Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 145 of 345
Found at i:39603943 original size:6 final size:7
Alignment explanation
Indices: 39603921--39603949 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
39603911 AATTTGAAAT
39603921 AAATTAA
1 AAATTAA
39603928 AAATTAA
1 AAATTAA
39603935 AAATT-A
1 AAATTAA
39603941 AAATTAA
1 AAATTAA
39603948 AA
1 AA
39603950 GTAATACGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATTAA
Found at i:39603945 original size:13 final size:14
Alignment explanation
Indices: 39603921--39603949 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39603911 AATTTGAAAT
39603921 AAATTAAAAATTAA
1 AAATTAAAAATTAA
39603935 AAATT-AAAATTAA
1 AAATTAAAAATTAA
39603948 AA
1 AA
39603950 GTAATACGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATTAAAAATTAA
Found at i:39605950 original size:50 final size:49
Alignment explanation
Indices: 39605786--39606008 Score: 293
Period size: 49 Copynumber: 4.5 Consensus size: 49
39605776 CTGGTACGCA
* * *
39605786 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
39605835 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
39605884 TAGTAGCCTGCGCTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
39605934 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
39605985 TAGTAGCCTGCACTTAGTACTACA
1 TAGTAGCCTGCACTTAGTACTACA
39606009 TATGCGACCT
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 76 0.50
50 42 0.28
51 33 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:39605956 original size:99 final size:100
Alignment explanation
Indices: 39605773--39606017 Score: 305
Period size: 99 Copynumber: 2.5 Consensus size: 100
39605763 TAGCCAAAGC
* * * * ** *
39605773 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
39605838 TAGCCTACACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTACACTTAGTACTACACACGTGATCACAAT
* * * *
39605871 TATCCGGTACACGTAGTAGCCTGCGCTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
* *
39605936 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
* * * * *
39605972 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
39606018 TCACAATAGA
Statistics
Matches: 123, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.32
99 42 0.34
100 1 0.01
101 41 0.33
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTACACTTAGTACTACACACGTGATCACAAT
Found at i:39606997 original size:27 final size:26
Alignment explanation
Indices: 39606960--39607074 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
39606950 AGCATGGCTG
* *
39606960 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
39606986 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
39607014 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
39607041 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
39607068 CCAGAAC
1 CCAGAAC
39607075 GCTTCCTCTA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:39607019 original size:54 final size:54
Alignment explanation
Indices: 39606960--39607074 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
39606950 AGCATGGCTG
*
39606960 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
39607014 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
39607068 CCAGAAC
1 CCAGAAC
39607075 GCTTCCTCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:39607505 original size:16 final size:15
Alignment explanation
Indices: 39607484--39607513 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39607474 AAAATACTGA
39607484 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
39607500 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
39607514 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:39608721 original size:26 final size:26
Alignment explanation
Indices: 39608685--39608820 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
39608675 CATGAAATTC
39608685 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
39608711 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
39608737 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
39608763 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
39608789 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
39608815 TTATCA
1 TTATCA
39608821 ATTTGTATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:39619114 original size:48 final size:48
Alignment explanation
Indices: 39619039--39619130 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
39619029 CACATAGTAA
* *
39619039 GATGCCAATGCTATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* *
39619087 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACA
39619131 CATAACCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:39622650 original size:21 final size:19
Alignment explanation
Indices: 39622604--39622658 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
39622594 TGTTAAAAAT
39622604 AATTAAAAT--AAGTAATAA
1 AATTAAAATAAAAG-AATAA
39622622 AATTAAAATAAAAGAATAA
1 AATTAAAATAAAAGAATAA
*
39622641 AAGGTTAAAATATAAGAA
1 AA--TTAAAATAAAAGAA
39622659 AACATAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.28
19 7 0.22
20 3 0.09
21 13 0.41
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (19 bp):
AATTAAAATAAAAGAATAA
Found at i:39623630 original size:40 final size:40
Alignment explanation
Indices: 39623585--39623741 Score: 215
Period size: 40 Copynumber: 3.9 Consensus size: 40
39623575 ACTCTCTGCC
* *
39623585 TGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTT
1 TGGTGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTATT
* *
39623625 TGGTGTGTTTCGGTTGGACCAACTCTTATGAACTTCTATT
1 TGGTGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTATT
*** * *
39623665 TGGCAAGTTTTGGTTGGATCAACTCTTATTAGCTTCTATT
1 TGGTGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTATT
* *
39623705 TGATGTGTCTCGGTTGGATCAACTCTTATGAGCTTCT
1 TGGTGTGTTTCGGTTGGATCAACTCTTATGAGCTTCT
39623742 GTCTGGTTTG
Statistics
Matches: 99, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.16, C:0.17, G:0.24, T:0.43
Consensus pattern (40 bp):
TGGTGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTATT
Found at i:39627909 original size:50 final size:49
Alignment explanation
Indices: 39627791--39627971 Score: 205
Period size: 49 Copynumber: 3.8 Consensus size: 49
39627781 GCATTGCGAC
*
39627791 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGT
* *
39627839 --G-TC-AGTGTAAGACCATGTCTGAGACATGGCATCGGCACGAATATGT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATATGT
* * * *
39627885 GAGAGCTAGTGGAAGACCATGTCTGGGACATGGCATCAGCCTCGAT-TTT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGATATGT
* *
39627934 GATAGTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
39627972 ACTTGATGGA
Statistics
Matches: 113, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
44 9 0.08
45 17 0.15
46 14 0.12
48 2 0.02
49 37 0.33
50 30 0.27
51 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (49 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGT
Found at i:39627956 original size:99 final size:94
Alignment explanation
Indices: 39627791--39627971 Score: 247
Period size: 99 Copynumber: 1.9 Consensus size: 94
39627781 GCATTGCGAC
* *
39627791 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATG
1 GAGAGCTAGTGGAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGTCAGTGTAAGACCATG
39627856 TCTGAGACATGGCATCGGCACGAATATGT
66 TCTGAGACATGGCATCGGCACGAATATGT
** *
39627885 GAGAGCTAGTGGAAGACCATGTCTGGGACATGGCATCAGCCT-CGATTTTGATAGTTAGTGTAAG
1 GAGAGCTAGTGGAAGA-CATGTCTGGGACAT-GCATC-GCCTACGA-GATG-T-GTCAGTGTAAG
*
39627949 ACCATGTCTGGGACATGGCATCG
60 ACCATGTCTGAGACATGGCATCG
39627972 ACTTGATGGA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
94 15 0.20
95 14 0.19
96 8 0.11
97 5 0.07
98 1 0.01
99 32 0.43
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (94 bp):
GAGAGCTAGTGGAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGTCAGTGTAAGACCATG
TCTGAGACATGGCATCGGCACGAATATGT
Found at i:39630028 original size:26 final size:26
Alignment explanation
Indices: 39629979--39630030 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
39629969 ATTTAAAATA
*
39629979 TTTAAAATTATTAAAATATTATATTT
1 TTTAAAATTATTAAAATATCATATTT
*
39630005 TTTAATATTATTAAACATA-CATATTT
1 TTTAAAATTATTAAA-ATATCATATTT
39630031 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTAAAATTATTAAAATATCATATTT
Found at i:39630092 original size:21 final size:22
Alignment explanation
Indices: 39630054--39630096 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
39630044 TAGTCACATA
39630054 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
39630076 ATAATTTATT-ATTTAATAAAT
1 ATAAATTATTAATATAATAAAT
39630097 TATTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:39630724 original size:14 final size:14
Alignment explanation
Indices: 39630705--39630741 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
39630695 CCAGAAAAGT
39630705 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
39630719 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
39630733 AAGTCATTT
1 AAATCATTT
39630742 CAGTGAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:39635280 original size:8 final size:8
Alignment explanation
Indices: 39635267--39635309 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
39635257 GCAAAAGCCA
39635267 AAATGCCG
1 AAATGCCG
*
39635275 AAATGCTG
1 AAATGCCG
* *
39635283 AAAAGTCG
1 AAATGCCG
39635291 AAATGCCG
1 AAATGCCG
*
39635299 AAAAGCCG
1 AAATGCCG
39635307 AAA
1 AAA
39635310 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.12
Consensus pattern (8 bp):
AAATGCCG
Found at i:39635294 original size:16 final size:16
Alignment explanation
Indices: 39635266--39635309 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
39635256 GGCAAAAGCC
*
39635266 AAAATGCCGAAATGCTG
1 AAAA-GCCGAAATGCCG
*
39635283 AAAAGTCGAAATGCCG
1 AAAAGCCGAAATGCCG
39635299 AAAAGCCGAAA
1 AAAAGCCGAAA
39635310 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:39635460 original size:17 final size:18
Alignment explanation
Indices: 39635427--39635462 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39635417 TACAGGCCAG
39635427 AATGGGCTAAATGGGCCC
1 AATGGGCTAAATGGGCCC
*
39635445 AATGGGCT-ATTGGGCCC
1 AATGGGCTAAATGGGCCC
39635462 A
1 A
39635463 TAATAGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (18 bp):
AATGGGCTAAATGGGCCC
Found at i:39635568 original size:29 final size:29
Alignment explanation
Indices: 39635525--39635599 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
39635515 CATGAAAATG
*
39635525 AATGTGA-CTGGGCCTAACGGGCCATATA
1 AATGTGATTTGGGCCTAACGGGCCATATA
*
39635553 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAACGGGCCATATA
* *
39635582 CAGGTGATTTGGGCCTAA
1 AATGTGATTTGGGCCTAA
39635600 TAGGCCGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 7 0.17
29 35 0.83
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAACGGGCCATATA
Found at i:39635600 original size:29 final size:29
Alignment explanation
Indices: 39635533--39635605 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
39635523 TGAATGTGAC
* *
39635533 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
39635562 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
39635591 TGGGCCTAATAGGCC
1 TGGGCCTAATGGGCC
39635606 GTATGAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:39639952 original size:43 final size:43
Alignment explanation
Indices: 39639904--39640059 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
39639894 AGCTCGTACA
* * *
39639904 ATGCCAACGCCCCAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * * *
39639947 ATGCC-ACTGTCCTAGACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * * *
39639989 ATGCCAACATCCCAGATACGGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATCA-AATATCG
*
39640033 ATGCCAACGTCCCAAACATGGTCTTAC
1 ATGCCAACGTCCCAGACATGGTCTTAC
39640060 GCGATAACAC
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.29
43 37 0.41
44 27 0.30
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
Found at i:39647457 original size:84 final size:84
Alignment explanation
Indices: 39647077--39648246 Score: 1314
Period size: 84 Copynumber: 13.8 Consensus size: 84
39647067 ATTAAAAGTG
* * * ** * * *
39647077 AATAAAATCTGTTTCGAGATTTATTCCTGTTGTTCAAC-GGATTTTATTCCAATTTTAATTTTGT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATT-CGATTTT-ATTTTGT
** *
39647141 TTCCAAAACGAGTATTAAAATTA
64 TTCC-AAATTAGAATT-AAATTA
* * * ** * ** *
39647164 AATTAAAATTTGTTTTAGGATTTATTCCCGCCGTTCAA-TGGATTTT-TCCTTTTTTTGATTTTA
1 AA-TAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTC-GATTTT-ATTTTG
* **
39647227 TTTTCAAACGAGAAATTAAAGTTA
63 TTTCCAAATTAG-AATTAAA-TTA
* * * * ** * *
39647251 AATAAAATCTATTTTGAGATTTATTCTTAC-CCGTTCAA-TTGATTTTA-TCACATTTGATTTTG
1 AATAAAATCTGTTTTGGGATTTATTC--CCGCCGTTTAACAAGATTTTATTC-GATTTTATTTTG
* ** * *
39647313 TTGCCAAAACGAGAAACTAAAATCA
63 TTTCC-AAATTAG-AA-TTAAATTA
* * * *
39647338 AATAAAATCTGTTTCGAGATTTATTCCCGCAGTTTAACAAGATTTTATTCGATTTTATTTTGATT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
39647403 CCAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* *
39647422 AATAAAATCTGTTTTGGGATTTATTCTCGCCGTTTAACAAGTTTTTATTCGATTTTATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
39647487 CCAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* *
39647506 AATAAAATCTGTTTTGGGATTTATTCCCACCGTTTAACAAGATTTTATTCGATTTGATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
*
39647571 CCAAATTAGGATTAAATTA
66 CCAAATTAGAATTAAATTA
* ** * *
39647590 AATAAAATTTGTTTCAGGATTTATTCCCACCGTTTAACAAGATTTTATTCGATTTGATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
* *
39647655 CGAAATTAAAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * * * * * *
39647674 AATAAAGTCTGCTTCT-CGATTTATTCCCACCATTTAACAATATTTTATTCGATTTTATTTTTTT
1 AATAAAATCTG-TTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTT
* *
39647738 TCAAAACTAGAATTAAATTA
65 TCCAAATTAGAATTAAATTA
* * * * * **
39647758 AAT-AAATCTATTTCGAGATTAATTGCCGCCAATTAACAAGATTTTATTCGATTTTATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
*
39647822 CTAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * * * * *
39647841 AATAAAATTTGTTTCGAGATTTATTCTCGTCGTTTAATAAGATTTTATTCGATTTTATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
39647906 CCAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * *
39647925 AATAAAATCCGTTTTGGGATTTATTCCCGCCATTTAGCAAGATTTTATTCGATTTTATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
39647990 CCAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * *
39648009 AATAAAATCCGTTTTGGGATTTATTCCCGCCATTTAGCAAGATTTTATTCGATTTTATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
39648074 CCAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * * *
39648093 AATAAAATCTGTTTCGAGATTTATTCCCGCTGTTTAACAAGATTTTATTCAATTTTATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
39648158 CCAAATTAGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* * * * *
39648177 AATAAAATCTATTTTGGGATTTATTCCCACCGCTTAACAAGATTTTATTCGATATTGA-TTTATT
1 AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGAT-TTTATTTTGTT
39648241 TCCAAA
65 TCCAAA
39648247 CAAAGACTTA
Statistics
Matches: 944, Mismatches: 122, Indels: 37
0.86 0.11 0.03
Matches are distributed among these distances:
82 2 0.00
83 67 0.07
84 676 0.72
85 8 0.01
86 50 0.05
87 99 0.10
88 42 0.04
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (84 bp):
AATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTT
CCAAATTAGAATTAAATTA
Found at i:39647812 original size:419 final size:420
Alignment explanation
Indices: 39647239--39648229 Score: 1362
Period size: 419 Copynumber: 2.4 Consensus size: 420
39647229 TTCAAACGAG
** * ** **
39647239 AAATTAAAGTTAAATAAAATCTATTTTGAGATTTATTCTTACCCGTT--CAATTGATTTTA-TCA
1 AAATTAAA-TTAAATAAAATCTGCTTCGAGATTTATTCCCACCATTTAACAA--GATTTTATTCA
* * * * * *
39647301 CATTTGATTTTGTTGCCAAAACGAGAAACTAAAATCAAATAAAATCTGTTTCGAGATTTATTCCC
63 -ATTTTATTTTGTT-TCAAAACTAG-AA-TTAAATTAAATAAAATCTATTTCGAGATTTATTCCC
*
39647366 G-CAGTTTAACAAGATTTTATTCGATTTTATTTTGATTCCAAATTAGAATTAAATTAAATAAAAT
124 GCCA-ATTAACAAGATTTTATTCGATTTTATTTTGATTCCAAATTAGAATTAAATTAAATAAAAT
* * *
39647430 CTGTTTTGGGATTTATTCTCGCCGTTTAACAAGTTTTTATTCGATTTTATTTTGTTTCCAAATTA
188 CTGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTTCCAAATTA
* *
39647495 GAATTAAATTAAATAAAATCTGTTTTGGGATTTATTCCCACCGTTTAACAAGATTTTATTCGATT
253 GAATTAAATTAAATAAAATCCGTTTTGGGATTTATTCCCACCATTTAACAAGATTTTATTCGATT
* ** *
39647560 TGATTTTGTTTCCAAATTAGGATTAAATTAAATAAAATTTGTTTCAGGATTTATTCCCACCGTTT
318 TGATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCCGTTTCAGGATTTATTCCCACCATTT
*
39647625 AACAAGATTTTATTCGATTTGATTTTGTTTCGAAATTA
383 AACAAGATTTTATTCGATTTGATTTTGTTTCCAAATTA
* ** * *
39647663 AAATTAAATTAAATAAAGTCTGCTTCTCGATTTATTCCCACCATTTAACAATATTTTATTCGATT
1 AAATTAAATTAAATAAAATCTGCTTCGAGATTTATTCCCACCATTTAACAAGATTTTATTCAATT
* * *
39647728 TTATTTTTTTTCAAAACTAGAATTAAATTAAAT-AAATCTATTTCGAGATTAATTGCCGCCAATT
66 TTATTTTGTTTCAAAACTAGAATTAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCAATT
* * *
39647792 AACAAGATTTTATTCGATTTTATTTTGTTTCTAAATTAGAATTAAATTAAATAAAATTTGTTTCG
131 AACAAGATTTTATTCGATTTTATTTTGATTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCG
* *
39647857 AGATTTATTCTCGTCGTTTAATAAGATTTTATTCGATTTTATTTTGTTTCCAAATTAGAATTAAA
196 AGATTTATTCTCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTTCCAAATTAGAATTAAA
* * *
39647922 TTAAATAAAATCCGTTTTGGGATTTATTCCCGCCATTTAGCAAGATTTTATTCGATTTTATTTTG
261 TTAAATAAAATCCGTTTTGGGATTTATTCCCACCATTTAACAAGATTTTATTCGATTTGATTTTG
** * *
39647987 TTTCCAAATTAGAATTAAATTAAATAAAATCCGTTTTGGGATTTATTCCCGCCATTTAGCAAGAT
326 TTTCCAAATTAGAATTAAATTAAATAAAATCCGTTTCAGGATTTATTCCCACCATTTAACAAGAT
*
39648052 TTTATTCGATTTTATTTTGTTTCCAAATTA
391 TTTATTCGATTTGATTTTGTTTCCAAATTA
* * * **
39648082 GAATTAAATTAAATAAAATCTGTTTCGAGATTTATTCCCGCTGTTTAACAAGATTTTATTCAATT
1 AAATTAAATTAAATAAAATCTGCTTCGAGATTTATTCCCACCATTTAACAAGATTTTATTCAATT
* * * * * **
39648147 TTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTATTTTGGGATTTATTCCCACCGCTT
66 TTATTTTGTTTCAAAACTAGAATTAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCAATT
39648212 AACAAGATTTTATTCGAT
131 AACAAGATTTTATTCGAT
39648230 ATTGATTTAT
Statistics
Matches: 497, Mismatches: 65, Indels: 14
0.86 0.11 0.02
Matches are distributed among these distances:
419 376 0.76
420 53 0.11
421 2 0.00
422 8 0.02
423 45 0.09
424 10 0.02
425 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (420 bp):
AAATTAAATTAAATAAAATCTGCTTCGAGATTTATTCCCACCATTTAACAAGATTTTATTCAATT
TTATTTTGTTTCAAAACTAGAATTAAATTAAATAAAATCTATTTCGAGATTTATTCCCGCCAATT
AACAAGATTTTATTCGATTTTATTTTGATTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCG
AGATTTATTCTCGCCGTTTAACAAGATTTTATTCGATTTTATTTTGTTTCCAAATTAGAATTAAA
TTAAATAAAATCCGTTTTGGGATTTATTCCCACCATTTAACAAGATTTTATTCGATTTGATTTTG
TTTCCAAATTAGAATTAAATTAAATAAAATCCGTTTCAGGATTTATTCCCACCATTTAACAAGAT
TTTATTCGATTTGATTTTGTTTCCAAATTA
Found at i:39651705 original size:20 final size:20
Alignment explanation
Indices: 39651682--39651719 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39651672 TATTTGATTC
*
39651682 TAATCAATTTGATTTATTTT
1 TAATCAAATTGATTTATTTT
39651702 TAATCAAATTGATTTATT
1 TAATCAAATTGATTTATT
39651720 GGCTCATTAA
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:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TAATCAAATTGATTTATTTT
Found at i:39665004 original size:280 final size:280
Alignment explanation
Indices: 39664503--39665025 Score: 841
Period size: 280 Copynumber: 1.9 Consensus size: 280
39664493 GTGCTCGAGC
* * * * * *
39664503 TTGCCAAATTGACACAGTCGTGTGGTCTGCCCGTGTGAGGAGGTTCAGGCCGTGTTGATTTTGTA
1 TTGCCAAATAGACACAGCCGTGTGGTCTGCCCGTGTGAGGAGGTACAGGCCATGTTAATTTCGTA
* * * * *
39664568 CTTTGGCCCATTTTCTACGTTTTTGGCCCGTTTCTCGTTTCTTTCGCTCTCTTATGCTCTCCTAA
66 CGTTGGCCCATTTTCTACGTTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCGCCGAA
* *
39664633 GTATAAAAAATTAAATTAAAGCATTAGGAGCATCAAATTCACCAATTCTAATGGGAAATCATCCA
131 GTATAAAAAATGAAATTAAAGCATTAGGAGCATCAAATTCACCAATTCTAATGGAAAATCATCCA
39664698 TAAAATGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTATTAGCGCGTAATATACCC
196 TAAAATGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTATTAGCGCGTAATATACCC
39664763 GTATGAGTCGTGCTTCAATT
261 GTATGAGTCGTGCTTCAATT
* *
39664783 TTGCCAAATAGACATAGCCGTGTGGTCTGCCCGTGTGAGGAGGTACAGGCTATGTTAATTTCGTA
1 TTGCCAAATAGACACAGCCGTGTGGTCTGCCCGTGTGAGGAGGTACAGGCCATGTTAATTTCGTA
*
39664848 CGTTGGCCCATTTTCTCCGTTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCGCCGAA
66 CGTTGGCCCATTTTCTACGTTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCGCCGAA
* * *
39664913 GTATAAAATATGAAATTAAGGCATTAGGAGCATCGAATTCACCAATTCTAA-GGAAAATTCATCC
131 GTATAAAAAATGAAATTAAAGCATTAGGAGCATCAAATTCACCAATTCTAATGGAAAA-TCATCC
* *
39664977 ATAAAATGTGTTAAGCATGGGGTAAAAATATGTATAAATTACGGTTTAT
195 ATAAAATGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTAT
39665026 CAAATACCCC
Statistics
Matches: 221, Mismatches: 21, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
279 5 0.02
280 216 0.98
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (280 bp):
TTGCCAAATAGACACAGCCGTGTGGTCTGCCCGTGTGAGGAGGTACAGGCCATGTTAATTTCGTA
CGTTGGCCCATTTTCTACGTTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCGCCGAA
GTATAAAAAATGAAATTAAAGCATTAGGAGCATCAAATTCACCAATTCTAATGGAAAATCATCCA
TAAAATGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTATTAGCGCGTAATATACCC
GTATGAGTCGTGCTTCAATT
Found at i:39668787 original size:31 final size:32
Alignment explanation
Indices: 39668749--39668812 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
39668739 GTTTTGGAGA
*
39668749 GTGATTGG-TTGAGAGTGGAGGAGGATACTCC
1 GTGATTGGTTTCAGAGTGGAGGAGGATACTCC
39668780 GTGATTGGTTTCAGAGTGGAGGAGGATACTCC
1 GTGATTGGTTTCAGAGTGGAGGAGGATACTCC
39668812 G
1 G
39668813 GCAGTTGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 8 0.26
32 23 0.74
ACGTcount: A:0.22, C:0.11, G:0.41, T:0.27
Consensus pattern (32 bp):
GTGATTGGTTTCAGAGTGGAGGAGGATACTCC
Found at i:39668824 original size:29 final size:29
Alignment explanation
Indices: 39668756--39668824 Score: 72
Period size: 32 Copynumber: 2.3 Consensus size: 29
39668746 AGAGTGATTG
39668756 GTTG-AGAGTGGAGGAGGATACTCCGTGA
1 GTTGTAGAGTGGAGGAGGATACTCCGTGA
39668784 -TTGGTTTCAGAGTGGAGGAGGATACTCCG-GCA
1 GTT-G--T-AGAGTGGAGGAGGATACTCCGTG-A
39668816 GTTGTAGAG
1 GTTGTAGAG
39668825 GTTCATTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 4 0.12
30 1 0.03
31 1 0.03
32 23 0.68
33 2 0.06
ACGTcount: A:0.23, C:0.12, G:0.41, T:0.25
Consensus pattern (29 bp):
GTTGTAGAGTGGAGGAGGATACTCCGTGA
Found at i:39676197 original size:28 final size:27
Alignment explanation
Indices: 39676134--39676203 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
39676124 ATAGTGAGTC
39676134 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
39676161 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
39676189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39676204 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:39685561 original size:26 final size:27
Alignment explanation
Indices: 39685502--39685562 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
39685492 CTTGCTGGTA
39685502 TGGTGGTTGCTAAAAGCCTGGAGGGGG
1 TGGTGGTTGCTAAAAGCCTGGAGGGGG
39685529 TGGTGGTTGCTAAAAGCCTGGA-GGGG
1 TGGTGGTTGCTAAAAGCCTGGAGGGGG
39685555 TGGTGGTT
1 TGGTGGTT
39685563 TCTGATTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.16, C:0.10, G:0.48, T:0.26
Consensus pattern (27 bp):
TGGTGGTTGCTAAAAGCCTGGAGGGGG
Found at i:39689116 original size:12 final size:12
Alignment explanation
Indices: 39689099--39689123 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39689089 ACTTTATTTT
39689099 TTTTATGATATA
1 TTTTATGATATA
39689111 TTTTATGATATA
1 TTTTATGATATA
39689123 T
1 T
39689124 ATTAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTTATGATATA
Found at i:39690706 original size:24 final size:24
Alignment explanation
Indices: 39690674--39690722 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
39690664 ACAAAGTTAG
39690674 AAATGTCTCGTTTCATACCATGCC
1 AAATGTCTCGTTTCATACCATGCC
39690698 AAATGTCTCGTTTCATACCATGCC
1 AAATGTCTCGTTTCATACCATGCC
39690722 A
1 A
39690723 CCAGTAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (24 bp):
AAATGTCTCGTTTCATACCATGCC
Found at i:39697377 original size:40 final size:39
Alignment explanation
Indices: 39697328--39697534 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 39
39697318 TCTTCGGAAT
* *
39697328 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
39697367 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
39697407 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
39697447 TTAGCCCGGATATAA-AACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
39697486 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
39697526 TTAGCCCGG
1 TTAGCCCGG
39697535 GTATCATTCA
Statistics
Matches: 145, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
39 42 0.29
40 101 0.70
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:39697516 original size:79 final size:79
Alignment explanation
Indices: 39697328--39697534 Score: 265
Period size: 79 Copynumber: 2.6 Consensus size: 79
39697318 TCTTCGGAAT
* * * * ** *
39697328 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAAAACTCGCAC
39697392 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
39697407 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-AAAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAAAACTCGCAC
*
39697471 GAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
39697486 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
39697535 GTATCATTCA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
79 70 0.63
80 41 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAAAACTCGCACA
AATGCCTTCGGGTC
Found at i:39705444 original size:40 final size:39
Alignment explanation
Indices: 39705395--39705602 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
39705385 TCTTCGGAAT
* *
39705395 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
39705434 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
39705474 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
39705514 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
39705554 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
39705594 TTAGCCCGG
1 TTAGCCCGG
39705603 GTATCATTCA
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 141 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:39713142 original size:22 final size:22
Alignment explanation
Indices: 39713114--39713160 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
39713104 ATAGGTGCTG
39713114 CTTTGAGGGTATCAGAAAGTTT
1 CTTTGAGGGTATCAGAAAGTTT
39713136 CTTTGAGGGTATCAGAAAGTTT
1 CTTTGAGGGTATCAGAAAGTTT
39713158 CTT
1 CTT
39713161 AGGCCCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (22 bp):
CTTTGAGGGTATCAGAAAGTTT
Found at i:39714076 original size:13 final size:12
Alignment explanation
Indices: 39714058--39714096 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
39714048 GCTCCCTTTG
39714058 TTTTTAAAATATT
1 TTTTTAAAA-ATT
39714071 TTTTTAAAAATT
1 TTTTTAAAAATT
*
39714083 ATTTTAAGAAATT
1 TTTTTAA-AAATT
39714096 T
1 T
39714097 AATATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
TTTTTAAAAATT
Found at i:39714145 original size:16 final size:16
Alignment explanation
Indices: 39714124--39714163 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
39714114 ATTGAGTTTA
39714124 TTATATATTAATAA-AT
1 TTATATATTAA-AATAT
*
39714140 TTATATTTTAAAATAT
1 TTATATATTAAAATAT
39714156 TTATATAT
1 TTATATAT
39714164 ATATTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATATTAAAATAT
Found at i:39714180 original size:21 final size:20
Alignment explanation
Indices: 39714141--39714185 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
39714131 TTAATAAATT
*
39714141 TATATTTTAAAATATTTATA
1 TATATATTAAAATATTTATA
* *
39714161 TATATATTACAATAATTTATT
1 TATATATTAAAAT-ATTTATA
39714182 TATA
1 TATA
39714186 AATAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATATTAAAATATTTATA
Found at i:39714207 original size:18 final size:19
Alignment explanation
Indices: 39714171--39714212 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
39714161 TATATATTAC
*
39714171 AATAATTTATTTATAAATA
1 AATAAATTATTTATAAATA
39714190 AATAAATTATTT-TAAATA
1 AATAAATTATTTATAAATA
*
39714208 TATAA
1 AATAA
39714213 TAATGTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATAAATTATTTATAAATA
Found at i:39717194 original size:23 final size:22
Alignment explanation
Indices: 39717144--39717200 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
39717134 ATGATTAATT
*
39717144 TTAAAAATATTTTGTTAGTTAA
1 TTAAAAATATTTTGTTAGTAAA
*
39717166 TTAAAAATTATTTTTTTAG-AAA
1 TTAAAAA-TATTTTGTTAGTAAA
*
39717188 TTGAAAAGTATTT
1 TT-AAAAATATTT
39717201 AAATATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
TTAAAAATATTTTGTTAGTAAA
Found at i:39717599 original size:10 final size:10
Alignment explanation
Indices: 39717580--39717613 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
39717570 ATCATGTATA
*
39717580 AATTTATTTT
1 AATTCATTTT
*
39717590 AATTCTTTTT
1 AATTCATTTT
39717600 AATTCATTTT
1 AATTCATTTT
39717610 AATT
1 AATT
39717614 TTATGTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (10 bp):
AATTCATTTT
Found at i:39720997 original size:69 final size:68
Alignment explanation
Indices: 39720889--39721111 Score: 342
Period size: 69 Copynumber: 3.3 Consensus size: 68
39720879 TGTACAGCAT
* * *
39720889 TTAAATTCAACTTAAACACTATAAATATGTCCTACTTCGGACAGCTAATAATCCATATCATAGCA
1 TTAAA-TCAACTTAAACACTATAATTATGTCCTAATTCGGACAGC-AATAATCCATATCATAACA
39720954 GCACA
64 GCACA
*
39720959 TTAAATCAACTTAAACACTATAATTATGTCCTAATTCGGACAGC--CAATCCATATCATAACAGC
1 TTAAATCAACTTAAACACTATAATTATGTCCTAATTCGGACAGCAATAATCCATATCATAACAGC
39721022 ACA
66 ACA
*
39721025 TTAAATCAACTTAAACACTATAATTATGTCCAAATTCGGACAGCCAATAATCCATATCATAACAG
1 TTAAATCAACTTAAACACTATAATTATGTCCTAATTCGGACAG-CAATAATCCATATCATAACAG
39721090 CACA
65 CACA
* *
39721094 TTAAATAAACTAAAACAC
1 TTAAATCAACTTAAACAC
39721112 GATATAATAA
Statistics
Matches: 142, Mismatches: 8, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
66 62 0.44
67 1 0.01
69 74 0.52
70 5 0.04
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (68 bp):
TTAAATCAACTTAAACACTATAATTATGTCCTAATTCGGACAGCAATAATCCATATCATAACAGC
ACA
Found at i:39721960 original size:11 final size:11
Alignment explanation
Indices: 39721946--39721970 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39721936 TTATGTGTTC
39721946 TTTATTTTATT
1 TTTATTTTATT
39721957 TTTATTTTATT
1 TTTATTTTATT
39721968 TTT
1 TTT
39721971 TTAAACAAAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:39727714 original size:47 final size:47
Alignment explanation
Indices: 39727589--39727874 Score: 473
Period size: 47 Copynumber: 6.0 Consensus size: 47
39727579 TGTATGAGAT
39727589 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G-A
* *
39727639 TATATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAGA
1 -GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
39727687 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
*
39727734 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
* *
39727781 GTATATATGTGATAAGGCCTGATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
39727828 GTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
39727875 CATATGTGTG
Statistics
Matches: 226, Mismatches: 7, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
47 140 0.62
48 1 0.00
49 42 0.19
51 43 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
Found at i:39727922 original size:48 final size:48
Alignment explanation
Indices: 39727866--39727969 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
39727856 CGATGTGATG
39727866 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
39727914 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
39727962 AATGTGAA
1 AATGTGAA
39727970 TGTTGTAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.32
Consensus pattern (48 bp):
AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:39728063 original size:37 final size:37
Alignment explanation
Indices: 39728009--39728136 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
39727999 AACTTGGAAA
* *
39728009 TATGTTCCGGGTGAGACCCGACGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
39728047 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
39728084 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
39728121 TATGTCCAGGTAAGAC
1 TATGTCCGGGTAAGAC
39728137 TTTGTAATAA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 83 0.95
38 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:39730030 original size:40 final size:40
Alignment explanation
Indices: 39729984--39730283 Score: 279
Period size: 40 Copynumber: 7.5 Consensus size: 40
39729974 TGAATGATAC
**
39729984 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATATAT
* * * * * *
39730024 CCGGGCTAAGACCCGAAG-GCATTTGTACGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG-TGATATAT
* * * *
39730064 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATATAT
* * * * *
39730104 -CTGGCTAAATTCCGAAGAGCATTCGTGCTAATGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
39730143 CC-GGCTAAATTCCGAAGAGCATTCGTGCTAATGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
39730182 CCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
39730222 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
39730262 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
39730284 ATTATGCTGG
Statistics
Matches: 225, Mismatches: 28, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
39 59 0.26
40 161 0.72
41 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:39731127 original size:40 final size:41
Alignment explanation
Indices: 39731027--39731132 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 41
39731017 TTCGAATGGT
* * ** * *
39731027 ATCCGGACTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
*
39731068 ATCCGGGCTAAT-TCTCGAAGGCAATTGTGCGAA-TCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-A
*
39731109 A-CCGGGCTATGTCCCGAAGACAAT
1 ATCCGGGCTATGTCCCGAAGGCAAT
39731133 CGAGCGAGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 2 0.04
40 23 0.43
41 27 0.51
42 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
Found at i:39733488 original size:12 final size:12
Alignment explanation
Indices: 39733467--39733499 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39733457 TATTGAAACT
39733467 AAAAAA-AATAA
1 AAAAAAGAATAA
39733478 AAAAAAGAATAA
1 AAAAAAGAATAA
*
39733490 AAAATAGAAT
1 AAAAAAGAAT
39733500 TTTTACCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAAAGAATAA
Found at i:39733625 original size:15 final size:15
Alignment explanation
Indices: 39733592--39733621 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
39733582 TCTTCTCCCC
39733592 TCTCCCTCTCTCCTT
1 TCTCCCTCTCTCCTT
39733607 TCTCCC-CTCTCCTT
1 TCTCCCTCTCTCCTT
39733621 T
1 T
39733622 TCTCTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTCCCTCTCTCCTT
Found at i:39733631 original size:22 final size:22
Alignment explanation
Indices: 39733579--39733631 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
39733569 GGCCGGAGCC
39733579 CTCTCTTCTCCCCTCTCCCTCT
1 CTCTCTTCTCCCCTCTCCCTCT
* *
39733601 CTC-CTTTCTCCCCTCTCCTTTT
1 CTCTC-TTCTCCCCTCTCCCTCT
39733623 CTCTCTTCT
1 CTCTCTTCT
39733632 TTTTTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (22 bp):
CTCTCTTCTCCCCTCTCCCTCT
Found at i:39734139 original size:21 final size:19
Alignment explanation
Indices: 39734098--39734145 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
39734088 ATATTGTTAC
39734098 TATTATTTTTATTAATATAT
1 TATTA-TTTTATTAATATAT
39734118 TAATTATTTT-TTAAGTATTAT
1 T-ATTATTTTATTAA-TA-TAT
39734139 TATTATT
1 TATTATT
39734146 AATGGTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTATTTTATTAATATAT
Found at i:39734205 original size:13 final size:14
Alignment explanation
Indices: 39734181--39734211 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
39734171 ATTGTTATCA
39734181 ATATTAATATATGT
1 ATATTAATATATGT
39734195 ATATT-ATATATGT
1 ATATTAATATATGT
39734208 ATAT
1 ATAT
39734212 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:39736530 original size:31 final size:31
Alignment explanation
Indices: 39736495--39736584 Score: 76
Period size: 31 Copynumber: 3.2 Consensus size: 31
39736485 AGATGTATAT
39736495 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39736526 ATGTGA-AAGTG--T-AT-----ATAT-AT-A
1 ATGTGATAAG-GCCTAATGGCCGATGTGATGA
39736547 TATGTGATAAGGCCTAATGGCCGATGTGATGA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGA
39736579 ATGTGA
1 ATGTGA
39736585 AAGAGTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 26
0.61 0.03 0.36
Matches are distributed among these distances:
21 1 0.02
22 9 0.20
23 6 0.14
24 1 0.02
25 2 0.05
28 2 0.05
29 1 0.02
30 6 0.14
31 15 0.34
32 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39736598 original size:47 final size:47
Alignment explanation
Indices: 39736489--39736729 Score: 365
Period size: 47 Copynumber: 5.0 Consensus size: 47
39736479 TGTATGAGAT
39736489 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G---A
*
39736541 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
1 -GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
*
39736589 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGA
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
* * *
39736636 GTATATATGTGATAAGGCCTGATAGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
39736683 GTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
39736730 CATACGTGTG
Statistics
Matches: 177, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
47 91 0.51
48 1 0.01
49 40 0.23
51 1 0.01
53 44 0.25
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
Found at i:39736787 original size:48 final size:48
Alignment explanation
Indices: 39736721--39736824 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
39736711 CGATGTGATG
39736721 AATGTGAAACATACGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAACATACGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
39736769 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAACATACGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
39736817 AATGTGAA
1 AATGTGAA
39736825 TGTTGTAACA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (48 bp):
AATGTGAAACATACGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:39736927 original size:37 final size:37
Alignment explanation
Indices: 39736864--39736991 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
39736854 AACTTGGAAA
* * *
39736864 TATGTTCCGGGTGAGACTCGACGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
39736902 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
39736939 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
39736976 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
39736992 TTCGTAATAA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 83 0.95
38 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:39740470 original size:38 final size:38
Alignment explanation
Indices: 39740423--39740500 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
39740413 AATATAATCG
*
39740423 AGTTAGTGAATCGAGAGTTTGATTTGGATTCTGAAATT
1 AGTTAGTGAATCAAGAGTTTGATTTGGATTCTGAAATT
*
39740461 AGTTAGTGAATCAAGAGTTTGATTTGGATTTTGAAATT
1 AGTTAGTGAATCAAGAGTTTGATTTGGATTCTGAAATT
39740499 AG
1 AG
39740501 GTTCATAGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.40
Consensus pattern (38 bp):
AGTTAGTGAATCAAGAGTTTGATTTGGATTCTGAAATT
Found at i:39741240 original size:6 final size:6
Alignment explanation
Indices: 39741229--39741286 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
39741219 AATTAGGTGA
* * *
39741229 CAGAAT CAGAAT CAGAAT CAGTAT CAGGTAA- CAGAAT CAAAAT TAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
*
39741278 CAGTAT CAG
1 CAGAAT CAG
39741287 GTAACAGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 2 0.05
6 36 0.86
7 3 0.07
8 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:39741246 original size:31 final size:31
Alignment explanation
Indices: 39741199--39741296 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 31
39741189 TATCAGAACT
* * * *
39741199 AGAACCAGGATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
**
39741230 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
* * **
39741261 AGAATCAAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
39741292 AGAAT
1 AGAAT
39741297 AAAAAATCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:39741263 original size:25 final size:26
Alignment explanation
Indices: 39741235--39741306 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 26
39741225 GTGACAGAAT
39741235 CAGAATC-AGAATCAGTATCAGGTAA
1 CAGAATCAAGAATCAGTATCAGGTAA
39741260 CAGAATCAAAATTAGAATCAGTATCAGGTAA
1 CAGAATC---A--AGAATCAGTATCAGGTAA
* *
39741291 CAGAATAAAAAATCAG
1 CAGAATCAAGAATCAG
39741307 AATGTGAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
25 7 0.18
26 7 0.18
28 1 0.03
31 24 0.62
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (26 bp):
CAGAATCAAGAATCAGTATCAGGTAA
Found at i:39741488 original size:27 final size:26
Alignment explanation
Indices: 39741449--39741522 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
39741439 CAGTTATCAG
* * *
39741449 ATATTGTGACAGAGTCACTAGATACAA
1 ATATTGTGGCAGAGCCACCAGA-ACAA
*
39741476 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAA
*
39741502 ATATTTGTGGCATAGCCACCA
1 ATA-TTGTGGCAGAGCCACCA
39741523 AAAATAGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAA
Found at i:39741537 original size:27 final size:27
Alignment explanation
Indices: 39741476--39741547 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
39741466 CTAGATACAA
* *
39741476 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAAAGCCACCAAAACAG
* * *
39741502 ATATTTGTGGCATAGCCACCAAAAATAG
1 ATATATGTGGCAAAGCCACC-AAAACAG
39741530 ATA-ATGTGGCAAAGCCAC
1 ATATATGTGGCAAAGCCAC
39741548 TTAACAGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.10
27 27 0.69
28 8 0.21
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
ATATATGTGGCAAAGCCACCAAAACAG
Found at i:39741734 original size:22 final size:22
Alignment explanation
Indices: 39741706--39741770 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
39741696 GCAAATACGT
*
39741706 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
39741728 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
39741750 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
39741771 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:39742227 original size:27 final size:27
Alignment explanation
Indices: 39742197--39742365 Score: 239
Period size: 27 Copynumber: 6.3 Consensus size: 27
39742187 GGGGTAAAAT
* * *
39742197 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
39742224 GGTAATTCCACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
39742251 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
39742278 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
39742305 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
39742332 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
39742359 GGTAATT
1 GGTAATT
39742366 TCACAAATCA
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:39742377 original size:27 final size:26
Alignment explanation
Indices: 39742267--39742419 Score: 130
Period size: 27 Copynumber: 5.7 Consensus size: 26
39742257 TCTACCCTAT
*
39742267 AGGGGTATTTCGGTAATTCTATC-CTAC
1 AGGGGTATTTCGGTAATTCTA-CAAT-C
**
39742294 AGGGGTATTTCGGTAATTCTACCCTAC
1 AGGGGTATTTCGGTAATTCTACAAT-C
* **
39742321 AAGGGTATTTCGGTAATTCTACCCTAC
1 AGGGGTATTTCGGTAATTCTACAAT-C
39742348 AGGGGTATTTCGGTAATT-TCACAAATC
1 AGGGGTATTTCGGTAATTCT-AC-AATC
* * * *
39742375 AGGGGTATTTTGGTAATTTTATAAACC
1 AGGGGTATTTCGGTAATTCTA-CAATC
*
39742402 AGGGGTATTTTGGTAATT
1 AGGGGTATTTCGGTAATT
39742420 TTATTGATCG
Statistics
Matches: 114, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
26 2 0.02
27 110 0.96
28 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
AGGGGTATTTCGGTAATTCTACAATC
Found at i:39742378 original size:81 final size:81
Alignment explanation
Indices: 39742215--39742392 Score: 252
Period size: 81 Copynumber: 2.2 Consensus size: 81
39742205 TACCCCACAA
* * *
39742215 GGGTATCTCGGTAATTCCACCCTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG
**
39742280 TAATTCTATCCTACAG
66 TAATTCTATCAAACAG
* *
39742296 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG
39742361 TAATT-TCA-CAAATCAG
66 TAATTCT-ATCAAA-CAG
*
39742377 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
39742393 TTATAAACCA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 3 0.03
81 84 0.97
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG
TAATTCTATCAAACAG
Found at i:39742381 original size:54 final size:53
Alignment explanation
Indices: 39742215--39742392 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 53
39742205 TACCCCACAA
* * * ** *
39742215 GGGTATCTCGGTAATTCCACCCTACAAGGGTATTTTAGTAATTCTACCCTAT-AG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA--CAATCAG
* ** *
39742269 GGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACAAT-CAG
39742323 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT-TCACAAATCAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCT-AC-AATCAG
*
39742377 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
39742393 TTATAAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 102 0.96
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACAATCAG
Found at i:39742405 original size:54 final size:54
Alignment explanation
Indices: 39742347--39742905 Score: 380
Period size: 54 Copynumber: 10.4 Consensus size: 54
39742337 TTCTACCCTA
*
39742347 CAGGGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAAC
* *** *
39742401 CAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
* ** ** *** * * *
39742455 CAAGGGTATTTCAATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAAT
1 CAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
* *** * * ** * *** * **
39742509 CAAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATTTTA-
1 CAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-TAAAC
* * ** ***
39742563 CAGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTGGCAAA-
1 CAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
** * *
39742616 TTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAA-
1 CAG-GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
** * * * * *
39742670 TTGGGAATACTTT-GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAAT
1 CAGGG-GTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
* * ** * * * * *
39742725 TAAGGGTATTTTAGTAATTTTGCAAA-CTGAGGGTATTTCGATAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTATAAAC
* * *
39742779 C-GAGGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCGGTAATTTTATAAAC
1 CAG-GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
* * * *
39742832 CAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAAC
*
39742886 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGGTAATTT
39742906 GGTAAACTAA
Statistics
Matches: 403, Mismatches: 89, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
53 53 0.13
54 341 0.85
55 9 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
Found at i:39742408 original size:81 final size:81
Alignment explanation
Indices: 39742215--39742419 Score: 227
Period size: 81 Copynumber: 2.5 Consensus size: 81
39742205 TACCCCACAA
* * ** * *
39742215 GGGTATCTCGGTAATTCCACCCTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCAAACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGG
**
39742280 TAATTCTATCCTACAG
66 TAATTCTATCAAACAG
** *
39742296 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCAAACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGG
39742361 TAATT-TCA-CAAATCAG
66 TAATTCT-ATCAAA-CAG
* * * *
39742377 GGGTATTTTGGTAATTTTA-TAAACCAGGGGTATTTTGGTAATT
1 GGGTATTTCGGTAATTCTACCAAA-CAAGGGTATTTTGGTAATT
39742420 TTATTGATCG
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 4 0.04
81 103 0.96
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCAAACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGG
TAATTCTATCAAACAG
Found at i:39742420 original size:27 final size:27
Alignment explanation
Indices: 39742347--39742905 Score: 266
Period size: 27 Copynumber: 20.7 Consensus size: 27
39742337 TTCTACCCTA
* *
39742347 CAGGGGTATTTCGGTAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
39742374 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAT
***
39742401 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
** *
39742428 C-GAGGGTATTTTGGTAATTTTGTAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* *** **
39742455 CAAGGGTATTTCAATAATTTTGTAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
*** * **
39742482 C-GAGGGTAAAATGGTAATTCTGTAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* **** * *
39742509 CAAGGGTAAAACGATAATTCTGTA-AATT
1 CAGGGGTATTTTGGTAATT-T-TACAAAT
* *** * ***
39742537 GA-GGGTAAAATGGTAATTCTA-TTTT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* **
39742562 ACAGGAGTATTTCAGTAATTTTACAAAT
1 -CAGGGGTATTTTGGTAATTTTACAAAT
** **
39742590 C-GAGGGTATTTCAGTAATTTGGCAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* *
39742617 -TGAGGGTATTTCGGTAATTTTACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* * *
39742644 C-GAGGATATTTGGGTAATTTTATAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* * * *
39742671 -TGGGAATACTTTGGTAATTTTACAAGT
1 CAGGG-GTATTTTGGTAATTTTACAAAT
*
39742698 C-GAGGGTATTTTAGTAATTTTACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* * * *
39742725 TAAGGGTATTTTAGTAATTTTGCAAA-
1 CAGGGGTATTTTGGTAATTTTACAAAT
* * *
39742751 CTGAGGGTATTTCGATAATTTTACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
**
39742779 C-GAGGGTATTTCAGTAATTTTAC-AAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* * * *
39742805 C-GACGGTATTTCGGTAATTTTATAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAT
39742832 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
39742858 CTAGGGGTATTTTGATAATTTTACAAAC
1 C-AGGGGTATTTTGGTAATTTTACAAAT
39742886 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
39742906 GGTAAACTAA
Statistics
Matches: 424, Mismatches: 85, Indels: 46
0.76 0.15 0.08
Matches are distributed among these distances:
25 4 0.01
26 29 0.07
27 380 0.90
28 10 0.02
29 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:39742654 original size:81 final size:80
Alignment explanation
Indices: 39742564--39742884 Score: 294
Period size: 81 Copynumber: 4.0 Consensus size: 80
39742554 TCTATTTTAC
* ** *
39742564 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTGGCAAATTGAGGGTATTTC
1 AGGA-TATTTCAGTAATTTTACAAA-CGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTC
*
39742629 GGTAATTTTACAAATCG
64 AGTAATTTTACAAATCG
** * * * *
39742646 AGGATATTTGGGTAATTTTATAAATTG-GGAATACTTT-GGTAATTTTACAAGTCGAGGGTATTT
1 AGGATATTTCAGTAATTTTACAAA-CGAGG-GTA-TTTCGGTAATTTTACAAATCGAGGGTATTT
* **
39742709 TAGTAATTTTACAAATTA
63 CAGTAATTTTACAAATCG
* * * *
39742727 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
1 AGGATATTTCAGTAATTTTACAAAC-GAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCA
39742792 GTAATTTTAC-AATCG
65 GTAATTTTACAAATCG
* * * * *
39742807 ACGG-TATTTCGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTT
1 A-GGATATTTCAGTAATTTTACAAACGA-GGGTATTTCGGTAATTTTACAAATCGA-GGGTATTT
*
39742870 -TGATAATTTTACAAA
63 CAG-TAATTTTACAAA
39742885 CCAGGGGTAT
Statistics
Matches: 194, Mismatches: 35, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
79 4 0.02
80 64 0.33
81 117 0.60
82 9 0.05
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (80 bp):
AGGATATTTCAGTAATTTTACAAACGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG
TAATTTTACAAATCG
Found at i:39742921 original size:107 final size:107
Alignment explanation
Indices: 39742684--39742905 Score: 259
Period size: 107 Copynumber: 2.1 Consensus size: 107
39742674 GAATACTTTG
** ** * ** * *
39742684 GTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGCA
1 GTAATTTTACAA-TCGAAAGTATTTCGGTAATTTTATAAACCAGGGGTATTTTAGTAATTTTACA
*
39742749 AACTGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
65 AACTGAGGGTATTTCGATAATTTTACAAACCGAGGGTATTTCA
** *
39742792 GTAATTTTACAATCGACGGTATTTCGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAA
1 GTAATTTTACAATCGAAAGTATTTCGGTAATTTTATAAACCAGGGGTATTTTAGTAATTTTACAA
* **
39742857 ACT-AGGGGTATTTTGATAATTTTACAAACC-AGGGGTATTTTG
66 ACTGA-GGGTATTTCGATAATTTTACAAACCGA-GGGTATTTCA
39742899 GTAATTT
1 GTAATTT
39742906 GGTAAACTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
106 2 0.02
107 85 0.86
108 12 0.12
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (107 bp):
GTAATTTTACAATCGAAAGTATTTCGGTAATTTTATAAACCAGGGGTATTTTAGTAATTTTACAA
ACTGAGGGTATTTCGATAATTTTACAAACCGAGGGTATTTCA
Found at i:39753403 original size:49 final size:50
Alignment explanation
Indices: 39753292--39753420 Score: 158
Period size: 49 Copynumber: 2.6 Consensus size: 50
39753282 TGTGTCAGTA
*
39753292 TAAGACCATGTCTAGGACATGGCATCAGCACGGATATGCGAGAGCTAGTG
1 TAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAGTG
* * *
39753342 TAAGACCGTGTCTAGGACATGGCATCGGC-CTTG-T-TG-GTTATAGCTAGTG
1 TAAGACCATGTCTAGGACATGGCATCGGCAC-GGATATGCG--AGAGCTAGTG
*
39753391 TAAGACCATGTCTGGGACATGGCATCGGCA
1 TAAGACCATGTCTAGGACATGGCATCGGCA
39753421 TACTTACTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
47 1 0.01
48 2 0.03
49 38 0.55
50 28 0.41
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAGTG
Found at i:39757555 original size:47 final size:44
Alignment explanation
Indices: 39757450--39757569 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 44
39757440 ACATCACGTA
*
39757450 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCCCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT--CAAT
* *
39757496 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCAA--T
39757543 GGCCGATGCATGTCCCAGACATGTCTT
1 -GCCGATGCATGTCCCAGACATGTCTT
39757570 GCATTAGCGC
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
45 2 0.03
46 11 0.17
47 29 0.45
48 23 0.35
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAAT
Found at i:39764069 original size:30 final size:30
Alignment explanation
Indices: 39764035--39764098 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
39764025 TACTAGGTCG
39764035 TGTCCTTCACATGGCTAAGACACACGGCCA
1 TGTCCTTCACATGGCTAAGACACACGGCCA
* *
39764065 TGTCCTTCACATGGCTGAGACACACGGCCG
1 TGTCCTTCACATGGCTAAGACACACGGCCA
39764095 TGTC
1 TGTC
39764099 TCTGCCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (30 bp):
TGTCCTTCACATGGCTAAGACACACGGCCA
Found at i:39765137 original size:46 final size:46
Alignment explanation
Indices: 39765002--39765210 Score: 164
Period size: 46 Copynumber: 4.5 Consensus size: 46
39764992 AAGTTGATAC
* **
39765002 CATGTCCCAGACATGCTCTTACACTAAC--AGATCACTA-GCCGATG
1 CATGTCCCAGACATG-TCTTACACTAACTTACATCAAGAGGCCGATG
* * *
39765046 CATGTCCTAGACATGTCTTACACTAGCTTACATCAAGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAACTTACATCAAGAGGCCGATG
* * * *
39765092 CATGTCCCATACATGTCTTACACTAACTCT-CGTCTCA-ATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAACT-TACATC-AAGAGGCCGATG
* * *
39765138 CCATGTCCCAGACATGGTCTTACACTGGA-TCT-CAT-AATGTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACT-AACT-TACATCAA-GAGGCCGATG
*
39765186 CATGTCCCAAACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
39765211 GCGCACAAAA
Statistics
Matches: 133, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
43 11 0.08
44 14 0.11
45 6 0.05
46 52 0.39
47 28 0.21
48 21 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAACTTACATCAAGAGGCCGATG
Found at i:39765186 original size:94 final size:92
Alignment explanation
Indices: 39765039--39765210 Score: 233
Period size: 94 Copynumber: 1.8 Consensus size: 92
39765029 CAGATCACTA
* * *
39765039 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCAAGAGGTCGATGCATGTCCCATAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGATTACATCAAGAGGTCGATGCATGTCCCAAAC
39765104 ATGTCTTACACTAACTCTCGTCTCAAT
66 ATGTCTTACACTAACTCTCGTCTCAAT
* *
39765131 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGATCT-CAT-AATGTGG-CTGATGCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGAT-TACATCAA-GAGGTC-GATGCATGTCC
39765193 CAAACATGTCTTACACTA
61 CAAACATGTCTTACACTA
39765211 GCGCACAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
92 7 0.10
93 16 0.23
94 46 0.66
95 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGATTACATCAAGAGGTCGATGCATGTCCCAAAC
ATGTCTTACACTAACTCTCGTCTCAAT
Found at i:39768987 original size:68 final size:67
Alignment explanation
Indices: 39768915--39769064 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
39768905 CATCATGTGT
* * * *
39768915 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
39768977 ATGTAG
62 ATGTAG
** * *
39768983 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
39769048 AG
66 AG
39769050 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
39769065 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:39769020 original size:64 final size:64
Alignment explanation
Indices: 39768939--39769122 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
39768929 AGACATTATG
* *
39768939 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
39769003 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
39769068 AA
63 AA
* * * *
39769070 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
39769123 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:39770213 original size:2 final size:2
Alignment explanation
Indices: 39770206--39770230 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39770196 TCATGACATG
39770206 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
39770231 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39772202 original size:93 final size:93
Alignment explanation
Indices: 39772094--39772264 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
39772084 GCCCCTAAGT
* *
39772094 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCAATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
39772159 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
39772187 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
39772252 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39772265 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:39772261 original size:46 final size:45
Alignment explanation
Indices: 39772089--39772261 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
39772079 AACCTGCCCC
* * *
39772089 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC-A
* *
39772135 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCA
* *
39772183 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT-CA
39772228 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39772262 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCA
Found at i:39774832 original size:31 final size:31
Alignment explanation
Indices: 39774797--39774860 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39774787 CCTTTGCATG
39774797 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
39774828 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
39774859 TT
1 TT
39774861 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:39775103 original size:24 final size:24
Alignment explanation
Indices: 39775052--39775218 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
39775042 GCTTTATCAT
* *
39775052 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
39775077 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
39775101 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
39775124 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
39775148 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
39775172 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
39775196 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39775219 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:39775152 original size:71 final size:71
Alignment explanation
Indices: 39775051--39775218 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
39775041 TGCTTTATCA
*
39775051 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
39775115 AGCCCTTT
64 AGCCCTTT
* * **
39775123 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
39775188 CCCTTT
66 CCCTTT
39775194 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
39775219 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:39775293 original size:20 final size:20
Alignment explanation
Indices: 39775268--39775328 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
39775258 TTATGATTAC
39775268 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
39775288 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
39775308 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
39775328 A
1 A
39775329 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:39775299 original size:11 final size:11
Alignment explanation
Indices: 39775268--39775323 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
39775258 TTATGATTAC
39775268 ATCATGTGCAT
1 ATCATGTGCAT
*
39775279 ATCA--TACAT
1 ATCATGTGCAT
39775288 ATCATGTGCAT
1 ATCATGTGCAT
*
39775299 ATCA--TACAT
1 ATCATGTGCAT
*
39775308 TTCATGTGCAT
1 ATCATGTGCAT
39775319 ATCAT
1 ATCAT
39775324 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:39775403 original size:25 final size:25
Alignment explanation
Indices: 39775371--39775418 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39775361 ATACATAAAC
* * *
39775371 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
39775396 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39775419 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:39776674 original size:27 final size:27
Alignment explanation
Indices: 39776656--39777238 Score: 568
Period size: 27 Copynumber: 21.6 Consensus size: 27
39776646 AGGGTATTTT
*
39776656 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
39776683 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
39776710 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
39776737 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
39776764 -GATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* **
39776791 -GATAATTATGTAAATCGGGGGTAAAA-
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * *
39776817 AGGTAATTATGTAAATTAGGGGTAAAAC
1 A-GTAATTCTGTAAATCAAGGGTAAAAC
* *
39776845 GGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* *
39776872 GGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* * ** *
39776899 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
39776926 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
39776953 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
39776980 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
39777007 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* *
39777034 AATAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
39777061 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
39777088 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
39777115 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
39777142 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
39777169 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
39777196 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
*
39777223 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
39777239 GGGAGTACTT
Statistics
Matches: 504, Mismatches: 42, Indels: 19
0.89 0.07 0.03
Matches are distributed among these distances:
26 3 0.01
27 497 0.99
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:39776702 original size:54 final size:54
Alignment explanation
Indices: 39776656--39777239 Score: 768
Period size: 54 Copynumber: 10.8 Consensus size: 54
39776646 AGGGTATTTT
* * * *
39776656 AGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* *
39776710 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * *
39776764 -GATAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAA-
1 AG-TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* *
39776817 AGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAA-CTGAGGGTAAAAC
1 A-GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAAC
* * **
39776872 GGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
39776926 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
*
39776980 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAAC
* *
39777034 AATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* **
39777088 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * **
39777142 GGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
*
39777196 AGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
39777240 GGAGTACTTT
Statistics
Matches: 470, Mismatches: 47, Indels: 26
0.87 0.09 0.05
Matches are distributed among these distances:
53 5 0.01
54 460 0.98
55 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:39776742 original size:81 final size:81
Alignment explanation
Indices: 39776657--39777239 Score: 757
Period size: 81 Copynumber: 7.2 Consensus size: 81
39776647 GGGTATTTTA
* * *
39776657 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
39776722 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* *
39776738 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAAC-GATAATTATG
1 GTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTA
* *
39776801 TAAATCGGGGGTAAAAAG
64 TAAATCGAGGGTAAAACG
* * * * *
39776819 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTG
1 GTAATTCTGTAAATCGA-GGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTA
39776882 TAAA-CTGAGGGTAAAACG
64 TAAATC-GAGGGTAAAACG
* ** * * ** *
39776900 GTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
39776965 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* *
39776981 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAACAATAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTAT
39777045 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * * *
39777062 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
39777127 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * **
39777143 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
39777208 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAACG
39777224 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
39777240 GGAGTACTTT
Statistics
Matches: 441, Mismatches: 48, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
80 7 0.02
81 428 0.97
82 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:39780294 original size:29 final size:27
Alignment explanation
Indices: 39780260--39780362 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
39780250 TACTCAATCA
*
39780260 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
39780289 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
39780318 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
39780347 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
39780363 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:39788045 original size:29 final size:27
Alignment explanation
Indices: 39788011--39788113 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
39788001 TACTCAATCA
*
39788011 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
39788040 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
39788069 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
39788098 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
39788114 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:39792988 original size:30 final size:30
Alignment explanation
Indices: 39792952--39793082 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
39792942 GACAAGATTG
* * * * *
39792952 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
39792982 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
39793010 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39793040 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39793069 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39793083 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:39793043 original size:58 final size:58
Alignment explanation
Indices: 39792952--39793082 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
39792942 GACAAGATTG
* * * * * *
39792952 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
39793010 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
39793069 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39793083 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:39800774 original size:30 final size:30
Alignment explanation
Indices: 39800738--39800868 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
39800728 GACAAGATTG
* * * * *
39800738 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
39800768 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
39800796 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39800826 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
39800855 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39800869 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:39800829 original size:58 final size:58
Alignment explanation
Indices: 39800738--39800868 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
39800728 GACAAGATTG
* * * * * *
39800738 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
39800796 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
39800855 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39800869 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:39804430 original size:46 final size:46
Alignment explanation
Indices: 39804363--39804535 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
39804353 AACCCGCCCC
* * *
39804363 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCA
1 TAAGTCAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * * * * *
39804409 TAAGTCAACTCGGACTCAACTCAACGAGTTTGGATGCCTAG-TTACA
1 TAAGTCAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
**** *
39804455 TTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTC-AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
39804502 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTCAACTCGGACTCAACTCAACGAGTTCGGA
39804536 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 66 0.67
47 33 0.33
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTCAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:39804476 original size:93 final size:93
Alignment explanation
Indices: 39804368--39804538 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
39804358 GCCCCTAAGT
* *
39804368 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTCAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
*
39804433 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
39804461 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
39804526 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39804539 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:39812971 original size:26 final size:25
Alignment explanation
Indices: 39812923--39812974 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
39812913 TAACTCATAA
39812923 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
39812949 ATTTCACATTTTCAGCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
39812975 TAACAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.37
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:39816527 original size:48 final size:49
Alignment explanation
Indices: 39816453--39816594 Score: 193
Period size: 48 Copynumber: 3.0 Consensus size: 49
39816443 ATGAAATCAC
* * *
39816453 ATGCCGATGCCATATCCCAGATATGGTTTTATACA-G-GATCATATATCG
1 ATGCCAATGCCATATCCCAGATATGGTTCT-TACATGAGATCACATATCG
* *
39816501 ATGCCAATGCCATGTCCCAGACATGG-TCTTACATGAGATCACATATCG
1 ATGCCAATGCCATATCCCAGATATGGTTCTTACATGAGATCACATATCG
*
39816549 ATGCCAATGCCATATCCCAGATATGG-TCTTACATGGGATCACATAT
1 ATGCCAATGCCATATCCCAGATATGGTTCTTACATGAGATCACATAT
39816595 ATTGCCATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 4 0.05
47 3 0.04
48 77 0.92
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (49 bp):
ATGCCAATGCCATATCCCAGATATGGTTCTTACATGAGATCACATATCG
Found at i:39826444 original size:39 final size:39
Alignment explanation
Indices: 39826346--39826535 Score: 161
Period size: 40 Copynumber: 4.8 Consensus size: 39
39826336 CGAATGATGT
* * * *
39826346 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTA-AAC
* * * *
39826386 CGGACTAGGAT-CCAAAGGCATTCGTGCGAGTTAATAAATC
1 CGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA-C
* *
39826426 CGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAACC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA-C
* *
39826465 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AAC
** * *
39826505 CGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
39826536 CGTTATATCC
Statistics
Matches: 120, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 33 0.28
40 78 0.65
41 9 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAC
Found at i:39826485 original size:79 final size:81
Alignment explanation
Indices: 39826346--39826528 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
39826336 CGAATGATGT
* * *
39826346 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCAAAGGCATTCG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCAAAGGCATTCG
*
39826410 TGCGAGTTAATA-AATC
66 TGCGAGTCAATATAA-C
* ** *
39826426 CGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCAAAGGCATTC
*
39826488 GTGCGAGTCACTATAAC
65 GTGCGAGTCAATATAAC
**
39826505 CGGGCTTTGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
39826529 AGCGAGTCGT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCAAAGGCATTCG
TGCGAGTCAATATAAC
Found at i:39835178 original size:49 final size:49
Alignment explanation
Indices: 39835122--39835371 Score: 398
Period size: 49 Copynumber: 5.2 Consensus size: 49
39835112 TACATATATG
* * * * *
39835122 TGTGATAAGGCCGAATGGACAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
39835171 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
39835220 TGTGATGAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
39835268 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
39835317 TGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATG--TA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
39835364 TGTGATGA
1 TGTGATGA
39835372 ATGTGAAAGT
Statistics
Matches: 190, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 10 0.05
48 47 0.25
49 133 0.70
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:39835301 original size:97 final size:97
Alignment explanation
Indices: 39835122--39835371 Score: 405
Period size: 97 Copynumber: 2.6 Consensus size: 97
39835112 TACATATATG
* * * * *
39835122 TGTGATAAGGCCGAATGGACAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATGAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
39835187 GGCCGATGTGATGAATGTGAAAGTGGATGTATA
65 GGCCGATGTGATGAATGTGAAAGTGGATGTATA
39835220 TGTGATGAGGCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATG
1 TGTGATGAGGCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATG
* *
39835285 GCCGATGTGATGAATGTGAAATTGTATGTATA
66 GCCGATGTGATGAATGTGAAAGTGGATGTATA
39835317 TGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATG--TATGTGATGA
1 TGTGATGAGG-CCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGA
39835372 ATGTGAAAGT
Statistics
Matches: 144, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
96 10 0.07
97 89 0.62
98 45 0.31
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.29
Consensus pattern (97 bp):
TGTGATGAGGCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGGATGTATA
Found at i:39835368 original size:25 final size:26
Alignment explanation
Indices: 39835338--39835398 Score: 106
Period size: 25 Copynumber: 2.3 Consensus size: 26
39835328 CCAATGGCCG
39835338 ATGTGATGAATGTGAAAGTGTATG-T
1 ATGTGATGAATGTGAAAGTGTATGAT
39835363 ATGTGATGAATGTGAAAGTGTATGTAT
1 ATGTGATGAATGTGAAAGTGTATG-AT
39835390 ATGTGATGA
1 ATGTGATGA
39835399 GGCCCAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 24 0.71
27 10 0.29
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (26 bp):
ATGTGATGAATGTGAAAGTGTATGAT
Found at i:39835371 original size:74 final size:74
Alignment explanation
Indices: 39835289--39835438 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
39835279 CTAATGGCCG
*
39835289 ATGTGATGAATGTGAAATTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAA
39835354 AGTGTATGT
66 AGTGTATGT
*
39835363 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGGTGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAA
39835428 AGTGTATGT
66 AGTGTATGT
39835437 AT
1 AT
39835439 ATGTGATAAG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.32
Consensus pattern (74 bp):
ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAA
AGTGTATGT
Found at i:39835379 original size:123 final size:123
Alignment explanation
Indices: 39835240--39835487 Score: 433
Period size: 123 Copynumber: 2.0 Consensus size: 123
39835230 CCAATGGCCG
*
39835240 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAA
* * *
39835305 ATTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGT
66 AGTGTATGTATATGTGATAAGGCCCAACGGCCGATGTGATGAATGTGAAAGTGTATGT
*
39835363 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGGTGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAA
* *
39835428 AGTGTATGTATATGTGATAAGGCCTAACGGCCGATGTGGTGAATGTGAAAGTGTATGT
66 AGTGTATGTATATGTGATAAGGCCCAACGGCCGATGTGATGAATGTGAAAGTGTATGT
39835486 AT
1 AT
39835488 ATGTGATAAG
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.31
Consensus pattern (123 bp):
ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAA
AGTGTATGTATATGTGATAAGGCCCAACGGCCGATGTGATGAATGTGAAAGTGTATGT
Found at i:39835422 original size:49 final size:49
Alignment explanation
Indices: 39835363--39835507 Score: 254
Period size: 49 Copynumber: 3.0 Consensus size: 49
39835353 AAGTGTATGT
* * *
39835363 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCG
1 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
*
39835412 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAACGGCCG
1 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
39835461 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
1 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
39835508 TAATGTAAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 91 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
Found at i:39835477 original size:172 final size:171
Alignment explanation
Indices: 39835192--39835507 Score: 551
Period size: 172 Copynumber: 1.8 Consensus size: 171
39835182 CTAATGGCCG
39835192 ATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCAATGGCCGATGTGATGAATGTGAAA
* * *
39835257 GTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATGTATATGTGA
66 GTGTATGTATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGA
*
39835322 TGAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGT
131 TAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGT
* *
39835363 ATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGGTGAATGTGAA
1 ATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGG-CCAATGGCCGATGTGATGAATGTGAA
*
39835428 AGTGTATGTATATGTGATAAGGCCTAACGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTG
65 AGTGTATGTATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTG
*
39835493 ATAAGGCCTAATGGC
130 ATAAGGCCCAATGGC
39835508 TAATGTAAAA
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
171 37 0.27
172 99 0.73
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.30
Consensus pattern (171 bp):
ATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCAATGGCCGATGTGATGAATGTGAAA
GTGTATGTATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGA
TAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGT
Found at i:39835659 original size:37 final size:37
Alignment explanation
Indices: 39835609--39835693 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
39835599 GGAATATGTT
*
39835609 CCGGGTGAGACCCGATGACTACGTATGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
* *
39835646 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
39835683 CCGGGTAAGAC
1 CCGGGTAAGAC
39835694 TTCTTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
Found at i:39838679 original size:39 final size:39
Alignment explanation
Indices: 39838633--39838771 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 39
39838623 GGACTAGGAT
*
39838633 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTC
* * *
39838672 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTC
* **
39838712 CCGAAGGCATTCGTGCGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGCTAAGTC
* *
39838752 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
39838772 CGTTATATCC
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.39
40 50 0.59
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGCTAAGTC
Found at i:39838795 original size:79 final size:79
Alignment explanation
Indices: 39838632--39838797 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
39838622 TGGACTAGGA
* * *
39838632 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
*
39838697 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * ** * **
39838711 CCCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
39838775 TATATCC-GGTTAAAT
64 TAAACCCGGGTTAAAT
39838790 TCCGAAGG
1 TCCGAAGG
39838798 TACGTGATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 45 0.63
80 26 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGGGTTAAAT
Found at i:39842590 original size:44 final size:44
Alignment explanation
Indices: 39842541--39842627 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
39842531 AGCTTAACTG
*
39842541 ATTTTTACATATAAAATTTATAGA-ACATATATGTCATAAAAATC
1 ATTTTTACATATAAAATTTACA-ACACATATATGTCATAAAAATC
* * *
39842585 ATTTTTACATATAACATTTACAACATATATATTTCATAAAAAT
1 ATTTTTACATATAAAATTTACAACACATATATGTCATAAAAAT
39842628 AAGAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.40
Consensus pattern (44 bp):
ATTTTTACATATAAAATTTACAACACATATATGTCATAAAAATC
Found at i:39843219 original size:15 final size:14
Alignment explanation
Indices: 39843194--39843223 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
39843184 TGAAATTGGT
39843194 AAAATTTTCTTATC
1 AAAATTTTCTTATC
39843208 AAAATCTTTCTTATC
1 AAAAT-TTTCTTATC
39843223 A
1 A
39843224 TAATGTAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:39850954 original size:11 final size:11
Alignment explanation
Indices: 39850938--39850962 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39850928 AAAAATATAA
39850938 AAAATAATATT
1 AAAATAATATT
39850949 AAAATAATATT
1 AAAATAATATT
39850960 AAA
1 AAA
39850963 GGAAAATAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:39855632 original size:16 final size:16
Alignment explanation
Indices: 39855611--39855641 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39855601 GTAATGCCCT
39855611 AAAAATCCCGAAATCC
1 AAAAATCCCGAAATCC
*
39855627 AAAAATCCTGAAATC
1 AAAAATCCCGAAATC
39855642 TTGAATTTTT
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:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATCCCGAAATCC
Found at i:39856876 original size:24 final size:23
Alignment explanation
Indices: 39856839--39856890 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
39856829 AATGAATCGA
* * *
39856839 CAAAAGTCGAAATGCCGAAAAGT
1 CAAAAGGCGAAATGCCAAAAAGC
39856862 CAAAAGGCAGAAATGCCAAAAAGC
1 CAAAAGGC-GAAATGCCAAAAAGC
39856886 CAAAA
1 CAAAA
39856891 TTTGGGCTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.54, C:0.19, G:0.19, T:0.08
Consensus pattern (23 bp):
CAAAAGGCGAAATGCCAAAAAGC
Done.