT-CTTCTTTTTTTTTTTAATTT
1 TTCAAAAATCCAAAAAAT-ATTTTCCATC-TTTTGTTTTTAATTT
25801979 TT
1 TT
25801981 GTTATTACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 8 0.21
42 16 0.41
43 15 0.38
ACGTcount: A:0.32, C:0.13, G:0.01, T:0.54
Consensus pattern (43 bp):
TTCAAAAATCCAAAAAATATTTTCCATCTTTTGTTTTTAATTT
Found at i:25803697 original size:20 final size:21
Alignment explanation
Indices: 25803672--25803711 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25803662 TACCTTCTAT
*
25803672 GGTATCACGATATCC-CCTTG
1 GGTATCACAATATCCACCTTG
*
25803692 GGTATCGCAATATCCACCTT
1 GGTATCACAATATCCACCTT
25803712 CCAAGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (21 bp):
GGTATCACAATATCCACCTTG
Found at i:25811241 original size:19 final size:19
Alignment explanation
Indices: 25811205--25811246 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
25811195 GTTCTTCAAA
*
25811205 AATAAATAAAAGACAAAAT
1 AATAAATAAAAGAAAAAAT
25811224 AATAAATAAAA-ATAAAAAT
1 AATAAATAAAAGA-AAAAAT
25811243 AATA
1 AATA
25811247 GTAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AATAAATAAAAGAAAAAAT
Found at i:25816902 original size:13 final size:13
Alignment explanation
Indices: 25816884--25816908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25816874 CCTAATATCC
25816884 CTTGACTTATTCA
1 CTTGACTTATTCA
25816897 CTTGACTTATTC
1 CTTGACTTATTC
25816909 CATAGAAATC
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:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (13 bp):
CTTGACTTATTCA
Done.