Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 43 of 352
Found at i:13769638 original size:25 final size:25
Alignment explanation
Indices: 13769610--13769690 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
13769600 GGGTTTCACA
13769610 AGCTTCTTGATTAATGGCTCTCTTG
1 AGCTTCTTGATTAATGGCTCTCTTG
* * *
13769635 AGCTTCTCGA-TAATTGGCTCGCATG
1 AGCTTCTTGATTAA-TGGCTCTCTTG
* * *
13769660 AGCTTCCTGATTTATGTCTCT-TATG
1 AGCTTCTTGATTAATGGCTCTCT-TG
13769685 AGCTTC
1 AGCTTC
13769691 CCAATATACA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 3 0.07
25 39 0.89
26 2 0.05
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (25 bp):
AGCTTCTTGATTAATGGCTCTCTTG
Found at i:13771920 original size:6 final size:5
Alignment explanation
Indices: 13771888--13771913 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13771878 TTATCATACC
13771888 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
13771914 TAGTTTTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:13772598 original size:31 final size:31
Alignment explanation
Indices: 13772563--13772631 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
13772553 GGGCGTGTGG
13772563 GCCACA-CGGACGTGTGGACCCACACAAGCAT
1 GCCACATCGGA-GTGTGGACCCACACAAGCAT
* *
13772594 GCCACATGGGAGTGTGGACCCACACAGGCAT
1 GCCACATCGGAGTGTGGACCCACACAAGCAT
13772625 GCCACAT
1 GCCACAT
13772632 GGGCGTGCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.28, T:0.12
Consensus pattern (31 bp):
GCCACATCGGAGTGTGGACCCACACAAGCAT
Found at i:13772632 original size:31 final size:31
Alignment explanation
Indices: 13772574--13772634 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
13772564 CCACACGGAC
13772574 GTGTGGACCCACACAAGCATGCCACATGGGA
1 GTGTGGACCCACACAAGCATGCCACATGGGA
*
13772605 GTGTGGACCCACACAGGCATGCCACATGGG
1 GTGTGGACCCACACAAGCATGCCACATGGG
13772635 CGTGCGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.30, G:0.31, T:0.13
Consensus pattern (31 bp):
GTGTGGACCCACACAAGCATGCCACATGGGA
Found at i:13775779 original size:16 final size:16
Alignment explanation
Indices: 13775758--13775802 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
13775748 AAAGGGTGAG
13775758 AAGTTTAAGGGAATAA
1 AAGTTTAAGGGAATAA
* *
13775774 AAGTTT-TGATGAATAA
1 AAGTTTAAG-GGAATAA
13775790 AAGTTTAAGGGAA
1 AAGTTTAAGGGAA
13775803 AGTAAATGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (16 bp):
AAGTTTAAGGGAATAA
Found at i:13776168 original size:9 final size:9
Alignment explanation
Indices: 13776154--13776190 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
13776144 TATAGTTTGA
13776154 TATTCGAAT
1 TATTCGAAT
13776163 TATTCGAAT
1 TATTCGAAT
13776172 TATTC-AAGT
1 TATTCGAA-T
13776181 TATTCGAAT
1 TATTCGAAT
13776190 T
1 T
13776191 GGAGAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13776264 original size:18 final size:18
Alignment explanation
Indices: 13776241--13776275 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13776231 ATTCTAGTTG
13776241 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
13776259 ACTCAAATAACTTGATT
1 ACTCAAATAACTCGATT
13776276 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:13776626 original size:20 final size:18
Alignment explanation
Indices: 13776601--13776644 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
13776591 CGGGCTGAGG
13776601 ACACGGGCGTGTCCAGATCC
1 ACACGGGCGTGT-CAGA-CC
* *
13776621 ACACGGGTGTGTGAGACC
1 ACACGGGCGTGTCAGACC
13776639 ACACGG
1 ACACGG
13776645 CCTACCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.14
Consensus pattern (18 bp):
ACACGGGCGTGTCAGACC
Found at i:13777048 original size:16 final size:16
Alignment explanation
Indices: 13777023--13777056 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13777013 AGGATTAGGG
*
13777023 TTTATGATTTTATAGT
1 TTTATAATTTTATAGT
*
13777039 TTTATAATTTTATGGT
1 TTTATAATTTTATAGT
13777055 TT
1 TT
13777057 AGTGTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTATAATTTTATAGT
Found at i:13777083 original size:27 final size:27
Alignment explanation
Indices: 13777047--13777162 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 27
13777037 GTTTTATAAT
13777047 TTTATGGTTTAGT-GTTTAGGGTTTATGG
1 TTTA-GGTTTA-TAGTTTAGGGTTTATGG
*
13777075 TTTAGGTTTA-AGTTTAGGGTTTAATGT
1 TTTAGGTTTATAGTTTAGGGTTT-ATGG
* *
13777102 TTTAGGTTGATAGTTTAGGGTTTATGT
1 TTTAGGTTTATAGTTTAGGGTTTATGG
* * * *
13777129 TTTATGTTTATGGTTTAGAGTTTTAGGG
1 TTTAGGTTTATAGTTTAG-GGTTTATGG
13777157 TTTAGG
1 TTTAGG
13777163 GCTTAAAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
26 11 0.15
27 37 0.49
28 27 0.36
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (27 bp):
TTTAGGTTTATAGTTTAGGGTTTATGG
Found at i:13777125 original size:35 final size:36
Alignment explanation
Indices: 13777046--13777168 Score: 96
Period size: 34 Copynumber: 3.6 Consensus size: 36
13777036 AGTTTTATAA
* * ** *
13777046 TTTTATGGTTTAGTGTTTAGGGTTTATGGTTTAG-G
1 TTTTAGGGTTTAGGGTTTAATGTTTATGGTTGAGAG
* *
13777081 -TTTA-AGTTTAGGGTTTAATGTTT-TAGGTTGATAG
1 TTTTAGGGTTTAGGGTTTAATGTTTAT-GGTTGAGAG
* * *
13777115 -TTTAGGGTTTA-TGTTTTATGTTTATGGTTTAGAG
1 TTTTAGGGTTTAGGGTTTAATGTTTATGGTTGAGAG
*
13777149 TTTTAGGGTTTAGGGCTTAA
1 TTTTAGGGTTTAGGGTTTAA
13777169 AGTTAAATAA
Statistics
Matches: 68, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
32 1 0.01
33 20 0.29
34 26 0.38
35 17 0.25
36 4 0.06
ACGTcount: A:0.19, C:0.01, G:0.28, T:0.52
Consensus pattern (36 bp):
TTTTAGGGTTTAGGGTTTAATGTTTATGGTTGAGAG
Found at i:13777132 original size:14 final size:14
Alignment explanation
Indices: 13777017--13777151 Score: 84
Period size: 14 Copynumber: 9.6 Consensus size: 14
13777007 AGGATTAGGA
13777017 TTAGGGTTTATGATT
1 TTAGGGTTTATG-TT
* * *
13777032 TTATAGTTTTATAATT
1 TTA-GGGTTTAT-GTT
*
13777048 TTATGGTTTA-GTGT
1 TTAGGGTTTATGT-T
*
13777062 TTAGGGTTTATGGT
1 TTAGGGTTTATGTT
*
13777076 TTA-GGTTTAAG-T
1 TTAGGGTTTATGTT
13777088 TTAGGGTTTAATGTT
1 TTAGGGTTT-ATGTT
*
13777103 TTA-GGTTGATAG-T
1 TTAGGGTTTAT-GTT
13777116 TTAGGGTTTATGTT
1 TTAGGGTTTATGTT
* *
13777130 TTA-TGTTTATGGT
1 TTAGGGTTTATGTT
*
13777143 TTAGAGTTT
1 TTAGGGTTT
13777152 TAGGGTTTAG
Statistics
Matches: 94, Mismatches: 15, Indels: 23
0.71 0.11 0.17
Matches are distributed among these distances:
12 4 0.04
13 31 0.33
14 35 0.37
15 13 0.14
16 11 0.12
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (14 bp):
TTAGGGTTTATGTT
Found at i:13777144 original size:7 final size:7
Alignment explanation
Indices: 13777047--13777145 Score: 73
Period size: 7 Copynumber: 14.6 Consensus size: 7
13777037 GTTTTATAAT
13777047 TTTATGG
1 TTTATGG
13777054 TTTA-GTG
1 TTTATG-G
*
13777061 TTTAGGG
1 TTTATGG
13777068 TTTATGG
1 TTTATGG
13777075 TTTA-GG
1 TTTATGG
*
13777081 TTTA-AG
1 TTTATGG
*
13777087 TTTAGGG
1 TTTATGG
*
13777094 TTTAATGT
1 TTT-ATGG
13777102 TTTA-GG
1 TTTATGG
* *
13777108 TTGATAG
1 TTTATGG
*
13777115 TTTAGGG
1 TTTATGG
*
13777122 TTTATGT
1 TTTATGG
13777129 TTTAT-G
1 TTTATGG
13777135 TTTATGG
1 TTTATGG
13777142 TTTA
1 TTTA
13777146 GAGTTTTAGG
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
6 21 0.29
7 45 0.62
8 6 0.08
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (7 bp):
TTTATGG
Found at i:13777162 original size:7 final size:7
Alignment explanation
Indices: 13777047--13777163 Score: 62
Period size: 7 Copynumber: 17.0 Consensus size: 7
13777037 GTTTTATAAT
*
13777047 TTTATGG
1 TTTAGGG
*
13777054 TTTAGTG
1 TTTAGGG
13777061 TTTAGGG
1 TTTAGGG
*
13777068 TTTATGG
1 TTTAGGG
13777075 TTTA-GG
1 TTTAGGG
*
13777081 TTTA-AG
1 TTTAGGG
13777087 TTTAGGG
1 TTTAGGG
* *
13777094 TTTAATGT
1 TTT-AGGG
13777102 TTTA-GG
1 TTTAGGG
* **
13777108 TTGATAG
1 TTTAGGG
13777115 TTTAGGG
1 TTTAGGG
* *
13777122 TTTATGT
1 TTTAGGG
*
13777129 TTTA-TG
1 TTTAGGG
*
13777135 TTTATGG
1 TTTAGGG
*
13777142 TTTAGAGT
1 TTTAG-GG
13777150 TTTAGGG
1 TTTAGGG
13777157 TTTAGGG
1 TTTAGGG
13777164 CTTAAAGTTA
Statistics
Matches: 83, Mismatches: 22, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
6 19 0.23
7 53 0.64
8 11 0.13
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (7 bp):
TTTAGGG
Found at i:13778718 original size:33 final size:32
Alignment explanation
Indices: 13778681--13778759 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
13778671 TGGTCTAACC
* * *
13778681 ATGGTCTTACGTTCACGATGCCATAACCCAGTT
1 ATGGTCTTACATTCA-AATGCCATAACCCAGCT
* * *
13778714 ATGGTCTTTTCATTGAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTCAAATGCCATAACCCAGCT
13778747 ATGGTCTTACATT
1 ATGGTCTTACATT
13778760 TATCACTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 6 0.16
33 26 0.68
34 6 0.16
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACATTCAAATGCCATAACCCAGCT
Found at i:13781776 original size:18 final size:18
Alignment explanation
Indices: 13781755--13781811 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
13781745 AAAGGGAAAG
13781755 AAAGAAAAGGAGAAAAAA
1 AAAGAAAAGGAGAAAAAA
*
13781773 AAAGAAAAGGA-AAAAGGA
1 AAAGAAAAGGAGAAAA-AA
*
13781791 AAA-AAGAGAGAGAAAAAA
1 AAAGAAAAG-GAGAAAAAA
13781809 AAA
1 AAA
13781812 CTCCTATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.24
18 21 0.64
19 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGGAGAAAAAA
Found at i:13781781 original size:23 final size:22
Alignment explanation
Indices: 13781751--13781795 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
13781741 AATAAAAGGG
*
13781751 AAAGAAA-GAAAAGGAGAAAAAA
1 AAAGAAAGGAAAAAG-GAAAAAA
13781773 AAAGAAAAGGAAAAAGGAAAAAA
1 AAAG-AAAGGAAAAAGGAAAAAA
13781796 GAGAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAGAAAGGAAAAAGGAAAAAA
Found at i:13781807 original size:34 final size:33
Alignment explanation
Indices: 13781732--13781811 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 33
13781722 AGTAGCTTGG
* *
13781732 GAAAGAAAAAATAAAAGGGAAAGAAAGAAAAGGA
1 GAAA-AAAAAAGAAAAGGAAAAGAAAGAAAAGGA
13781766 GAAAAAAAAAGAAAAGGAAAAAGGAAA-AAAGAGAGA
1 GAAAAAAAAAGAAAAGG-AAAA-GAAAGAAA-AG-GA
13781802 GAAAAAAAAA
1 GAAAAAAAAA
13781812 CTCCTATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
33 12 0.30
34 10 0.25
35 6 0.15
36 12 0.30
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (33 bp):
GAAAAAAAAAGAAAAGGAAAAGAAAGAAAAGGA
Found at i:13783415 original size:23 final size:25
Alignment explanation
Indices: 13783389--13783435 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13783379 TATCATTCAT
*
13783389 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
13783412 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
13783436 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:13783886 original size:46 final size:46
Alignment explanation
Indices: 13783706--13783888 Score: 242
Period size: 46 Copynumber: 4.0 Consensus size: 46
13783696 TTCCATAGTG
* * * * *
13783706 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATAGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * * *
13783752 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
13783798 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
13783844 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
13783889 CTTACACACA
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:13783904 original size:68 final size:68
Alignment explanation
Indices: 13783829--13783956 Score: 256
Period size: 68 Copynumber: 1.9 Consensus size: 68
13783819 CATCTCATAT
13783829 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTAC
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTAC
13783894 ACA
66 ACA
13783897 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
13783957 ATCTTTCAAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (68 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTAC
ACA
Found at i:13783950 original size:46 final size:46
Alignment explanation
Indices: 13783897--13783991 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
13783887 GTCTTACACA
13783897 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
13783943 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
13783989 CAG
1 CAG
13783992 AGAGCACACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (46 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:13783991 original size:114 final size:114
Alignment explanation
Indices: 13783786--13783991 Score: 394
Period size: 114 Copynumber: 1.8 Consensus size: 114
13783776 TTCATGTCAC
*
13783786 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
13783851 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTACACACAG
66 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTACACACAG
*
13783900 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
13783965 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTACACATTTCATATCAG
13783992 AGAGCACACT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 90 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (114 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTCTTACACACAG
Found at i:13786185 original size:27 final size:28
Alignment explanation
Indices: 13786119--13786196 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
13786109 TCTTTATATA
*
13786119 CTAATAAAATAATAATAAAATATCTTAT
1 CTAATTAAATAATAATAAAATATCTTAT
* * *
13786147 -TAAAGT-ATTAATAAAAAAATAT-TTAT
1 CT-AATTAAATAATAATAAAATATCTTAT
*
13786173 CTAATTAAATAATTATAAAATATC
1 CTAATTAAATAATAATAAAATATC
13786197 AAAATATCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
26 7 0.18
27 29 0.76
28 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (28 bp):
CTAATTAAATAATAATAAAATATCTTAT
Found at i:13788185 original size:19 final size:19
Alignment explanation
Indices: 13788161--13788220 Score: 95
Period size: 19 Copynumber: 3.1 Consensus size: 19
13788151 ATCTTTAAGT
13788161 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
13788180 ATATGCAATCTTAGATAT-
1 ATATGCAATCTTAGATATG
13788198 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
13788219 AT
1 AT
13788221 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.32
19 18 0.47
20 6 0.16
21 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:13788788 original size:26 final size:26
Alignment explanation
Indices: 13788733--13788788 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
13788723 AGTTTCATTT
* *
13788733 TTTTATATGCTATGTTTAATTATTTC
1 TTTTATATGCTATGTTTAATTATATA
13788759 TTTTATATGCTAT-TTT-ATGATATATA
1 TTTTATATGCTATGTTTAAT--TATATA
13788785 TTTT
1 TTTT
13788789 TGTATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 2 0.08
25 3 0.12
26 21 0.81
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.62
Consensus pattern (26 bp):
TTTTATATGCTATGTTTAATTATATA
Found at i:13791140 original size:28 final size:28
Alignment explanation
Indices: 13791109--13791162 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
13791099 GTATGGATTA
13791109 TAATTAGATTATTTGGTAAGAATAAAAT
1 TAATTAGATTATTTGGTAAGAATAAAAT
* * *
13791137 TAATTATATTGTTTGGTAGGAATAAA
1 TAATTAGATTATTTGGTAAGAATAAA
13791163 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.41
Consensus pattern (28 bp):
TAATTAGATTATTTGGTAAGAATAAAAT
Found at i:13794315 original size:208 final size:208
Alignment explanation
Indices: 13793771--13794439 Score: 1214
Period size: 208 Copynumber: 3.2 Consensus size: 208
13793761 GTCCAACTAG
*
13793771 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
13793836 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
13793901 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGT-AA
13793966 TATATATATATAATC
195 -ATATATATATAATC
* * *
13793981 ATATTAGTGAAA-CTGCTAATGCGTACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTA
1 ATATTACT-AAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTA
* *
13794045 AAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAAT
65 AAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAAT
13794110 GAGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAA
130 GAGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAA
13794175 ATATATATATAATC
195 ATATATATATAATC
13794189 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
13794254 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
*
13794319 AAATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
13794384 TATATATATAATC
196 TATATATATAATC
* * *
13794397 ATATTAGTGAATCTGCTAATACATACTTCATCCGGATGAAGTA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTA
13794440 CGTATTAGCA
Statistics
Matches: 442, Mismatches: 15, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
207 3 0.01
208 252 0.57
209 2 0.00
210 183 0.41
211 2 0.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.38
Consensus pattern (208 bp):
ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
TATATATATAATC
Found at i:13796687 original size:96 final size:96
Alignment explanation
Indices: 13796509--13796702 Score: 289
Period size: 96 Copynumber: 2.0 Consensus size: 96
13796499 TCGCTTCTTT
*
13796509 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* * * * *
13796574 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 ATCTACTCCATCATTCCCATCGATAACAGAC
* * * *
13796605 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
*
13796670 ATCTACTCGATCATTCCCATCGATAACAGAC
66 ATCTACTCCATCATTCCCATCGATAACAGAC
13796701 TT
1 TT
13796703 CCTCGGACAC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.14, C:0.35, G:0.17, T:0.35
Consensus pattern (96 bp):
TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ATCTACTCCATCATTCCCATCGATAACAGAC
Found at i:13804849 original size:25 final size:26
Alignment explanation
Indices: 13804816--13804870 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
13804806 ACGTTGTTTC
*
13804816 TAAATTTAAATTTTTTAAAT-CTATT
1 TAAAATTAAATTTTTTAAATGCTATT
* *
13804841 TAAAATTAATTTTTTTAGATGCTATT
1 TAAAATTAAATTTTTTAAATGCTATT
13804867 TAAA
1 TAAA
13804871 TGTTTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
TAAAATTAAATTTTTTAAATGCTATT
Found at i:13808534 original size:50 final size:50
Alignment explanation
Indices: 13808426--13808558 Score: 196
Period size: 50 Copynumber: 2.7 Consensus size: 50
13808416 CTAGTATGCA
* * * ** *
13808426 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACG
*
13808475 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACG
13808525 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
13808559 CACAATAGAT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
49 30 0.39
50 46 0.61
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACG
Found at i:13815759 original size:32 final size:33
Alignment explanation
Indices: 13815715--13815783 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
13815705 ATTTCAATAG
*
13815715 TTATGAAATAACTTATAATGTCTAGAAAAAGTA
1 TTATGAAATAACTTAAAATGTCTAGAAAAAGTA
*
13815748 TTAT-AAATAACTTAAAATGTCTAGGAAAAGTA
1 TTATGAAATAACTTAAAATGTCTAGAAAAAGTA
13815780 TTAT
1 TTAT
13815784 CTTAATTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (33 bp):
TTATGAAATAACTTAAAATGTCTAGAAAAAGTA
Found at i:13816969 original size:70 final size:70
Alignment explanation
Indices: 13816871--13817267 Score: 494
Period size: 70 Copynumber: 5.7 Consensus size: 70
13816861 GTGCGAAATT
* * * ** ***
13816871 TAGGTATGGTAT-AACCATACCAAGTTGTGAAATGTAGGTATGGCATCGTCCATACTGAGCCATG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
*
13816935 ATACG
66 AAACG
* * * * * *
13816940 TAGGTATGGTATTAACCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATACCGAGATGTG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
*
13817005 AAACA
66 AAACG
* *
13817010 TAGGTATGGTATCATCCATACCGAGTTGTGACATGTAGGTATGGTATCATCCATA-TCGAGTTGT
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACT-GAGTTGT
*
13817074 GAAATG
65 GAAACG
* *
13817080 TAGGTATGGTATCATCCATACCGAGTTGAGAAATGTAGGTATGGTATTATCCATACTAAGTTGTG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
13817145 AAACG
66 AAACG
* * **
13817150 TAGGTATGGTATCATCCATACCGAGTTGAGAAATGTAGGTATGGTGTTATCCATACTGAGTTAAG
1 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
*
13817215 AAATG
66 AAACG
* * *
13817220 TAGGTATGGCAT-TTCCCATATCGAGTTGTGAAATGTAGGTATGGTATT
1 TAGGTATGGTATCAT-CCATACCGAGTTGTGAAATGTAGGTATGGTATT
13817268 TCAATGAGGA
Statistics
Matches: 287, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
69 13 0.05
70 273 0.95
71 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (70 bp):
TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTGTG
AAACG
Found at i:13817064 original size:105 final size:105
Alignment explanation
Indices: 13816865--13817266 Score: 475
Period size: 105 Copynumber: 3.8 Consensus size: 105
13816855 GGCAAAGTGC
* * * * *
13816865 GAAATTTAGGTATGGTA-TAACCATACCAAGTTGTGAAATGTAGGTATGGCATCGTCCATACTGA
1 GAAATGTAGGTATGGTATTAACCATACCGAGTTGAGAAATGTAGGTATGGCATCATCCATACCGA
*** * * *
13816929 GCCATGATACGTAGGTATGGTATTAACCATACCGAGTTGT
66 GTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * * ** *
13816969 GAAACGTAGGTATGGTATTAACCATACCGAGATGTGAAACATAGGTATGGTATCATCCATACCGA
1 GAAATGTAGGTATGGTATTAACCATACCGAGTTGAGAAATGTAGGTATGGCATCATCCATACCGA
* * *
13817034 GTTGTGACATGTAGGTATGGTATCATCCATATCGAGTTGT
66 GTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * * * **
13817074 GAAATGTAGGTATGGTATCATCCATACCGAGTTGAGAAATGTAGGTATGGTATTATCCATACTAA
1 GAAATGTAGGTATGGTATTAACCATACCGAGTTGAGAAATGTAGGTATGGCATCATCCATACCGA
*
13817139 GTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGA
66 GTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGT
* * * * * *
13817179 GAAATGTAGGTATGGTGTTATCCATACTGAGTTAAGAAATGTAGGTATGGCAT-TTCCCATATCG
1 GAAATGTAGGTATGGTATTAACCATACCGAGTTGAGAAATGTAGGTATGGCATCAT-CCATACCG
*
13817243 AGTTGTGAAATGTAGGTATGGTAT
65 AGTTGTGAAACGTAGGTATGGTAT
13817267 TTCAATGAGG
Statistics
Matches: 255, Mismatches: 41, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
104 16 0.06
105 239 0.94
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (105 bp):
GAAATGTAGGTATGGTATTAACCATACCGAGTTGAGAAATGTAGGTATGGCATCATCCATACCGA
GTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGT
Found at i:13817269 original size:35 final size:34
Alignment explanation
Indices: 13816865--13817269 Score: 405
Period size: 35 Copynumber: 11.6 Consensus size: 34
13816855 GGCAAAGTGC
* ** *
13816865 GAAATTTAGGTATGGTATAACCATACCAAGTTGT
1 GAAATGTAGGTATGGTATTTCCATACCGAGTTGT
* * * ***
13816899 GAAATGTAGGTATGGCATCGTCCATACTGAGCCAT
1 GAAATGTAGGTATGGTAT-TTCCATACCGAGTTGT
* * *
13816934 GATACGTAGGTATGGTATTAACCATACCGAGTTGT
1 GAAATGTAGGTATGGTATT-TCCATACCGAGTTGT
* * *
13816969 GAAACGTAGGTATGGTATTAACCATACCGAGATGT
1 GAAATGTAGGTATGGTATT-TCCATACCGAGTTGT
** *
13817004 GAAACATAGGTATGGTATCATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCATACCGAGTTGT
* * *
13817039 GACATGTAGGTATGGTATCATCCATATCGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCATACCGAGTTGT
* *
13817074 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTAT-TTCCATACCGAGTTGT
**
13817109 GAAATGTAGGTATGGTATTATCCATACTAAGTTGT
1 GAAATGTAGGTATGGTATT-TCCATACCGAGTTGT
* * *
13817144 GAAACGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTAT-TTCCATACCGAGTTGT
* * **
13817179 GAAATGTAGGTATGGTGTTATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TCCATACCGAGTTGT
* *
13817214 GAAATGTAGGTATGGCATTTCCCATATCGAGTTGT
1 GAAATGTAGGTATGGTATTT-CCATACCGAGTTGT
13817249 GAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
13817270 AATGAGGAAA
Statistics
Matches: 312, Mismatches: 52, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
34 18 0.06
35 294 0.94
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (34 bp):
GAAATGTAGGTATGGTATTTCCATACCGAGTTGT
Found at i:13820779 original size:6 final size:6
Alignment explanation
Indices: 13820724--13820764 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
13820714 AATAAAGTTC
*
13820724 AAAATAT AAAAA- CAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
13820765 AAGCATAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:13822477 original size:17 final size:17
Alignment explanation
Indices: 13822442--13822488 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
13822432 GCAATAAATA
*
13822442 AATAAGTAAAATAACAG
1 AATAAGTAAAATAAAAG
13822459 AATAA-TAAAATAAAAAG
1 AATAAGTAAAAT-AAAAG
* *
13822476 AAAAAGAAAAATA
1 AATAAGTAAAATA
13822489 CTAAAGCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 6 0.24
17 14 0.56
18 5 0.20
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (17 bp):
AATAAGTAAAATAAAAG
Found at i:13823884 original size:30 final size:30
Alignment explanation
Indices: 13823843--13823900 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13823833 CACAGGATGC
* *
13823843 CACATGGGCATGTGGCT-AGCCTGTGTGGCT
1 CACACGGGCATGT-GCTCAGCCCGTGTGGCT
13823873 CACACGGGCATGTGCTCAGCCCGTGTGG
1 CACACGGGCATGTGCTCAGCCCGTGTGG
13823901 AAATGGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.14, C:0.28, G:0.36, T:0.22
Consensus pattern (30 bp):
CACACGGGCATGTGCTCAGCCCGTGTGGCT
Found at i:13824572 original size:42 final size:41
Alignment explanation
Indices: 13824451--13824572 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 41
13824441 AATTATACCA
* * ***
13824451 ATGCCATATCCCATATATGGTCTTATATAGGGCCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAATCTCATATCG
* * *
13824493 ATGCCAATAGCCCAGCTATGGTCTTACACGAATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
13824536 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCA
13824573 ACTAACTCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:13827339 original size:55 final size:55
Alignment explanation
Indices: 13827278--13827388 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
13827268 AGGTATCGAG
13827278 ACCTCGAATTTGAAAATTGAGCCATAAATATTTTTATAAATATTTATTGAGTTTC
1 ACCTCGAATTTGAAAATTGAGCCATAAATATTTTTATAAATATTTATTGAGTTTC
13827333 ACCTCGAATTTGAAAATTGAGCCATAAATATTTTTATAAATATTTATTGAGTTTC
1 ACCTCGAATTTGAAAATTGAGCCATAAATATTTTTATAAATATTTATTGAGTTTC
13827388 A
1 A
13827389 TTTAGTTAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (55 bp):
ACCTCGAATTTGAAAATTGAGCCATAAATATTTTTATAAATATTTATTGAGTTTC
Found at i:13828566 original size:34 final size:34
Alignment explanation
Indices: 13828512--13828643 Score: 128
Period size: 35 Copynumber: 3.9 Consensus size: 34
13828502 TCAATGGCAA
13828512 AGTTGTGAAACGTAGGTATGGTATCATTCATACTG
1 AGTTGTGAAACGTAGGTATGGTAT-ATTCATACTG
* *
13828547 AGTTGTGAAA-GTAGGTATGGTATTATCCATACTA
1 AGTTGTGAAACGTAGGTATGGTA-TATTCATACTG
* * *
13828581 AGTTAAT-AAACGTAGGTATGGCAT-TTCCCATACCG
1 AGTT-GTGAAACGTAGGTATGGTATATT--CATACTG
* *
13828616 AGTTGTAAAATGTAGGTATGGTAT-TTCA
1 AGTTGTGAAACGTAGGTATGGTATATTCA
13828644 ATGAGGAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
33 3 0.04
34 29 0.36
35 49 0.60
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (34 bp):
AGTTGTGAAACGTAGGTATGGTATATTCATACTG
Found at i:13834753 original size:15 final size:15
Alignment explanation
Indices: 13834733--13834770 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13834723 CAAAACATGC
*
13834733 ATATATTACATATTT
1 ATATATAACATATTT
*
13834748 ATATATAATATATTT
1 ATATATAACATATTT
13834763 ATATATAA
1 ATATATAA
13834771 ACAAAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATAACATATTT
Found at i:13834865 original size:27 final size:27
Alignment explanation
Indices: 13834835--13834886 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
13834825 AATGCCATTT
* *
13834835 AGGATTTTAAAATAGAAATTCAAACAC
1 AGGATTTGAAAATAAAAATTCAAACAC
* *
13834862 AGGATTTGCAAATAAAAATTGAAAC
1 AGGATTTGAAAATAAAAATTCAAAC
13834887 GCAACAATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (27 bp):
AGGATTTGAAAATAAAAATTCAAACAC
Found at i:13850478 original size:21 final size:21
Alignment explanation
Indices: 13850454--13850503 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
13850444 TGACTTTAGG
13850454 TTGATTAATTGAAGTTTCTTT
1 TTGATTAATTGAAGTTTCTTT
13850475 TTGATTAATTGAAGTTTCTTT
1 TTGATTAATTGAAGTTTCTTT
*
13850496 TTAATTAA
1 TTGATTAA
13850504 GACCTCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (21 bp):
TTGATTAATTGAAGTTTCTTT
Found at i:13851891 original size:33 final size:33
Alignment explanation
Indices: 13851854--13851920 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
13851844 TAAAACATTT
13851854 CAAACCCTCGATACCAAGATCATCTCATGATTA
1 CAAACCCTCGATACCAAGATCATCTCATGATTA
13851887 CAAACCCTCGATACCAAGATCATCTCATGATTA
1 CAAACCCTCGATACCAAGATCATCTCATGATTA
13851920 C
1 C
13851921 CAAAACTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.31, G:0.09, T:0.24
Consensus pattern (33 bp):
CAAACCCTCGATACCAAGATCATCTCATGATTA
Found at i:13851923 original size:20 final size:20
Alignment explanation
Indices: 13851865--13851923 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
13851855 AAACCCTCGA
13851865 TACCAAGATCATCTCATGAT
1 TACCAAGATCATCTCATGAT
*
13851885 TA-CAA-A-C-CCTC--GA-
1 TACCAAGATCATCTCATGAT
13851898 TACCAAGATCATCTCATGAT
1 TACCAAGATCATCTCATGAT
13851918 TACCAA
1 TACCAA
13851924 AACTCATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 1 0.03
16 4 0.13
17 4 0.13
18 1 0.03
19 5 0.17
20 8 0.27
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.25
Consensus pattern (20 bp):
TACCAAGATCATCTCATGAT
Found at i:13852164 original size:127 final size:127
Alignment explanation
Indices: 13851938--13852166 Score: 386
Period size: 127 Copynumber: 1.8 Consensus size: 127
13851928 CATGCATTGA
* * *
13851938 AATTTTAAAAGGATATTCGGTTATTTGGTCAAACGCTAAATCGAAACCCAGCACGTTAGGGCACG
1 AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGCAAAATCGAAACCCAGCACGTTAGAGCACG
*
13852003 ATTTCTCGAATTTCCAAACATAAAATATTGCCTTGTTTTTTAATTGAAGAAAACACGGACAG
66 ATTTCTCGAATTTCCAAACACAAAATATTGCCTTGTTTTTTAATTGAAGAAAACACGGACAG
* * *
13852065 AATTTTAAAAGGGTATTTGGTCATTTGGTCAAACGGAAAATCGAAACCCAGCACGTTAGAGCACG
1 AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGCAAAATCGAAACCCAGCACGTTAGAGCACG
*
13852130 ATTTCTCGAATTTCCAAACACGAAATATTGCCTTGTT
66 ATTTCTCGAATTTCCAAACACAAAATATTGCCTTGTT
13852167 CTCGAAATGT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 94 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (127 bp):
AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGCAAAATCGAAACCCAGCACGTTAGAGCACG
ATTTCTCGAATTTCCAAACACAAAATATTGCCTTGTTTTTTAATTGAAGAAAACACGGACAG
Found at i:13852561 original size:25 final size:26
Alignment explanation
Indices: 13852498--13852551 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13852488 ATAACCACTG
13852498 ATAGAAACATAAAGCAAATTAAAAATAA
1 ATAGAAA-AT-AAGCAAATTAAAAATAA
* *
13852526 ATAGAATATAAGCAATTTAAAAATAA
1 ATAGAAAATAAGCAAATTAAAAATAA
13852552 TAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 2 0.08
28 6 0.25
ACGTcount: A:0.65, C:0.06, G:0.07, T:0.22
Consensus pattern (26 bp):
ATAGAAAATAAGCAAATTAAAAATAA
Found at i:13852584 original size:15 final size:15
Alignment explanation
Indices: 13852553--13852600 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
13852543 TAAAAATAAT
*
13852553 AATAAATAAAT-TTAA
1 AATAAAT-AATGTAAA
13852568 AATAAATAATGTAAAA
1 AATAAATAATGT-AAA
13852584 AATAAATAATGTAAA
1 AATAAATAATGTAAA
13852599 AA
1 AA
13852601 GTAGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 3 0.10
15 13 0.43
16 14 0.47
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAAATAATGTAAA
Found at i:13852587 original size:16 final size:16
Alignment explanation
Indices: 13852566--13852600 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13852556 AAATAAATTT
13852566 AAAATAAATAATGTAA
1 AAAATAAATAATGTAA
13852582 AAAATAAATAATGTAA
1 AAAATAAATAATGTAA
13852598 AAA
1 AAA
13852601 GTAGTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATAAATAATGTAA
Found at i:13852860 original size:31 final size:31
Alignment explanation
Indices: 13852819--13852888 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
13852809 AGAATAATAG
*
13852819 ATATAAAAAAAA-CTGAAATAAACT-ATATAAT
1 ATATAAAAAAAATCTAAAATAAA-TAATAT-AT
*
13852850 ATGTAAAAAAAATCTAAAATAAATAATATAT
1 ATATAAAAAAAATCTAAAATAAATAATATAT
13852881 ATATAAAA
1 ATATAAAA
13852889 TTTTAGAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 21 0.62
32 13 0.38
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
ATATAAAAAAAATCTAAAATAAATAATATAT
Found at i:13852899 original size:28 final size:27
Alignment explanation
Indices: 13852866--13852930 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
13852856 AAAAAATCTA
*
13852866 AAATAAATAATATATATATAAA-ATTTT
1 AAATAAATAACATATATA-AAATATTTT
*
13852893 AGAATAAATAACGTATATAAAATTATTTT
1 A-AATAAATAACATATATAAAA-TATTTT
13852922 AAATAAATA
1 AAATAAATA
13852931 GTAAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 4 0.12
28 23 0.70
29 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (27 bp):
AAATAAATAACATATATAAAATATTTT
Found at i:13852990 original size:27 final size:27
Alignment explanation
Indices: 13852960--13853016 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
13852950 ACATTACATT
13852960 AAAACAAGTTAAAATAAATAATATATA
1 AAAACAAGTTAAAATAAATAATATATA
* * * **
13852987 AAAATAATTTAAAATGAATGGTATATA
1 AAAACAAGTTAAAATAAATAATATATA
13853014 AAA
1 AAA
13853017 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAACAAGTTAAAATAAATAATATATA
Found at i:13857014 original size:12 final size:12
Alignment explanation
Indices: 13856999--13857032 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13856989 ATGCAGAAAG
13856999 AGATGCAAGAAC
1 AGATGCAAGAAC
*
13857011 AGATGCAAGCAC
1 AGATGCAAGAAC
*
13857023 AAATGCAAGA
1 AGATGCAAGA
13857033 GTAATTTGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:13860568 original size:27 final size:27
Alignment explanation
Indices: 13860537--13860589 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
13860527 TTTTATTCTT
*
13860537 TCCATACAAATAATTATTTTAGATTCC
1 TCCATACAAATAATTATTTCAGATTCC
* * *
13860564 TCCATGCGAGTAATTATTTCAGATTC
1 TCCATACAAATAATTATTTCAGATTC
13860590 TTTCAAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (27 bp):
TCCATACAAATAATTATTTCAGATTCC
Found at i:13864847 original size:52 final size:52
Alignment explanation
Indices: 13864697--13864848 Score: 146
Period size: 52 Copynumber: 2.9 Consensus size: 52
13864687 GATATCATAC
* ** *
13864697 CGATGCCATATCCCAAATATGGTCTTATACGGAATCAAATTATCAC-TTCCCAA
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACA-TATCACATTCCCAA
* * * * * *
13864750 TGATGCCATAGCCCAGCTATGGTCTTATACGGGAATACGTGTCACATT-GCAC
1 CGATGCCATAGCCCAGCTATGGTCTTATAC-GGAACACATATCACATTCCCAA
* *
13864802 CGATTCCATAGCCTAGCTATGGTCTTATACGGAAGCACATATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACATATCACAT
13864849 ATTTTCCGCC
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
51 4 0.05
52 43 0.54
53 29 0.36
54 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (52 bp):
CGATGCCATAGCCCAGCTATGGTCTTATACGGAACACATATCACATTCCCAA
Found at i:13869579 original size:44 final size:44
Alignment explanation
Indices: 13869527--13870399 Score: 285
Period size: 44 Copynumber: 19.7 Consensus size: 44
13869517 AAGATTGTAG
* **
13869527 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAACAA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
** * * * ** * * *
13869571 ATCTTATCTTATCGAGGTAGTAGGGGAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* * * * * *
13869615 TTCTTATCT-TCTGAAGTAGCAAG-GGAGCAGA-CTGAAGATTGTAG
1 ATCTTATCTCCCT-AAGTAG-TAGTGGAGCAGATC-GAAGATCGCAA
* * * *
13869659 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* * * ** * * *
13869703 ATCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTAA-ACCACCA
1 ATCTTATCTCCCT-AAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* ** * * * * *
13869747 GTCTTATCTTCCAGAAGTAGCAAG-GGAGCAGA-CTGAAAATTGTAG
1 ATCTTATC-TCCCTAAGTAG-TAGTGGAGCAGATC-GAAGATCGCAA
* * * *
13869792 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* * * * * *
13869836 ATCTTATCTTCCCGAGGTAGTAGTGGAGCAGAT-TAAG-CCACCA
1 ATCTTATC-TCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* * * * * *
13869879 GTCTTATCTTCCTGAAGTAGCAAG-GGAGCAGA-CTGAAGATTGTAG
1 ATCTTATCTCCCT-AAGTAG-TAGTGGAGCAGATC-GAAGATCGCAA
* * * * *
13869924 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* * * ** * * *
13869968 ATCTTATCTTTCCGAGGTAGTAG-GGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGTAGTAGTGG-AGCAGATCGAAGATCGCAA
* ** * * * * *
13870012 GTCTTATCTTCCAGAAGTAGCAAG-GGAGCAGATTGAAGATTGTAG
1 ATCTTATC-TCCCTAAGTAG-TAGTGGAGCAGATCGAAGATCGCAA
* * *
13870057 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* * * ** * * *
13870101 ATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* ** * * * * * *
13870145 GTCTTATCTTCCAGAAGTAGCAATGGAGCAGA-CTGAGGATTGTAG
1 ATCTTATC-TCCCTAAGTAGTAGTGGAGCAGATC-GAAGATCGCAA
* * *
13870190 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATAT-GGAGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCA-A
* * * ** * * *
13870234 ATCTTATCTTCCCGAGGTAGTAGAT-GAGTAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGTAGTAG-TGGAGCAGATCGAAGATCGCAA
* * * * * * *
13870278 GTCTTATCTTCCTGAAGTAGCAAG-GGAGCAGA-CTAAAGATTGTAG
1 ATCTTATCTCCCT-AAGTAG-TAGTGGAGCAGATC-GAAGATCGCAA
* * * *
13870323 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
* *
13870367 ATCTTATCTTCCTGAAGTAGTAGGGGAGCAGAT
1 ATCTTATCTCCCT-AAGTAGTAGTGGAGCAGAT
13870400 TTAAGCCACC
Statistics
Matches: 582, Mismatches: 203, Indels: 87
0.67 0.23 0.10
Matches are distributed among these distances:
42 5 0.01
43 54 0.09
44 323 0.55
45 199 0.34
46 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATCGCAA
Found at i:13870599 original size:133 final size:133
Alignment explanation
Indices: 13869416--13870574 Score: 1666
Period size: 133 Copynumber: 8.7 Consensus size: 133
13869406 GAGGTAGCAA
* * ** * *
13869416 TGGAGTAGATTGAAGACAGCGAATCTTATC-TCCCTGAGGTAGTAAGGGAGCAGATTTAAGCTAC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCC-GAGGTAGTAGGGGAGCAGATTTAAGCCAC
* * * * * *
13869480 TAGTCTTGTCTCCCTG-AGCAGC-AGTAGAGCAAGGCTGAAGATTGTAGATCTTATCTCCCTAAG
65 CAGTCTTATCTTCCTGAAGTAGCAAG-GGAGC-AGACTGAAGATTGTAGATCTTATCTCCCTAAG
13869543 CAGTAG
128 CAGTAG
** * **
13869549 TGGAGCAGATCGAAGATAACAAATCTTATCTTATCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
*
13869614 ATTCTTATCTT-CTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
13869678 TAG
131 TAG
* * *
13869681 TGGAGCAAATCGAAGATGGCGAATCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTAAACCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* *
13869746 AGTCTTATCTTCCAGAAGTAGCAAGGGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
13869811 TAG
131 TAG
* *
13869814 TGGAGTAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGTGGAGCAGA-TTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
13869878 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
13869943 TAG
131 TAG
* * * *
13869946 TAGAGCAGATCAAAGATGGCGAATCTTATCTTTCCGAGGTAGTAGGGAAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* *
13870011 AGTCTTATCTTCCAGAAGTAGCAAGGGAGCAGATTGAAGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
13870076 TAG
131 TAG
13870079 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* * *
13870144 AGTCTTATCTTCCAGAAGTAGCAATGGAGCAGACTGAGGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
13870209 TAG
131 TAG
* * ** *
13870212 TGGAGCAGATCGAATATGGAGAATCTTATCTTCCCGAGGTAGTAGATGAGTAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
*
13870277 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTAAAGATTGTAGATCTTATCTCCCTAAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
13870342 TAG
131 TAG
* * *
13870345 TGGAGCAGATCAAAGATGGCGAATCTTATCTTCCTGAAGTAGTAGGGGAGCAGATTTAAGCCACC
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* * *
13870410 AGTCTTATCTTCTTGAAATAGCAAGGGAGCAGACTGAATATTGTAGATCTTATCTCCCTGAA-CA
66 AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCT-AAGCA
** *
13870474 ACAT
130 GTAG
* * * * * * * * * *
13870478 TGAAGTAGATCGAATATGGCGAATCTTATCTTTCCGGGGTAGTAGCGGACCAAATTGAAGCCACT
1 TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
* * *
13870543 AGCCTTATCTCCCTGAAGTTGC-AGTGGAGCAG
66 AGTCTTATCTTCCTGAAGTAGCAAG-GGAGCAG
13870575 GTTGAAATCA
Statistics
Matches: 928, Mismatches: 91, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
132 232 0.25
133 690 0.74
134 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (133 bp):
TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTAAGCCACC
AGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAG
Found at i:13877823 original size:68 final size:68
Alignment explanation
Indices: 13877751--13877902 Score: 170
Period size: 67 Copynumber: 2.2 Consensus size: 68
13877741 CATCATGTGT
* * *
13877751 ACAAGAGAGCTACGAGACATTATGATATAGCTAGGTCGCATG-GTTGATACTA-TG-TGTACACC
1 ACAAGAGAGCTACGAGACA-TAT-ATATAGCTAGGTCGCATGCG-TGATACCAGTGAAGGACACC
13877813 ATGTAG
63 ATGTAG
* * * *
13877819 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATATAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
13877882 GTAG
65 GTAG
13877886 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
13877903 TAAATTGGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
64 22 0.31
65 4 0.06
66 3 0.04
67 27 0.38
68 15 0.21
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATATAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:13884605 original size:16 final size:16
Alignment explanation
Indices: 13884578--13884620 Score: 77
Period size: 16 Copynumber: 2.6 Consensus size: 16
13884568 GAAAACATCT
13884578 CAAAAGCATAAAGATAA
1 CAAAA-CATAAAGATAA
13884595 CAAAACATAAAGATAA
1 CAAAACATAAAGATAA
13884611 CAAAACATAA
1 CAAAACATAA
13884621 GAAAACCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.67, C:0.14, G:0.07, T:0.12
Consensus pattern (16 bp):
CAAAACATAAAGATAA
Found at i:13887708 original size:32 final size:30
Alignment explanation
Indices: 13887662--13887740 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
13887652 ATTTTTCGGC
*
13887662 CACTATATTATTAAAAAATTTTATTTTAAGT
1 CACTAGATTATTAAAAAATTTTA-TTTAAGT
*
13887693 CACT-GAATTATTTAAAAAATTTTATTTGAGT
1 CACTAG-ATTA-TTAAAAAATTTTATTTAAGT
13887724 CACTAGATTATTAAAAA
1 CACTAGATTATTAAAAA
13887741 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
30 7 0.16
31 22 0.51
32 14 0.33
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (30 bp):
CACTAGATTATTAAAAAATTTTATTTAAGT
Found at i:13889404 original size:46 final size:46
Alignment explanation
Indices: 13889346--13889440 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
13889336 TATTACTAAG
13889346 TAAAAGATATTTATTAGATAAATAATTAGATTGTGAGATTTTTGTA
1 TAAAAGATATTTATTAGATAAATAATTAGATTGTGAGATTTTTGTA
13889392 TAAAAGATATTTATTAGATAAATAATTAGATTGTGAGATTTTTGTA
1 TAAAAGATATTTATTAGATAAATAATTAGATTGTGAGATTTTTGTA
13889438 TAA
1 TAA
13889441 TAAACAAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (46 bp):
TAAAAGATATTTATTAGATAAATAATTAGATTGTGAGATTTTTGTA
Found at i:13889645 original size:12 final size:12
Alignment explanation
Indices: 13889628--13889655 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13889618 TAAAAGATAT
13889628 TTATTATAATTA
1 TTATTATAATTA
13889640 TTATTATAATTA
1 TTATTATAATTA
13889652 TTAT
1 TTAT
13889656 CATTATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:13890251 original size:13 final size:13
Alignment explanation
Indices: 13890233--13890257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13890223 TGATTGAAAA
13890233 ATGAATTAAATAT
1 ATGAATTAAATAT
13890246 ATGAATTAAATA
1 ATGAATTAAATA
13890258 AAAGTGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATGAATTAAATAT
Found at i:13890655 original size:23 final size:23
Alignment explanation
Indices: 13890622--13890733 Score: 106
Period size: 21 Copynumber: 5.0 Consensus size: 23
13890612 GGCTTTGCCG
* *
13890622 ATCAGGTACTTTATGTGTCGTAT
1 ATCAGGCACTTCATGTGTCGTAT
*
13890645 ATCAGGCACTTAATGTGTCGTAT
1 ATCAGGCACTTCATGTGTCGTAT
* * * *
13890668 TTCACGTACCTCATGTGTC--AT
1 ATCAGGCACTTCATGTGTCGTAT
* *
13890689 TTCAGGCGCTTCATGTGTCGT-T
1 ATCAGGCACTTCATGTGTCGTAT
*
13890711 -TCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTCATGTGTCGTAT
13890733 A
1 A
13890734 CTACTTCTGA
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
21 35 0.49
22 2 0.03
23 35 0.49
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (23 bp):
ATCAGGCACTTCATGTGTCGTAT
Found at i:13893208 original size:15 final size:14
Alignment explanation
Indices: 13893181--13893225 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
13893171 TGTTAATATA
*
13893181 AAATTCATATAATG
1 AAATCCATATAATG
* *
13893195 AAATCTATTATAATA
1 AAATCCA-TATAATG
13893210 AAATCCATATAATG
1 AAATCCATATAATG
13893224 AA
1 AA
13893226 TCACAATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (14 bp):
AAATCCATATAATG
Found at i:13893237 original size:30 final size:29
Alignment explanation
Indices: 13893178--13893242 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
13893168 AAATGTTAAT
* *
13893178 ATAAAATTCATATAATGAAATCTATTATA
1 ATAAAATCCATATAATGAAATCAATTATA
13893207 ATAAAATCCATATAATG-AATCACAATTATA
1 ATAAAATCCATATAATGAAAT--CAATTATA
13893237 ATAAAA
1 ATAAAA
13893243 AAAATTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 16 0.50
30 13 0.41
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (29 bp):
ATAAAATCCATATAATGAAATCAATTATA
Found at i:13894268 original size:11 final size:11
Alignment explanation
Indices: 13894252--13894285 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13894242 TTATAATTTG
*
13894252 TTAAATAAAAC
1 TTAAATAAAAA
13894263 TTAAATAAAAA
1 TTAAATAAAAA
*
13894274 TAAAATAAAAA
1 TTAAATAAAAA
13894285 T
1 T
13894286 ACTATCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:13894606 original size:40 final size:40
Alignment explanation
Indices: 13894569--13894683 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 40
13894559 TGGATGCATG
*
13894569 TGCGTGCCCTTGTTTGTACTTCGGTACCCCTGAATGCACA
1 TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACA
* * * * *
13894609 TACGTGCCCCTATTTGTACTCCGATACCCCTAAATGCACA
1 TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACA
* * * *
13894649 TGCATGCCCCTGTTTATACTTTGGTAACCCTGAAT
1 TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAAT
13894684 CAAATAGTAT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.32
Consensus pattern (40 bp):
TGCGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACA
Found at i:13909746 original size:21 final size:20
Alignment explanation
Indices: 13909716--13909754 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13909706 ATCTTTTCTT
*
13909716 TATTTTATATATATAAATAAA
1 TATTTCATATATA-AAATAAA
*
13909737 TATTTCATATTTAAAATA
1 TATTTCATATATAAAATA
13909755 GTAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTCATATATAAAATAAA
Found at i:13912528 original size:46 final size:46
Alignment explanation
Indices: 13912461--13912634 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
13912451 AGCCCCGCCC
* *
13912461 ATAAGTGAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCT
*
13912507 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--A-C--GTTCGCATCT
* * * * *
13912557 -CAA--GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCT
*
13912600 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13912635 TGCTCAACCA
Statistics
Matches: 108, 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 3 0.03
45 1 0.01
46 61 0.56
47 26 0.24
49 3 0.03
50 5 0.05
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCT
Found at i:13912626 original size:93 final size:93
Alignment explanation
Indices: 13912467--13912635 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
13912457 GCCCATAAGT
* ** * *
13912467 GAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13912532 CGAGCTCGGATACCTAGTTACATCTCAA
66 CGAGCTCGGATACCTAGTTACATCTCAA
*
13912560 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13912625 CGAGTTCGGAT
66 CGAGCTCGGAT
13912636 GCTCAACCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATACCTAGTTACATCTCAA
Found at i:13912653 original size:46 final size:44
Alignment explanation
Indices: 13912510--13912653 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
13912500 CGCATCTATA
*
13912510 AGTGAACTCGGACTCAACTCAACGAGCTCGGATACCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATACC-A---ACCATCT
* * * * *
13912557 CA-AGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCG--GATAC-CAACCATCT
*
13912603 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATAC-CAACCAT-CT
13912649 AGTGA
1 AGTGA
13912654 CGTGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.42
47 29 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATACCAACCATCT
Found at i:13922889 original size:26 final size:26
Alignment explanation
Indices: 13922860--13922915 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
13922850 GCTATACTGG
13922860 TGAAAATCAATTTATGTAGCCTTTGT
1 TGAAAATCAATTTATGTAGCCTTTGT
*
13922886 TGAAAATCAATTTATGTAGGCTTTGT
1 TGAAAATCAATTTATGTAGCCTTTGT
13922912 TGAA
1 TGAA
13922916 TTCACTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (26 bp):
TGAAAATCAATTTATGTAGCCTTTGT
Found at i:13927510 original size:6 final size:7
Alignment explanation
Indices: 13927491--13927516 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13927481 TAGAATATTG
13927491 GCAAAAA
1 GCAAAAA
13927498 GCAAAAA
1 GCAAAAA
13927505 GCAAAAA
1 GCAAAAA
13927512 GCAAA
1 GCAAA
13927517 TACAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (7 bp):
GCAAAAA
Found at i:13935253 original size:42 final size:42
Alignment explanation
Indices: 13935114--13935273 Score: 121
Period size: 42 Copynumber: 3.8 Consensus size: 42
13935104 TCATGTTTAC
* * * * * *
13935114 TTTTTGTTTAGCTCTCA-AGAGCTTCTGTTTAACTCATATGAG
1 TTTTCGTTCAGCTCTCACA-AGCTTCTGTTCAACCCTTATGGG
* ** *
13935156 TTTCCGTTCAGCTCT-ATTGAGCTTCTATAT-AACCCTTATGGG
1 TTTTCGTTCAGCTCTCA-CAAGCTTCTGT-TCAACCCTTATGGG
*
13935198 TTTTCGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGG
1 TTTTCGTTCAGCTCTCACAAGCTTCTGTTCAACCCTTATGGG
* * **
13935240 TATTT-TTTTAGCTCTCATGAGCTTCTGTTCAACC
1 T-TTTCGTTCAGCTCTCACAAGCTTCTGTTCAACC
13935274 TTCGGGCTTC
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
41 2 0.02
42 88 0.93
43 5 0.05
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.43
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTCACAAGCTTCTGTTCAACCCTTATGGG
Found at i:13940502 original size:11 final size:11
Alignment explanation
Indices: 13940486--13940510 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13940476 CCCTTAATCT
13940486 TTCCCTTTTTC
1 TTCCCTTTTTC
13940497 TTCCCTTTTTC
1 TTCCCTTTTTC
13940508 TTC
1 TTC
13940511 AATCTCAATA
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:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCCCTTTTTC
Found at i:13944089 original size:117 final size:117
Alignment explanation
Indices: 13943883--13944116 Score: 468
Period size: 117 Copynumber: 2.0 Consensus size: 117
13943873 GACCAGAAAG
13943883 ATACTGGTGAAGGCAACGATACATATCTTGGTAGTCTTTCTGCATAACTTATACAGACGAAGTTT
1 ATACTGGTGAAGGCAACGATACATATCTTGGTAGTCTTTCTGCATAACTTATACAGACGAAGTTT
13943948 CACTTGTAGAACTAGGGCCATGGTAGGTACTGAACTCATGGGCAACCGAGTA
66 CACTTGTAGAACTAGGGCCATGGTAGGTACTGAACTCATGGGCAACCGAGTA
13944000 ATACTGGTGAAGGCAACGATACATATCTTGGTAGTCTTTCTGCATAACTTATACAGACGAAGTTT
1 ATACTGGTGAAGGCAACGATACATATCTTGGTAGTCTTTCTGCATAACTTATACAGACGAAGTTT
13944065 CACTTGTAGAACTAGGGCCATGGTAGGTACTGAACTCATGGGCAACCGAGTA
66 CACTTGTAGAACTAGGGCCATGGTAGGTACTGAACTCATGGGCAACCGAGTA
13944117 GATCATGGGT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (117 bp):
ATACTGGTGAAGGCAACGATACATATCTTGGTAGTCTTTCTGCATAACTTATACAGACGAAGTTT
CACTTGTAGAACTAGGGCCATGGTAGGTACTGAACTCATGGGCAACCGAGTA
Found at i:13946966 original size:24 final size:23
Alignment explanation
Indices: 13946914--13946960 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
13946904 ATTTTTTTAT
*
13946914 TTAA-AATTTAAAATTTAGAATA
1 TTAAGAATTTAAAATTTAAAATA
*
13946936 TTAAGAATTTATAATTTTAAAATA
1 TTAAGAATTTA-AAATTTAAAATA
13946960 T
1 T
13946961 AGAGAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 6 0.29
24 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAAGAATTTAAAATTTAAAATA
Found at i:13950553 original size:14 final size:14
Alignment explanation
Indices: 13950536--13950581 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
13950526 TTTCCTATTC
13950536 TTTCTTTCTTTTCT
1 TTTCTTTCTTTTCT
*
13950550 TTTCTTTCTTCTTTT
1 TTTCTTTCTT-TTCT
*
13950565 TTTTTTTCTGTTTCT
1 TTTCTTTCT-TTTCT
13950580 TT
1 TT
13950582 ATTGTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.37
15 16 0.59
16 1 0.04
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTCT
Found at i:13950556 original size:18 final size:17
Alignment explanation
Indices: 13950533--13950573 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13950523 TGATTTCCTA
13950533 TTCTTTCTTTCTTTTCTT
1 TTCTTTCTTTCTTTT-TT
13950551 TTCTTTC-TTCTTTTTT
1 TTCTTTCTTTCTTTTTT
13950567 TT-TTTCT
1 TTCTTTCT
13950574 GTTTCTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 4 0.18
17 7 0.32
18 7 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTCTTTCTTTCTTTTTT
Found at i:13950562 original size:25 final size:26
Alignment explanation
Indices: 13950531--13950591 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
13950521 AATGATTTCC
13950531 TATTCTTTCTTTCTTTTCT-TTTCTT
1 TATTCTTTCTTTCTTTTCTGTTTCTT
* *
13950556 TCTTCTTT-TTTTTTTTCTGTTTCTT
1 TATTCTTTCTTTCTTTTCTGTTTCTT
*
13950581 TATTGTTTCTT
1 TATTCTTTCTT
13950592 AGTAAGGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 9 0.30
25 19 0.63
26 2 0.07
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (26 bp):
TATTCTTTCTTTCTTTTCTGTTTCTT
Found at i:13950579 original size:18 final size:20
Alignment explanation
Indices: 13950536--13950581 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13950526 TTTCCTATTC
*
13950536 TTTCTTTCTTTTCTTTTCTT
1 TTTCTTTCTTTTCTTTTCTG
13950556 TCTTCTTT-TTTT-TTTTCTG
1 T-TTCTTTCTTTTCTTTTCTG
13950575 TTTCTTT
1 TTTCTTT
13950582 ATTGTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 5 0.21
21 6 0.25
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTCTTTCTTTTCTTTTCTG
Found at i:13954918 original size:22 final size:23
Alignment explanation
Indices: 13954893--13954936 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
13954883 TCAAAATAGA
* *
13954893 ATGATATTTTTAAT-TTTTTTTC
1 ATGATAATATTAATATTTTTTTC
13954915 ATGATAATATTAATATTTTTTT
1 ATGATAATATTAATATTTTTTT
13954937 AGATATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
ATGATAATATTAATATTTTTTTC
Found at i:13955760 original size:2 final size:2
Alignment explanation
Indices: 13955753--13955780 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13955743 AGTAAAACTA
13955753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13955781 TTGGGTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13958435 original size:46 final size:44
Alignment explanation
Indices: 13958331--13958438 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13958321 TGTCTTTGAC
** * * *
13958331 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13958375 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13958421 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13958439 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13959676 original size:30 final size:30
Alignment explanation
Indices: 13959640--13959701 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
13959630 CCTTTTGAAT
13959640 GTTACATTTCTCCCCCCTTTAGGGATTTTC
1 GTTACATTTCTCCCCCCTTTAGGGATTTTC
13959670 GTTACATTTCTCCCCCCTTTAGGGATTTTC
1 GTTACATTTCTCCCCCCTTTAGGGATTTTC
13959700 GT
1 GT
13959702 CCCGAAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.13, C:0.29, G:0.15, T:0.44
Consensus pattern (30 bp):
GTTACATTTCTCCCCCCTTTAGGGATTTTC
Found at i:13965847 original size:46 final size:44
Alignment explanation
Indices: 13965743--13965850 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13965733 TGTCTTTGAC
** * * *
13965743 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13965787 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13965833 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13965851 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13971601 original size:18 final size:18
Alignment explanation
Indices: 13971578--13971620 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13971568 TAATAGTTTT
13971578 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
13971596 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
13971614 TTAATTA
1 TTAATTA
13971621 CACCTTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:13974521 original size:22 final size:21
Alignment explanation
Indices: 13974496--13974536 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13974486 ATCAAGATAA
13974496 AAATCATATAAAATTTAATATT
1 AAATCATATAAAA-TTAATATT
* *
13974518 AAATCTTATTAAATTAATA
1 AAATCATATAAAATTAATA
13974537 GAATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATCATATAAAATTAATATT
Found at i:13974533 original size:59 final size:60
Alignment explanation
Indices: 13974465--13974598 Score: 164
Period size: 62 Copynumber: 2.2 Consensus size: 60
13974455 ATCACTTTAA
*
13974465 TATTAAATTAATATAATATTTA-T-CAAGATAAAAATCATATAAAATTTAATATTAAATC
1 TATTAAATTAATATAATATTTACTACAAGATAAAAATCAAATAAAATTTAATATTAAATC
* ** * **
13974523 TTATTAAATTAATAGAATATTTATCTACAAGATAACCATTAAATTTAATTTAATATTAAATC
1 -TATTAAATTAATATAATATTTA-CTACAAGATAAAAATCAAATAAAATTTAATATTAAATC
*
13974585 TATTAAAATAATAT
1 TATTAAATTAATAT
13974599 TATTTTTGGA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.33
61 13 0.21
62 29 0.46
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (60 bp):
TATTAAATTAATATAATATTTACTACAAGATAAAAATCAAATAAAATTTAATATTAAATC
Found at i:13981362 original size:12 final size:12
Alignment explanation
Indices: 13981345--13981374 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
13981335 AGAAGTTAAT
13981345 ATATATCATAAA
1 ATATATCATAAA
13981357 ATATATCATAAA
1 ATATATCATAAA
13981369 ACTATA
1 A-TATA
13981375 GTGCTCATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATATCATAAA
Found at i:13996503 original size:20 final size:20
Alignment explanation
Indices: 13996467--13996507 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13996457 ATTAACAAGT
13996467 TGATTATGTCTTGGTTTGAA
1 TGATTATGTCTTGGTTTGAA
*
13996487 TGATTGATGT-TTTGTTTGAA
1 TGATT-ATGTCTTGGTTTGAA
13996507 T
1 T
13996508 TGTGGTGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (20 bp):
TGATTATGTCTTGGTTTGAA
Found at i:14001602 original size:6 final size:6
Alignment explanation
Indices: 14001591--14001617 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14001581 ATAACCAATC
14001591 TATTTA TATTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TAT
14001618 GTTTTGATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:14004520 original size:17 final size:17
Alignment explanation
Indices: 14004498--14004537 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14004488 TATATATTTT
14004498 AAAAAATAAAAAAGTAA
1 AAAAAATAAAAAAGTAA
* **
14004515 AAAAAATAGAAATTTAA
1 AAAAAATAAAAAAGTAA
14004532 AAAAAA
1 AAAAAA
14004538 AATCATTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAAAAGTAA
Found at i:14004583 original size:25 final size:25
Alignment explanation
Indices: 14004530--14004577 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
14004520 ATAGAAATTT
* *
14004530 AAAAAAAAAATCATTAAGAATCCAA
1 AAAAAAAAAATCATAAACAATCCAA
14004555 AAAAAAAAAATCATAAACAATCC
1 AAAAAAAAAATCATAAACAATCC
14004578 CCAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.69, C:0.15, G:0.02, T:0.15
Consensus pattern (25 bp):
AAAAAAAAAATCATAAACAATCCAA
Found at i:14004803 original size:19 final size:19
Alignment explanation
Indices: 14004781--14004817 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14004771 TTTTTATGAA
14004781 AATTTTGACATTTTAAAGG
1 AATTTTGACATTTTAAAGG
**
14004800 AATTTTGAGTTTTTAAAG
1 AATTTTGACATTTTAAAG
14004818 TACCATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (19 bp):
AATTTTGACATTTTAAAGG
Found at i:14004961 original size:20 final size:22
Alignment explanation
Indices: 14004936--14004976 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
14004926 ATAATTTAAA
*
14004936 AAAATAGTTTT-T-AGTTTTTT
1 AAAATAATTTTATGAGTTTTTT
14004956 AAAATAATTTTATGAGTTTTT
1 AAAATAATTTTATGAGTTTTT
14004977 AGATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (22 bp):
AAAATAATTTTATGAGTTTTTT
Found at i:14014563 original size:21 final size:20
Alignment explanation
Indices: 14014534--14014607 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 20
14014524 GCCCCTACTC
*
14014534 TTATTAAAAATTAGAAAAAAA
1 TTATAAAAAATTAG-AAAAAA
14014555 TTATAAAAAAATTTAG-AAAAA
1 TTAT-AAAAAA-TTAGAAAAAA
* **
14014576 TTATTAAATTTTA-ATAAAAA
1 TTATAAAAAATTAGA-AAAAA
14014596 -TATAAAAAATTA
1 TTATAAAAAATTA
14014608 AAATTTATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 12 0.29
20 8 0.19
21 13 0.31
22 5 0.12
23 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TTATAAAAAATTAGAAAAAA
Found at i:14014574 original size:12 final size:11
Alignment explanation
Indices: 14014539--14014575 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
14014529 TACTCTTATT
14014539 AAAAATTAGAA
1 AAAAATTAGAA
*
14014550 AAAAATTATAA
1 AAAAATTAGAA
14014561 AAAAATTTAGAA
1 AAAAA-TTAGAA
14014573 AAA
1 AAA
14014576 TTATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:14014594 original size:29 final size:27
Alignment explanation
Indices: 14014551--14014626 Score: 68
Period size: 29 Copynumber: 2.8 Consensus size: 27
14014541 AAATTAGAAA
* *
14014551 AAAATTATAAAAAAATTTAGAAAAATT
1 AAAATTTTAATAAAATTTAGAAAAATT
*
14014578 ATTAAATTTTAATAAAAATATA-AAAAATT
1 A--AAATTTTAAT-AAAATTTAGAAAAATT
*
14014607 AAAA-TTTATTAAAA-TTAGAA
1 AAAATTTTAATAAAATTTAGAA
14014627 TTTTTTTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.05
25 6 0.15
26 5 0.12
27 4 0.10
29 16 0.40
30 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATTTTAATAAAATTTAGAAAAATT
Found at i:14014888 original size:28 final size:29
Alignment explanation
Indices: 14014857--14014966 Score: 111
Period size: 28 Copynumber: 3.8 Consensus size: 29
14014847 TTTATATTTC
14014857 TTTACAA-TTTTTTATGATTTTATAAAAT
1 TTTACAATTTTTTTATGATTTTATAAAAT
* *
14014885 TTTATAATTTTTTTAT-ATTTCTAT-ATAT
1 TTTACAATTTTTTTATGATTT-TATAAAAT
* *
14014913 TTTATAATTTTTTTACGATTTTTTATAAAAT
1 TTTACAATTTTTTTATGA--TTTTATAAAAT
14014944 TTTACAAATTTTTTTTAT-ATTTT
1 TTTAC-AA-TTTTTTTATGATTTT
14014967 TTTACGATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
28 28 0.41
29 12 0.18
30 7 0.10
31 10 0.15
32 3 0.04
33 8 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTACAATTTTTTTATGATTTTATAAAAT
Found at i:14014897 original size:10 final size:10
Alignment explanation
Indices: 14014847--14014968 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 10
14014837 TTTTACAAAA
14014847 TTTAT-ATTT
1 TTTATAATTT
*
14014856 CTTTACAATTT
1 -TTTATAATTT
*
14014867 TTTATGA--T
1 TTTATAATTT
**
14014875 TTTATAAAAT
1 TTTATAATTT
14014885 TTTATAATTT
1 TTTATAATTT
14014895 TTT-T-ATATT
1 TTTATAAT-TT
* *
14014904 TCTAT-ATAT
1 TTTATAATTT
14014913 TTTATAATTT
1 TTTATAATTT
14014923 TTT-TACGATTT
1 TTTATA--ATTT
**
14014934 TTTATAAAAT
1 TTTATAATTT
*
14014944 TTTACAAATTT
1 TTTA-TAATTT
*
14014955 TTTTTATATTT
1 TTTATA-ATTT
14014966 TTT
1 TTT
14014969 TACGATTTAT
Statistics
Matches: 84, Mismatches: 17, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
8 9 0.11
9 12 0.14
10 37 0.44
11 24 0.29
12 2 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTATAATTT
Found at i:14015002 original size:16 final size:16
Alignment explanation
Indices: 14014981--14015012 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14014971 CGATTTATAT
*
14014981 ATATTTATAATTTTTA
1 ATATTTAAAATTTTTA
14014997 ATATTTAAAATTTTTA
1 ATATTTAAAATTTTTA
14015013 TTAAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTTAAAATTTTTA
Found at i:14015021 original size:19 final size:20
Alignment explanation
Indices: 14014990--14015033 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
14014980 TATATTTATA
*
14014990 ATTT-TTAATATTTAA-AAT
1 ATTTATTAAAATTTAATAAT
*
14015008 TTTTATTAAAATTTAATAAT
1 ATTTATTAAAATTTAATAAT
14015028 ATTTAT
1 ATTTAT
14015034 AGATTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATTAAAATTTAATAAT
Found at i:14015041 original size:45 final size:46
Alignment explanation
Indices: 14014973--14015059 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 46
14014963 TTTTTTTACG
14014973 ATTTATATATATTTATAATTTTTAAT-ATTTAAAATTTTTATTAAA
1 ATTTATATATATTTATAATTTTTAATGATTTAAAATTTTTATTAAA
* * *
14015018 ATTTA-ATAATATTTATAGA-TTTTATTGATTTTAATTTTTTAT
1 ATTTATAT-ATATTTATA-ATTTTTAATGATTTAAAATTTTTAT
14015060 AATTTTTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 2 0.06
45 20 0.56
46 14 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (46 bp):
ATTTATATATATTTATAATTTTTAATGATTTAAAATTTTTATTAAA
Found at i:14015216 original size:89 final size:90
Alignment explanation
Indices: 14015089--14015307 Score: 280
Period size: 89 Copynumber: 2.5 Consensus size: 90
14015079 ATAAAAGCAA
* ** * * *
14015089 GGGCTTAATTAATTTTTTTTTAAAG-TTTGAGGGTCTTTTTGATACATTTTGAAAGTTCAAGTAC
1 GGGCTTAATTACTTTTTTTAAAAAGATTTGAGAGCCTTTTTGATACATTTTGAAAATTCAAGTAC
* **
14015153 CCAATTGAGTGC-AAAAAAAATTAG
66 CCAAATGAGTGCAAAAAAAAAACAG
*
14015177 GGGCTTAATTACTTTTTTTGAAAAGATTTGAGAGCCTTTTTGATACATTTTGAAAATTCAAGTAC
1 GGGCTTAATTACTTTTTTTAAAAAGATTTGAGAGCCTTTTTGATACATTTTGAAAATTCAAGTAC
14015242 CCAAATGAGTGCAAAAAAAAAACAG
66 CCAAATGAGTGCAAAAAAAAAACAG
** * * * *
14015267 AAGCTTAATTGCTTTTTTTAAAAAAATTTGTGAGCTTTTTT
1 GGGCTTAATTACTTTTTTTAAAAAGATTTGAGAGCCTTTTT
14015308 CACCCTTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 22 0.19
89 47 0.42
90 44 0.39
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (90 bp):
GGGCTTAATTACTTTTTTTAAAAAGATTTGAGAGCCTTTTTGATACATTTTGAAAATTCAAGTAC
CCAAATGAGTGCAAAAAAAAAACAG
Found at i:14018426 original size:15 final size:15
Alignment explanation
Indices: 14018375--14018422 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
14018365 TTACACCATG
*
14018375 TTATATTTTAGTTAT
1 TTATATTTTAATTAT
* *
14018390 TTATATTTGAAATA-
1 TTATATTTTAATTAT
*
14018404 TTATGTTTTAATTAT
1 TTATATTTTAATTAT
14018419 TTAT
1 TTAT
14018423 GTTTATTATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:14018433 original size:24 final size:24
Alignment explanation
Indices: 14018402--14018449 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
14018392 ATATTTGAAA
*
14018402 TATTATGTTTTAATTATTTATGTT
1 TATTATGTTTTAATTACTTATGTT
14018426 TATTATGTTTTAATTACTTATGTT
1 TATTATGTTTTAATTACTTATGTT
14018450 ATCGTATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (24 bp):
TATTATGTTTTAATTACTTATGTT
Found at i:14018725 original size:6 final size:6
Alignment explanation
Indices: 14018714--14018741 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14018704 TTTAACCCAT
14018714 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
14018742 AGAACGCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:14021393 original size:144 final size:144
Alignment explanation
Indices: 14021133--14021413 Score: 499
Period size: 144 Copynumber: 2.0 Consensus size: 144
14021123 CACCTATTTG
14021133 GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
1 GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
** *
14021198 TTTAGCATTACACCATGTTACCGGAACTAGGGCCTGAAGTTTATTCTCATGAATGGTTAGCAATC
66 TTTAGCATTACACCATGTTACCGGAACTAGCCCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
14021263 CTTTGGCCCGAACA
131 CTTTGGCCCGAACA
* * * *
14021277 GTTTGAAGGTTCTAATGTCAAATATTTCCTTTTGTCTGTAAAAGCTCATTGTCAAGGGCTTTTTG
1 GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
14021342 TTTAGCATTACACCATGTTACCGGAACTAGCCCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
66 TTTAGCATTACACCATGTTACCGGAACTAGCCCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
14021407 CTTTGGC
131 CTTTGGC
14021414 GTGAATAGTT
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 130 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (144 bp):
GTTTGAAGGTTCTAATGTCAAATATTACCCTTTGTCTGAAAAAACTCATTGTCAAGGGCTTTTTG
TTTAGCATTACACCATGTTACCGGAACTAGCCCCTGAAGTTTATTCTCATGAAGGGTTAGCAATC
CTTTGGCCCGAACA
Found at i:14022831 original size:34 final size:34
Alignment explanation
Indices: 14022788--14022858 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
14022778 TTGACAAGCT
14022788 CTACTGTTATGTTGAATTTCTTCCCTAGTTTCTG
1 CTACTGTTATGTTGAATTTCTTCCCTAGTTTCTG
14022822 CTACTGTTATGTTGAATTTCTTCCCTAGTTTCTG
1 CTACTGTTATGTTGAATTTCTTCCCTAGTTTCTG
14022856 CTA
1 CTA
14022859 ACTTTTCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.15, C:0.21, G:0.14, T:0.49
Consensus pattern (34 bp):
CTACTGTTATGTTGAATTTCTTCCCTAGTTTCTG
Found at i:14025807 original size:65 final size:65
Alignment explanation
Indices: 14025703--14025833 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
14025693 ATTGCTATAA
14025703 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
1 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
14025768 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
1 CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
14025833 C
1 C
14025834 GTTTGAAAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (65 bp):
CCCAAAAAGAAAACATAGACAAAAGTTAGTGATTTTTCCATAAAACCCATGAATTTGTAAACCCC
Found at i:14035797 original size:17 final size:17
Alignment explanation
Indices: 14035777--14035841 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
14035767 TTTTAATTAC
*
14035777 TGTTATTATTATATTTT
1 TGTTATTATTATATTTA
*
14035794 TGTTA-TACTTATATATA
1 TGTTATTA-TTATATTTA
14035811 TGTATATTATATATATTATA
1 TGT-TATTAT-TATATT-TA
14035831 TAG-TATTATTA
1 T-GTTATTATTA
14035842 ATAGTTATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
16 2 0.05
17 15 0.38
18 5 0.13
19 13 0.33
20 3 0.08
21 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (17 bp):
TGTTATTATTATATTTA
Found at i:14036289 original size:24 final size:24
Alignment explanation
Indices: 14036243--14036289 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14036233 CCTTAATACT
* *
14036243 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
14036267 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
14036290 TCAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:14036499 original size:3 final size:3
Alignment explanation
Indices: 14036486--14036597 Score: 52
Period size: 3 Copynumber: 37.3 Consensus size: 3
14036476 TTCCTATCCT
* ** * * *
14036486 TTA TATA TTA TTA TTG TTA TTA ACA TACA TTA TTA TTA TCA AT- TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
14036532 CTA TTAA TT- TTA CTT- TTA TTA TTA CTA CTA -TA TTA TTA TTA TTG
1 TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
14036576 TCA TTA TCA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
14036598 CATATTTATA
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
2 7 0.09
3 64 0.78
4 11 0.13
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:14036651 original size:3 final size:3
Alignment explanation
Indices: 14036643--14036676 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14036633 ATTTTTTACC
14036643 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14036677 CATATCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14036840 original size:3 final size:3
Alignment explanation
Indices: 14036832--14036884 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
14036822 TATCTCTAAC
*
14036832 TAT TAT TAT TAT T-T TAT ATAT ATAT TAT TAT CTA- TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
14036878 TAT TAT T
1 TAT TAT T
14036885 CTTTATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 31 0.70
4 9 0.20
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:14036857 original size:16 final size:15
Alignment explanation
Indices: 14036835--14036876 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
14036825 CTCTAACTAT
*
14036835 TATTATTATTTTATA
1 TATTATTATTATATA
*
14036850 TATATATTATTATCTA
1 TAT-TATTATTATATA
14036866 TATTATTATTA
1 TATTATTATTA
14036877 CTATTATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATTATTATATA
Found at i:14036869 original size:12 final size:11
Alignment explanation
Indices: 14036832--14036884 Score: 63
Period size: 12 Copynumber: 4.6 Consensus size: 11
14036822 TATCTCTAAC
14036832 TATTATTATTA
1 TATTATTATTA
*
14036843 TTTTA-TATATA
1 TATTATTAT-TA
14036854 TATTATTATCTA
1 TATTATTAT-TA
14036866 TATTATTATTA
1 TATTATTATTA
14036877 CTATTATT
1 -TATTATT
14036885 CTTTATTGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 3 0.08
11 12 0.33
12 21 0.58
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTATTA
Done.