Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 88 of 196
Found at i:25362407 original size:30 final size:30
Alignment explanation
Indices: 25362371--25362430 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25362361 CATTGCGTTG
*
25362371 GCACCGAGATGAAAGGTCTCATCTAAGACC
1 GCACCGAGATGAAAGGTCCCATCTAAGACC
* *
25362401 GCACCGAGATGAGAGGTCCCATGTAAGACC
1 GCACCGAGATGAAAGGTCCCATCTAAGACC
25362431 ATTTCTTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.15
Consensus pattern (30 bp):
GCACCGAGATGAAAGGTCCCATCTAAGACC
Found at i:25362454 original size:80 final size:80
Alignment explanation
Indices: 25362321--25362480 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
25362311 CATGGCGTTG
*
25362321 GCACCGAGATGAGAGGTCCCATGCAAGACCATGTCTGGGACATTGCGTTGGCACCGAGATGAAAG
1 GCACCGAGATGAGAGGTCCCATGCAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAG
* *
25362386 GTCTCATCTAAGACC
66 ATCACATCTAAGACC
* * * * *
25362401 GCACCGAGATGAGAGGTCCCATGTAAGACCATTTCTTGGACATGGTGTTGGCACCGAGATGAGAG
1 GCACCGAGATGAGAGGTCCCATGCAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAG
*
25362466 ATCACATGTAAGACC
66 ATCACATCTAAGACC
25362481 CTGTTTGGGA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (80 bp):
GCACCGAGATGAGAGGTCCCATGCAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAG
ATCACATCTAAGACC
Found at i:25362476 original size:50 final size:50
Alignment explanation
Indices: 25362401--25362600 Score: 201
Period size: 50 Copynumber: 4.0 Consensus size: 50
25362391 ATCTAAGACC
* * **
25362401 GCACCGAGATGAGAGGTCCCATGTAAGACCATTTCTTGGACATGGTGTTG
1 GCACCGAGATGAGAGATCCCATGTAAGACCATTTCTAGGACATGGCATTG
* * *
25362451 GCACCGAGATGAGAGATCACATGTAAGACCCTGTT-TGGGACATGGCATTG
1 GCACCGAGATGAGAGATCCCATGTAAGACCAT-TTCTAGGACATGGCATTG
** * *
25362501 GCACC-AGATGAGACG-TCCCCCGTAAGACCATGTCTAGGACATGGCATGG
1 GCACCGAGATGAGA-GATCCCATGTAAGACCATTTCTAGGACATGGCATTG
* * * * *
25362550 GCACCTATATGAGA-ACTCTCATGTAAGACCATATCTAGGATATGGCATTG
1 GCACCGAGATGAGAGA-TCCCATGTAAGACCATTTCTAGGACATGGCATTG
25362600 G
1 G
25362601 ATGTACAAGA
Statistics
Matches: 124, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 38 0.31
50 83 0.67
51 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
GCACCGAGATGAGAGATCCCATGTAAGACCATTTCTAGGACATGGCATTG
Found at i:25362595 original size:99 final size:100
Alignment explanation
Indices: 25362401--25362600 Score: 233
Period size: 99 Copynumber: 2.0 Consensus size: 100
25362391 ATCTAAGACC
* * * * ** *
25362401 GCACCGAGATGAGAGGTCCCATGTAAGACCATTTCTTGGACATGGTGTTGGCACCGAGATGAGAG
1 GCACCGAGATGAGACGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAG
* * * *
25362466 ATCACATGTAAGACCCTGTTTGGGACATGGCATTG
66 ATCACATGTAAGACCATATCTAGGACATGGCATTG
* * *
25362501 GCACC-AGATGAGACGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCTATATGAGA-
1 GCACCGAGATGAGACGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAG
* *
25362564 ACTCTCATGTAAGACCATATCTAGGATATGGCATTG
66 A-TCACATGTAAGACCATATCTAGGACATGGCATTG
25362600 G
1 G
25362601 ATGTACAAGA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
98 1 0.01
99 77 0.93
100 5 0.06
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (100 bp):
GCACCGAGATGAGACGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAG
ATCACATGTAAGACCATATCTAGGACATGGCATTG
Found at i:25368936 original size:50 final size:50
Alignment explanation
Indices: 25368837--25369073 Score: 287
Period size: 50 Copynumber: 4.6 Consensus size: 50
25368827 AAAGAGATCC
* *
25368837 CATGTAAAACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCT
* *
25368893 CATGTAAGACAATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
*
25368943 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * *
25368993 CCTGTAAGACCATGTCTGGGACATGGCATTGGCACCTATATGAGTA-CTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCT
* * * *
25369043 CATGTAAGACCATATTTGGGATACGGCATTG
1 CATGTAAGACCATGTCTGGGACATGGCATTG
25369074 ATAGTACAAG
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
50 127 0.78
51 1 0.01
53 3 0.02
55 1 0.01
56 31 0.19
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:25376091 original size:40 final size:40
Alignment explanation
Indices: 25376036--25376115 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
25376026 GTACAATCGA
*
25376036 AAACATTTAAATAATATTTCATTCACTAATATAAACATAT
1 AAACATTAAAATAATATTTCATTCACTAATATAAACATAT
25376076 AAACATTAAAATAATATTTCATTCACTAATATAAACATAT
1 AAACATTAAAATAATATTTCATTCACTAATATAAACATAT
25376116 TATATATCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.36
Consensus pattern (40 bp):
AAACATTAAAATAATATTTCATTCACTAATATAAACATAT
Found at i:25376660 original size:16 final size:16
Alignment explanation
Indices: 25376639--25376669 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25376629 ATTTCAAGGT
25376639 TAAATAAGTAAATTAG
1 TAAATAAGTAAATTAG
*
25376655 TAAATAAGTACATTA
1 TAAATAAGTAAATTA
25376670 AAACAAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.32
Consensus pattern (16 bp):
TAAATAAGTAAATTAG
Found at i:25389404 original size:12 final size:12
Alignment explanation
Indices: 25389384--25389429 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
25389374 ACAAGTCAGG
*
25389384 CTATTACACGAT
1 CTATCACACGAT
25389396 CTATCACACGAT
1 CTATCACACGAT
* *
25389408 CTAACACACGAC
1 CTATCACACGAT
*
25389420 CTAGCACACG
1 CTATCACACG
25389430 GGTGTGTGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.35, C:0.35, G:0.11, T:0.20
Consensus pattern (12 bp):
CTATCACACGAT
Found at i:25398037 original size:19 final size:19
Alignment explanation
Indices: 25398015--25398052 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25398005 TCAATCATCC
25398015 CTCATCCCATCATT-TCTCA
1 CTCAT-CCATCATTCTCTCA
*
25398034 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
25398053 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:25401967 original size:48 final size:48
Alignment explanation
Indices: 25401915--25402020 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
25401905 TTGTCTTTTC
*
25401915 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* * *
25401963 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATTTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
25402011 TTTCTTTTTC
1 TTTCTTTTTC
25402021 CATGACACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
48 39 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.60
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:25403084 original size:15 final size:15
Alignment explanation
Indices: 25403066--25403107 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
25403056 TTTAACTTGA
25403066 TTTTTTTTGCTCACC
1 TTTTTTTTGCTCACC
** *
25403081 TTTTTTTT-CTTTCT
1 TTTTTTTTGCTCACC
25403095 TTTTTTTTGCTCA
1 TTTTTTTTGCTCA
25403108 ATTTTTTTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTTTTTTGCTCACC
Found at i:25403112 original size:15 final size:15
Alignment explanation
Indices: 25403066--25403115 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
25403056 TTTAACTTGA
*
25403066 TTTTTTTTGCTCACC
1 TTTTTTTTGCTCACT
**
25403081 TTTTTTTT-CTTTCT
1 TTTTTTTTGCTCACT
*
25403095 TTTTTTTTGCTCAAT
1 TTTTTTTTGCTCACT
25403110 TTTTTT
1 TTTTTT
25403116 CACTTTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTTTTTGCTCACT
Found at i:25403121 original size:29 final size:28
Alignment explanation
Indices: 25403047--25403127 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
25403037 GCAAGACTTT
* **
25403047 TCACTTTTTTTTAACTTGATTTTTTTTGC
1 TCACATTTTTTT-ACTTTTTTTTTTTTGC
* *
25403076 TCACCTTTTTTTTCTTTCTTTTTTTTTGC
1 TCACATTTTTTTACTTT-TTTTTTTTTGC
25403105 TCA-ATTTTTTTCACTTTTTTTTT
1 TCACATTTTTTT-ACTTTTTTTTT
25403128 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 16 0.36
29 28 0.64
ACGTcount: A:0.10, C:0.16, G:0.04, T:0.70
Consensus pattern (28 bp):
TCACATTTTTTTACTTTTTTTTTTTTGC
Found at i:25403136 original size:38 final size:39
Alignment explanation
Indices: 25403076--25403153 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
25403066 TTTTTTTTGC
* ***
25403076 TCACCTTTTTTTTCTTTCTTTTTTTTTGCTCAATTTTTT
1 TCACCTTTTTTTTATTTCTTTTTTTTCAATCAATTTTTT
*
25403115 TCACTTTTTTTTTATTT-TTTTTTTTCAATCAATTTTTT
1 TCACCTTTTTTTTATTTCTTTTTTTTCAATCAATTTTTT
25403153 T
1 T
25403154 TCGATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 19 0.56
39 15 0.44
ACGTcount: A:0.12, C:0.14, G:0.01, T:0.73
Consensus pattern (39 bp):
TCACCTTTTTTTTATTTCTTTTTTTTCAATCAATTTTTT
Found at i:25403152 original size:39 final size:40
Alignment explanation
Indices: 25403067--25403165 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 40
25403057 TTAACTTGAT
* * ***
25403067 TTTTTTTGCTCACCTTTTTTTTCTTTCTTTTTTTTTGCTCAA
1 TTTTTTT--TCACTTTTTTTTTATTTCTTTTTTTTCAATCAA
25403109 -TTTTTTTCACTTTTTTTTTATTT-TTTTTTTTCAATCAA
1 TTTTTTTTCACTTTTTTTTTATTTCTTTTTTTTCAATCAA
25403147 TTTTTTTTCGA-TTTTTTTT
1 TTTTTTTTC-ACTTTTTTTT
25403166 GAATTTCCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
38 12 0.24
39 31 0.62
40 1 0.02
41 6 0.12
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (40 bp):
TTTTTTTTCACTTTTTTTTTATTTCTTTTTTTTCAATCAA
Found at i:25412985 original size:20 final size:20
Alignment explanation
Indices: 25412962--25413027 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
25412952 TATCGAAGTA
25412962 CAAACAGGGGCACGTACGTG
1 CAAACAGGGGCACGTACGTG
* * * *
25412982 CAAATAGGGGTACCG-AAGTA
1 CAAACAGGGGCA-CGTACGTG
*
25413002 CAAATAGGGGCACGTATC-TG
1 CAAACAGGGGCACGTA-CGTG
25413022 CAAACA
1 CAAACA
25413028 TTCAATAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (20 bp):
CAAACAGGGGCACGTACGTG
Found at i:25418621 original size:30 final size:30
Alignment explanation
Indices: 25418560--25418623 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
25418550 AATTTTCGAG
*
25418560 GTTTGGGGGAAAAAGTGTAAATATGCAAAA
1 GTTTAGGGGAAAAAGTGTAAATATGCAAAA
* * * * *
25418590 GTTTAGGGGTAAAATTGTAATTTTGCCAAA
1 GTTTAGGGGAAAAAGTGTAAATATGCAAAA
25418620 GTTT
1 GTTT
25418624 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.33
Consensus pattern (30 bp):
GTTTAGGGGAAAAAGTGTAAATATGCAAAA
Found at i:25419078 original size:43 final size:42
Alignment explanation
Indices: 25418989--25419215 Score: 200
Period size: 43 Copynumber: 5.4 Consensus size: 42
25418979 TTCCTCGAGG
* * * *
25418989 GGTTGCCAAGTGTTGATTCCCCGAAT-TATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAAAGGT
25419031 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AAAGGT
* * * *
25419074 GGTTGCTATGTGCTGATTCCTCGTATCA-TTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAAAGGT
* * *
25419116 GGTTGTTAAGTGCTGATTCCAACGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AAAGGT
* *
25419159 GGTTGCTATGT-CTTGATTCCCCGTATCA-CTGAATT-T-AAGGT
1 GGTTGCTAAGTGC-TGATTCCCCGTAT-ATTTG-ATTGTAAAGGT
25419200 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
25419216 ATCCACCGAG
Statistics
Matches: 152, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
40 4 0.03
41 18 0.12
42 57 0.38
43 62 0.41
44 11 0.07
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTAAAGGT
Found at i:25419129 original size:85 final size:84
Alignment explanation
Indices: 25418986--25419223 Score: 325
Period size: 85 Copynumber: 2.8 Consensus size: 84
25418976 AGATTCCTCG
* * * * * *
25418986 AGGGGTTGCCAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
25419051 ACCGTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* *
25419071 AGGGGTTGCTATGTGCTGATTCCTCGTATCATTGAATATAAAGGTGGTTGTTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
* *
25419136 AACGTATCTTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * *
25419156 AGGGGTTGCTATGT-CTTGATTCCCCGTATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTATGTGC-TGATTCCCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATTCC
25419220 ACCG
65 ACCG
25419224 AGTAACGGAT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
84 28 0.21
85 107 0.79
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:25427886 original size:27 final size:27
Alignment explanation
Indices: 25427856--25428033 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
25427846 ATATTGAGTC
* * * *
25427856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25427883 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
25427910 CGCACACTTAGTGCTACATAGTCAAACA
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25427938 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25427965 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25427992 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25428019 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25428034 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25427995 original size:82 final size:81
Alignment explanation
Indices: 25427877--25428032 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
25427867 TGCTATATAA
* *
25427877 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACACGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-ACGCA
25427942 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
25427959 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAAACGCA
25428023 CACTTAGTGC
65 CACTTAGTGC
25428033 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAACGCAC
ACTTAGTGCCGCATGG
Found at i:25443667 original size:20 final size:20
Alignment explanation
Indices: 25443628--25443667 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25443618 TATACTCAAT
**
25443628 TTTTTTTTAACTTCGTATAC
1 TTTTTTTTAACTTCAAATAC
*
25443648 TTTTTTTTCACTTCAAATAC
1 TTTTTTTTAACTTCAAATAC
25443668 AACTGAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTTTTTAACTTCAAATAC
Found at i:25446343 original size:12 final size:12
Alignment explanation
Indices: 25446326--25446352 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25446316 TCATTTCAAT
25446326 TTGATACTCACC
1 TTGATACTCACC
25446338 TTGATACTCACC
1 TTGATACTCACC
25446350 TTG
1 TTG
25446353 GCTTGACGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (12 bp):
TTGATACTCACC
Found at i:25456215 original size:11 final size:11
Alignment explanation
Indices: 25456199--25456249 Score: 75
Period size: 11 Copynumber: 4.6 Consensus size: 11
25456189 AATACAAACT
25456199 TTTTTTTTGAA
1 TTTTTTTTGAA
*
25456210 TTTTTTTTAAA
1 TTTTTTTTGAA
25456221 TTTTTTTTGAA
1 TTTTTTTTGAA
**
25456232 TTTTTTTTTTA
1 TTTTTTTTGAA
25456243 TTTTTTT
1 TTTTTTT
25456250 ACAATACCGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:25456227 original size:22 final size:22
Alignment explanation
Indices: 25456199--25456249 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
25456189 AATACAAACT
25456199 TTTTTTTTGAATTTTTTTTAAA
1 TTTTTTTTGAATTTTTTTTAAA
**
25456221 TTTTTTTTGAATTTTTTTTTTA
1 TTTTTTTTGAATTTTTTTTAAA
25456243 TTTTTTT
1 TTTTTTT
25456250 ACAATACCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (22 bp):
TTTTTTTTGAATTTTTTTTAAA
Found at i:25464476 original size:19 final size:19
Alignment explanation
Indices: 25464454--25464491 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25464444 AACTAGCCAA
25464454 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
25464473 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
25464492 TTCTAAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
GGACAACTCAAGAGTCATT
Found at i:25465220 original size:24 final size:25
Alignment explanation
Indices: 25465180--25465240 Score: 106
Period size: 24 Copynumber: 2.4 Consensus size: 25
25465170 TAGTTTCTTC
25465180 AAAAAAAATTCGAAAAAAAAATTGAA
1 AAAAAAAATT-GAAAAAAAAATTGAA
25465206 AAAAAAAATTG-AAAAAAAATTGAA
1 AAAAAAAATTGAAAAAAAAATTGAA
25465230 AAAAAAAATTG
1 AAAAAAAATTG
25465241 GTTTCCATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 24 0.69
25 1 0.03
26 10 0.29
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (25 bp):
AAAAAAAATTGAAAAAAAAATTGAA
Found at i:25465240 original size:13 final size:12
Alignment explanation
Indices: 25465180--25465236 Score: 89
Period size: 13 Copynumber: 4.7 Consensus size: 12
25465170 TAGTTTCTTC
25465180 AAAAAAAATTCGA
1 AAAAAAAATT-GA
25465193 AAAAAAAATTGAA
1 AAAAAAAATTG-A
25465206 AAAAAAAATTG-
1 AAAAAAAATTGA
25465217 AAAAAAAATTGA
1 AAAAAAAATTGA
25465229 AAAAAAAA
1 AAAAAAAA
25465237 ATTGGTTTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.26
12 9 0.21
13 22 0.52
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:25465298 original size:17 final size:17
Alignment explanation
Indices: 25465276--25465333 Score: 93
Period size: 16 Copynumber: 3.5 Consensus size: 17
25465266 GATATCAAGT
25465276 TGAAAAAAAAAATTTCG
1 TGAAAAAAAAAATTTCG
25465293 TG-AAAAAAAAA-TTCG
1 TGAAAAAAAAAATTTCG
*
25465308 TGAAAAAAAGAATTTCG
1 TGAAAAAAAAAATTTCG
25465325 TGAAAAAAA
1 TGAAAAAAA
25465334 GAAGAAGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
15 6 0.16
16 17 0.45
17 15 0.39
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (17 bp):
TGAAAAAAAAAATTTCG
Found at i:25465300 original size:16 final size:16
Alignment explanation
Indices: 25465279--25465333 Score: 94
Period size: 15 Copynumber: 3.4 Consensus size: 16
25465269 ATCAAGTTGA
25465279 AAAAAAAAATTTCGTG
1 AAAAAAAAATTTCGTG
25465295 AAAAAAAAA-TTCGTG
1 AAAAAAAAATTTCGTG
25465310 AAAAAAAGAATTTCGTG
1 AAAAAAA-AATTTCGTG
25465327 AAAAAAA
1 AAAAAAA
25465334 GAAGAAGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
15 13 0.35
16 11 0.30
17 13 0.35
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.20
Consensus pattern (16 bp):
AAAAAAAAATTTCGTG
Found at i:25465334 original size:17 final size:17
Alignment explanation
Indices: 25465276--25465336 Score: 99
Period size: 17 Copynumber: 3.7 Consensus size: 17
25465266 GATATCAAGT
*
25465276 TGAAAAAAAAAATTTCG
1 TGAAAAAAAGAATTTCG
25465293 TGAAAAAAA-AA-TTCG
1 TGAAAAAAAGAATTTCG
25465308 TGAAAAAAAGAATTTCG
1 TGAAAAAAAGAATTTCG
25465325 TGAAAAAAAGAA
1 TGAAAAAAAGAA
25465337 GAAGAAGCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.31
16 4 0.10
17 25 0.60
ACGTcount: A:0.61, C:0.05, G:0.15, T:0.20
Consensus pattern (17 bp):
TGAAAAAAAGAATTTCG
Found at i:25469165 original size:10 final size:11
Alignment explanation
Indices: 25469140--25469194 Score: 85
Period size: 11 Copynumber: 5.0 Consensus size: 11
25469130 GTAGTTTCTC
25469140 AAAAAAAATTCG
1 AAAAAAAATT-G
25469152 AAAAAAAATT-
1 AAAAAAAATTG
25469162 AAAAAAAATTG
1 AAAAAAAATTG
*
25469173 AAAAAAAATTA
1 AAAAAAAATTG
25469184 AAAAAAAATTG
1 AAAAAAAATTG
25469195 TTTCCATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.25
11 20 0.50
12 10 0.25
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:25469194 original size:22 final size:21
Alignment explanation
Indices: 25469140--25469190 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
25469130 GTAGTTTCTC
25469140 AAAAAAAATTCGAAAAAAAATT
1 AAAAAAAATT-GAAAAAAAATT
25469162 AAAAAAAATTGAAAAAAAATT
1 AAAAAAAATTGAAAAAAAATT
25469183 AAAAAAAA
1 AAAAAAAA
25469191 ATTGTTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAAAAATTGAAAAAAAATT
Found at i:25469249 original size:14 final size:14
Alignment explanation
Indices: 25469228--25469277 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
25469218 GATATCAAGT
25469228 TGAAAAAAAAATT-
1 TGAAAAAAAAATTG
25469241 TG-AAAAAAAATTG
1 TGAAAAAAAAATTG
25469254 TGAAAAAAAAATTG
1 TGAAAAAAAAATTG
25469268 TGAAAAAAAA
1 TGAAAAAAAA
25469278 GAAGAAGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.29
13 4 0.11
14 21 0.60
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (14 bp):
TGAAAAAAAAATTG
Found at i:25478860 original size:28 final size:27
Alignment explanation
Indices: 25478801--25478861 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
25478791 AATCCATGCA
25478801 TTTAATATGTCTTAGTTAGTACATATC
1 TTTAATATGTCTTAGTTAGTACATATC
* * *
25478828 ATTAATTTGTCTTAGTATATTACATCAT-
1 TTTAATATGTCTTAGT-TAGTACAT-ATC
25478856 TTTAAT
1 TTTAAT
25478862 GTGTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.50
28 12 0.43
29 2 0.07
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (27 bp):
TTTAATATGTCTTAGTTAGTACATATC
Found at i:25483800 original size:10 final size:10
Alignment explanation
Indices: 25483774--25483821 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
25483764 TTTGATGTGG
*
25483774 TTCAGCTCAC
1 TTCAGCTCAA
*
25483784 TTGAGCTCAA
1 TTCAGCTCAA
*
25483794 GTCAGCTC-A
1 TTCAGCTCAA
25483803 TTCGAGCTCAA
1 TTC-AGCTCAA
25483814 TTCAGCTC
1 TTCAGCTC
25483822 GTTATTAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 3 0.10
10 24 0.77
11 4 0.13
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (10 bp):
TTCAGCTCAA
Found at i:25483800 original size:20 final size:20
Alignment explanation
Indices: 25483775--25483821 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
25483765 TTGATGTGGT
25483775 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
*
25483795 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
25483815 TCAGCTC
1 TCAGCTC
25483822 GTTATTAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:25485932 original size:27 final size:27
Alignment explanation
Indices: 25485895--25486098 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
25485885 TAAATTGTAC
*
25485895 AGCACTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
25485922 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25485949 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25485975 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25486003 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25486031 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
25486058 AGCACTAAGTGTGCGAGTTGA-TATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25486084 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25486099 GACTCAATAT
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
26 17 0.11
27 114 0.74
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25486033 original size:109 final size:107
Alignment explanation
Indices: 25485896--25486098 Score: 309
Period size: 109 Copynumber: 1.9 Consensus size: 107
25485886 AAATTGTACA
* * *
25485896 GCACTAAGTGTGTGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
25485961 GCGAAATGA-ATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGATATAT-A-GCACTAAGTGTGCGAATTGACCATGCG
*
25486004 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** *
25486069 TGCGAGTTGATATATAGCACTGAGTGTGCG
65 TGCGAAATGATATATAGCACTAAGTGTGCG
25486099 GACTCAATAT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 27 0.31
109 55 0.64
110 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (107 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:25494132 original size:27 final size:27
Alignment explanation
Indices: 25494095--25494299 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
25494085 TAAATTGTAC
25494095 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
25494122 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25494149 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25494175 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25494203 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25494231 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
25494258 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
25494285 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25494300 GACTCAATAT
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25499144 original size:28 final size:28
Alignment explanation
Indices: 25499081--25499203 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
25499071 ATATTAAGTC
*
25499081 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25499108 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25499136 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25499164 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25499193 CGCACACTTAG
1 CGCACACTTAG
25499204 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25504149 original size:25 final size:25
Alignment explanation
Indices: 25504121--25504168 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
25504111 CAGCTCATGA
*
25504121 GAGCTTACCGATTCT-CAGCTCGTAT
1 GAGCTTACCAATT-TACAGCTCGTAT
25504146 GAGCTTACCAATTTACAGCTCGT
1 GAGCTTACCAATTTACAGCTCGT
25504169 GACATTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTACCAATTTACAGCTCGTAT
Found at i:25513053 original size:21 final size:21
Alignment explanation
Indices: 25513029--25513091 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
25513019 ATGGTATTTG
25513029 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
25513050 GGAATTAGTAGGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
25513071 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
25513092 ATGGTTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.32, C:0.03, G:0.33, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:25515448 original size:12 final size:12
Alignment explanation
Indices: 25515431--25515464 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
25515421 ATGGAAACTA
*
25515431 AATTTTTTTTTG
1 AATTTTTTTTTC
25515443 AA-TTTTTTTTC
1 AATTTTTTTTTC
25515454 AATTTTTTTTT
1 AATTTTTTTTT
25515465 TGAAGATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTC
Found at i:25518546 original size:39 final size:39
Alignment explanation
Indices: 25518503--25518613 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
25518493 TGTTTTAGTC
* *
25518503 TTTAATTATGTCATAATTTAAACATCATTAATATGAGTT
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
* *
25518542 TTTAAATATGTCATAATCTGAACATCATTAATAAGAGTT
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
* * *
25518581 TTTAATTATGTCATAGTTTGGACATCTTTAATA
1 TTTAATTATGTCATAATTTGAACATCATTAATA
25518614 CATTTTTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (39 bp):
TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
Found at i:25526553 original size:832 final size:825
Alignment explanation
Indices: 25524478--25526599 Score: 2884
Period size: 823 Copynumber: 2.6 Consensus size: 825
25524468 TGGGCTCTTG
*
25524478 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAAGATGATGTCGAGTCG
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATG-AAAAGATGATGTCGAATCG
* * *
25524543 AGATCTAAAC-AAAATAATAAAACTAATTA-ATTTTT-CTAAAAGAATGAAAAAGAAAACCAAAT
65 AGATCTAAACAAAAAAAATAAAAC-AATTAGATTTTTGTTAAAAGAATGAAAAAGTAAACCAAAT
* * * * * * * * *
25524605 AGCAAGGAAAGATAGAGATGGCGAAAAGAGGAG-CCTAAGAATGAGTGGGATATGGTTTCATGGA
129 AGCATGGAAGGAGAGAGGTGG-G-AAAGAGGAGTGC-AAGAACGAGTGGGATAGGGTTTCTTGAA
* * * * *
25524669 TGAGAATGAACCACTCTTGAACCAAAAGAAGGACTCCAACTAGT-T-TTGAAATCGAAAGAAGAA
191 TGAGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTA-TATCTAG-AATCGAAAGAAGAA
* * * *
25524732 AATAGA-TGATC-GTAATGGATTTTTAAGCCATAACAAAAATTTTTGTGATAAAAGCAATCGGCA
254 AACAGATTG-TCAG-AATGGATTTTTAAGCCATAATAAAATTTTTTGTGATAAAAGCAATCGACA
**
25524795 CAATAAG-AAAGAAAGAGACTTATTTGTTTTCAATGGTTCTTGGTGTATTAAGAATGGG-GAACA
317 CAATAAGAAAAG-AAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAAG-A-GGGAGAACA
* * * *
25524858 TCTTTTCTTGTTGATTCCTCATATAGAAGTAAAGAAATAAAAGATTAGAAATAAATAGACAAGAA
379 TCTTTTCTTGTTGATTCCTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAGAA
* *
25524923 TCGAACTACAAATTAAAGGAAAGAGAGAAGGAAGTTGGGAAAAGACTAAACTGGCGTGAAGATGT
444 TCGAACTACAAATTAAAGGAAAAAGAGAAGAAAGTTGGGAAAAGACTAAACTGGCGTGAAGATGT
* **
25524988 CCTAAGCAGCATTAGATTGTTGCATTCTCAAGATTAAGGAATCATGGAGTTCGTCCCCACCCAAA
509 CCTAAGCAGCATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGAGTTCGAACCCACCCAAA
* * *
25525053 ATTCAAACAATCCAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCATAAAAGAATAAGGA
574 ACTCAAAAAATCCAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCATAAAAAAATAAGGA
* * *
25525118 AACTGAATCGAAATTAGGGTTCTTAGAAGAGACCAAGTAGGTTAAGGAAGCACTATTCTGTATGA
639 AACTGAATCCAAATTAAGGTTCTTAGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTGTATGA
* ** *
25525183 AATCCAAAAGGGCAAGGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGATTTGAAGAATAAAG
704 AATCCAAAAGGGCAAAGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAA
** * * * ** * *
25525248 ATCAAAATTGAATGAGATCACAAGATAGATTAAAGGAATGCGTGACCAGTAAAGAAC
769 AGAAAAATCGAATGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAATAAAAAAC
* * *
25525305 TTGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATTATGTCGAATCTA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
* * ** *
25525370 GATCTAAACAAAAGAAATAAAAGAAATTAGATGTTCGGTCAAAAGAATGAAAAAGTAAACCAAAT
66 GATCTAAACAAAAAAAATAAAA-CAATTAGAT-TTTTGTTAAAAGAATGAAAAAGTAAACCAAAT
*
25525435 AGCATGGAAGGAGAGAGGT------G-GGAGTGCAAGAACGAGTGAGATATGGGTTTCTTGAATG
129 AGCATGGAAGGAGAGAGGTGGGAAAGAGGAGTGCAAGAACGAGTGGGATA-GGGTTTCTTGAATG
* * * * *
25525493 AGAAAGAACCATTCTTGAACCATAAGAAGGCTTCAAACTAGATCTGGAATTGAAAGAAGAAAACA
193 AGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTATATCTAGAATCGAAAGAAGAAAACA
*
25525558 GATTGTCAGAACGGATTTTTAAGCCATAATAAAATTATTTTGTGATAAAAGCAATCGACACAATA
258 GATTGTCAGAATGGATTTTTAAGCCATAATAAAATT-TTTTGTGATAAAAGCAATCGACACAATA
*
25525623 AGAAAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTAGTGTATTAAGGAGGGAGAACATCTTTTC
322 AGAAAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAA-GAGGGAGAACATCTTTTC
* * * *
25525688 TTGTTGATTCCTGATATGAAAGTAAAGAAATAAAAGAATAGAAACAAACAAAAAAGAATCGAACT
386 TTGTTGATTCCTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAGAATCGAACT
* *
25525753 ACAAATTAAAGGAAAAAGAGAAGAAAGTTGGGAAAAGACTAAAGTCGG-GTGAAGATGTCTTAAG
451 ACAAATTAAAGGAAAAAGAGAAGAAAGTTGGGAAAAGACTAAACT-GGCGTGAAGATGTCCTAAG
* *
25525817 GAGCATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGATGTT-GAACCTA-CCAAAACCTC
515 CAGCATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGA-GTTCGAACCCACCCAAAA-CTC
* * * *
25525880 AAAAAATCCATGTTAGGATTAAAAGGGTAACAACACAAATCAAGTCATAAAAAAAATAAGGAAAC
578 AAAAAATCCAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCAT-AAAAAAATAAGGAAAC
* * *
25525945 TGAATCCAAATTAAGGTTCTTGGAGGACACCAAGTAGGTTAGGGAAGCACTATTCTGTATGAAAT
642 TGAATCCAAATTAAGGTTCTTAGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTGTATGAAAT
* * * **
25526010 CCAAAGGGGTCAAAGTTGCAAATTTAGTGAAAACAAATGGTTGG-CAGACCTGAAGAATAAAAAG
707 CCAAAAGGG-CAAAGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAAAG
25526074 AAAAATCGAATGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAATAAAAAAC
771 AAAAATCGAATGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAATAAAAAAC
* *
25526129 ATGAAGAATCAACTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCAAATCGA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
*
25526194 GATCTAAACAAAAAAAATAAAACAATTTAGATTTATTGTTAAAAGAATGAAAAAGTAAACCAAAC
66 GATCTAAACAAAAAAAATAAAACAA-TTAGATTT-TTGTTAAAAGAATGAAAAAGTAAACCAAAT
* *
25526259 AGCATGGGAGGAGAGAGGTGGGCAAAGAGGAGTGCAAGAACAAGTGGGATACGGGTTTCTTGAAT
129 AGCATGGAAGGAGAGAGGTGGG-AAAGAGGAGTGCAAGAACGAGTGGGATA-GGGTTTCTTGAAT
* * * * *
25526324 GAGAAAGAACCATTCTTAAACCAAAATATGGCCTCAAACTATATCTAGAACCAAAAGAAGAAAAC
192 GAGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTATATCTAGAATCGAAAGAAGAAAAC
* *
25526389 AGATTGTCAGAATGGATTTTTAAGCCATAATAAAATTGTTTTGTGATAAAAGCAATCGCCTCAAT
257 AGATTGTCAGAATGGATTTTTAAGCCATAATAAAATT-TTTTGTGATAAAAGCAATCGACACAAT
* **
25526454 AAGAAAAGAAGAGACTTCCTTGTTTTCACTGGTTCTTGGTGTATTAATGAGGGAGAATGTCTTTT
321 AAGAAAAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAA-GAGGGAGAACATCTTTT
*
25526519 CTTGTTGATTCCTGATATGGAAGTAAAGAAATAAAATATTAGAAACAAACAGACAAGAATC-AAC
385 CTTGTTGATTCCTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAGAATCGAA-
*
25526583 CTGCAAATTAAAGGAAA
449 CTACAAATTAAAGGAAA
25526600 GTGATACGAG
Statistics
Matches: 1137, Mismatches: 127, Indels: 57
0.86 0.10 0.04
Matches are distributed among these distances:
821 18 0.02
822 101 0.09
823 290 0.26
824 286 0.25
825 29 0.03
826 26 0.02
827 59 0.05
828 2 0.00
829 2 0.00
830 39 0.03
831 3 0.00
832 282 0.25
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (825 bp):
ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
GATCTAAACAAAAAAAATAAAACAATTAGATTTTTGTTAAAAGAATGAAAAAGTAAACCAAATAG
CATGGAAGGAGAGAGGTGGGAAAGAGGAGTGCAAGAACGAGTGGGATAGGGTTTCTTGAATGAGA
AAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTATATCTAGAATCGAAAGAAGAAAACAGAT
TGTCAGAATGGATTTTTAAGCCATAATAAAATTTTTTGTGATAAAAGCAATCGACACAATAAGAA
AAGAAGAGACTTCCTTGTTTTCAATGGTTCTTGGTGTATTAAGAGGGAGAACATCTTTTCTTGTT
GATTCCTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAACAGACAAGAATCGAACTACAAA
TTAAAGGAAAAAGAGAAGAAAGTTGGGAAAAGACTAAACTGGCGTGAAGATGTCCTAAGCAGCAT
TAGATTATTGCATTCTCAAGATTAAGGAATCATGGAGTTCGAACCCACCCAAAACTCAAAAAATC
CAAGTTAGAATTAAAAAGGCAACAACACAAATCAAGTCATAAAAAAATAAGGAAACTGAATCCAA
ATTAAGGTTCTTAGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTGTATGAAATCCAAAAGGG
CAAAGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAAAGAAAAATCGAA
TGAAATCACAAGAAAGATTAAAGGAATGCCCGACCAATAAAAAAC
Found at i:25527996 original size:21 final size:23
Alignment explanation
Indices: 25527951--25527997 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25527941 TCACCTGCAA
* *
25527951 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
25527974 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
25527995 TAA
1 TAA
25527998 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:25533420 original size:13 final size:12
Alignment explanation
Indices: 25533400--25533469 Score: 97
Period size: 12 Copynumber: 5.8 Consensus size: 12
25533390 AAAGGAAACC
25533400 AATTTTTTTTTG
1 AATTTTTTTTTG
25533412 AATTTTTTTTTTG
1 AA-TTTTTTTTTG
*
25533425 AA-TTTTTTTCG
1 AATTTTTTTTTG
25533436 AATTTTTTTTTG
1 AATTTTTTTTTG
*
25533448 AATTTTTTTTCG
1 AATTTTTTTTTG
*
25533460 AGTTTTTTTT
1 AATTTTTTTT
25533470 GAGAAACTAC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
11 10 0.19
12 30 0.58
13 12 0.23
ACGTcount: A:0.16, C:0.03, G:0.09, T:0.73
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:25533438 original size:24 final size:25
Alignment explanation
Indices: 25533400--25533469 Score: 108
Period size: 24 Copynumber: 2.9 Consensus size: 25
25533390 AAAGGAAACC
*
25533400 AATTTTTTTTTGAATTTTTTTTTTG
1 AATTTTTTTTCGAATTTTTTTTTTG
25533425 AA-TTTTTTTCGAA-TTTTTTTTTG
1 AATTTTTTTTCGAATTTTTTTTTTG
*
25533448 AATTTTTTTTCGAGTTTTTTTT
1 AATTTTTTTTCGAATTTTTTTT
25533470 GAGAAACTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.29
24 20 0.49
25 9 0.22
ACGTcount: A:0.16, C:0.03, G:0.09, T:0.73
Consensus pattern (25 bp):
AATTTTTTTTCGAATTTTTTTTTTG
Found at i:25533469 original size:36 final size:36
Alignment explanation
Indices: 25533400--25533468 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
25533390 AAAGGAAACC
*
25533400 AATTTTTTTTTGAATTTTTTTTTTGAATTTTTTTCG
1 AATTTTTTTTTGAATTTTTTTTTCGAATTTTTTTCG
*
25533436 AATTTTTTTTTGAA-TTTTTTTTCGAGTTTTTTT
1 AATTTTTTTTTGAATTTTTTTTTCGAATTTTTTT
25533469 TGAGAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.16, C:0.03, G:0.09, T:0.72
Consensus pattern (36 bp):
AATTTTTTTTTGAATTTTTTTTTCGAATTTTTTTCG
Found at i:25533470 original size:23 final size:23
Alignment explanation
Indices: 25533416--25533471 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
25533406 TTTTTGAATT
*
25533416 TTTTTTTTGAATTTTTTTCGAAT
1 TTTTTTTTGAATTTTTTTCGAAG
25533439 TTTTTTTTGAATTTTTTTTCG-AG
1 TTTTTTTTGAA-TTTTTTTCGAAG
25533462 TTTTTTTTGA
1 TTTTTTTTGA
25533472 GAAACTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 22 0.71
24 9 0.29
ACGTcount: A:0.14, C:0.04, G:0.11, T:0.71
Consensus pattern (23 bp):
TTTTTTTTGAATTTTTTTCGAAG
Found at i:25534341 original size:21 final size:23
Alignment explanation
Indices: 25534296--25534342 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25534286 TCACATGCAA
* *
25534296 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
25534319 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
25534340 TAA
1 TAA
25534343 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:25566682 original size:10 final size:11
Alignment explanation
Indices: 25566664--25566694 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
25566654 AAATTCACGA
*
25566664 AATTTTTTTTT
1 AATTTTTTTTC
25566675 AATTTTTTTTC
1 AATTTTTTTTC
25566686 AATTTTTTT
1 AATTTTTTT
25566695 ACAAACCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
AATTTTTTTTC
Found at i:25568239 original size:22 final size:22
Alignment explanation
Indices: 25568211--25568256 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
25568201 GACAAAATTA
25568211 ATTAAGCAATCCAATCAGACAT
1 ATTAAGCAATCCAATCAGACAT
*
25568233 ATTAAGCAATCCAATCATACAT
1 ATTAAGCAATCCAATCAGACAT
25568255 AT
1 AT
25568257 AATTTAGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.26
Consensus pattern (22 bp):
ATTAAGCAATCCAATCAGACAT
Found at i:25571275 original size:10 final size:11
Alignment explanation
Indices: 25571250--25571299 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
25571240 TAGTTTCTCG
* *
25571250 AAAAAAACTTG
1 AAAAAAAATTC
*
25571261 AAAAAAAAATC
1 AAAAAAAATTC
25571272 AAAAAAAATTC
1 AAAAAAAATTC
25571283 AAAAAAAATTC
1 AAAAAAAATTC
25571294 AAAAAA
1 AAAAAA
25571300 TTTTTTTGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:25571366 original size:13 final size:14
Alignment explanation
Indices: 25571342--25571396 Score: 87
Period size: 13 Copynumber: 4.0 Consensus size: 14
25571332 GGATATCAAG
25571342 TTGTGAAAAAAAAAA
1 TTGTG-AAAAAAAAA
25571357 TT-TGAAAAAAAAA
1 TTGTGAAAAAAAAA
25571370 TTGTG-AAAAAAAA
1 TTGTGAAAAAAAAA
25571383 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
25571397 GAGAGCTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
13 24 0.63
14 12 0.32
15 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:25575879 original size:27 final size:27
Alignment explanation
Indices: 25575812--25575879 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
25575802 ACACTAGTTC
* *
25575812 GCTAGACCTACCGACATACACCATCTT
1 GCTAGACCTACTGGCATACACCATCTT
* * *
25575839 GCTAGACTTCCTGGCATACACCGTCTT
1 GCTAGACCTACTGGCATACACCATCTT
25575866 G-TCAGACCTACTGG
1 GCT-AGACCTACTGG
25575880 GTGAATACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.25
Consensus pattern (27 bp):
GCTAGACCTACTGGCATACACCATCTT
Found at i:25575924 original size:27 final size:27
Alignment explanation
Indices: 25575894--25575963 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
25575884 ATACTAGCTT
* * *
25575894 GCCAAGCCTTCTGGCGAACTTTAACTC
1 GCCAAACCTACTGGCGAACTCTAACTC
* *
25575921 GCCAAACCTACTGGCGAACTCTAGCTT
1 GCCAAACCTACTGGCGAACTCTAACTC
25575948 GCCAAACCTACTGGCG
1 GCCAAACCTACTGGCG
25575964 GTCATAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.21
Consensus pattern (27 bp):
GCCAAACCTACTGGCGAACTCTAACTC
Found at i:25582401 original size:17 final size:15
Alignment explanation
Indices: 25582379--25582449 Score: 70
Period size: 17 Copynumber: 4.3 Consensus size: 15
25582369 TAGTTTAAGG
*
25582379 AAAAAATAAAGCAAAA
1 AAAAAAAAAAG-AAAA
25582395 CAAAAAAAAAAGAAAA
1 -AAAAAAAAAAGAAAA
*
25582411 AAAAAAGAAAGAAAGA
1 AAAAAAAAAAGAAA-A
25582427 AAGAAAAGAAAAGAAAA
1 AA-AAAA-AAAAGAAAA
25582444 GAAAAA
1 -AAAAA
25582450 GGACACCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
15 13 0.28
16 7 0.15
17 18 0.38
18 9 0.19
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.01
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:25582404 original size:10 final size:10
Alignment explanation
Indices: 25582397--25582450 Score: 63
Period size: 11 Copynumber: 5.0 Consensus size: 10
25582387 AAGCAAAACA
25582397 AAAAAAAAAG
1 AAAAAAAAAG
25582407 AAAAAAAAAAG
1 -AAAAAAAAAG
25582418 AAAGAAAGAAAG
1 AAA-AAA-AAAG
*
25582430 AAAAGAAAAG
1 AAAAAAAAAG
25582440 AAAAGAAAAAG
1 AAAA-AAAAAG
25582451 GACACCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 11 0.29
11 20 0.53
12 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:25582429 original size:23 final size:23
Alignment explanation
Indices: 25582397--25582449 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 23
25582387 AAGCAAAACA
25582397 AAAAAAAAAGAAAA-AAA-AAAG
1 AAAAAAAAAGAAAAGAAAGAAAG
25582418 AAAGAAAGAAAGAAAAGAAAAGAAAAG
1 AAA-AAA-AAAGAAAAG-AAAG-AAAG
25582445 AAAAA
1 AAAAA
25582450 GGACACCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
23 8 0.31
25 3 0.12
26 2 0.08
27 7 0.27
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAGAAAAGAAAGAAAG
Found at i:25583944 original size:2 final size:2
Alignment explanation
Indices: 25583937--25583975 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25583927 GAAACTGAAA
25583937 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
25583976 AAACTTTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:25592013 original size:24 final size:24
Alignment explanation
Indices: 25591986--25592038 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
25591976 AGATGGAAAC
25591986 GAAGACAAAGATGAGGGTGGAGAT
1 GAAGACAAAGATGAGGGTGGAGAT
** *
25592010 GAAGATGAAGATGAGGGTTGAGAT
1 GAAGACAAAGATGAGGGTGGAGAT
25592034 GAAGA
1 GAAGA
25592039 TGAAGACGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.42, T:0.15
Consensus pattern (24 bp):
GAAGACAAAGATGAGGGTGGAGAT
Found at i:25592039 original size:24 final size:24
Alignment explanation
Indices: 25591993--25592044 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
25591983 AACGAAGACA
25591993 AAGATGAGGGTGGAGATGAAGATG
1 AAGATGAGGGTGGAGATGAAGATG
*
25592017 AAGATGAGGGTTGAGATGAAGATG
1 AAGATGAGGGTGGAGATGAAGATG
25592041 AAGA
1 AAGA
25592045 CGATGATCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.17
Consensus pattern (24 bp):
AAGATGAGGGTGGAGATGAAGATG
Found at i:25592793 original size:9 final size:9
Alignment explanation
Indices: 25592776--25592812 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25592766 TGAGTTTTCG
25592776 AATTCGAAT
1 AATTCGAAT
*
25592785 AACTCGAAT
1 AATTCGAAT
25592794 AATTCGAAT
1 AATTCGAAT
25592803 AATTCGAAT
1 AATTCGAAT
25592812 A
1 A
25592813 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25593078 original size:30 final size:31
Alignment explanation
Indices: 25593024--25593083 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
25593014 AAACCTTTTA
*
25593024 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
25593054 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
25593084 TCCACCTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:25593157 original size:21 final size:21
Alignment explanation
Indices: 25593131--25593171 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25593121 TTTTTTTTAA
25593131 TATTTTCCCTCCAAAATTTTT
1 TATTTTCCCTCCAAAATTTTT
* *
25593152 TATTTTCCCTCTAAACTTTT
1 TATTTTCCCTCCAAAATTTT
25593172 ACCTCTCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTCCCTCCAAAATTTTT
Found at i:25595687 original size:20 final size:20
Alignment explanation
Indices: 25595662--25595703 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
25595652 GAGAGTGGTC
25595662 ATGCCTTAATTATTGAGATT
1 ATGCCTTAATTATTGAGATT
25595682 ATGCCTTAATTATTGAGATT
1 ATGCCTTAATTATTGAGATT
25595702 AT
1 AT
25595704 CTATGCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGCCTTAATTATTGAGATT
Found at i:25602087 original size:20 final size:20
Alignment explanation
Indices: 25602038--25602092 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
25602028 GCCTTCAAGG
**
25602038 TCATTCAGCTCAACTCTAGC
1 TCATTCAGCTCATTTCTAGC
*
25602058 TCA-ACGAGCTCATTTCTAGC
1 TCATTC-AGCTCATTTCTAGC
25602078 TCATTCAGCTCATTT
1 TCATTCAGCTCATTT
25602093 TAATTCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.35
Consensus pattern (20 bp):
TCATTCAGCTCATTTCTAGC
Found at i:25606798 original size:30 final size:30
Alignment explanation
Indices: 25606764--25606860 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
25606754 AGCTCACTCC
25606764 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
25606794 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
25606824 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
25606854 TAGCTCA
1 TAGCTCA
25606861 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:25608602 original size:15 final size:14
Alignment explanation
Indices: 25608576--25608616 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
25608566 GAAAGAGAAG
25608576 AAATTCAAAAAAAA
1 AAATTCAAAAAAAA
25608590 AAATTCAAAAAAAA
1 AAATTCAAAAAAAA
25608604 AAA-TCGAAAAAAA
1 AAATTC-AAAAAAA
25608617 GGAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.08
14 24 0.92
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.12
Consensus pattern (14 bp):
AAATTCAAAAAAAA
Found at i:25609601 original size:37 final size:37
Alignment explanation
Indices: 25609550--25609620 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
25609540 CATTCTTGTA
25609550 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
25609587 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
25609621 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:25609620 original size:6 final size:6
Alignment explanation
Indices: 25609560--25609609 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
25609550 AAGAGAAAAC
*
25609560 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
25609609 A
1 A
25609610 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:25609702 original size:11 final size:12
Alignment explanation
Indices: 25609670--25609700 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
25609660 TTGAGAGAAC
25609670 TTGAAAAAGCCT
1 TTGAAAAAGCCT
25609682 TTGAAAAAGCCT
1 TTGAAAAAGCCT
25609694 TTGAAAA
1 TTGAAAA
25609701 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:25611912 original size:30 final size:30
Alignment explanation
Indices: 25611878--25611974 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
25611868 AGCTCACTCC
25611878 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
25611908 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
25611938 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
25611968 TAGCTCA
1 TAGCTCA
25611975 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:25622003 original size:20 final size:21
Alignment explanation
Indices: 25621975--25622013 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
25621965 CAAAACGAGC
*
25621975 AAACAAGCT-CATTGAGCTGA
1 AAACAAGCTGAATTGAGCTGA
*
25621995 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
25622014 CAACCAGCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGA
Found at i:25623686 original size:30 final size:30
Alignment explanation
Indices: 25623638--25623709 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
25623628 ATGTGCATAT
* * *
25623638 GGAGCTGAATTAATGCATGGATGTGTTTAA
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
* * *
25623668 GGAGCTGAATGGAGGCATGTATGTATTTAG
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
*
25623698 GGAGATGAATGA
1 GGAGCTGAATGA
25623710 GGATGCTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.35, T:0.29
Consensus pattern (30 bp):
GGAGCTGAATGAAGGCATGGATGTATTTAA
Found at i:25624166 original size:18 final size:18
Alignment explanation
Indices: 25624126--25624167 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
25624116 TACTCATCAT
25624126 TTAATTAAACTGAATTAA
1 TTAATTAAACTGAATTAA
* *
25624144 CTAATTAAACT-AACTTGA
1 TTAATTAAACTGAA-TTAA
25624162 TTAATT
1 TTAATT
25624168 TATTATAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (18 bp):
TTAATTAAACTGAATTAA
Found at i:25625565 original size:20 final size:20
Alignment explanation
Indices: 25625518--25625565 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25625508 TTTTTCCTTG
25625518 CTCTTGCTTTTCTCACAATCT
1 CTCTT-CTTTTCTCACAATCT
** *
25625539 CGATTCTTTTCTCTCAATCT
1 CTCTTCTTTTCTCACAATCT
25625559 CTCTTCT
1 CTCTTCT
25625566 CTATTTTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.12, C:0.33, G:0.04, T:0.50
Consensus pattern (20 bp):
CTCTTCTTTTCTCACAATCT
Found at i:25627018 original size:30 final size:30
Alignment explanation
Indices: 25626984--25627055 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
25626974 ATGTGCATAT
* * *
25626984 GGAGCTGAATTAATGCATGGATGTGTTTAA
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
* * *
25627014 GGAGCTGAATGGAGGCATGTATGTATTTAG
1 GGAGCTGAATGAAGGCATGGATGTATTTAA
25627044 GGAGCTGAATGA
1 GGAGCTGAATGA
25627056 GGATGCTAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.07, G:0.35, T:0.29
Consensus pattern (30 bp):
GGAGCTGAATGAAGGCATGGATGTATTTAA
Found at i:25632076 original size:14 final size:16
Alignment explanation
Indices: 25632057--25632099 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
25632047 TATTGAGCGA
25632057 GAAAAAGAAAAAG-G-
1 GAAAAAGAAAAAGAGT
*
25632071 GAAAAACAAAAAGAGT
1 GAAAAAGAAAAAGAGT
25632087 G-AAAAGAAAAAGA
1 GAAAAAGAAAAAGA
25632100 AAGAAACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.48
15 12 0.48
16 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.02
Consensus pattern (16 bp):
GAAAAAGAAAAAGAGT
Found at i:25632105 original size:15 final size:15
Alignment explanation
Indices: 25632055--25632105 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
25632045 TCTATTGAGC
25632055 GAGA-AAAAGAAAAA
1 GAGAGAAAAGAAAAA
* *
25632069 GGGA-AAAACAAAAA
1 GAGAGAAAAGAAAAA
*
25632083 GAGTGAAAAGAAAAA
1 GAGAGAAAAGAAAAA
*
25632098 GAAAGAAA
1 GAGAGAAA
25632106 CGAAGATGAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (15 bp):
GAGAGAAAAGAAAAA
Found at i:25642184 original size:8 final size:9
Alignment explanation
Indices: 25642170--25642194 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25642160 ACGAAATCCC
25642170 TTTTTTTAA
1 TTTTTTTAA
25642179 TTTTTTTAA
1 TTTTTTTAA
25642188 TTTTTTT
1 TTTTTTT
25642195 TCAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:25643095 original size:30 final size:30
Alignment explanation
Indices: 25643024--25643095 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
25643014 ATGTGAATAT
** * *
25643024 GGAGCTGAATTAATGCATGAATGTGTTTAA
1 GGAGCTGAATGGAGGCATGAATGTATTTAA
* * *
25643054 GGAGCAGAATGGAGGCATGCATGTATTTAG
1 GGAGCTGAATGGAGGCATGAATGTATTTAA
25643084 GGAGCTGAATGG
1 GGAGCTGAATGG
25643096 GGATGCTAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.35, T:0.26
Consensus pattern (30 bp):
GGAGCTGAATGGAGGCATGAATGTATTTAA
Found at i:25644849 original size:20 final size:20
Alignment explanation
Indices: 25644804--25644849 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
25644794 GCTTGTTTCT
*
25644804 AGCTCACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* * *
25644824 AACTCATTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
25644844 AGCTCA
1 AGCTCA
25644850 ATCTTAACCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:25656196 original size:18 final size:18
Alignment explanation
Indices: 25656173--25656209 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25656163 CTTTTCATTC
*
25656173 TCTTTTTTGAATTTTCTT
1 TCTTTTTTCAATTTTCTT
*
25656191 TCTTTTTTCATTTTTCTT
1 TCTTTTTTCAATTTTCTT
25656209 T
1 T
25656210 TCATTAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.76
Consensus pattern (18 bp):
TCTTTTTTCAATTTTCTT
Found at i:25674105 original size:18 final size:19
Alignment explanation
Indices: 25674082--25674122 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
25674072 TTCATTCTCT
*
25674082 TTTTTTGAATTTTC-TTTC
1 TTTTTTCAATTTTCTTTTC
*
25674100 TTTTTTCATTTTTCTTTTC
1 TTTTTTCAATTTTCTTTTC
25674119 TTTT
1 TTTT
25674123 GTATTTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTCAATTTTCTTTTC
Found at i:25674128 original size:18 final size:19
Alignment explanation
Indices: 25674091--25674142 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
25674081 TTTTTTTGAA
*
25674091 TTTTC-TTTCTTTTTTCAT
1 TTTTCTTTTCTTTTGTCAT
25674109 TTTTCTTTTCTTTTGT-AT
1 TTTTCTTTTCTTTTGTCAT
*
25674127 TTCACTCTTTTCTTTT
1 TT--TTCTTTTCTTTT
25674143 TCTCTCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.31
19 9 0.31
20 11 0.38
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTCTTTTGTCAT
Found at i:25677679 original size:16 final size:17
Alignment explanation
Indices: 25677619--25677663 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
25677609 AGACCGTATG
25677619 CAATTTTTTTTTCTTTT
1 CAATTTTTTTTTCTTTT
*
25677636 CAA-TTTTTTTTCCTTT
1 CAATTTTTTTTTCTTTT
25677652 CAATTTTTTTTT
1 CAATTTTTTTTT
25677664 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (17 bp):
CAATTTTTTTTTCTTTT
Found at i:25678020 original size:21 final size:21
Alignment explanation
Indices: 25677994--25678056 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
25677984 TTGGTATTTG
25677994 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
25678015 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
25678036 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
25678057 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:25681625 original size:10 final size:10
Alignment explanation
Indices: 25681610--25681671 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
25681600 TTTGAACCAT
*
25681610 TACCAATTCG
1 TACCAATTCA
*
25681620 TACCAAATACCA
1 TACC-AAT-TCA
*
25681632 TACCATTTCA
1 TACCAATTCA
25681642 TACCAATTCCA
1 TACCAATT-CA
* *
25681653 TACCATTTCG
1 TACCAATTCA
25681663 TACCAATTC
1 TACCAATTC
25681672 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:25681655 original size:21 final size:21
Alignment explanation
Indices: 25681610--25681672 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
25681600 TTTGAACCAT
* *
25681610 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
25681632 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
25681653 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
25681673 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:25684306 original size:20 final size:20
Alignment explanation
Indices: 25684281--25684318 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25684271 TAAGTTCATT
25684281 GAGCTCAATTTTAGCTCACC
1 GAGCTCAATTTTAGCTCACC
*
25684301 GAGCTCACTTTTAGCTCA
1 GAGCTCAATTTTAGCTCA
25684319 ATCAGCTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (20 bp):
GAGCTCAATTTTAGCTCACC
Found at i:25684325 original size:20 final size:20
Alignment explanation
Indices: 25684281--25684338 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
25684271 TAAGTTCATT
25684281 GAGCTCAATTTTAGCTC-ACC
1 GAGCTC-ATTTTAGCTCAACC
*
25684301 GAGCTCACTTTTAGCTCAATC
1 GAGCTCA-TTTTAGCTCAACC
25684322 -AGCTCATTTTAAGCTCA
1 GAGCTCATTTT-AGCTCA
25684339 TTTGCGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 5 0.15
20 27 0.79
21 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (20 bp):
GAGCTCATTTTAGCTCAACC
Found at i:25685703 original size:10 final size:10
Alignment explanation
Indices: 25685688--25685724 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
25685678 TAGGTTCGTA
25685688 AAAAAAATCG
1 AAAAAAATCG
25685698 AAAAAAATCG
1 AAAAAAATCG
*
25685708 AAAAAAATTG
1 AAAAAAATCG
25685718 AAAAAAA
1 AAAAAAA
25685725 AATTGTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:25696444 original size:20 final size:19
Alignment explanation
Indices: 25696399--25696457 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
25696389 TCAAGTTCAT
25696399 TCAGCTCAATTTTAGCTC-A
1 TCAGCTC-ATTTTAGCTCAA
*
25696418 CCGAGCTCACTTTTAGCTCAA
1 TC-AGCTCA-TTTTAGCTCAA
25696439 TCAGCTCATTTTAAGCTCA
1 TCAGCTCATTTT-AGCTCA
25696458 TTTGTGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 6 0.18
20 26 0.76
21 2 0.06
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (19 bp):
TCAGCTCATTTTAGCTCAA
Found at i:25696948 original size:20 final size:20
Alignment explanation
Indices: 25696925--25696978 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
25696915 AGTTTTTCCC
*
25696925 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
25696945 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
25696965 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
25696979 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:25696960 original size:30 final size:30
Alignment explanation
Indices: 25696925--25696998 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
25696915 AGTTTTTCCC
25696925 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
25696955 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
25696985 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
25696999 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:25696988 original size:20 final size:20
Alignment explanation
Indices: 25696925--25696989 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
25696915 AGTTTTTCCC
* * * *
25696925 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
25696945 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
25696964 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
25696985 AGCTC
1 AGCTC
25696990 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:25699737 original size:6 final size:6
Alignment explanation
Indices: 25699704--25699811 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
25699694 AAAGAAATTG
* * * ** *
25699704 AAAG-A AAACAA AAAGAA AACGAA GAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
25699751 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
25699802 AAAGAA AAAG
1 AAAGAA AAAG
25699812 CGAAAAAAGA
Statistics
Matches: 73, Mismatches: 26, Indels: 7
0.69 0.25 0.07
Matches are distributed among these distances:
5 3 0.04
6 59 0.81
7 7 0.10
8 4 0.05
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:25699765 original size:18 final size:18
Alignment explanation
Indices: 25699708--25699766 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
25699698 AAATTGAAAG
* *
25699708 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAATCGA
* * *
25699726 AGAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
25699744 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAATCGA
25699762 AAAAG
1 AAAAG
25699767 TGAGAGAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.71, C:0.07, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:25699793 original size:14 final size:13
Alignment explanation
Indices: 25699772--25699809 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
25699762 AAAAGTGAGA
25699772 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
25699784 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
25699799 GAAAAAGAAAA
1 GAAAAAGAAAA
25699810 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:25699823 original size:21 final size:21
Alignment explanation
Indices: 25699773--25699823 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
25699763 AAAGTGAGAG
*
25699773 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
25699794 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
25699815 AAAAAGAAA
1 AAAAAGAAA
25699824 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:25699827 original size:27 final size:27
Alignment explanation
Indices: 25699725--25699829 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 27
25699715 AAAGAAAACG
* *
25699725 AAGAAGAAAAAGAAATTGCAAAAGAAA
1 AAGAAGAAAAAAAAATTGAAAAAGAAA
*** **
25699752 AAGAAATCGAAAAAGTGAGAGAAAAAGAAA
1 AAG-AA--GAAAAAAAAATTGAAAAAGAAA
* *
25699782 ATGAAGAAAAGAAAATTGAAAAAGAAA
1 AAGAAGAAAAAAAAATTGAAAAAGAAA
*
25699809 AAG-CGAAAAAAGAAATTGAAA
1 AAGAAGAAAAAA-AAATTGAAA
25699830 GAGAGCTTGA
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
26 6 0.10
27 30 0.51
28 2 0.03
29 2 0.03
30 19 0.32
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.09
Consensus pattern (27 bp):
AAGAAGAAAAAAAAATTGAAAAAGAAA
Found at i:25699863 original size:33 final size:33
Alignment explanation
Indices: 25699826--25699888 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
25699816 AAAAGAAATT
25699826 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
25699859 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
25699889 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:25701686 original size:20 final size:20
Alignment explanation
Indices: 25701663--25701716 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
25701653 AGTTTTTCCC
*
25701663 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
25701683 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
25701703 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
25701717 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:25701698 original size:30 final size:30
Alignment explanation
Indices: 25701663--25701736 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
25701653 AGTTTTTCCC
25701663 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
25701693 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
25701723 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
25701737 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:25701726 original size:20 final size:20
Alignment explanation
Indices: 25701663--25701727 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
25701653 AGTTTTTCCC
* * * *
25701663 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
25701683 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
25701702 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
25701723 AGCTC
1 AGCTC
25701728 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:25705108 original size:20 final size:20
Alignment explanation
Indices: 25705085--25705130 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
25705075 GGGTTAAGAT
*
25705085 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
25705105 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
25705125 TGAGCT
1 TGAGCT
25705131 AGAAACGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:25706828 original size:13 final size:12
Alignment explanation
Indices: 25706812--25706931 Score: 63
Period size: 12 Copynumber: 10.0 Consensus size: 12
25706802 TTTTTTCGCT
25706812 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
25706825 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
25706839 TTTTCTTTTTC-
1 TTTTCTTTTTCA
**
25706850 TCTCACTTTTTCGA
1 T-TTTCTTTTTC-A
25706864 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
25706874 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
* *
25706887 TTTTCTTCTTCG
1 TTTTCTTTTTCA
*
25706899 TTTTCTTTTT-G
1 TTTTCTTTTTCA
25706910 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
25706920 ATTTCTTTTTCA
1 TTTTCTTTTTCA
25706932 ATCTCTTTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 10 0.12
12 42 0.51
13 12 0.14
14 9 0.11
15 3 0.04
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:25706841 original size:14 final size:14
Alignment explanation
Indices: 25706812--25706848 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25706802 TTTTTTCGCT
25706812 TTTTC-TTTTTCAA
1 TTTTCTTTTTTCAA
25706825 TTTTCTTTTCTTC-A
1 TTTTCTTTT-TTCAA
25706839 TTTTCTTTTT
1 TTTTCTTTTT
25706849 CTCTCACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 13 0.59
15 3 0.14
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTTTCAA
Found at i:25706876 original size:18 final size:18
Alignment explanation
Indices: 25706855--25706913 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
25706845 TTTTCTCTCA
25706855 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
25706873 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
25706891 CTTCTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
25706909 GTTTT
1 CTTTT
25706914 CTTTCAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:25706930 original size:6 final size:6
Alignment explanation
Indices: 25706810--25706917 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
25706800 TCTTTTTTCG
* * * **
25706810 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * *
25706861 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
25706909 -GTTTT CTTT
1 CTTTTT CTTT
25706918 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 27, Indels: 6
0.69 0.26 0.06
Matches are distributed among these distances:
5 4 0.06
6 56 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:25709527 original size:20 final size:20
Alignment explanation
Indices: 25709504--25709549 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
25709494 GGGTTAAGAT
*
25709504 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
25709524 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
25709544 TGAGCT
1 TGAGCT
25709550 AGAAACGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:25711435 original size:28 final size:27
Alignment explanation
Indices: 25711403--25711469 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
25711393 TTTTGTGATA
* * *
25711403 AATGTGTTTTATTTTATTACATGTTATT
1 AATGTGTCTAATTTTATTACATGCT-TT
25711431 AATGTGTCTAATTTTATTACATGCTTT
1 AATGTGTCTAATTTTATTACATGCTTT
25711458 AATGATGTCTAA
1 AATG-TGTCTAA
25711470 GTCATAGCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.52
Consensus pattern (27 bp):
AATGTGTCTAATTTTATTACATGCTTT
Found at i:25720578 original size:33 final size:34
Alignment explanation
Indices: 25720541--25720621 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 34
25720531 GAGTTAGTTT
*
25720541 ATTAAATTTAGTTTAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTTAACTCAAATAAGTGTTAGTA
* * *
25720574 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTTAACTCAAATAAGTGTTAGTA
25720608 ATT-AATTT-GTTTAA
1 ATTAAATTTAGTTTAA
25720622 ATCTGGACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.12
33 32 0.78
34 4 0.10
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.44
Consensus pattern (34 bp):
ATTAAATTTAGTTTAACTCAAATAAGTGTTAGTA
Found at i:25721507 original size:22 final size:22
Alignment explanation
Indices: 25721477--25721520 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25721467 TTTGGTATTT
25721477 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
25721499 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
25721521 TGGTTCAAAA
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:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:25723872 original size:21 final size:22
Alignment explanation
Indices: 25723826--25723872 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
25723816 CATTTTTCTT
*
25723826 TTCTTTTTCACTCTCTCTCAAT
1 TTCTTTTTCACTCTCTCTCAAA
* *
25723848 TTCTTTTTCAGT-TCTTTCAAA
1 TTCTTTTTCACTCTCTCTCAAA
25723869 TTCT
1 TTCT
25723873 CCAAAGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (22 bp):
TTCTTTTTCACTCTCTCTCAAA
Found at i:25726047 original size:12 final size:12
Alignment explanation
Indices: 25726030--25726074 Score: 67
Period size: 13 Copynumber: 3.8 Consensus size: 12
25726020 AAACCGTATG
25726030 CAATTTTTTTTT
1 CAATTTTTTTTT
25726042 CAATTTTTTTTTT
1 CAA-TTTTTTTTT
25726055 CAA--TTTTTTT
1 CAATTTTTTTTT
25726065 CAATTTTTTT
1 CAATTTTTTT
25726075 CGAACTCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.33
12 8 0.27
13 12 0.40
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:25726050 original size:10 final size:10
Alignment explanation
Indices: 25726048--25726075 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25726038 TTTTCAATTT
25726048 TTTTTTTCAA
1 TTTTTTTCAA
25726058 TTTTTTTCAA
1 TTTTTTTCAA
25726068 TTTTTTTC
1 TTTTTTTC
25726076 GAACTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTTCAA
Done.