Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 81 of 333
Found at i:24935387 original size:48 final size:47
Alignment explanation
Indices: 24935279--24935400 Score: 131
Period size: 48 Copynumber: 2.6 Consensus size: 47
24935269 TTGCTACAGT
* * * * * *
24935279 GTGCCTGTGTAAGACCATGTCTAGGAATGGCGTCGGGGATGATATTT
1 GTGCCAGTGTAAGACCATGTCTGGGAATGCCATCGGCGATGATATTG
24935326 GTGCCAGTGTAAGACCATGTCTGGGACATGCCATCGGCGATGATATGTG
1 GTGCCAGTGTAAGACCATGTCTGGGA-ATGCCATCGGCGATGATAT-TG
* *
24935375 GAT-TCA-TGTAAGACCATGTCGGGGAA
1 G-TGCCAGTGTAAGACCATGTCTGGGAA
24935401 ATGGCATTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
47 25 0.39
48 34 0.53
49 4 0.06
50 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (47 bp):
GTGCCAGTGTAAGACCATGTCTGGGAATGCCATCGGCGATGATATTG
Found at i:24936952 original size:22 final size:22
Alignment explanation
Indices: 24936927--24936980 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
24936917 CACGAAGGGT
* *
24936927 CACACAGGCGTGTCCTTTGGAC
1 CACACGGGCGTGTCCTTCGGAC
*
24936949 CACACGGGAGTGTCCTTCGGAC
1 CACACGGGCGTGTCCTTCGGAC
24936971 CACACGGGCG
1 CACACGGGCG
24936981 CGTGAGCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTCCTTCGGAC
Found at i:24939477 original size:16 final size:17
Alignment explanation
Indices: 24939446--24939479 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
24939436 TGGTAAATTT
24939446 ACATTTAATTATGTTATA
1 ACATTTAA-TATGTTATA
24939464 ACATTTAA-ATGTTATA
1 ACATTTAATATGTTATA
24939480 TGCATGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
ACATTTAATATGTTATA
Found at i:24942423 original size:43 final size:43
Alignment explanation
Indices: 24942353--24942442 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
24942343 AATTTGGGGT
* * *
24942353 CACACGGCCAAGTCACACGCCCGTGTCCTGGGGCCGTGTCCTA
1 CACACGGCCAAGTCACACACCCATGTCCCGGGGCCGTGTCCTA
24942396 CACACGGCCAAGTCACACACCCATGTCCCGGGGCCGTGTCCTA
1 CACACGGCCAAGTCACACACCCATGTCCCGGGGCCGTGTCCTA
24942439 CACA
1 CACA
24942443 TGGAAAAGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.20, C:0.41, G:0.24, T:0.14
Consensus pattern (43 bp):
CACACGGCCAAGTCACACACCCATGTCCCGGGGCCGTGTCCTA
Found at i:24942456 original size:43 final size:43
Alignment explanation
Indices: 24942366--24942456 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
24942356 ACGGCCAAGT
* * * ** *
24942366 CACACGCCCGTGTCCTGGGGCCGTGTCCTACACACGGCCAAGT
1 CACACACCCATGTCCCGGGGCCGTGTCCTACACACGGAAAAGA
*
24942409 CACACACCCATGTCCCGGGGCCGTGTCCTACACATGGAAAAGA
1 CACACACCCATGTCCCGGGGCCGTGTCCTACACACGGAAAAGA
24942452 CACAC
1 CACAC
24942457 GGCCGTGTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.23, C:0.38, G:0.24, T:0.14
Consensus pattern (43 bp):
CACACACCCATGTCCCGGGGCCGTGTCCTACACACGGAAAAGA
Found at i:24945116 original size:53 final size:54
Alignment explanation
Indices: 24944917--24945120 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
24944907 TTAGGGTTTG
* ** * *
24944917 AGGATACCAAGTAAGACCATGGAAAGGCATGGCATTGGTAAGTTCTATAAGGCA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGCA
* * * * * * * *
24944971 AGGAAATCATGTAAGACCATGTCAAAACATGGCATTGATAAACTACTATAAAGCA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGGCA
* * * * * *
24945026 AAGATCCCATGTAAGACCATGCCAAGGCTTGGCAATGGTGAGTTC-ATAAGGCA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGCA
* *
24945079 AGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAG
1 AGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG
24945121 CTGAAAGGAA
Statistics
Matches: 116, Mismatches: 33, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 41 0.35
54 34 0.29
55 41 0.35
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGCA
Found at i:24958249 original size:30 final size:30
Alignment explanation
Indices: 24958205--24958273 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
24958195 CAAAGATAAC
*
24958205 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
24958234 GAGAAACCCAGAATAAAGAGATCCAGGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
24958264 AAGAAACCCA
1 AAGAAACCCA
24958274 AGATATGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:24958278 original size:15 final size:15
Alignment explanation
Indices: 24958216--24958278 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
24958206 AGAAAACCGA
*
24958216 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
24958231 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
24958245 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
24958261 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
24958276 ATA
1 ATA
24958279 TGATACTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:24961299 original size:46 final size:46
Alignment explanation
Indices: 24961124--24961299 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
24961114 TGTAACCCGC
* * * *
24961124 CCATAAGTGAGCTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * **
24961170 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTATAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
24961220 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
24961263 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
24961300 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 63 0.59
47 28 0.26
49 1 0.01
50 4 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:24963729 original size:30 final size:30
Alignment explanation
Indices: 24963685--24963753 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
24963675 CAAAGATAAC
*
24963685 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
24963714 GAGAAACCCAGAATAAAGAGATCCAGGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
24963744 AAGAAACCCA
1 AAGAAACCCA
24963754 AGATATGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:24963758 original size:15 final size:15
Alignment explanation
Indices: 24963696--24963758 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
24963686 AGAAAACCGA
*
24963696 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
24963711 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
24963725 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
24963741 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
24963756 ATA
1 ATA
24963759 TGATACTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:24966849 original size:93 final size:93
Alignment explanation
Indices: 24966690--24966859 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
24966680 CCCATAAGTG
* *
24966690 AACTCGGACTCAACTCAACAAGCTCAGGCGTTTGTATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACAAGCTCAGGCATTTGCATCCACAAGTGAACTCGGACTCAACTCAAC
24966755 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * *
24966783 AACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACAAGCTCAGG-CATTTGCATCCACAAGTGAACTCGGACTCAACTCAA
*
24966847 CGAGTTCGGATGC
65 CGAGCTCGGATGC
24966860 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACAAGCTCAGGCATTTGCATCCACAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:24966850 original size:46 final size:46
Alignment explanation
Indices: 24966681--24966856 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
24966671 TGTAACCCGC
* * *
24966681 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCAGG-CGTTTGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
* * *
24966727 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
24966777 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
24966820 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
24966857 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 9 0.08
44 1 0.01
45 2 0.02
46 60 0.56
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:24966875 original size:46 final size:46
Alignment explanation
Indices: 24966732--24966875 Score: 115
Period size: 46 Copynumber: 3.1 Consensus size: 46
24966722 TGTATCCACA
*
24966732 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* * *
24966781 CA---AACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
24966825 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
24966871 AGTGA
1 AGTGA
24966876 CATGTCACTT
Statistics
Matches: 76, Mismatches: 7, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
43 1 0.01
44 8 0.11
45 1 0.01
46 32 0.42
47 29 0.38
49 3 0.04
50 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:24974831 original size:53 final size:54
Alignment explanation
Indices: 24974657--24974880 Score: 197
Period size: 53 Copynumber: 4.2 Consensus size: 54
24974647 ATTAGGGTTT
* * * * *
24974657 AAAGGATACCAAGTAATACCATGGCAAGGCATGG-AATTGGTAAGTTCTACAAGG
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTCTATAAGG
* * * * * * * * *
24974711 CAAGGAAATCATGTAAGAGCATGTCAAGACATGACATTGATAAACTACTATAAGG
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGG
* * * *
24974766 CAAA-GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGG
1 -AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGG
* * *
24974819 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATAGTAAGTT-AAAAAGG
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGG
24974872 AAAGG-TACC
1 AAAGGATACC
24974881 TGTGTATCCT
Statistics
Matches: 132, Mismatches: 33, Indels: 12
0.75 0.19 0.07
Matches are distributed among these distances:
52 7 0.05
53 53 0.40
54 31 0.23
55 39 0.30
56 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (54 bp):
AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGG
Found at i:24975089 original size:22 final size:22
Alignment explanation
Indices: 24975063--24975106 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
24975053 CTCTCTTTTT
24975063 TATAGTATCGCAAAGCAAACTA
1 TATAGTATCGCAAAGCAAACTA
*
24975085 TATAGTATCGCAAAGCGAACTA
1 TATAGTATCGCAAAGCAAACTA
24975107 GGAAAATCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (22 bp):
TATAGTATCGCAAAGCAAACTA
Found at i:24978358 original size:26 final size:26
Alignment explanation
Indices: 24978329--24978380 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24978319 CTTTCAAAAG
24978329 CTTAGTAAGTCATATACAAATAAACT
1 CTTAGTAAGTCATATACAAATAAACT
24978355 CTTAGTAAGTCATATACAAATAAACT
1 CTTAGTAAGTCATATACAAATAAACT
24978381 TATCAACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (26 bp):
CTTAGTAAGTCATATACAAATAAACT
Found at i:24978784 original size:42 final size:42
Alignment explanation
Indices: 24978699--24978840 Score: 162
Period size: 44 Copynumber: 3.3 Consensus size: 42
24978689 AACATTTCAA
* * **
24978699 ACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAG
1 ACGTGGTCTTACAAGAAATCAAATA-CGATGCCAACGTCCCAG
*
24978742 ACAG-GGTCTTACAAGAAATCAAATACGATGCCAACATCCCAG
1 AC-GTGGTCTTACAAGAAATCAAATACGATGCCAACGTCCCAG
* *
24978784 ACGTTGTCTTACACATAAATCATAAGT-CGATGCCAACGTCCCAG
1 ACGTGGTCTTACA-AGAAATCA-AA-TACGATGCCAACGTCCCAG
24978828 ACGTGGTCTTACA
1 ACGTGGTCTTACA
24978841 CGATAACACA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 24 0.28
43 28 0.33
44 31 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ACGTGGTCTTACAAGAAATCAAATACGATGCCAACGTCCCAG
Found at i:24978804 original size:43 final size:43
Alignment explanation
Indices: 24978684--24978846 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
24978674 AGCTTGTACA
** * **
24978684 ATGCCAACATTTCAAACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACATAAATCAAATA-CG
*** *
24978727 ATGCCATTGTCCCAGACAG-GGTCTTACA-AGAAATCAAATACG
1 ATGCCAACATCCCAGAC-GTGGTCTTACACATAAATCAAATACG
*
24978769 ATGCCAACATCCCAGACGTTGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACATCCCAGACGTGGTCTTACACATAAATCA-AA-TACG
*
24978813 ATGCCAACGTCCCAGACGTGGTCTTACACGATAA
1 ATGCCAACATCCCAGACGTGGTCTTACAC-ATAA
24978847 CACATATTAG
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 24 0.24
43 36 0.37
44 32 0.33
45 5 0.05
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACATAAATCAAATACG
Found at i:24992365 original size:42 final size:42
Alignment explanation
Indices: 24992281--24992365 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
24992271 CGTCGCTTAC
** * *
24992281 TTGATGCCATAGTCCAACTATGGTCTTACATGAAGTCTCATA
1 TTGATGCCATAGTCCAACTATGGTCTTACACAAAATCACATA
24992323 TTGATGCCAT-GTCCTAGAC-ATGGTCTTACACAAAATCACATA
1 TTGATGCCATAGTCC-A-ACTATGGTCTTACACAAAATCACATA
24992365 T
1 T
24992366 CAATGCCAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 31 0.84
43 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
TTGATGCCATAGTCCAACTATGGTCTTACACAAAATCACATA
Found at i:24992414 original size:48 final size:48
Alignment explanation
Indices: 24992338--24992458 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
24992328 GCCATGTCCT
**** * *
24992338 AGACATGGTCTTACACAAAATCACATATCAATGCCAACACCATATCCT
1 AGACATGGTCTTACATGGGATCACATATCAATGCCAACACCATACCCC
** * * ** *
24992386 AGTTATGGTCTTACATGGGATCAGATATCGATGCCAATGCCATCCCCC
1 AGACATGGTCTTACATGGGATCACATATCAATGCCAACACCATACCCC
24992434 AGACATGGTCTTACATGGGATCACA
1 AGACATGGTCTTACATGGGATCACA
24992459 ATGCCATAGC
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (48 bp):
AGACATGGTCTTACATGGGATCACATATCAATGCCAACACCATACCCC
Found at i:24992504 original size:37 final size:37
Alignment explanation
Indices: 24992420--24992522 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 37
24992410 ATATCGATGC
** *
24992420 CAATGCCATCCCCCAGAC-ATGGTCTTACATGGGATCA
1 CAATGCCATAGCCCA-ACTATGGTCTTACATGGCATCA
* *
24992457 CAATGCCATAGCCCAACTATGGTCTTACATGTCATTA
1 CAATGCCATAGCCCAACTATGGTCTTACATGGCATCA
* * * *
24992494 CGATGTCATAGCCTAGCTATGGTCTTACA
1 CAATGCCATAGCCCAACTATGGTCTTACA
24992523 CGTGCTCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 2 0.04
37 54 0.96
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (37 bp):
CAATGCCATAGCCCAACTATGGTCTTACATGGCATCA
Found at i:24998143 original size:30 final size:30
Alignment explanation
Indices: 24998109--24998169 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24998099 TCCTTAACTC
24998109 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24998139 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24998169 A
1 A
24998170 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25002599 original size:30 final size:30
Alignment explanation
Indices: 25002565--25002625 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25002555 TCCTTAACTC
25002565 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25002595 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25002625 A
1 A
25002626 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25003278 original size:20 final size:20
Alignment explanation
Indices: 25003253--25003293 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25003243 AAGTTTTGCA
25003253 ACTTATTCAATTTAGTCCCT
1 ACTTATTCAATTTAGTCCCT
25003273 ACTTATTCAATTTAGTCCCT
1 ACTTATTCAATTTAGTCCCT
25003293 A
1 A
25003294 ACTTCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (20 bp):
ACTTATTCAATTTAGTCCCT
Found at i:25009262 original size:27 final size:27
Alignment explanation
Indices: 25009224--25009279 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
25009214 TCATAATTAC
25009224 ATAGTTCCTAGTGACATGTCACATTGT
1 ATAGTTCCTAGTGACATGTCACATTGT
*
25009251 ATAGTTCGTAGTGACATGTCACATTGT
1 ATAGTTCCTAGTGACATGTCACATTGT
25009278 AT
1 AT
25009280 CCTAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
ATAGTTCCTAGTGACATGTCACATTGT
Found at i:25014474 original size:43 final size:43
Alignment explanation
Indices: 25014413--25014752 Score: 391
Period size: 43 Copynumber: 8.0 Consensus size: 43
25014403 TGTGATTCCA
* * *
25014413 ATATGTGATTACGTGTAAGATCACGTCTGAGACGTTGGCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
25014456 ATATGTGATTACGTGTAAGACCACGTTTAGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * * *
25014499 ATGTGTGATTACGTGTAAGACCACGTTTGAGACATTGGCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* **
25014542 ATATGTGATTACGCGTAAGACCTTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGAC-GTTGGCATCG
* *
25014585 ATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCA
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * * *
25014628 ATATGTGATTACGTGTAAGACTATGTCTGGGACATCGGTATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *** *
25014671 -TATTTGATT-CGTGTAAGACCTTTTCTGGGATAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGA-CGTTGGCATCG
* *
25014712 ATATGTGATTACATGTAAGACTACGTCTGGGACGTTGGCAT
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
25014753 TGTACGATAT
Statistics
Matches: 246, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
41 24 0.10
42 18 0.07
43 204 0.83
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:25014643 original size:129 final size:129
Alignment explanation
Indices: 25014413--25014752 Score: 443
Period size: 129 Copynumber: 2.7 Consensus size: 129
25014403 TGTGATTCCA
* ** * *
25014413 ATATGTGATTACGTGTAAGATCACGTCTGAGAC-GTTGGCATTGATATGTGATTACGTGTAAGAC
1 ATATGTGATTACGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATGTGATTACGTGTAAGAC
* * * * * * *
25014477 CACGTTTAGGACGTTGGCATCGATGTGTGATTACGTGTAAGACCACGTTTGAGACATTGGCATTG
65 CACGTCTGGGACGTTGGCATCAATATGTGATTACGTGTAAGACCACGTCTGAGACATCGGCATCG
*
25014542 ATATGTGATTACGCGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
1 ATATGTGATTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
* * * * *
25014607 ACATCTGGGACGTTGGCATCAATATGTGATTACGTGTAAGACTATGTCTGGGACATCGGTATCG
66 ACGTCTGGGACGTTGGCATCAATATGTGATTACGTGTAAGACCACGTCTGAGACATCGGCATCG
* * * * *
25014671 -TATTTGATT-CGTGTAAGACCTTTTCTGGGATAGTGGCATCGATATGTGATTACATGTAAGACT
1 ATATGTGATTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
25014734 ACGTCTGGGACGTTGGCAT
66 ACGTCTGGGACGTTGGCAT
25014753 TGTACGATAT
Statistics
Matches: 185, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 67 0.36
128 8 0.04
129 109 0.59
130 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (129 bp):
ATATGTGATTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACGTGTAAGACC
ACGTCTGGGACGTTGGCATCAATATGTGATTACGTGTAAGACCACGTCTGAGACATCGGCATCG
Found at i:25017399 original size:23 final size:23
Alignment explanation
Indices: 25017369--25017415 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25017359 GAAATAAAAA
25017369 GGTAGCTTTAGTAAAAGTTCTTT
1 GGTAGCTTTAGTAAAAGTTCTTT
25017392 GGTAGCTTTAGTAAAAGTTCTTT
1 GGTAGCTTTAGTAAAAGTTCTTT
25017415 G
1 G
25017416 CCAACGACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (23 bp):
GGTAGCTTTAGTAAAAGTTCTTT
Found at i:25022969 original size:35 final size:35
Alignment explanation
Indices: 25022923--25022994 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
25022913 GTATGTGTTC
*
25022923 TTTTACAAGCGAATTGGGGCAAACTGTGCCTAGGT
1 TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
25022958 TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
1 TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
25022993 TT
1 TT
25022995 AGGGTAACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (35 bp):
TTTTACAAGCGAATTGGGACAAACTGTGCCTAGGT
Found at i:25024834 original size:27 final size:27
Alignment explanation
Indices: 25024795--25024934 Score: 86
Period size: 27 Copynumber: 5.2 Consensus size: 27
25024785 CCCTGTTTAG
* * *
25024795 AATA-CTTTAGTTTACCAAATTGCCAA
1 AATACCTTTGGTTTACAAAATTACCAA
** *
25024821 AATACCTTTGGTTTGTAAAATTACTAA
1 AATACCTTTGGTTTACAAAATTACCAA
* * *
25024848 AATACCCTTGGTTTATAAAATTACCCA
1 AATACCTTTGGTTTACAAAATTACCAA
* ** *
25024875 AATATCC-TTGATTTGTAAAATTACCGA
1 AATA-CCTTTGGTTTACAAAATTACCAA
* ** * **
25024902 AATACCCTCAGTTTGCAAAATTACTGA
1 AATACCTTTGGTTTACAAAATTACCAA
25024929 AATACC
1 AATACC
25024935 CTCTACTTGT
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
26 6 0.06
27 85 0.91
28 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
AATACCTTTGGTTTACAAAATTACCAA
Found at i:25024935 original size:27 final size:27
Alignment explanation
Indices: 25024831--25024964 Score: 121
Period size: 27 Copynumber: 5.0 Consensus size: 27
25024821 AATACCTTTG
** **
25024831 GTTTGTAAAATTACTAAAATACCCTTG
1 GTTTGTAAAATTACCGAAATACCCTCA
* * * *
25024858 GTTTATAAAATTACCCAAATATCCT-T
1 GTTTGTAAAATTACCGAAATACCCTCA
25024884 GATTTGTAAAATTACCGAAATACCCTCA
1 G-TTTGTAAAATTACCGAAATACCCTCA
* *
25024912 GTTTGCAAAATTACTGAAATACCCTCTA
1 GTTTGTAAAATTACCGAAATACCCTC-A
*
25024940 -CTTGTAAAATTACC-AAAGTACCCTC
1 GTTTGTAAAATTACCGAAA-TACCCTC
25024965 GATTTATAGA
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.04
27 83 0.93
28 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
GTTTGTAAAATTACCGAAATACCCTCA
Found at i:25024978 original size:54 final size:53
Alignment explanation
Indices: 25024833--25024978 Score: 143
Period size: 54 Copynumber: 2.7 Consensus size: 53
25024823 TACCTTTGGT
* * * * *
25024833 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCCAAATATCCTTGAT
1 TTGTAAAATTAC-CAAATACCCTCGATTTATAAAATTACCCAAATACCCTTGAC
** **
25024887 TTGTAAAATTACCGAAATACCCTC-AGTTTGCAAAATTACTGAAATACCCTCT-AC
1 TTGTAAAATTACC-AAATACCCTCGA-TTTATAAAATTACCCAAATACCCT-TGAC
*
25024941 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTA
1 TTGTAAAATTACCAAA-TACCCTCGATTTATAAAATTA
25024979 TCGTTTTACC
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
53 3 0.04
54 70 0.93
55 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (53 bp):
TTGTAAAATTACCAAATACCCTCGATTTATAAAATTACCCAAATACCCTTGAC
Found at i:25024988 original size:27 final size:27
Alignment explanation
Indices: 25024958--25025286 Score: 462
Period size: 27 Copynumber: 12.2 Consensus size: 27
25024948 ATTACCAAAG
*
25024958 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
25024985 TACCCTCTATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
25025012 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
25025039 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
25025066 TACCCTCGATTTACAAAAATACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
25025093 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
25025120 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
25025147 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
25025174 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
25025201 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
25025228 TACCCTTGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * **
25025255 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
25025282 TACCC
1 TACCC
25025287 CTAGGGTGTG
Statistics
Matches: 277, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 276 1.00
28 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:25025638 original size:33 final size:32
Alignment explanation
Indices: 25025589--25025652 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
25025579 CTCACTGCAA
* *
25025589 TCTGGTGGCTTTGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
25025622 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
25025653 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:25025831 original size:6 final size:6
Alignment explanation
Indices: 25025793--25025913 Score: 77
Period size: 6 Copynumber: 19.7 Consensus size: 6
25025783 TGCATTCACC
* * * *
25025793 TTCTGA TTTTGA TTCTG- TTACCTGA TACTGA TTCTGA TTCTAA TTCAG-
1 TTCTGA TTCTGA TTCTGA TT--CTGA TTCTGA TTCTGA TTCTGA TTCTGA
* * * *
25025841 TCACCTAA TTTTGA TTCTGA TTCTGA TTCTGA TTCTG- TCACCTGA TTCTGA
1 T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA
* *
25025892 TTCTGA TTCTCA TTTTGA TTCT
1 TTCTGA TTCTGA TTCTGA TTCT
25025914 AGTTTTGATA
Statistics
Matches: 86, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
5 4 0.05
6 72 0.84
7 7 0.08
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
TTCTGA
Found at i:25025831 original size:31 final size:31
Alignment explanation
Indices: 25025793--25025901 Score: 107
Period size: 31 Copynumber: 3.5 Consensus size: 31
25025783 TGCATTCACC
*
25025793 TTCTGATTTTGATTCTGTTACCTGATACTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGA
* * * * **
25025824 TTCTGATTCTAATTCAGTCACCTAATTTTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGA
25025855 TTCTGATTCTGATTCTGATT--CTG-TCACCTGA
1 TTCTGATTCTGATTCTG-TTACCTGAT-A-CTGA
25025886 TTCTGATTCTGATTCT
1 TTCTGATTCTGATTCT
25025902 CATTTTGATT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 2 0.03
31 58 0.94
32 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGA
Found at i:25025911 original size:37 final size:37
Alignment explanation
Indices: 25025793--25025913 Score: 137
Period size: 37 Copynumber: 3.4 Consensus size: 37
25025783 TGCATTCACC
* *
25025793 TTCTGATTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
* * *
25025830 TTCT-A-----ATTCAGTCACCTAATTTTGATTCTGA
1 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
*
25025861 TTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGA
1 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
*
25025898 TTCTCATTTTGATTCT
1 TTCTGATTTTGATTCT
25025914 AGTTTTGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 25 0.37
32 1 0.01
36 1 0.01
37 41 0.60
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (37 bp):
TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGA
Found at i:25028023 original size:11 final size:11
Alignment explanation
Indices: 25028007--25028031 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25027997 CTGAGAAATG
25028007 TATTCAATTTC
1 TATTCAATTTC
25028018 TATTCAATTTC
1 TATTCAATTTC
25028029 TAT
1 TAT
25028032 CTTCAAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTCAATTTC
Found at i:25031800 original size:30 final size:30
Alignment explanation
Indices: 25031766--25031826 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
25031756 TCCTTAACTC
25031766 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
25031796 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
25031826 A
1 A
25031827 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:25033697 original size:18 final size:17
Alignment explanation
Indices: 25033674--25033719 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
25033664 TAAAAAACTG
25033674 TATAAAAAATTAAATATA
1 TATAAAAAATTAAATA-A
*
25033692 TATAAATTAA-TAAATAA
1 TATAAA-AAATTAAATAA
25033709 TATAAAAAATT
1 TATAAAAAATT
25033720 TTTACATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 2 0.08
17 8 0.33
18 12 0.50
19 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAAAAATTAAATAA
Found at i:25033926 original size:24 final size:23
Alignment explanation
Indices: 25033880--25033938 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
25033870 TTATAGACTT
25033880 TTTTATATATTTTTAATTGTATA
1 TTTTATATATTTTTAATTGTATA
25033903 TGTTTATAT-TTTTATCAATT-TATA
1 T-TTTATATATTTT-T-AATTGTATA
25033927 TTTTATATATTT
1 TTTTATATATTT
25033939 GTAAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 12 0.38
24 16 0.50
25 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (23 bp):
TTTTATATATTTTTAATTGTATA
Found at i:25037757 original size:21 final size:20
Alignment explanation
Indices: 25037733--25037772 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25037723 ACTTGTTTAA
25037733 CTATCAACAACCATACAAAAT
1 CTATCAACAACCAT-CAAAAT
* *
25037754 CTATCACCAATCATCAAAA
1 CTATCAACAACCATCAAAA
25037773 CTCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Found at i:25048453 original size:21 final size:20
Alignment explanation
Indices: 25048427--25048466 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25048417 ACTTGTTTAA
25048427 CTATCAACAACCATTCAAAAT
1 CTATCAACAACCA-TCAAAAT
* *
25048448 CTATCATCAATCATCAAAA
1 CTATCAACAACCATCAAAA
25048467 CTCATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Found at i:25053412 original size:15 final size:16
Alignment explanation
Indices: 25053386--25053418 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25053376 AAATTCTTTG
*
25053386 TTTAATTTTTTTTGAA
1 TTTAATTTTTTTTAAA
25053402 TTTAA-TTTTTTTAAA
1 TTTAATTTTTTTTAAA
25053417 TT
1 TT
25053419 AAAAAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTAATTTTTTTTAAA
Found at i:25053579 original size:48 final size:47
Alignment explanation
Indices: 25053515--25053626 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 47
25053505 AGTGATAATT
25053515 TTAAATTTTCAATACTATTCGATATTATT-TTAATTTATACAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATT-TTATTAATTTATAC-AATTATAA
* * *
25053563 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATACAATTATAA
25053611 TTACAATTTCAATACT
1 TTA-AATTTCAATACT
25053627 GCTTATTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 9 0.16
48 43 0.75
49 5 0.09
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.49
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATACAATTATAA
Found at i:25058976 original size:125 final size:126
Alignment explanation
Indices: 25058753--25059095 Score: 571
Period size: 125 Copynumber: 2.7 Consensus size: 126
25058743 TTATAGCCTC
* *
25058753 ATTTTTCTACGAACTACTGTATCAAAAGAGCATCCAAGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* * ** *
25058818 ACAGTGCATCCTACTTGAAGCATTTTTTGCACTATTTGTTCAGAAACATCTACTCATAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACATCTACTCAGAATT
*
25058879 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGC-TTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* **
25058943 ATAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACATCTACTCAGAATT
*
25059004 ATTTTTCTACGAACTACTGCAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
25059069 ACAGTGCATCCTGCTTGAAGCGTTTTC
66 ACAGTGCATCCTGCTTGAAGCGTTTTC
25059096 TGAAACTATG
Statistics
Matches: 202, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 115 0.57
126 87 0.43
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACATCTACTCAGAATT
Found at i:25060093 original size:21 final size:21
Alignment explanation
Indices: 25060034--25060080 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25060024 TTGAGAGAAA
* * *
25060034 ATAAAAATATATAAAATTATC
1 ATAAAAATAAACAATATTATC
25060055 ATAAAAATAAACAATATTATC
1 ATAAAAATAAACAATATTATC
25060076 ATAAA
1 ATAAA
25060081 TGTAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAAATAAACAATATTATC
Found at i:25061031 original size:12 final size:13
Alignment explanation
Indices: 25061008--25061032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25060998 AAACTGCGTG
25061008 TTAGCAAAAAAAT
1 TTAGCAAAAAAAT
25061021 TTAGCAAAAAAA
1 TTAGCAAAAAAA
25061033 AATTTAACAA
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:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
TTAGCAAAAAAAT
Found at i:25065679 original size:43 final size:43
Alignment explanation
Indices: 25065616--25065697 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
25065606 CATGAATTGA
* * *
25065616 ATCCATTATGAACTCAGACCTCTCCACGAGCTCGGATGCTCGC
1 ATCCATAATGAACTCAGACCTCTCAACGAGATCGGATGCTCGC
*
25065659 ATCCATAATGAACTCGGACCTCTCAACGAGATCGGATGC
1 ATCCATAATGAACTCAGACCTCTCAACGAGATCGGATGC
25065698 CACATATCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.22
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCTCTCAACGAGATCGGATGCTCGC
Found at i:25071398 original size:64 final size:64
Alignment explanation
Indices: 25071318--25071501 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
25071308 AGACATTATG
* *
25071318 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
25071382 ATGTAGCTAGGTCGCATACGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
25071447 AA
63 AA
* * *
25071449 ACTG--GCTAGGTCACATGGGTGATACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
25071502 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:25077656 original size:39 final size:40
Alignment explanation
Indices: 25077548--25077728 Score: 201
Period size: 40 Copynumber: 4.5 Consensus size: 40
25077538 TCGAATGATG
* *
25077548 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
25077587 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGGTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25077628 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
25077667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25077706 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCA
25077729 CTTGAACGAG
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.29
40 75 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:25077686 original size:79 final size:81
Alignment explanation
Indices: 25077548--25077728 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
25077538 TCGAATGATG
* * *
25077548 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACCATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25077612 TGTGCGAGGTACTA-A
66 TGTGCGAGGTACTATA
* * **
25077627 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
25077689 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGGTACTATA
* *
25077707 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
25077729 CTTGAACGAG
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 58 0.67
80 28 0.32
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGGTACTATA
Found at i:25077754 original size:79 final size:79
Alignment explanation
Indices: 25077603--25077765 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 79
25077593 ACTAAGATCT
* **
25077603 GAAGGCATTTGTGCGAGGTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
*
25077668 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
25077682 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCACTT-GAACGAG-TAGCT
1 GAAGGCATTTGTGCGAGGTACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTGGAACGAGTTA-CT
* *
25077744 ATATCC-GGTTAAATTCC
62 AAATCCGGGTTAAATCCC
25077761 GAAGG
1 GAAGG
25077766 TACGTGATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 22 0.31
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:25094066 original size:16 final size:16
Alignment explanation
Indices: 25094042--25094075 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25094032 ATCGGGTTAT
25094042 AACTATGCATTTCAAA
1 AACTATGCATTTCAAA
*
25094058 AACTGTGCATTTCAAA
1 AACTATGCATTTCAAA
25094074 AA
1 AA
25094076 TAACATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (16 bp):
AACTATGCATTTCAAA
Found at i:25098089 original size:17 final size:17
Alignment explanation
Indices: 25098064--25098111 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
25098054 CGAAAGGGGC
*
25098064 CATATGGGCCCAATGGG
1 CATACGGGCCCAATGGG
25098081 CATACGGGCCCAATGGG
1 CATACGGGCCCAATGGG
25098098 CATACGGGCCCAAT
1 CATACGGGCCCAAT
25098112 TGGATAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (17 bp):
CATACGGGCCCAATGGG
Found at i:25098313 original size:27 final size:26
Alignment explanation
Indices: 25098283--25098595 Score: 293
Period size: 27 Copynumber: 11.6 Consensus size: 26
25098273 TTAGTTTACC
25098283 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
* *
25098310 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
25098337 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* **
25098364 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
25098391 AAATTACCAAAATACCCTTGTTTCGTA
1 AAATTACCAAAATACCCTGGTTT-GTA
* * *
25098418 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
25098445 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* * *
25098472 AAATTATCAAAATACCTTTAGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
** *
25098499 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATA-CCCTGGTTTGTA
** ***
25098526 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
*** **
25098553 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
25098580 AAATTACCAAAATACC
1 AAATTACCAAAATACC
25098596 ATTGATTTAC
Statistics
Matches: 242, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.06
27 213 0.88
28 14 0.06
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGGTTTGTA
Found at i:25098348 original size:54 final size:53
Alignment explanation
Indices: 25098273--25098543 Score: 355
Period size: 54 Copynumber: 5.0 Consensus size: 53
25098263 TTAGAATACT
**
25098273 TTAGTTTACCAAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACC-CTGGTTTGTAAAATTACTAAAATACCC
* * *
25098327 TTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCC
* *
25098381 TTAGTTTACAAAATTACCAAAATACCCTTGTTTCGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCTGGTTT-GTAAAATTACTAAAATACCC
* *
25098435 TTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCT
1 TTAGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACT-AAAATACCC
* ** * *
25098489 TTAGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCC
25098543 T
1 T
25098544 CGACCTGTAA
Statistics
Matches: 190, Mismatches: 22, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
53 9 0.05
54 170 0.89
55 11 0.06
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (53 bp):
TTAGTTTATAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCC
Found at i:25098462 original size:108 final size:107
Alignment explanation
Indices: 25098273--25098543 Score: 407
Period size: 108 Copynumber: 2.5 Consensus size: 107
25098263 TTAGAATACT
* *
25098273 TTAGTTTACCAAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACC-CTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
25098338 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
65 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* *
25098381 TTAGTTTACAAAATTACCAAAATACCCTTGTTTCGTAAAATTACTAAAATACCCTTTGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCTAGTTT-GTAAAATTACTAAAATACCCTTGGTTTATAA
* * *
25098446 AATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCT
65 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
** * * *
25098489 TTAGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTACTGAAATACCCT
1 TTAGTTTACAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACTAAAATACCCT
25098544 CGACCTGTAA
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
107 6 0.04
108 136 0.91
109 7 0.05
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (107 bp):
TTAGTTTACAAAATTACCAAAATACCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAA
ATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
Found at i:25098555 original size:108 final size:106
Alignment explanation
Indices: 25098273--25098614 Score: 400
Period size: 108 Copynumber: 3.2 Consensus size: 106
25098263 TTAGAATACT
* *
25098273 TTAGTTTACCAAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACC-CTAGTTTGTAAAATTACTAAAATACCCTT-GTTTATAA
*
25098338 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
64 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
*
25098381 TTAGTTTACAAAATTACCAAAATACCCTTGTTTCGTAAAATTACTAAAATACCCTTTGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCTAGTTT-GTAAAATTACTAAAATACCC-TTGTTTATAA
* *
25098446 AATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCT
64 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
** * * * * ** *
25098489 TTAGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTAA
1 TTAGTTTACAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACTAAAATACCCTTG-TTTATAA
*** ** *
25098554 AATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAATACCA
64 AATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCC
*
25098597 TT-GATTTACAGAATTACC
1 TTAG-TTTACAAAATTACC
25098615 GTTTTACCCT
Statistics
Matches: 203, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
107 13 0.06
108 181 0.89
109 9 0.04
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (106 bp):
TTAGTTTACAAAATTACCAAAATACCCTAGTTTGTAAAATTACTAAAATACCCTTGTTTATAAAA
TTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
Found at i:25098665 original size:27 final size:27
Alignment explanation
Indices: 25098654--25099027 Score: 514
Period size: 27 Copynumber: 13.9 Consensus size: 27
25098644 AACAACCCAA
**
25098654 TAGGGTAGAATTACTAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
25098681 TAGGGCAGAATTACCGAAATACCCTTA
1 TAGGGTAGAATTACCGAAATACCCCTG
25098708 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
25098735 TAGGTTAGAATTACCGCAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
25098762 TAGGGTAGAATTATCGCAATACCTCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
25098789 TAGGGTAGAATTACCGCAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
25098816 TAGGGTAGAATTACCAAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
25098843 TAGGGTAGAATTACCGGAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
25098870 TAGGGTAGAATTACCGGAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
25098897 TAGGGTAGAATTACCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
25098924 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * * *
25098951 TAGGGTAGAATTATCGCAATGCCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
** *
25098978 TAGGGTAGAATTACTAAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
* ** *
25099005 TATGGCGGAATTACCGAGATACC
1 TAGGGTAGAATTACCGAAATACC
25099028 TTGTGGGGTA
Statistics
Matches: 310, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 310 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTG
Found at i:25099475 original size:27 final size:27
Alignment explanation
Indices: 25099435--25099486 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25099425 GCCATCTTGA
*
25099435 CTATGGCTTCGTGCCAAACGTATTTAC
1 CTATGGCTTCGTGCCAAACATATTTAC
*
25099462 CTATGGCTAT-GTGCCTAACATATTT
1 CTATGGCT-TCGTGCCAAACATATTT
25099487 TTTCATGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (27 bp):
CTATGGCTTCGTGCCAAACATATTTAC
Found at i:25099847 original size:6 final size:6
Alignment explanation
Indices: 25099816--25099903 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
25099806 TTGCATTCCC
* *
25099816 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
25099865 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
25099904 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:25099854 original size:31 final size:31
Alignment explanation
Indices: 25099816--25099894 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
25099806 TTGCATTCCC
*
25099816 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
25099847 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
25099878 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
25099895 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:25104183 original size:44 final size:44
Alignment explanation
Indices: 25104135--25104271 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 44
25104125 ATGTACTAAT
* * *
25104135 ATATATGTTCGCATATTCCAACGTATAGGCTCGCATAATTAAAC
1 ATATATGTTCACATATTCCAACGTATAAGATCGCATAATTAAAC
* * * * * *
25104179 ATATATTTTCAAAAATTCTAACATATAAGATCGCATAATTGAAC
1 ATATATGTTCACATATTCCAACGTATAAGATCGCATAATTAAAC
* * * *
25104223 ATATAGGGTCACATATTCTC-GCGTATAAGATCGAATAATTAAAC
1 ATATATGTTCACATATTC-CAACGTATAAGATCGCATAATTAAAC
25104267 ATATA
1 ATATA
25104272 GGCTTACATA
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (44 bp):
ATATATGTTCACATATTCCAACGTATAAGATCGCATAATTAAAC
Found at i:25106808 original size:13 final size:13
Alignment explanation
Indices: 25106787--25106820 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
25106777 TCTTTGATTT
25106787 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
25106801 GTTATTTATTTTA
1 ATTATTTATTTTA
25106814 ATTATTT
1 ATTATTT
25106821 TATCTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:25112335 original size:44 final size:44
Alignment explanation
Indices: 25112285--25112379 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 44
25112275 TCGTATATAC
* * * *
25112285 AAACATATATCTTCGCATATTCCAAAATATAGGCTCACGTAATT
1 AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
* * * * *
25112329 AAACATATATTTTCACAAATTCTAATATATAATCTCGCATAATT
1 AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
25112373 AAACATA
1 AAACATA
25112380 CTTGCTTGCA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (44 bp):
AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
Found at i:25112475 original size:21 final size:22
Alignment explanation
Indices: 25112434--25112475 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
25112424 GTTTTAGGTT
*
25112434 TCACATGTGTTTTGTATAGGGA
1 TCACATGTGTTTTCTATAGGGA
25112456 TCACATG-GTTTTACTA-AGGG
1 TCACATGTGTTTT-CTATAGGG
25112476 TTCCCATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (22 bp):
TCACATGTGTTTTCTATAGGGA
Found at i:25116170 original size:40 final size:40
Alignment explanation
Indices: 25116111--25116218 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
25116101 CTACGAAAAA
* *
25116111 TCAGCTATTTGTGGAACTTAGTGTGCGATTCGATATAGCT
1 TCAGCTATATATGGAACTTAGTGTGCGATTCGATATAGCT
* *
25116151 TCAGCTATATATGGTACTTA-TGGTGCGATTTGATATAGCT
1 TCAGCTATATATGGAACTTAGT-GTGCGATTCGATATAGCT
* *
25116191 TCAGCTATGA-ACGGCACTTAGTGTGCGA
1 TCAGCTAT-ATATGGAACTTAGTGTGCGA
25116219 GGTATCAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 56 0.95
41 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (40 bp):
TCAGCTATATATGGAACTTAGTGTGCGATTCGATATAGCT
Found at i:25116281 original size:28 final size:28
Alignment explanation
Indices: 25116203--25116286 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
25116193 AGCTATGAAC
** *
25116203 GGCACTTAGTGTGCGAGGTATCAAGTGT
1 GGCACTTAGTGTGCGAGGTATTGAGTAT
* *
25116231 GGCACTTAGTGTGCAAGATATTGAGTAT
1 GGCACTTAGTGTGCGAGGTATTGAGTAT
*
25116259 GGCACTTAGTGTGCGAGGCATTGAGTAT
1 GGCACTTAGTGTGCGAGGTATTGAGTAT
25116287 TCAACGACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGGTATTGAGTAT
Found at i:25120056 original size:55 final size:55
Alignment explanation
Indices: 25119972--25120081 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
25119962 ATTTCATGGT
25119972 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
1 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
25120027 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
1 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
25120082 GCCATTCCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (55 bp):
TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
Found at i:25121028 original size:40 final size:41
Alignment explanation
Indices: 25120939--25121088 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
25120929 CGCTGACTCA
* *
25120939 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
25120980 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
25121020 AAAAGCCCTTTGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* *
25121061 AAAAGCCGTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
25121089 TAAACCCCAA
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 31 0.34
41 59 0.66
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:25127740 original size:55 final size:55
Alignment explanation
Indices: 25127656--25127761 Score: 194
Period size: 55 Copynumber: 1.9 Consensus size: 55
25127646 CATGGTTTCT
*
25127656 ATGGATTACCTAGTAATTTGACATACATAGGACCAAATATTATCATAATTATTCC
1 ATGGATTACCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTATTCC
*
25127711 ATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
1 ATGGATTACCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
25127762 GCCATTCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (55 bp):
ATGGATTACCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTATTCC
Found at i:25128708 original size:40 final size:41
Alignment explanation
Indices: 25128619--25128768 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
25128609 CGCTGACTCA
* *
25128619 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
* * * * * *
25128660 GAAGGCCCTTCGAAACTAGGTTCAG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
*
25128700 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
25128741 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCAGATT
25128769 TAAACCCCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
Found at i:25135060 original size:28 final size:28
Alignment explanation
Indices: 25134979--25135049 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
25134969 CTATGAACGA
*
25134979 CACTTAGTGTGCGAGATATTGAGTGTGG
1 CACTTAGTGTGCGAGATATTGAGTATGG
* *
25135007 CACTTAGTGTACGAGATATCGAGTATGG
1 CACTTAGTGTGCGAGATATTGAGTATGG
25135035 CACTTAGTGTGCGAG
1 CACTTAGTGTGCGAG
25135050 GCATTAAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATTGAGTATGG
Found at i:25154039 original size:26 final size:26
Alignment explanation
Indices: 25153999--25154057 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
25153989 AAATACATCG
25153999 AATTA-TTTTTATATTGGATAAATAT
1 AATTATTTTTTATATTGGATAAATAT
* *
25154024 AATTATTTTTTATATTGTATAGATAT
1 AATTATTTTTTATATTGGATAAATAT
25154050 AATTATTT
1 AATTATTT
25154058 CTATTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (26 bp):
AATTATTTTTTATATTGGATAAATAT
Found at i:25155625 original size:11 final size:11
Alignment explanation
Indices: 25155604--25155660 Score: 55
Period size: 10 Copynumber: 5.3 Consensus size: 11
25155594 CATGTTTTTT
25155604 AAATAATTATAA
1 AAAT-ATTATAA
25155616 AAATATTAT-A
1 AAATATTATAA
**
25155626 AAATATTATTT
1 AAATATTATAA
* *
25155637 AAATTTTATTA
1 AAATATTATAA
25155648 AAA-ATTATAA
1 AAATATTATAA
25155658 AAA
1 AAA
25155661 ATAATATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
10 18 0.46
11 17 0.44
12 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATTATAA
Found at i:25155627 original size:21 final size:21
Alignment explanation
Indices: 25155602--25155660 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
25155592 GACATGTTTT
25155602 TTAAATAATTATAAAAATATTA
1 TTAAA-AATTATAAAAATATTA
** *
25155624 -TAAAATATTATTTAAATTTTA
1 TTAAAA-ATTATAAAAATATTA
25155645 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
25155661 ATAATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATTATAAAAATATTA
Found at i:25155628 original size:10 final size:10
Alignment explanation
Indices: 25155604--25155659 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
25155594 CATGTTTTTT
25155604 AAATAATTATAA
1 AAAT-ATTAT-A
25155616 AAATATTATA
1 AAATATTATA
*
25155626 AAATATTATTT
1 AAATATTA-TA
*
25155637 AAATTTTATTA
1 AAATATTA-TA
25155648 AAA-ATTATA
1 AAATATTATA
25155657 AAA
1 AAA
25155660 AATAATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 5 0.13
10 12 0.31
11 18 0.46
12 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATATTATA
Found at i:25155687 original size:35 final size:36
Alignment explanation
Indices: 25155627--25155699 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 36
25155617 AATATTATAA
25155627 AATATTATTTAAATTTTATTAAAAATTATAAAAAAT
1 AATATTATTTAAATTTTATTAAAAATTATAAAAAAT
* **
25155663 AATATTTTTTAAA-TTTATTAAAAATTATTTAAAAT
1 AATATTATTTAAATTTTATTAAAAATTATAAAAAAT
25155698 AA
1 AA
25155700 CTTCCAGAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
AATATTATTTAAATTTTATTAAAAATTATAAAAAAT
Found at i:25170986 original size:37 final size:37
Alignment explanation
Indices: 25170925--25171070 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
25170915 AGCTCAGACG
* *
25170925 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25170962 AAATCTCCACACGTAGTCACCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
25170999 TACTCTCCATACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
25171036 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25171071 ATATATTTCC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25171352 original size:47 final size:47
Alignment explanation
Indices: 25171273--25171560 Score: 432
Period size: 47 Copynumber: 6.1 Consensus size: 47
25171263 TATATATATT
* * * *
25171273 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
25171320 CCACCTTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
25171367 TCACATTGGTCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
25171414 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
25171461 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
25171508 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25171555 TCACAT
1 TCACAT
25171561 AAAATCCTAA
Statistics
Matches: 216, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:25171480 original size:141 final size:141
Alignment explanation
Indices: 25171273--25171561 Score: 488
Period size: 141 Copynumber: 2.0 Consensus size: 141
25171263 TATATATATT
* * *
25171273 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACCTTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* * * *
25171338 CTTATCACACATATGCATGTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
25171403 GTTCACATTCA
131 ATTCACATTCA
* *
25171414 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
25171479 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
25171544 ATTCACATTCA
131 ATTCACATTCA
25171555 TCACATA
1 TCACATA
25171562 AAATCCTAAA
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 138 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (141 bp):
TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
ATTCACATTCA
Found at i:25176873 original size:39 final size:39
Alignment explanation
Indices: 25176788--25177042 Score: 404
Period size: 39 Copynumber: 6.5 Consensus size: 39
25176778 ACATAGCATA
* * * *
25176788 CGGGACTTTAAGCCCGGATGTAATACCACCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
25176828 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
25176867 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25176906 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
25176945 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
25176984 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
25177023 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
25177043 TATCTCACAC
Statistics
Matches: 201, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
38 19 0.09
39 177 0.88
40 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:25176918 original size:78 final size:78
Alignment explanation
Indices: 25176788--25177075 Score: 413
Period size: 78 Copynumber: 3.7 Consensus size: 78
25176778 ACATAGCATA
* * * *
25176788 CGGGACTTTAAGCCCGGATGTAATACCACCAC-AAAGCCTTCAGGACTTAGCCCGGATATAACAC
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACAC
25176852 CAGCACGAATGCCTT
64 CAGCACGAATGCCTT
* *
25176867 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
25176932 GCACGAATGCCTT
66 GCACGAATGCCTT
*
25176945 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAACACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
25177010 GCACGAATGCCTT
66 GCACGAATGCCTT
* * * *
25177023 CGGGAATTAGCCCGGATAT-ATATCTCA-CAC-AAGGCCTGCGGGTCTTAGCCCGG
1 CGGGACTTAGCCCGGATATAATA-C-CAGCACGAATGCCTTCGGGACTTAGCCCGG
25177076 TTAAAATCCT
Statistics
Matches: 192, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
77 40 0.21
78 144 0.75
79 8 0.04
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
GCACGAATGCCTT
Found at i:25183418 original size:39 final size:39
Alignment explanation
Indices: 25183202--25183406 Score: 279
Period size: 39 Copynumber: 5.3 Consensus size: 39
25183192 CAGGACTTTA
* * *
25183202 AGCCCGAATATAATACCAGCACAAA-GCCGTC-GGACTT
1 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTT
* *
25183239 AGCCTGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTT
* * *
25183278 AGCCCGGGTATAACACCAGCACGAATGCCTTTGGGACTT
1 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTT
* *
25183317 AGCTCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTT
* * *
25183356 AGCTCAGATATAACACCAGCACAAATGCCTTCGGGAATT
1 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTT
25183395 AGCCCGGATATA
1 AGCCCGGATATA
25183407 TATCTCACAC
Statistics
Matches: 150, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
37 21 0.14
38 5 0.03
39 124 0.83
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTT
Found at i:25184608 original size:37 final size:37
Alignment explanation
Indices: 25184544--25184648 Score: 174
Period size: 37 Copynumber: 2.8 Consensus size: 37
25184534 AGCTCAGACG
* *
25184544 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25184581 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25184618 TAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
25184649 AGGAATATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25184948 original size:38 final size:38
Alignment explanation
Indices: 25184906--25184996 Score: 92
Period size: 46 Copynumber: 2.2 Consensus size: 38
25184896 TTCATATTCA
25184906 TCACATTGGCCATTCGGCCTTATCACACATATGCATGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGC
* *
25184944 TCACATTCATCACATGGCCATTCGGCCTTATCACATATATGCATGT
1 T--CA--CAT----TGGCCATTCGGCCTTATCACACATATGCATGC
25184990 TCACATT
1 TCACATT
25184997 CATCACATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
38 2 0.05
40 2 0.05
42 6 0.14
44 2 0.05
46 31 0.72
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (38 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGC
Found at i:25184977 original size:46 final size:47
Alignment explanation
Indices: 25184859--25185050 Score: 287
Period size: 47 Copynumber: 4.1 Consensus size: 47
25184849 CATACATATT
* * * *
25184859 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
25184906 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25184953 TCACA-TGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
25184999 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25185046 TCACA
1 TCACA
25185051 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 44 0.33
47 88 0.67
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:25184979 original size:93 final size:93
Alignment explanation
Indices: 25184867--25185050 Score: 287
Period size: 93 Copynumber: 2.0 Consensus size: 93
25184857 TTTCACATTA
* *
25184867 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* **
25184932 ACATATGCATGCTCACATTCATCACATG
66 ACATATACACACTCACATTCATCACATG
* *
25184960 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
1 GCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* *
25185025 ATATATACACATTCACATTCATCACA
66 ACATATACACACTCACATTCATCACA
25185051 AAAATCCTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (93 bp):
GCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
ACATATACACACTCACATTCATCACATG
Found at i:25189105 original size:40 final size:40
Alignment explanation
Indices: 25189072--25189499 Score: 693
Period size: 40 Copynumber: 10.8 Consensus size: 40
25189062 CCAGCATGAT
* * *
25189072 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
25189112 TGCTCTTCGGG-TTTAGCACGAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25189151 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25189190 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25189230 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25189270 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-AA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25189309 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25189349 TGCTCTTCGGGACTTAGCTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25189389 TGCTCTTCGGGACTTAGCCCGGATATATCACTAACACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25189429 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25189469 TGCTCTTC-GGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
25189500 CTCAATTCTC
Statistics
Matches: 363, Mismatches: 22, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
39 128 0.35
40 235 0.65
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25189286 original size:119 final size:119
Alignment explanation
Indices: 25189072--25189499 Score: 691
Period size: 119 Copynumber: 3.6 Consensus size: 119
25189062 CCAGCATGAT
* * * * * * *
25189072 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG-TTTAGCACGAATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
25189136 TATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-AA
*
25189190 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
25189255 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAA
*
25189309 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCTCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
25189374 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAACACAAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-AA
*
25189429 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
25189493 TATCACT
66 TATCACT
25189500 CTCAATTCTC
Statistics
Matches: 290, Mismatches: 17, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
118 46 0.16
119 177 0.61
120 67 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAA
Found at i:25189373 original size:159 final size:160
Alignment explanation
Indices: 25189072--25189499 Score: 722
Period size: 159 Copynumber: 2.7 Consensus size: 160
25189062 CCAGCATGAT
* * * * * *
25189072 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG-TTTAGCACGAATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
25189136 TATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGG
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
25189200 GACTTAGTCCGGATACATCACTAGCACGAA
131 GACTTAGTCCGGATACATCACTAGCACGAA
25189230 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
25189295 TATCACTAGCAC-AATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
25189359 GACTTAG-CTCGGATACATCACTAGCACGAA
131 GACTTAGTC-CGGATACATCACTAGCACGAA
* *
25189389 TGCTCTTCGGGACTTAGCCCGGATATATCACTAACACAAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
25189454 TATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATATATCACT
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
25189500 CTCAATTCTC
Statistics
Matches: 256, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
158 67 0.26
159 179 0.70
160 10 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (160 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
GACTTAGTCCGGATACATCACTAGCACGAA
Found at i:25189406 original size:23 final size:23
Alignment explanation
Indices: 25189340--25189406 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
25189330 GATACATCAC
25189340 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
25189363 TAGCTCGGAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
25189380 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
25189403 TAGC
1 TAGC
25189407 CCGGATATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 12 0.40
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:25190828 original size:37 final size:37
Alignment explanation
Indices: 25190769--25190877 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
25190759 AGCTCAGACG
* *
25190769 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25190806 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25190843 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25190878 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25191136 original size:47 final size:47
Alignment explanation
Indices: 25191084--25191277 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
25191074 CATACATATT
* * * * *
25191084 TCACATTAGCCATTTGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
25191131 TCACATTGGCCATTCGGCCTTATCACACATCTGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25191178 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
25191225 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
25191272 TCACAT
1 TCACAT
25191278 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:25191156 original size:22 final size:22
Alignment explanation
Indices: 25191130--25191248 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
25191120 GTTCATATTC
25191130 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
25191152 ATCACACATCT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
25191176 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
25191199 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
25191223 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25191246 ATC
1 ATC
25191249 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25207118 original size:36 final size:36
Alignment explanation
Indices: 25207076--25207162 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
25207066 GGGGGTAAAG
25207076 TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
1 TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
*
25207112 TTGTAACACCCCAAATTTTAAATAATTATTTTTTTA
1 TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
25207148 TTGTAACACCCCAAA
1 TTGTAACACCCCAAA
25207163 CTCGGCCTGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (36 bp):
TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
Found at i:25214183 original size:49 final size:49
Alignment explanation
Indices: 25214127--25214684 Score: 893
Period size: 49 Copynumber: 11.6 Consensus size: 49
25214117 TATTTGAATA
25214127 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214176 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214225 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214274 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214323 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214370 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214419 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214468 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
25214517 AATGTCAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214564 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * * *
25214611 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
25214658 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
25214685 TCCCGAAGGG
Statistics
Matches: 485, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
47 184 0.38
48 1 0.00
49 300 0.62
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:25214458 original size:194 final size:194
Alignment explanation
Indices: 25214127--25214684 Score: 939
Period size: 194 Copynumber: 2.9 Consensus size: 194
25214117 TATTTGAATA
25214127 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
25214192 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
25214257 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
129 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
25214322 G
194 G
*
25214323 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
25214388 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
25214453 ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
25214517 AATGTCAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * * *
25214580 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
* * *
25214643 GTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
131 ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
25214685 TCCCGAAGGG
Statistics
Matches: 348, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 46 0.13
192 45 0.13
194 234 0.67
196 12 0.03
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (194 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:25220414 original size:25 final size:26
Alignment explanation
Indices: 25220386--25220442 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
25220376 AACATGTCAT
*
25220386 GTCATAATA-TCATAGGGGTATATCA
1 GTCATAATACTCATAGGGGTATACCA
** *
25220411 GTCATTTTACCTCGTAGGGGTATACCA
1 GTCATAATA-CTCATAGGGGTATACCA
25220438 GTCAT
1 GTCAT
25220443 TTCATCAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
27 19 0.73
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (26 bp):
GTCATAATACTCATAGGGGTATACCA
Found at i:25224540 original size:20 final size:20
Alignment explanation
Indices: 25224515--25224583 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
25224505 AATCGAGGTC
* *
25224515 ATCAATGCACTATCAAGGCT
1 ATCAATGCACTGTCGAGGCT
*
25224535 ATCAATGCACTGTCGAGGCC
1 ATCAATGCACTGTCGAGGCT
*
25224555 ATGAATGCACTGTCGAGGCT
1 ATCAATGCACTGTCGAGGCT
25224575 ATCAATGCA
1 ATCAATGCA
25224584 TTTTCTCAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCAATGCACTGTCGAGGCT
Found at i:25224562 original size:40 final size:40
Alignment explanation
Indices: 25224507--25224583 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
25224497 GCTCCCCGAA
*
25224507 TCGAGGTCATCAATGCACTATCAAGGCTATCAATGCACTG
1 TCGAGGCCATCAATGCACTATCAAGGCTATCAATGCACTG
* * *
25224547 TCGAGGCCATGAATGCACTGTCGAGGCTATCAATGCA
1 TCGAGGCCATCAATGCACTATCAAGGCTATCAATGCA
25224584 TTTTCTCAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
TCGAGGCCATCAATGCACTATCAAGGCTATCAATGCACTG
Found at i:25225893 original size:23 final size:23
Alignment explanation
Indices: 25225863--25225934 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
25225853 TACATAAAAT
*
25225863 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
25225886 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
25225909 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
25225932 TTA
1 TTA
25225935 CATCATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:25225951 original size:35 final size:31
Alignment explanation
Indices: 25225874--25225956 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 31
25225864 TATTATACTA
*
25225874 TTTTA-TATTTTATTATTATATTATTTTACAC
1 TTTTATTATGTTATT-TTATATTATTTTACAC
*
25225905 TTTAATATATGTTATTTTATATTATTATTACATC
1 TTTTAT-TATGTTATTTTATATTATT-TTACA-C
25225939 ATATTTATTATG-TATTTT
1 -T-TTTATTATGTTATTTT
25225957 TGTATATCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
31 4 0.09
32 10 0.23
33 13 0.30
34 7 0.16
35 5 0.12
36 4 0.09
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTTATTATGTTATTTTATATTATTTTACAC
Found at i:25232568 original size:100 final size:101
Alignment explanation
Indices: 25232371--25232570 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 101
25232361 CACTTGTAGC
* * * * *
25232371 CGAAGCTATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACACGTGGCCTACCCATCTGATA
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCGACCCATCTGATA
* *
25232436 CTCATAGTAGCCTGCACTTAGTACTACACACGTGAT
66 CACATAGTAGCCTACACTTAGTACTACACACGTGAT
* * * ** *
25232472 CGAAGTTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCGA-TTATCTGGTA
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCGACCCATCTGATA
*
25232536 CACGTAGTAGCCTACACTTAGTACTACACACGTGA
66 CACATAGTAGCCTACACTTAGTACTACACACGTGA
25232571 CCTCACAATA
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 39 0.46
101 46 0.54
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (101 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCGACCCATCTGATA
CACATAGTAGCCTACACTTAGTACTACACACGTGAT
Found at i:25234611 original size:50 final size:50
Alignment explanation
Indices: 25234536--25234635 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
25234526 TTACAAGCCA
25234536 ATTTTGCTCATCTTCTTCAACATGGACGTGTATACCAAGGGAGACTCCAT
1 ATTTTGCTCATCTTCTTCAACATGGACGTGTATACCAAGGGAGACTCCAT
25234586 ATTTTGCTCATCTTCTTCAACATGGACGTGTATACCAAGGGAGACTCCAT
1 ATTTTGCTCATCTTCTTCAACATGGACGTGTATACCAAGGGAGACTCCAT
25234636 GGCTAGGGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (50 bp):
ATTTTGCTCATCTTCTTCAACATGGACGTGTATACCAAGGGAGACTCCAT
Found at i:25238513 original size:49 final size:49
Alignment explanation
Indices: 25238436--25238669 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 49
25238426 TAGCCGAAGC
* *
25238436 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
25238485 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGGCCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * *
25238535 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * *
25238586 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCGAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
25238635 TATCTGGTACATGTAGTAGCCTACACTTAGTACTA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTA
25238670 TACACGTGAC
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 72 0.46
50 45 0.29
51 38 0.25
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:25238619 original size:101 final size:98
Alignment explanation
Indices: 25238449--25238680 Score: 302
Period size: 100 Copynumber: 2.3 Consensus size: 98
25238439 CTGGTACGCA
* * * *
25238449 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
25238514 GTACTACACATGTGGCCTAACCATCTGATACACG
66 GTACTACACATGCGACC-AACCATCTGATACACG
* *
25238548 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** * *
25238613 TAGTACTACACATGCGACCGATTATCTGGTACATG
64 TAGTACTACACATGCGACCAACCATCTGATACACG
* *
25238648 TAGTAGCCTACACTTAGTACTATACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
25238681 TCACAATAGC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 30 0.26
100 43 0.37
101 42 0.37
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCAACCATCTGATACACG
Found at i:25239362 original size:30 final size:30
Alignment explanation
Indices: 25239328--25239388 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
25239318 CTTTAATATG
*
25239328 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGACAAAATTACAC-TTTTGCCCCTA
* *
25239358 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
25239388 A
1 A
25239389 GCTCAGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:25247464 original size:206 final size:205
Alignment explanation
Indices: 25247006--25247552 Score: 871
Period size: 206 Copynumber: 2.7 Consensus size: 205
25246996 GGCTGAGGCA
25247006 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
25247071 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * ** * ** *
25247136 ACAAAGTTTGGTGTCTCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTCAGATGTTT
131 TCGAAGTTTGGCGTCTCATATTCGACAGAGAGCAAACACATAGCAGATCTAACCTTCAGATGCTT
*
25247201 ATACTGAAGC
196 AGACTGAAGC
* * *
25247211 AGGTCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAAAAATCGAAGGCATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
25247276 TTTCACGTGCTTACGATGAAGCAAATTTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
*
25247341 TCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAAACACATAGCAGATCTAACCTTCAGATGCT
131 TCGAAGTTTGGCGTCT-CATATTCGACAGAGAGCAAACACATAGCAGATCTAACCTTCAGATGCT
25247406 TAGACTGAAGC
195 TAGACTGAAGC
* * *
25247417 AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGT
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
** *
25247482 TTTCGTGTGCTTAC-ACTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
66 TTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
25247546 ATCGAAG
130 ATCGAAG
25247553 AAGAAGATGT
Statistics
Matches: 314, Mismatches: 26, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
205 139 0.44
206 175 0.56
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (205 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTTTGGCGTCTCATATTCGACAGAGAGCAAACACATAGCAGATCTAACCTTCAGATGCTT
AGACTGAAGC
Found at i:25247572 original size:43 final size:44
Alignment explanation
Indices: 25247510--25247597 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
25247500 AAGTAAATCT
* * *
25247510 AAGATGATTTGGCATCTCTGTATT-GTCAGAGAACAAATCGAAG
1 AAGAAGATGTGGCATCTCTGTATTCGACAGAGAACAAATCGAAG
* * * *
25247553 AAGAAGATGTGGCGTCTCTGTGTTCGACAGAGAGCAGATCGAAG
1 AAGAAGATGTGGCATCTCTGTATTCGACAGAGAACAAATCGAAG
25247597 A
1 A
25247598 TATCAACATG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 20 0.54
44 17 0.46
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (44 bp):
AAGAAGATGTGGCATCTCTGTATTCGACAGAGAACAAATCGAAG
Found at i:25248114 original size:20 final size:20
Alignment explanation
Indices: 25248089--25248142 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
25248079 CCCCGAATCG
25248089 AGGCCATCAATGCACTGTCA
1 AGGCCATCAATGCACTGTCA
* *
25248109 AGGCCATCAATTCACTGTCG
1 AGGCCATCAATGCACTGTCA
25248129 AGGCCATCAATGCA
1 AGGCCATCAATGCA
25248143 TTTTCTCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (20 bp):
AGGCCATCAATGCACTGTCA
Found at i:25249397 original size:5 final size:5
Alignment explanation
Indices: 25249381--25249498 Score: 55
Period size: 5 Copynumber: 23.6 Consensus size: 5
25249371 ATTATTTACC
* * * * *
25249381 TATAT CTATAT TATAT TTTAT TACAT GATAT T-TAT TATAC TATTT TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * * *
25249431 TTTA- T-TAT TATAT TATTT TACACT TAAAT ATATGT TATTT TATAT TATTAT
1 TATAT TATAT TATAT TATAT TATA-T TATAT -TATAT TATAT TATAT TA-TAT
* *
25249482 TACAT CATAT T-TAT TAT
1 TATAT TATAT TATAT TAT
25249499 GTATTTTCGT
Statistics
Matches: 82, Mismatches: 23, Indels: 15
0.68 0.19 0.12
Matches are distributed among these distances:
3 2 0.02
4 10 0.12
5 53 0.65
6 17 0.21
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:25249416 original size:24 final size:25
Alignment explanation
Indices: 25249359--25249424 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
25249349 AAAAAAACTT
*
25249359 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
25249383 TATCTATATTATATT-TTA-TTACATGA
1 TAT-T-TATTATATTATTATTTACAT-A
*
25249409 TATTTATTATACTATT
1 TATTTATTATATTATT
25249425 TTATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 9 0.26
26 9 0.26
27 6 0.17
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:25249500 original size:35 final size:32
Alignment explanation
Indices: 25249424--25249505 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
25249414 ATTATACTAT
* *
25249424 TTTATATTTTATTATTATATTATTTTACACTTA
1 TTTATATGTTATT-TTATATTATTTTACACATA
**
25249457 AATATATGTTATTTTATATTATTATTACATCATA
1 TTTATATGTTATTTTATATTATT-TTACA-CATA
25249491 TTTATTATG-TATTTT
1 TTTA-TATGTTATTTT
25249506 CGTATATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 10 0.25
33 15 0.38
34 11 0.28
35 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (32 bp):
TTTATATGTTATTTTATATTATTTTACACATA
Found at i:25251411 original size:15 final size:16
Alignment explanation
Indices: 25251391--25251423 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25251381 ATGGACTTCT
25251391 TTATTA-AATTTTAAA
1 TTATTAGAATTTTAAA
*
25251406 TTATTAGTATTTTAAA
1 TTATTAGAATTTTAAA
25251422 TT
1 TT
25251424 GGGTATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATTAGAATTTTAAA
Found at i:25254353 original size:23 final size:24
Alignment explanation
Indices: 25254278--25254396 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
25254268 GCTTTATCAT
*
25254278 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
25254303 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
25254327 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
25254350 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
25254374 ATAAGTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
25254397 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
23 24 0.27
24 50 0.57
25 14 0.16
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:25254353 original size:47 final size:47
Alignment explanation
Indices: 25254299--25254395 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
25254289 CCTAGCCTCT
25254299 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
*
25254346 TTTAATAACTGGGGCATAAGCCCTTTTAATAAGTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
25254393 TTT
1 TTT
25254396 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:25254468 original size:9 final size:9
Alignment explanation
Indices: 25254454--25254510 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
25254444 ATCTCGTGTG
25254454 CATATCATA
1 CATATCATA
*
25254463 CATATCATGTG
1 CATATCA--TA
25254474 CATATCATA
1 CATATCATA
* *
25254483 CATGTCATGTG
1 CATATCA--TA
25254494 CATATCATA
1 CATATCATA
25254503 CATATCAT
1 CATATCAT
25254511 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Done.