Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 89 of 318
Found at i:29923682 original size:44 final size:42
Alignment explanation
Indices: 29923632--29923789 Score: 136
Period size: 44 Copynumber: 3.6 Consensus size: 42
29923622 GTTTGCTCCT
*
29923632 ACTGCAACTTCAGGGAGATAAGGTTGATGGCTTCAATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTGAT--CTTCAATCTATTCC
* * * * *
29923676 ACTGCAACTTTAGGAAGATAAGATTCGCCATTTTCGATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATT-G--ATCTTCAATCTATTCC
* * * *
29923721 ACTGCAACTTCAAGGAGATAAGATCTACAACTTCAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGAT-T-GATCTTCAATCTATTCC
** *
29923765 ACCACTACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
29923790 TGTGGATTCA
Statistics
Matches: 90, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 53 0.59
45 33 0.37
46 1 0.01
47 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
ACTGCAACTTCAGGGAGATAAGATTGATCTTCAATCTATTCC
Found at i:29927677 original size:15 final size:15
Alignment explanation
Indices: 29927654--29927684 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29927644 CGCAAACAGG
*
29927654 AGAAGAAAAAGGGGA
1 AGAAAAAAAAGGGGA
29927669 AGAAAAAAAAGGGGA
1 AGAAAAAAAAGGGGA
29927684 A
1 A
29927685 AAATTGGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAGGGGA
Found at i:29928198 original size:27 final size:28
Alignment explanation
Indices: 29928147--29928242 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 28
29928137 ATGCCTTATT
* *
29928147 GGTGCGTTTGGGAGGA-TATGA-TATACC
1 GGTGTGTTTAGGAGGACTAT-ATTATACC
*
29928174 GGTGTGTTTAGGAGG-CTATATTATACT
1 GGTGTGTTTAGGAGGACTATATTATACC
* * *
29928201 AGTGTG-TTATGGAGGATTTATATTATTCC
1 GGTGTGTTTA-GGAGGA-CTATATTATACC
29928230 AGGTGTGTTTAGG
1 -GGTGTGTTTAGG
29928243 TTGGATATTC
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
26 4 0.07
27 31 0.57
29 9 0.17
30 7 0.13
31 3 0.06
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (28 bp):
GGTGTGTTTAGGAGGACTATATTATACC
Found at i:29934079 original size:13 final size:13
Alignment explanation
Indices: 29934063--29934111 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
29934053 AATTATATAA
*
29934063 AAATGATATAAAT
1 AAATGATAAAAAT
29934076 AAAT-A-AAAAAT
1 AAATGATAAAAAT
29934087 AAAATGATAAAAAGT
1 -AAATGATAAAAA-T
29934102 -AATGATAAAA
1 AAATGATAAAA
29934112 TATAGTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 5 0.16
12 5 0.16
13 15 0.48
14 5 0.16
15 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (13 bp):
AAATGATAAAAAT
Found at i:29934172 original size:3 final size:3
Alignment explanation
Indices: 29934164--29934342 Score: 109
Period size: 3 Copynumber: 60.0 Consensus size: 3
29934154 AAAGGAAGAC
* *
29934164 AAT AAT AAT AGT AAT AAT AATT AA- ATT AATT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AAT AAT
* * * * *
29934209 AAGT AAAT AA- ACAC AAA AAG AA- AAT -AT AAT TAT AAT AGT AAT AAT
1 AA-T -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
29934254 AAT AAA AAT AAT AAC AAT AAT AAT AGT GAT AA- AAT TAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
29934301 AGT AAT AAT AAT AAT GAT AGT AAT AAT AGC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29934343 GTTAAATTAA
Statistics
Matches: 135, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
2 10 0.07
3 114 0.84
4 9 0.07
5 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:29934211 original size:72 final size:72
Alignment explanation
Indices: 29934128--29934278 Score: 191
Period size: 72 Copynumber: 2.1 Consensus size: 72
29934118 GTATTTAAAG
* * *
29934128 AATAATAATAAGTAAATAAATTCA-AAAAAG-GAAGACAATAATAATAGTAATAATAATTAAATT
1 AATAATAATAAGTAAATAAA--CACAAAAAGAAAAGACAATAATAATAGTAATAATAATAAAAAT
*
29934191 AATTAATAAT
64 AA-TAACAAT
* * *
29934201 AA-AATAATAAGTAAATAAACACAAAAAGAAAATATAATTATAATAGTAATAATAATAAAAATAA
1 AATAATAATAAGTAAATAAACACAAAAAGAAAAGACAATAATAATAGTAATAATAATAAAAATAA
29934265 TAACAAT
66 TAACAAT
29934272 AATAATA
1 AATAATA
29934279 GTGATAAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
70 2 0.03
71 14 0.21
72 50 0.74
73 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.26
Consensus pattern (72 bp):
AATAATAATAAGTAAATAAACACAAAAAGAAAAGACAATAATAATAGTAATAATAATAAAAATAA
TAACAAT
Found at i:29935737 original size:21 final size:20
Alignment explanation
Indices: 29935713--29935752 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29935703 AATTAAATAA
*
29935713 TTTTGTTAGTAAGATTTTAAC
1 TTTT-TTAGTAAAATTTTAAC
*
29935734 TTTTTTGGTAAAATTTTAA
1 TTTTTTAGTAAAATTTTAA
29935753 ACTCTTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (20 bp):
TTTTTTAGTAAAATTTTAAC
Found at i:29941047 original size:24 final size:24
Alignment explanation
Indices: 29940981--29941054 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
29940971 TAAGCCATAT
* *
29940981 ATTAGATATTAGTAATATAATAACA
1 ATTA-ATATTAATAAGATAATAACA
* **
29941006 ATTACTATTAATTTGATAATAACA
1 ATTAATATTAATAAGATAATAACA
29941030 ATTAATATTACA-AAGATAAT-ACA
1 ATTAATATTA-ATAAGATAATAACA
29941053 AT
1 AT
29941055 ATAGTGTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 5 0.12
24 30 0.75
25 5 0.12
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.36
Consensus pattern (24 bp):
ATTAATATTAATAAGATAATAACA
Found at i:29942596 original size:32 final size:32
Alignment explanation
Indices: 29942554--29942621 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
29942544 AAACAAAAGT
29942554 GAAC-AAAGTAAGCAAACATACAACCATTGTC
1 GAACAAAAGTAAGCAAACATACAACCATTGTC
29942585 GAACAAAAGTAAGCAAACATACAACCATTGTC
1 GAACAAAAGTAAGCAAACATACAACCATTGTC
*
29942617 AAACA
1 GAACA
29942622 TCATGAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.51, C:0.22, G:0.12, T:0.15
Consensus pattern (32 bp):
GAACAAAAGTAAGCAAACATACAACCATTGTC
Found at i:29942946 original size:17 final size:16
Alignment explanation
Indices: 29942912--29942943 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
29942902 TATCAAGCAC
29942912 TTTGATAGTTTTTGAA
1 TTTGATAGTTTTTGAA
29942928 TTTGATAGTTTTTGAA
1 TTTGATAGTTTTTGAA
29942944 ATTCCATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (16 bp):
TTTGATAGTTTTTGAA
Found at i:29944265 original size:20 final size:20
Alignment explanation
Indices: 29944212--29944267 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
29944202 TGGTGAGCTC
29944212 CAAGCTCACACCAAAA-TTT
1 CAAGCTCACACCAAAATTTT
* ** *
29944231 CTAAGAT-TTAGCAAAATTTT
1 C-AAGCTCACACCAAAATTTT
29944251 CAAGCTCACACCAAAAT
1 CAAGCTCACACCAAAAT
29944268 ATCTAACTTC
Statistics
Matches: 26, Mismatches: 8, Indels: 5
0.67 0.21 0.13
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (20 bp):
CAAGCTCACACCAAAATTTT
Found at i:29945040 original size:13 final size:13
Alignment explanation
Indices: 29945022--29945048 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29945012 ATTAAACTTT
29945022 TATCACAATTTCC
1 TATCACAATTTCC
29945035 TATCACAATTTCC
1 TATCACAATTTCC
29945048 T
1 T
29945049 TATTCAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (13 bp):
TATCACAATTTCC
Found at i:29947931 original size:32 final size:33
Alignment explanation
Indices: 29947831--29947945 Score: 99
Period size: 32 Copynumber: 3.5 Consensus size: 33
29947821 GGTGTACACT
* * **
29947831 CCTTTCCAAGTGGTACACACAAAGTATACCTTTT
1 CCTTTCCAAGTTGTACACACAAAGTATA-CATAA
* * * * *
29947865 TCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTTGTACACACAAAGTATACATAA
*
29947898 CCTTTCCAAG-TGTACACACAAAGTGTACATAA
1 CCTTTCCAAGTTGTACACACAAAGTATACATAA
*
29947930 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTTGTAC
29947946 CATTTGGGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
32 28 0.43
33 13 0.20
34 23 0.35
35 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.33
Consensus pattern (33 bp):
CCTTTCCAAGTTGTACACACAAAGTATACATAA
Found at i:29952924 original size:20 final size:20
Alignment explanation
Indices: 29952899--29952942 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
29952889 GGCCTAGCCC
29952899 CACGGCCATATCCCAGGCCA
1 CACGGCCATATCCCAGGCCA
*
29952919 CACGGCCATGTCCCAGGCCA
1 CACGGCCATATCCCAGGCCA
29952939 CACG
1 CACG
29952943 AACGTTGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.45, G:0.23, T:0.09
Consensus pattern (20 bp):
CACGGCCATATCCCAGGCCA
Found at i:29957742 original size:32 final size:33
Alignment explanation
Indices: 29957643--29957756 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
29957633 GGTGCACATT
* **
29957643 CCTTTCCAAATGGTACACACAAAGTATACATTT
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
** * *
29957676 CCTTTTTATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
*
29957709 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* *
29957741 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTGGTAC
29957757 CATTTGGGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
32 29 0.44
33 36 0.55
34 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTGGTACACACAAAGTATACATAA
Found at i:29962983 original size:22 final size:22
Alignment explanation
Indices: 29962958--29963001 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
29962948 AAACCATATG
29962958 TAAATGATTTTTCCTCTTTTGA
1 TAAATGATTTTTCCTCTTTTGA
29962980 TAAATGATTTTTCCTCTTTTGA
1 TAAATGATTTTTCCTCTTTTGA
29963002 ACAAAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.55
Consensus pattern (22 bp):
TAAATGATTTTTCCTCTTTTGA
Found at i:29968918 original size:34 final size:35
Alignment explanation
Indices: 29968874--29968940 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
29968864 CAGTAAAATA
*
29968874 TTTTCCGTAAAATGA-TTTCTGGAAAAGATTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
* *
29968908 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTT
29968941 TTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
Found at i:29972765 original size:13 final size:13
Alignment explanation
Indices: 29972735--29972774 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
29972725 AAAATAATTT
29972735 AAAT-TTAATTATA
1 AAATATTAA-TATA
29972748 AAATATTAATATA
1 AAATATTAATATA
29972761 AAATATTTAATATA
1 AAATA-TTAATATA
29972775 TATATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATATTAATATA
Found at i:29972770 original size:14 final size:14
Alignment explanation
Indices: 29972737--29972774 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
29972727 AATAATTTAA
29972737 ATTTAATTATAAAAT
1 ATTTAA-TATAAAAT
29972752 A-TTAATATAAAAT
1 ATTTAATATAAAAT
29972765 ATTTAATATA
1 ATTTAATATA
29972775 TATATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 12 0.55
15 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTAATATAAAAT
Found at i:29976929 original size:25 final size:23
Alignment explanation
Indices: 29976901--29976950 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
29976891 GTATAGAACT
*
29976901 TTTTTATAAATTTTTATAAATATAA
1 TTTTTAT-AATATTT-TAAATATAA
*
29976926 TTTTTATAGTATTTTAAATATAA
1 TTTTTATAATATTTTAAATATAA
29976949 TT
1 TT
29976951 ATAGTTCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 5 0.22
25 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTTATAATATTTTAAATATAA
Found at i:29982537 original size:29 final size:31
Alignment explanation
Indices: 29982457--29982540 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
29982447 AATCAAAATT
**
29982457 AAAGTTTCATGTATA-AATTTAAACCACAATC
1 AAAGTTTCATGTATAGAA-TTGCACCACAATC
*
29982488 AAAGTTTCATGTATATAATTGCACCA-AATC
1 AAAGTTTCATGTATAGAATTGCACCACAATC
*
29982518 AAAGTTT-ATGTATCGAATTGCAC
1 AAAGTTTCATGTATAGAATTGCAC
29982541 AATGACTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.29
30 11 0.23
31 21 0.44
32 2 0.04
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (31 bp):
AAAGTTTCATGTATAGAATTGCACCACAATC
Found at i:29989407 original size:31 final size:31
Alignment explanation
Indices: 29989344--29989426 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
29989334 GATTCCATAG
* * * *
29989344 GTCCCTGTATGTTTCATAAATTTAATATTTA
1 GTCCCTTTATTTTTTATAAATTTAATACTTA
29989375 GTCCCTTTATTTTTTATAAATTTGAA-ACTTA
1 GTCCCTTTATTTTTTATAAATTT-AATACTTA
*
29989406 GTCTCTTTA-TTTTTA-AAATTT
1 GTCCCTTTATTTTTTATAAATTT
29989427 TAAAATTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 6 0.13
30 6 0.13
31 32 0.70
32 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (31 bp):
GTCCCTTTATTTTTTATAAATTTAATACTTA
Found at i:29990442 original size:19 final size:19
Alignment explanation
Indices: 29990418--29990461 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
29990408 AAGTGCTTTT
*
29990418 AGAAAAAAGAAAGAAAGAA
1 AGAAAAAACAAAGAAAGAA
* *
29990437 AGAAAAATCAAAGAGAGAA
1 AGAAAAAACAAAGAAAGAA
29990456 A-AAAAA
1 AGAAAAA
29990462 GGAGTATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (19 bp):
AGAAAAAACAAAGAAAGAA
Found at i:29994097 original size:21 final size:21
Alignment explanation
Indices: 29994071--29994111 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29994061 AGACGAGCAA
* *
29994071 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
29994092 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
29994112 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:30005697 original size:43 final size:43
Alignment explanation
Indices: 30005649--30005815 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
30005639 ATCGAGATGT
*
30005649 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * * * * *
30005692 GATTACGTGTAATACCATGTCTGAGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
* * * * *
30005735 GATTTCATGTAAGACCCTGTCTAGGACAATGGCATTG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* *
30005778 G-TTAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 GATT-ACATGTAAGACCATGTCTGGGACATTGGCATTGTA
30005816 CGAGCTTATG
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 11 0.11
43 82 0.85
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:30011382 original size:4 final size:4
Alignment explanation
Indices: 30011373--30011400 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30011363 TGTTATGGAA
30011373 GTTG GTTG GTTG GTTG GTTG GTTG GTTG
1 GTTG GTTG GTTG GTTG GTTG GTTG GTTG
30011401 ATTGTTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (4 bp):
GTTG
Found at i:30011432 original size:2 final size:2
Alignment explanation
Indices: 30011419--30011452 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
30011409 GGTTGCTGTA
*
30011419 AG AG AG AA AG AG AG AG AG AG AG AG AG AG -G AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
30011453 CCAGACAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30016533 original size:16 final size:16
Alignment explanation
Indices: 30016509--30016544 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30016499 TGGTTCACTA
*
30016509 TAATGAAATAGGGCTG
1 TAATGAAATAGAGCTG
*
30016525 TAATTAAATAGAGCTG
1 TAATGAAATAGAGCTG
30016541 TAAT
1 TAAT
30016545 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATGAAATAGAGCTG
Found at i:30016784 original size:58 final size:58
Alignment explanation
Indices: 30016722--30016843 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
30016712 TTAATAAGAG
* *
30016722 TATTATTAAAAATAATTTAATAAAAATAATGA-ATAGTTTAACCAAATT-TTAACATAAT
1 TATTATTAAAAATAATTTAAT-AAAATAAT-ATATAATTTAACAAAATTCTTAACATAAT
* * *
30016780 TATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAAT
1 TATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATAAT
30016838 TATTAT
1 TATTAT
30016844 ATGAATTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 1 0.02
57 21 0.37
58 35 0.61
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (58 bp):
TATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATAAT
Found at i:30018072 original size:19 final size:19
Alignment explanation
Indices: 30018048--30018091 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
30018038 AAGTGCTTTT
*
30018048 AGAAAAAAGAAAGAAAGAA
1 AGAAAAAACAAAGAAAGAA
* *
30018067 AGAAAAATCAAAGAGAGAA
1 AGAAAAAACAAAGAAAGAA
30018086 A-AAAAA
1 AGAAAAA
30018092 GGAGTATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (19 bp):
AGAAAAAACAAAGAAAGAA
Found at i:30032366 original size:43 final size:43
Alignment explanation
Indices: 30032270--30032414 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
30032260 ATCGAGATGT
* * *
30032270 GATTACATGTAAGACCATGT-TGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGAGACATTGGCATCGTAATGA
* * *
30032312 GATTACGTGTAATACCATGTCTGAGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGAGACATTGGCATCG-TAATGA
* * * *
30032355 GATTTCATGTAAGACCCTGTCT-AGGACAGTGGCAT-G-ATATGT
1 GATTACATGTAAGACCATGTCTGA-GACATTGGCATCGTA-ATGA
30032397 G-TTAACATGTAAGACCAT
1 GATT-ACATGTAAGACCAT
30032415 ATTTGGGATA
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.01
41 4 0.05
42 33 0.40
43 42 0.51
44 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGAGACATTGGCATCGTAATGA
Found at i:30038017 original size:4 final size:4
Alignment explanation
Indices: 30038008--30038035 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30037998 TGTTATGGAA
30038008 GTTG GTTG GTTG GTTG GTTG GTTG GTTG
1 GTTG GTTG GTTG GTTG GTTG GTTG GTTG
30038036 ATTGTTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (4 bp):
GTTG
Found at i:30038067 original size:2 final size:2
Alignment explanation
Indices: 30038054--30038089 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
30038044 GGTTGCTGTA
*
30038054 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG -G AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
30038090 CCAGACAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30042700 original size:208 final size:210
Alignment explanation
Indices: 30042333--30042827 Score: 504
Period size: 208 Copynumber: 2.4 Consensus size: 210
30042323 ATCTTTTTTT
* * **
30042333 AAAATATATATATTTTAATATTTTACTATA-CTCT--A-TACACTTGTTAACTCCCTAACTTTAC
1 AAAACATATATATTTT-ATATTTTACTATATCT-TAGAGGACACTTGACAAC-CCCTAACTTTAC
* * * * *
30042394 TTATGGAGTTTAAAAACTCTATTGATAATATATCAAATATTATTCTTATGTTTTATTATTTTTAA
63 TTATAGAGTCTAAAAACTCTACTGACAATATATCAAATATTA-T-TTATATTTTATTATTTTTAA
* * * *
30042459 ACAATAAAATATATTAAACTCAATCATCTCAAAGATGAATAATATAAACTCAATCACAGCCTAAA
126 ACAATAAAATAAATTAAACTCAATCAGCTCAAAGATAAAAAATATAAACTCAATCACAGCCTAAA
* * * **
30042524 ACAGTTTGGGTCTCTTTTTTT
191 ACAATTT-GGTCCCCTTTTCA
** *
30042545 AAAACAT-T-TATTTTATGATTTTACTATATCTTATTGGATC-CTTGACAACCCCTAACTTTATT
1 AAAACATATATATTTTAT-ATTTTACTATATCTTAGAGGA-CACTTGACAACCCCTAACTTTACT
* *
30042607 TATAGAGTCTAAAAACTC-ACTGACCATATATTAAATATTA-TTATATTTTATTATTTTTAAACA
64 TATAGAGTCTAAAAACTCTACTGACAATATATCAAATATTATTTATATTTTATTATTTTTAAACA
**** * * * * *
30042670 ATAAAATAAATTGTGGTCAATGAGCTCAAAGCTAAAAAATATAAATTCAATCATAGCTTAAAACA
129 ATAAAATAAATTAAACTCAATCAGCTCAAAGATAAAAAATATAAACTCAATCACAGCCTAAAACA
*
30042735 ATTTGTTCCCCTTTTCA
194 ATTTGGTCCCCTTTTCA
* * * * *
30042752 AAAATATATATTTTTTATATTTTACTATATCTTAGAGGACATTTGCCAACCCCTAATTTTACTTA
1 AAAACATATATATTTTATATTTTACTATATCTTAGAGGACACTTGACAACCCCTAACTTTACTTA
*
30042817 TAGAATCTAAA
66 TAGAGTCTAAA
30042828 TATTTAATTG
Statistics
Matches: 233, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
207 15 0.06
208 127 0.55
209 9 0.04
210 18 0.08
211 21 0.09
212 34 0.15
213 8 0.03
214 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.41
Consensus pattern (210 bp):
AAAACATATATATTTTATATTTTACTATATCTTAGAGGACACTTGACAACCCCTAACTTTACTTA
TAGAGTCTAAAAACTCTACTGACAATATATCAAATATTATTTATATTTTATTATTTTTAAACAAT
AAAATAAATTAAACTCAATCAGCTCAAAGATAAAAAATATAAACTCAATCACAGCCTAAAACAAT
TTGGTCCCCTTTTCA
Found at i:30043430 original size:16 final size:16
Alignment explanation
Indices: 30043406--30043441 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30043396 TGGTTCACTA
*
30043406 TAATGAAATAGGGCTG
1 TAATGAAATAGAGCTG
*
30043422 TAATTAAATAGAGCTG
1 TAATGAAATAGAGCTG
30043438 TAAT
1 TAAT
30043442 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATGAAATAGAGCTG
Found at i:30043685 original size:58 final size:58
Alignment explanation
Indices: 30043621--30043742 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
30043611 TTAATAAGAG
* *
30043621 TATTATTAAAAATAATTTAATAAAAATAATGA-ATAGTTTAACCAAATT-TTAACATAAT
1 TATTATTAAAAATAATTTAAT-AAAATAAT-ATATAATTTAACAAAATTCTTAACATAAT
* * *
30043679 TATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAAT
1 TATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATAAT
30043737 TATTAT
1 TATTAT
30043743 ATGAATTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 1 0.02
57 21 0.37
58 35 0.61
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (58 bp):
TATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATAAT
Found at i:30044970 original size:19 final size:19
Alignment explanation
Indices: 30044946--30044989 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
30044936 AAGTGCTTTT
*
30044946 AGAAAAAAGAAAGAAAGAA
1 AGAAAAAACAAAGAAAGAA
* *
30044965 AGAAAAATCAAAGAGAGAA
1 AGAAAAAACAAAGAAAGAA
30044984 A-AAAAA
1 AGAAAAA
30044990 GGAGTATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (19 bp):
AGAAAAAACAAAGAAAGAA
Found at i:30048623 original size:21 final size:21
Alignment explanation
Indices: 30048597--30048637 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30048587 AGACGAGCAA
* *
30048597 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
30048618 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
30048638 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:30052164 original size:54 final size:54
Alignment explanation
Indices: 30052045--30052154 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
30052035 GGAATTGGGT
*
30052045 TTGGAATAGAATAATGGGATGGAAATCCAAATTTCAGAGGGTAATGAAGTAGGC
1 TTGGAACAGAATAATGGGATGGAAATCCAAATTTCAGAGGGTAATGAAGTAGGC
* * * *
30052099 TTGGAACAGAATAATGGGATGGAGA-CTCAAATTTCGGAGGGTATTGAAGTGGGC
1 TTGGAACAGAATAATGGGATGGAAATC-CAAATTTCAGAGGGTAATGAAGTAGGC
30052153 TT
1 TT
30052155 TAATGAGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
53 1 0.02
54 49 0.98
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.25
Consensus pattern (54 bp):
TTGGAACAGAATAATGGGATGGAAATCCAAATTTCAGAGGGTAATGAAGTAGGC
Found at i:30060216 original size:43 final size:43
Alignment explanation
Indices: 30060168--30060334 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
30060158 ATCGAGATGT
*
30060168 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * * * * *
30060211 GATTACGTGTAATACCATGTCTGAGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
* * * * *
30060254 GATTTCATGTAAGACCCTGTCTAGGACAATGGCATTG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* *
30060297 G-TTAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 GATT-ACATGTAAGACCATGTCTGGGACATTGGCATTGTA
30060335 CGAGCTTATG
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 11 0.11
43 82 0.85
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:30065904 original size:4 final size:4
Alignment explanation
Indices: 30065895--30065922 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30065885 TGTTATGGAA
30065895 GTTG GTTG GTTG GTTG GTTG GTTG GTTG
1 GTTG GTTG GTTG GTTG GTTG GTTG GTTG
30065923 ATTGTTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (4 bp):
GTTG
Found at i:30065954 original size:2 final size:2
Alignment explanation
Indices: 30065941--30065976 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
30065931 GGTTGCTGTA
*
30065941 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG -G AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
30065977 CCAGACAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30070587 original size:208 final size:210
Alignment explanation
Indices: 30070220--30070714 Score: 504
Period size: 208 Copynumber: 2.4 Consensus size: 210
30070210 ATCTTTTTTT
* * **
30070220 AAAATATATATATTTTAATATTTTACTATA-CTCT--A-TACACTTGTTAACTCCCTAACTTTAC
1 AAAACATATATATTTT-ATATTTTACTATATCT-TAGAGGACACTTGACAAC-CCCTAACTTTAC
* * * * *
30070281 TTATGGAGTTTAAAAACTCTATTGATAATATATCAAATATTATTCTTATGTTTTATTATTTTTAA
63 TTATAGAGTCTAAAAACTCTACTGACAATATATCAAATATTA-T-TTATATTTTATTATTTTTAA
* * * *
30070346 ACAATAAAATATATTAAACTCAATCATCTCAAAGATGAATAATATAAACTCAATCACAGCCTAAA
126 ACAATAAAATAAATTAAACTCAATCAGCTCAAAGATAAAAAATATAAACTCAATCACAGCCTAAA
* * * **
30070411 ACAGTTTGGGTCTCTTTTTTT
191 ACAATTT-GGTCCCCTTTTCA
** *
30070432 AAAACAT-T-TATTTTATGATTTTACTATATCTTATTGGATC-CTTGACAACCCCTAACTTTATT
1 AAAACATATATATTTTAT-ATTTTACTATATCTTAGAGGA-CACTTGACAACCCCTAACTTTACT
* *
30070494 TATAGAGTCTAAAAACTC-ACTGACCATATATTAAATATTA-TTATATTTTATTATTTTTAAACA
64 TATAGAGTCTAAAAACTCTACTGACAATATATCAAATATTATTTATATTTTATTATTTTTAAACA
**** * * * * *
30070557 ATAAAATAAATTGTGGTCAATGAGCTCAAAGCTAAAAAATATAAATTCAATCATAGCTTAAAACA
129 ATAAAATAAATTAAACTCAATCAGCTCAAAGATAAAAAATATAAACTCAATCACAGCCTAAAACA
*
30070622 ATTTGTTCCCCTTTTCA
194 ATTTGGTCCCCTTTTCA
* * * * *
30070639 AAAATATATATTTTTTATATTTTACTATATCTTAGAGGACATTTGCCAACCCCTAATTTTACTTA
1 AAAACATATATATTTTATATTTTACTATATCTTAGAGGACACTTGACAACCCCTAACTTTACTTA
*
30070704 TAGAATCTAAA
66 TAGAGTCTAAA
30070715 TATTTAATTG
Statistics
Matches: 233, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
207 15 0.06
208 127 0.55
209 9 0.04
210 18 0.08
211 21 0.09
212 34 0.15
213 8 0.03
214 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.41
Consensus pattern (210 bp):
AAAACATATATATTTTATATTTTACTATATCTTAGAGGACACTTGACAACCCCTAACTTTACTTA
TAGAGTCTAAAAACTCTACTGACAATATATCAAATATTATTTATATTTTATTATTTTTAAACAAT
AAAATAAATTAAACTCAATCAGCTCAAAGATAAAAAATATAAACTCAATCACAGCCTAAAACAAT
TTGGTCCCCTTTTCA
Found at i:30071573 original size:58 final size:58
Alignment explanation
Indices: 30071509--30071630 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
30071499 TTAATAAGAG
* *
30071509 TATTATTAAAAATAATTTAATAAAAATAATGA-ATAGTTTAACCAAATT-TTAACATAAT
1 TATTATTAAAAATAATTTAAT-AAAATAAT-ATATAATTTAACAAAATTCTTAACATAAT
* * *
30071567 TATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAAT
1 TATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATAAT
30071625 TATTAT
1 TATTAT
30071631 ATGAATTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 1 0.02
57 21 0.37
58 35 0.61
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (58 bp):
TATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATAAT
Found at i:30075762 original size:19 final size:19
Alignment explanation
Indices: 30075726--30075762 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30075716 TAATTAGGCT
* *
30075726 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
30075745 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
30075763 GAAAAAGGGC
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:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:30076362 original size:12 final size:12
Alignment explanation
Indices: 30076345--30076372 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30076335 TAAAAGATAT
30076345 TTATTATAATTA
1 TTATTATAATTA
30076357 TTATTATAATTA
1 TTATTATAATTA
30076369 TTAT
1 TTAT
30076373 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:30076507 original size:17 final size:18
Alignment explanation
Indices: 30076475--30076511 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30076465 ATAGGAAAAC
*
30076475 AAGAAGAAAGAAAAGGGA
1 AAGAAGAAAAAAAAGGGA
30076493 AAGAA-AAAAAAAAGGGA
1 AAGAAGAAAAAAAAGGGA
30076510 AA
1 AA
30076512 AACTAGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAGAAGAAAAAAAAGGGA
Found at i:30076890 original size:17 final size:18
Alignment explanation
Indices: 30076868--30076901 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30076858 TAAATGAGTT
30076868 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
30076885 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
30076902 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:30077395 original size:13 final size:14
Alignment explanation
Indices: 30077374--30077413 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
30077364 ATTTGATTGG
30077374 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
30077387 AATATGAATTAAAT
1 AAAATGAATTAAAT
30077401 AAAAGTGAATTAA
1 AAAA-TGAATTAA
30077414 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:30077802 original size:23 final size:22
Alignment explanation
Indices: 30077776--30077837 Score: 92
Period size: 21 Copynumber: 2.9 Consensus size: 22
30077766 TAAGCACTTT
30077776 ATGTGTCGTATATCAGGCACCTC
1 ATGTGTCGT-TATCAGGCACCTC
30077799 ATGTGTCG-TATCAGGCACCTC
1 ATGTGTCGTTATCAGGCACCTC
*
30077820 GTGTGTCGTT-TCAGGCAC
1 ATGTGTCGTTATCAGGCAC
30077838 TTATTTGTCG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 28 0.76
22 1 0.03
23 8 0.22
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.31
Consensus pattern (22 bp):
ATGTGTCGTTATCAGGCACCTC
Found at i:30077812 original size:21 final size:21
Alignment explanation
Indices: 30077776--30077850 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
30077766 TAAGCACTTT
30077776 ATGTGTCGTATATCAGGCACCTC
1 ATGTGTCG--TATCAGGCACCTC
30077799 ATGTGTCGTATCAGGCACCTC
1 ATGTGTCGTATCAGGCACCTC
* * *
30077820 GTGTGTCGTTTCAGGCA-CTT
1 ATGTGTCGTATCAGGCACCTC
*
30077840 ATTTGTCGTAT
1 ATGTGTCGTAT
30077851 ACTGATCAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.22
21 28 0.61
23 8 0.17
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (21 bp):
ATGTGTCGTATCAGGCACCTC
Found at i:30080644 original size:15 final size:16
Alignment explanation
Indices: 30080626--30080767 Score: 64
Period size: 17 Copynumber: 8.7 Consensus size: 16
30080616 ATCACATTAT
30080626 TATTAAATTAAA-AAA
1 TATTAAATTAAATAAA
*
30080641 TATT--ATCAAGATAAA
1 TATTAAATTAA-ATAAA
30080656 TATTAAATTAAATTAAA
1 TATTAAATTAAA-TAAA
* * * *
30080673 TA-TATCATATATATTAG
1 TATTA-AAT-TAAATAAA
30080690 TATTAAATT-AATAAA
1 TATTAAATTAAATAAA
* *
30080705 -A-TACTATCTAGATAAA
1 TATTA-AAT-TAAATAAA
*
30080721 TATTAAATTAATATTAA
1 TATTAAATTAA-ATAAA
*
30080738 TATTAATATTAATATTAA
1 TATTAA-ATTAA-ATAAA
30080756 TATTAATATTAA
1 TATTAA-ATTAA
30080768 TACTAATTGT
Statistics
Matches: 97, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
13 6 0.06
14 4 0.04
15 15 0.15
16 11 0.11
17 31 0.32
18 30 0.31
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (16 bp):
TATTAAATTAAATAAA
Found at i:30080728 original size:31 final size:30
Alignment explanation
Indices: 30080626--30080733 Score: 119
Period size: 31 Copynumber: 3.4 Consensus size: 30
30080616 ATCACATTAT
*
30080626 TATTAAATTAA-AAAATATTATCAAGATAAA
1 TATTAAATTAATAAAATA-TATCTAGATAAA
* * *
30080656 TATTAAATTAAATTAAATATATCATATATATTAG
1 TATTAAATT-AATAAAATATATC-TAGATA--AA
30080690 TATTAAATTAATAAAATACTATCTAGATAAA
1 TATTAAATTAATAAAATA-TATCTAGATAAA
30080721 TATTAAATTAATA
1 TATTAAATTAATA
30080734 TTAATATTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
30 9 0.14
31 20 0.31
32 9 0.14
33 13 0.20
34 14 0.22
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.39
Consensus pattern (30 bp):
TATTAAATTAATAAAATATATCTAGATAAA
Found at i:30080738 original size:6 final size:6
Alignment explanation
Indices: 30080719--30080774 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
30080709 TATCTAGATA
30080719 AATATT AA-ATT AATATT AATATT AATATT AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
*
30080766 AATACT AAT
1 AATATT AAT
30080775 TGTTTCTTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:30081261 original size:52 final size:50
Alignment explanation
Indices: 30081186--30081292 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 50
30081176 AAAAGCTAAA
* *
30081186 TAAATAAAAATGAAATTCTATTAGATTAATTATCTTTTTGAAATTAAAAATC
1 TAAATAAAAATAAAATTCAATTAGATTAATTAT-TTTTT-AAATTAAAAATC
* *
30081238 TAAATAAAAATAAAATTCAATTAGATTAATTATTTTTTAACTTATAAATC
1 TAAATAAAAATAAAATTCAATTAGATTAATTATTTTTTAAATTAAAAATC
30081288 TAAAT
1 TAAAT
30081293 TTGACTCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 15 0.29
51 5 0.10
52 31 0.61
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (50 bp):
TAAATAAAAATAAAATTCAATTAGATTAATTATTTTTTAAATTAAAAATC
Found at i:30090793 original size:19 final size:19
Alignment explanation
Indices: 30090771--30090814 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
30090761 TTATTAAAAT
30090771 ATTATAATAAAAT-TAGAAA
1 ATTATAA-AAAATATAGAAA
*
30090790 ATTATAAAAATTATAGAAA
1 ATTATAAAAAATATAGAAA
*
30090809 AATATA
1 ATTATA
30090815 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTATAAAAAATATAGAAA
Found at i:30090920 original size:26 final size:24
Alignment explanation
Indices: 30090874--30090928 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
30090864 TATTGTGAAA
30090874 AAAATGAAAAAACATAGAAATTAT
1 AAAATGAAAAAACATAGAAATTAT
*
30090898 ATAAATTAAAAAA-ATAGAAAAATTAT
1 A-AAATGAAAAAACATAG--AAATTAT
30090924 AAAAT
1 AAAAT
30090929 ATTGTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.19
25 14 0.52
26 8 0.30
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (24 bp):
AAAATGAAAAAACATAGAAATTAT
Found at i:30090924 original size:24 final size:25
Alignment explanation
Indices: 30090875--30090926 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
30090865 ATTGTGAAAA
*
30090875 AAATGAAAAAACATAGAAATTATAT
1 AAATGAAAAAACATAGAAAATATAT
*
30090900 AAATTAAAAAA-ATAGAAAA-ATTAT
1 AAATGAAAAAACATAGAAAATA-TAT
30090924 AAA
1 AAA
30090927 ATATTGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 13 0.54
25 10 0.42
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (25 bp):
AAATGAAAAAACATAGAAAATATAT
Found at i:30093740 original size:21 final size:22
Alignment explanation
Indices: 30093716--30093758 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
30093706 GTATTGCTAT
30093716 AATAATT-ATAATTA-TAATCAA
1 AATAATTAAT-ATTATTAATCAA
30093737 AATAATTAATATTATTAATCAA
1 AATAATTAATATTATTAATCAA
30093759 CAATCTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAATTAATATTATTAATCAA
Found at i:30098715 original size:16 final size:16
Alignment explanation
Indices: 30098694--30098729 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
30098684 ATTTAAATCA
30098694 AATTTAAATTCGAA-AT
1 AATTTAAATTC-AATAT
30098710 AATTTAAATTCAATAT
1 AATTTAAATTCAATAT
30098726 AATT
1 AATT
30098730 AAAACCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTTAAATTCAATAT
Found at i:30099985 original size:14 final size:14
Alignment explanation
Indices: 30099962--30099996 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30099952 TACAATATTC
*
30099962 AAATAATAACAACA
1 AAATAGTAACAACA
30099976 AAATAGTAACAACA
1 AAATAGTAACAACA
*
30099990 TAATAGT
1 AAATAGT
30099997 GAAATGGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:30100327 original size:18 final size:18
Alignment explanation
Indices: 30100304--30100343 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
30100294 TAGTGGTCGA
30100304 GGGTTCAATCCTCGCCTT
1 GGGTTCAATCCTCGCCTT
30100322 GGGTTCAATCCTCGCCTT
1 GGGTTCAATCCTCGCCTT
30100340 GGGT
1 GGGT
30100344 ATGAAGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.30, G:0.28, T:0.33
Consensus pattern (18 bp):
GGGTTCAATCCTCGCCTT
Found at i:30100655 original size:23 final size:23
Alignment explanation
Indices: 30100604--30100655 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
30100594 TCATTTAAAC
*
30100604 AAATACTCATATTTATATAATTA
1 AAATATTCATATTTATATAATTA
*
30100627 AAATATTCATATTT-TATACTATA
1 AAATATTCATATTTATATAAT-TA
30100650 AAATAT
1 AAATAT
30100656 ATTTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATTCATATTTATATAATTA
Found at i:30100796 original size:17 final size:18
Alignment explanation
Indices: 30100759--30100796 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30100749 TTATTATTGT
*
30100759 TAAAATTTACTATTAAAA
1 TAAAATTTACAATTAAAA
*
30100777 TAAAATTTA-AATTTAAA
1 TAAAATTTACAATTAAAA
30100794 TAA
1 TAA
30100797 TTTATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTACAATTAAAA
Found at i:30104333 original size:30 final size:29
Alignment explanation
Indices: 30104298--30104358 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
30104288 ACTCTATTTC
30104298 TTTTAAATTTTTATGAACT-TTTTATAAGAT
1 TTTTAAATTTTTATGAA-TATTTTATAA-AT
* *
30104328 TTTTAATTTTTTTTGAATATTTTATAAAT
1 TTTTAAATTTTTATGAATATTTTATAAAT
30104357 TT
1 TT
30104359 AAAATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
TTTTAAATTTTTATGAATATTTTATAAAT
Found at i:30105481 original size:26 final size:26
Alignment explanation
Indices: 30105443--30105502 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
30105433 TGTCGTCATC
* * * *
30105443 TTCTATTCGTTTCTTTCTTTTTGTTG
1 TTCTTTTCGTTTCCTTCATTTTCTTG
*
30105469 TTCTTTTCTTTTCCTTCATTTTCTTG
1 TTCTTTTCGTTTCCTTCATTTTCTTG
30105495 TCTCTTTT
1 T-TCTTTT
30105503 TGATTCTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 22 0.79
27 6 0.21
ACGTcount: A:0.03, C:0.20, G:0.07, T:0.70
Consensus pattern (26 bp):
TTCTTTTCGTTTCCTTCATTTTCTTG
Found at i:30118142 original size:87 final size:86
Alignment explanation
Indices: 30118051--30118545 Score: 319
Period size: 87 Copynumber: 5.6 Consensus size: 86
30118041 GGTTGCCAAA
* *
30118051 TCATCTTGGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTC
1 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC
* *
30118116 GAATATGGAGACGTCAAATCTG
66 GAA-ATAGAGACGCCAAATCTG
30118138 TCATCTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGT
1 TCATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGT
* *
30118202 CGAAATAGAGATGCCAGATCTG
65 CGAAATAGAGACGCCAAATCTG
* * * * * * * *
30118224 TTATCTTGGATCTGCTTTAGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG-T
1 TCATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAGGTTAGATCTGCTATG---T--ATCTGCT
* * * *
30118288 -TCC-TTGTAAACACAAGAATGCCAAA----
59 CTCCGTCG-AAATA-GAG-ACGCCAAATCTG
* * * * *
30118313 TCATCTTGGATCTACTTCAGTATAAACACCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTC
1 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC
* * *
30118378 GAATATGGAGAAGCCAGATCTG
66 GAA-ATAGAGACGCCAAATCTG
* * * * * * * *
30118400 TTATCTTGGATCTACTTTGATGTGAAAAACATCTGGAA-GTCAAATCTGCTATGTCT-TCGATTT
1 TCATCTTGGATCTGC-TTCA-GT-ATAAACATCT-GAAGGTTAGATCTGCTATGTATCT-G--CT
*
30118463 ACTCCTCGTCGAAGATAGAGAAGCCAAATCTTG
59 -CT-C-CGTCGAA-ATAGAGACGCCAAATC-TG
* * * **
30118496 TTATCTTGGATCTGCTTTAGTGTAAACA-CGTGAAGGCCAGATCTGCTATG
1 TCATCTTGGATCTGCTTCAGTATAAACATC-TGAAGGTTAGATCTGCTATG
30118546 CTTTGGTCTG
Statistics
Matches: 319, Mismatches: 56, Indels: 60
0.73 0.13 0.14
Matches are distributed among these distances:
82 2 0.01
83 6 0.02
84 8 0.03
85 3 0.01
86 36 0.11
87 97 0.30
88 25 0.08
89 24 0.08
90 25 0.08
91 11 0.03
92 7 0.02
93 32 0.10
94 3 0.01
95 24 0.08
96 16 0.05
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (86 bp):
TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC
GAAATAGAGACGCCAAATCTG
Found at i:30118333 original size:175 final size:177
Alignment explanation
Indices: 30118138--30118462 Score: 505
Period size: 175 Copynumber: 1.8 Consensus size: 177
30118128 GTCAAATCTG
* * * *
30118138 TCATCTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGT
1 TCATCTTGGATCTACTTCAGTATAAA-CACCTGAAGGTTAGATCTGCTATGTATCTACCCTCCGT
* * *
30118202 CGAA-ATAGAGATGCCAGATCTGTTATCTTGGATCTGCTTT-AGTGTG-AGAACATCCGAAAGTC
65 CGAATATAGAGAAGCCAGATCTGTTATCTTGGATCTACTTTGA-TGTGAAAAACATCCGAAAGTC
30118264 AAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
129 AAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
*
30118313 TCATCTTGGATCTACTTCAGTATAAACACCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTC
1 TCATCTTGGATCTACTTCAGTATAAACACCTGAAGGTTAGATCTGCTATGTATCTACCCTCCGTC
* * *
30118378 GAATATGGAGAAGCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAAACATCTGGAAGTCAA
66 GAATATAGAGAAGCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAAACATCCGAAAGTCAA
30118443 ATCTGCTATGTCTTCGATTT
131 ATCTGCTATGTCTTCGATTT
30118463 ACTCCTCGTC
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
175 59 0.44
176 40 0.30
177 36 0.27
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (177 bp):
TCATCTTGGATCTACTTCAGTATAAACACCTGAAGGTTAGATCTGCTATGTATCTACCCTCCGTC
GAATATAGAGAAGCCAGATCTGTTATCTTGGATCTACTTTGATGTGAAAAACATCCGAAAGTCAA
ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAA
Found at i:30118542 original size:183 final size:177
Alignment explanation
Indices: 30118112--30118545 Score: 493
Period size: 175 Copynumber: 2.4 Consensus size: 177
30118102 GTCTGCTCTC
* * * * *
30118112 CGTCGAATATGGAGACGTCAAATCTGTCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTA
1 CGTCGAACATAGAGAAGCCAAATCTGT-ATCTTGGATCTGCTTCAGTTAAA-CA-CTGAAGGTTA
* * * *
30118177 GATCTGCTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGATCTGTTATCTTGGATCTGCTTT
63 GATCTGCTATGTATCTACCCTCCGTCGAAATAGAGAAGCCAGATCTGTTATCTTGGATCTACTTT
* **
30118242 AGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCT
128 AGTGTGAAAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTACTCCT
* * * *
30118292 TGT-AAACACA-AGAATGCCAAATC---ATCTTGGATCTACTTCAGTATAAACACCTGAAGGTTA
1 CGTCGAACATAGAGAA-GCCAAATCTGTATCTTGGATCTGCTTCAGT-TAAACA-CTGAAGGTTA
* *
30118352 GATCTGCTATGTGTCTACCCTCCGTCGAATATGGAGAAGCCAGATCTGTTATCTTGGATCTACTT
63 GATCTGCTATGTATCTACCCTCCGTCGAA-ATAGAGAAGCCAGATCTGTTATCTTGGATCTACTT
* *
30118417 T-GATGTGAAAAACATCTGGAAGTCAAATCTGCTATGTCTTCGATTTACTCCT
127 TAG-TGTG-AAAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTACTCCT
* * **
30118469 CGTCGAAGATAGAGAAGCCAAATCTTGTTATCTTGGATCTGCTTTAGTGTAAACACGTGAAGGCC
1 CGTCGAACATAGAGAAGCCAAATC-TG-TATCTTGGATCTGCTTCAGT-TAAACAC-TGAAGGTT
30118534 AGATCTGCTATG
62 AGATCTGCTATG
30118546 CTTTGGTCTG
Statistics
Matches: 211, Mismatches: 30, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
175 57 0.27
176 40 0.19
177 41 0.19
178 15 0.07
179 14 0.07
180 2 0.01
182 1 0.00
183 41 0.19
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (177 bp):
CGTCGAACATAGAGAAGCCAAATCTGTATCTTGGATCTGCTTCAGTTAAACACTGAAGGTTAGAT
CTGCTATGTATCTACCCTCCGTCGAAATAGAGAAGCCAGATCTGTTATCTTGGATCTACTTTAGT
GTGAAAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTACTCCT
Found at i:30129502 original size:21 final size:21
Alignment explanation
Indices: 30129478--30129531 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
30129468 AACTTCTTGA
*
30129478 TGAGTTGGGGTAGTAGGTATC
1 TGAGTTGGGGTAGTAGGTAAC
*
30129499 TGAGTTGGGGCAGTAGGTAAC
1 TGAGTTGGGGTAGTAGGTAAC
30129520 TGAGTTGGGGTA
1 TGAGTTGGGGTA
30129532 CCTTCTTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.06, G:0.44, T:0.30
Consensus pattern (21 bp):
TGAGTTGGGGTAGTAGGTAAC
Found at i:30130328 original size:16 final size:17
Alignment explanation
Indices: 30130297--30130329 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30130287 TTCATAAGCA
*
30130297 TATATCACTCATTTCAT
1 TATATCAATCATTTCAT
30130314 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
30130330 GCTCCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:30130793 original size:46 final size:46
Alignment explanation
Indices: 30130612--30130793 Score: 229
Period size: 46 Copynumber: 4.0 Consensus size: 46
30130602 TTTGACATAA
* * * * ** * *
30130612 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *** *
30130658 TACCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30130704 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
30130750 TGCCATGGTATCTATCAACCATGGCCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
30130794 AGAGCACACT
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 119 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:30133962 original size:43 final size:43
Alignment explanation
Indices: 30133868--30134045 Score: 247
Period size: 43 Copynumber: 4.2 Consensus size: 43
30133858 AAAAAAAAAC
* *
30133868 TCATTGCATGCATATTAAAAAATAGGCAACA-C--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
30133908 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* * *
30133951 TCATTGCATGCATATTAAAAAATAGTTAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* * *
30133994 TCATTGCATACATATTAAAAGA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
*
30134036 TCACTGCATG
1 TCATTGCATG
30134046 TAATCAGCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 30 0.25
41 1 0.01
42 24 0.20
43 67 0.55
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.28
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
Found at i:30134044 original size:85 final size:83
Alignment explanation
Indices: 30133872--30134045 Score: 242
Period size: 85 Copynumber: 2.1 Consensus size: 83
30133862 AAAAACTCAT
*
30133872 TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATGCATATTAAAAAATAGTCAA
1 TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAATAGTCAA
*
30133937 CAGCTTTCCAACAATCAT
66 CAGCTTTCCAACAATCAC
** * * *
30133955 TGCATGCATATTAAAAAATAGTTAACAACTTTCCAATAATCATTGCATACATATTAAAAGA-AGT
1 TGCATGCATATTAAAAAATAGGCAAC-AC--ACCAACAATCATTGCATACATATTAAAAAATAGT
*
30134019 CAATAGCTTTCCAACAATCAC
63 CAACAGCTTTCCAACAATCAC
30134040 TGCATG
1 TGCATG
30134046 TAATCAGCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
83 24 0.30
84 2 0.03
85 28 0.35
86 26 0.32
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (83 bp):
TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAATAGTCAA
CAGCTTTCCAACAATCAC
Found at i:30135419 original size:30 final size:31
Alignment explanation
Indices: 30135395--30135453 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
30135385 GTAAATACTC
*
30135395 AAAATTTGAGAGG-TTAA-AGTGTAAATATGA
1 AAAATTTGA-AGGATCAATAGTGTAAATATGA
30135425 AAAATTTGAAGGATCAATAGTGTAAATAT
1 AAAATTTGAAGGATCAATAGTGTAAATAT
30135454 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 12 0.46
31 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAATTTGAAGGATCAATAGTGTAAATATGA
Found at i:30135705 original size:11 final size:11
Alignment explanation
Indices: 30135691--30135746 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
30135681 AGATAAATAT
30135691 TATTTTATTAA
1 TATTTTATTAA
*
30135702 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
30135715 TATTTTATTAT
1 TATTTTATTAA
*
30135726 TATTTTATTAT
1 TATTTTATTAA
30135737 TATTTTATTA
1 TATTTTATTA
30135747 GTATATAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 27 0.68
12 6 0.15
13 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:30137929 original size:46 final size:46
Alignment explanation
Indices: 30137860--30138116 Score: 328
Period size: 46 Copynumber: 5.7 Consensus size: 46
30137850 AGTGTGCTCT
* *
30137860 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
30137906 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
30137952 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGC-A-
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
30137996 ---ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
30138039 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
30138085 ATGACA-GAAAAGGAGTAAGACCATAGTTGAAA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAA
30138117 AACAATATGG
Statistics
Matches: 192, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
41 37 0.19
42 1 0.01
45 2 0.01
46 152 0.79
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:30138058 original size:87 final size:87
Alignment explanation
Indices: 30137879--30138088 Score: 285
Period size: 87 Copynumber: 2.4 Consensus size: 87
30137869 AATGTGTAAA
**
30137879 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGC-A----ATATGAAATGAATAAGACCATGGTTGAAAGATACC
* * **
30137944 ATGACAACCTGATATGAAATGTGTAAG
61 ATGACAACCTGACATGAAAAGAATAAG
* *
30137971 ACCATAGTTGAAAGATACCATGGCAATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
1 ACCATGGTTGAAAGATACCATGGCAATATGAAATGAATAAGACCATGGTTGAAAGATACCATGAC
*
30138036 AACGTGACATGAAAAGAATAAG
66 AACCTGACATGAAAAGAATAAG
*
30138058 ACCATGGTTGAAAGATACCATGGCAACATGA
1 ACCATGGTTGAAAGATACCATGGCAATATGA
30138089 CAGAAAAGGA
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
87 83 0.78
91 1 0.01
92 23 0.21
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (87 bp):
ACCATGGTTGAAAGATACCATGGCAATATGAAATGAATAAGACCATGGTTGAAAGATACCATGAC
AACCTGACATGAAAAGAATAAG
Found at i:30138103 original size:133 final size:133
Alignment explanation
Indices: 30137863--30138116 Score: 375
Period size: 133 Copynumber: 1.9 Consensus size: 133
30137853 GTGCTCTCTG
** * * **
30137863 ATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 ATATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACC
* * * *
30137928 ATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATG
66 ATGGTTGAAAGATACCATGACAACATGACATGAAAGGAGTAAGACCATAGTTGAAAGATACCATG
30137993 GCA
131 GCA
* *
30137996 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACC
1 ATATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACC
*
30138061 ATGGTTGAAAGATACCATGGCAACATGACA-GAAAAGGAGTAAGACCATAGTTGAAA
66 ATGGTTGAAAGATACCATGACAACATGACATG-AAAGGAGTAAGACCATAGTTGAAA
30138117 AACAATATGG
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
132 1 0.01
133 106 0.99
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (133 bp):
ATATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACC
ATGGTTGAAAGATACCATGACAACATGACATGAAAGGAGTAAGACCATAGTTGAAAGATACCATG
GCA
Found at i:30139418 original size:15 final size:15
Alignment explanation
Indices: 30139398--30139427 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30139388 ATGCATCACT
30139398 ATCACTACCAGACAC
1 ATCACTACCAGACAC
30139413 ATCACTACCAGACAC
1 ATCACTACCAGACAC
30139428 GTTTTCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.40, G:0.07, T:0.13
Consensus pattern (15 bp):
ATCACTACCAGACAC
Found at i:30139783 original size:62 final size:62
Alignment explanation
Indices: 30139712--30139946 Score: 344
Period size: 62 Copynumber: 3.8 Consensus size: 62
30139702 TAGGAGCTTG
* *
30139712 GATACAAACAATGACAGATATAGACAATAAACATCAGTTTAATAATGTATAATTTAATCGCA
1 GATACAAACAATGACAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATCGCA
* *
30139774 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATTGCA
1 GATACAAACAATGACAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATCGCA
* * * * ** *
30139836 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGACAGATATACACAATAAACATCAATTTAATAATG-TA-TAATTTAATCGCA
*
30139900 GATACAAACAATGACAGATATACACAATAAACATCAATTTGATAATG
1 GATACAAACAATGACAGATATACACAATAAACATCAATTTAATAATG
30139947 ACATTCATAC
Statistics
Matches: 160, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
62 104 0.65
63 1 0.01
64 55 0.34
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (62 bp):
GATACAAACAATGACAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATCGCA
Found at i:30139957 original size:34 final size:34
Alignment explanation
Indices: 30139855--30139957 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 34
30139845 AATGGCAGAT
30139855 ATACACAATAAACATCAATTTGATAATGACATTC
1 ATACACAATAAACATCAATTTGATAATGACATTC
** * * *
30139889 AT--ACAATGGCAGATACAA----ACAATGACAGAT-
1 ATACACAAT-AAACAT-CAATTTGATAATGACA-TTC
30139919 ATACACAATAAACATCAATTTGATAATGACATTC
1 ATACACAATAAACATCAATTTGATAATGACATTC
30139953 ATACA
1 ATACA
30139958 ATGGCAGATA
Statistics
Matches: 49, Mismatches: 10, Indels: 20
0.62 0.13 0.25
Matches are distributed among these distances:
30 13 0.27
31 4 0.08
32 10 0.20
33 4 0.08
34 18 0.37
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (34 bp):
ATACACAATAAACATCAATTTGATAATGACATTC
Found at i:30139972 original size:112 final size:112
Alignment explanation
Indices: 30139843--30140096 Score: 409
Period size: 112 Copynumber: 2.3 Consensus size: 112
30139833 GCAGATACAA
*
30139843 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGATACAAA
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGACAGATACAAA
30139908 CAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
66 CAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
* * *
30139955 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGACATTCATATAATGACAGATACAAA
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGACAGATACAAA
* * * * *
30140020 CAATGGCATATATACACAATAAAGATCAGTTTGATAATGGCATTCAT
66 CAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
* *
30140067 ACAATGGCAGATACAAACAATAAACATCAA
1 ACAATGGCAGATATACACAATAAACATCAA
30140097 AATCAAAATC
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 129 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (112 bp):
ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGACAGATACAAA
CAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
Found at i:30140023 original size:48 final size:48
Alignment explanation
Indices: 30139907--30140015 Score: 182
Period size: 48 Copynumber: 2.3 Consensus size: 48
30139897 GCAGATACAA
30139907 ACAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
1 ACAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
* * *
30139955 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGACATTCAT
1 ACAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
*
30140003 ATAATGACAGATA
1 ACAATGACAGATA
30140016 CAAACAATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (48 bp):
ACAATGACAGATATACACAATAAACATCAATTTGATAATGACATTCAT
Found at i:30140023 original size:64 final size:64
Alignment explanation
Indices: 30139955--30140087 Score: 230
Period size: 64 Copynumber: 2.1 Consensus size: 64
30139945 TGACATTCAT
*
30139955 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGACATTCATATAATGACAGATACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAGATACAA
* * *
30140019 ACAATGGCATATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAGATACAA
30140083 ACAAT
1 ACAAT
30140088 AAACATCAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (64 bp):
ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAGATACAA
Found at i:30140069 original size:34 final size:34
Alignment explanation
Indices: 30139967--30140069 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 34
30139957 AATGGCAGAT
*
30139967 ATACACAATAAAGATCAGTTTGATAATGACATTC
1 ATACACAATAAAGATCAGTTTGATAATGGCATTC
* * * *
30140001 AT--ATAATGACAGATACA----AACAATGGCATAT-
1 ATACACAAT-AAAGAT-CAGTTTGATAATGGCAT-TC
30140031 ATACACAATAAAGATCAGTTTGATAATGGCATTC
1 ATACACAATAAAGATCAGTTTGATAATGGCATTC
30140065 ATACA
1 ATACA
30140070 ATGGCAGATA
Statistics
Matches: 50, Mismatches: 9, Indels: 20
0.63 0.11 0.25
Matches are distributed among these distances:
30 12 0.24
31 6 0.12
32 8 0.16
33 6 0.12
34 18 0.36
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (34 bp):
ATACACAATAAAGATCAGTTTGATAATGGCATTC
Found at i:30140252 original size:18 final size:18
Alignment explanation
Indices: 30140229--30140311 Score: 63
Period size: 18 Copynumber: 4.9 Consensus size: 18
30140219 AAATAACCCT
30140229 AAATCAAAATCTAAATCG
1 AAATCAAAATCTAAATCG
30140247 AAATCAAAATC-AAAT--
1 AAATCAAAATCTAAATCG
* *
30140262 ---TC-TAATCCTAAATTG
1 AAATCAAAAT-CTAAATCG
* * *
30140277 AGATCAAAATCGAAATTG
1 AAATCAAAATCTAAATCG
30140295 AAATCAAAATCTAAATC
1 AAATCAAAATCTAAATC
30140312 AGAATCAGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
11 3 0.06
12 3 0.06
13 4 0.08
17 4 0.08
18 34 0.67
19 3 0.06
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (18 bp):
AAATCAAAATCTAAATCG
Found at i:30140317 original size:12 final size:12
Alignment explanation
Indices: 30140227--30140266 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30140217 CGAAATAACC
30140227 CTAAATCAAAAT
1 CTAAATCAAAAT
*
30140239 CTAAATCGAAAT
1 CTAAATCAAAAT
* *
30140251 CAAAATCAAATT
1 CTAAATCAAAAT
30140263 CTAA
1 CTAA
30140267 TCCTAAATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (12 bp):
CTAAATCAAAAT
Found at i:30140370 original size:12 final size:12
Alignment explanation
Indices: 30140328--30140376 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
30140318 AGTGAGTGTT
* *
30140328 TCAAAATTGTAA
1 TCAAAATCGAAA
30140340 TCAAAATCGAAA
1 TCAAAATCGAAA
30140352 T-AGAAATCGAAA
1 TCA-AAATCGAAA
*
30140364 TCAAAATCAAAA
1 TCAAAATCGAAA
30140376 T
1 T
30140377 TAAATTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.22
Consensus pattern (12 bp):
TCAAAATCGAAA
Found at i:30140376 original size:18 final size:18
Alignment explanation
Indices: 30140328--30140370 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
30140318 AGTGAGTGTT
* *
30140328 TCAAAATTGTAATCAAAA
1 TCAAAATAGAAATCAAAA
* *
30140346 TCGAAATAGAAATCGAAA
1 TCAAAATAGAAATCAAAA
30140364 TCAAAAT
1 TCAAAAT
30140371 CAAAATTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (18 bp):
TCAAAATAGAAATCAAAA
Found at i:30140944 original size:31 final size:29
Alignment explanation
Indices: 30140905--30140977 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
30140895 GGTAGCTGTT
*
30140905 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
*
30140935 ACGTTAGTGA-TCGTTTTGTTACTTTTTGAA
1 A-GTTAGTGACT-GTTTTGTCACTTTTTGAA
30140965 AGTTAAGTGACTG
1 AGTT-AGTGACTG
30140978 AAATGAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 24 0.65
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.48
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:30152829 original size:3 final size:3
Alignment explanation
Indices: 30152821--30152860 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
30152811 TTCCCTACAA
30152821 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
30152861 TTGTTGTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:30155622 original size:19 final size:20
Alignment explanation
Indices: 30155608--30155645 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
30155598 TGTGAAATTT
*
30155608 AATGCATATG-ATGAAATGC
1 AATGCAGATGCATGAAATGC
30155627 AATGCAGATGCATGAAATG
1 AATGCAGATGCATGAAATG
30155646 AATTCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (20 bp):
AATGCAGATGCATGAAATGC
Found at i:30161571 original size:26 final size:26
Alignment explanation
Indices: 30161542--30161625 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
30161532 CATGAAATTC
30161542 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
30161568 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
30161594 TTATCATGGAACATTTATCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
30161620 TTATCA
1 TTATCA
30161626 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:30164802 original size:12 final size:12
Alignment explanation
Indices: 30164785--30164818 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
30164775 CGGCCTGCCC
30164785 ATATTAATTTTT
1 ATATTAATTTTT
*
30164797 ATATTATTTTTT
1 ATATTAATTTTT
30164809 ATA-TAATTTT
1 ATATTAATTTT
30164819 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:30170018 original size:8 final size:8
Alignment explanation
Indices: 30170001--30170058 Score: 64
Period size: 8 Copynumber: 7.0 Consensus size: 8
30169991 ATATAAAGGG
30170001 TAAT-AAA
1 TAATAAAA
30170008 TAATAAAA
1 TAATAAAA
30170016 TAATAAAA
1 TAATAAAA
30170024 TAATAATAGA
1 TAATAA-A-A
30170034 TAATAAAA
1 TAATAAAA
**
30170042 TTGTAATAA
1 TAATAA-AA
30170051 TAATAAAA
1 TAATAAAA
30170059 GTATAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 4 0.09
8 24 0.56
9 8 0.19
10 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (8 bp):
TAATAAAA
Found at i:30170020 original size:3 final size:3
Alignment explanation
Indices: 30170001--30170056 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
30169991 ATATAAAGGG
**
30170001 TAA TAAA TAA TAA -AA TAA TAA -AA TAA TAA TAGA TAA TAA -AA TTG
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
30170045 TAA TAA TAA TAA
1 TAA TAA TAA TAA
30170057 AAGTATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 6 0.14
3 32 0.73
4 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:30170038 original size:18 final size:17
Alignment explanation
Indices: 30170001--30170058 Score: 75
Period size: 18 Copynumber: 3.5 Consensus size: 17
30169991 ATATAAAGGG
30170001 TAAT-AAATAATAA-AA
1 TAATAAAATAATAATAA
30170016 TAATAAAATAATAATAGA
1 TAATAAAATAATAATA-A
**
30170034 TAATAAAATTGTAATAA
1 TAATAAAATAATAATAA
30170051 TAATAAAA
1 TAATAAAA
30170059 GTATAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.11
16 9 0.24
17 10 0.26
18 15 0.39
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TAATAAAATAATAATAA
Found at i:30170067 original size:18 final size:17
Alignment explanation
Indices: 30170014--30170074 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
30170004 TAAATAATAA
30170014 AATAATAAAATA-ATAAT
1 AATAATAAAATATA-AAT
*
30170031 AGATAATAAAAT-TGTAAT
1 A-ATAATAAAATAT-AAAT
30170049 AATAATAAAAGTATAAAT
1 AATAATAAAA-TATAAAT
30170067 AA-AATAAA
1 AATAATAAA
30170075 TAACAAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 16 0.43
18 20 0.54
19 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
AATAATAAAATATAAAT
Found at i:30178848 original size:26 final size:26
Alignment explanation
Indices: 30178811--30178868 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
30178801 TGATACAAAT
30178811 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30178837 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30178863 TGATAA
1 TGATAA
30178869 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30185778 original size:19 final size:20
Alignment explanation
Indices: 30185754--30185794 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
30185744 TCAGACTATC
* *
30185754 ACCCTTCTCTTGTTGTG-TT
1 ACCCTTATCTCGTTGTGCTT
30185773 ACCCTTATCTCGTTGTGCTT
1 ACCCTTATCTCGTTGTGCTT
30185793 AC
1 AC
30185795 TCGGACCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.10, C:0.29, G:0.15, T:0.46
Consensus pattern (20 bp):
ACCCTTATCTCGTTGTGCTT
Found at i:30187299 original size:32 final size:32
Alignment explanation
Indices: 30187236--30187349 Score: 104
Period size: 33 Copynumber: 3.5 Consensus size: 32
30187226 TACCCAAGTG
* **
30187236 GTACAACTTGAAAAGGTTATGTGCACCTTGTGT
1 GTAC-ACTTGAAAAGGTTAGGTATACCTTGTGT
*
30187269 GTACACTTGAAAAGGTTAGGTATACGTTGTGT
1 GTACACTTGAAAAGGTTAGGTATACCTTGTGT
* ** *
30187301 ATAC-CATATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAC-T-TGAAAAGGTTAGGTATACCTTGTGT
*
30187334 GTACCACTTGGAAAGG
1 GTA-CACTTGAAAAGG
30187350 AATGTAGACC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
31 1 0.01
32 28 0.42
33 35 0.52
34 2 0.03
35 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (32 bp):
GTACACTTGAAAAGGTTAGGTATACCTTGTGT
Found at i:30187349 original size:33 final size:33
Alignment explanation
Indices: 30187263--30187351 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
30187253 TATGTGCACC
**
30187263 TTGTGTGTA-CACTTGAAAAGGTTAGGTATACG
1 TTGTGTGTACCACTTGAAAAGGAAAGGTATACG
* *
30187295 TTGTGTATACCA-TATGAAAAGGAAAGGTATACT
1 TTGTGTGTACCACT-TGAAAAGGAAAGGTATACG
*
30187328 TTGTGTGTACCACTTGGAAAGGAA
1 TTGTGTGTACCACTTGAAAAGGAA
30187352 TGTAGACCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
32 9 0.19
33 38 0.79
34 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (33 bp):
TTGTGTGTACCACTTGAAAAGGAAAGGTATACG
Found at i:30188093 original size:18 final size:20
Alignment explanation
Indices: 30188050--30188098 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
30188040 GATAGAATAA
*
30188050 ATAAAAATAACAATTCAATG
1 ATAATAATAACAATTCAATG
*
30188070 ATAATAATAAC-ATT-AATT
1 ATAATAATAACAATTCAATG
30188088 ATAATAATAAC
1 ATAATAATAAC
30188099 TATCATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 14 0.52
19 3 0.11
20 10 0.37
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAATAATAACAATTCAATG
Found at i:30188234 original size:3 final size:3
Alignment explanation
Indices: 30188220--30188265 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
30188210 TAGATGAATA
**
30188220 AAT AAT AA- AAT AAT AAT AAT AGAT AAT AA- AAT GTT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
30188264 AA
1 AA
30188266 AAGTATAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30188257 original size:21 final size:20
Alignment explanation
Indices: 30188220--30188265 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
30188210 TAGATGAATA
30188220 AATAATAAAATAATAATAAT
1 AATAATAAAATAATAATAAT
**
30188240 AGATAATAAAATGTTAATAAT
1 A-ATAATAAAATAATAATAAT
30188261 AATAA
1 AATAA
30188266 AAGTATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
AATAATAAAATAATAATAAT
Found at i:30189945 original size:22 final size:19
Alignment explanation
Indices: 30189900--30189956 Score: 51
Period size: 22 Copynumber: 2.7 Consensus size: 19
30189890 TAATAATGTT
30189900 ATAATATAATTTTATAAATTAA
1 ATAATAT-A-TTTATAAA-TAA
* *
30189922 TATACTATACTTTATAACTAA
1 -ATAATATA-TTTATAAATAA
30189943 ATAATATATTTATA
1 ATAATATATTTATA
30189957 TACTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.20
20 7 0.23
21 3 0.10
22 8 0.27
23 6 0.20
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATATATTTATAAATAA
Found at i:30196070 original size:15 final size:16
Alignment explanation
Indices: 30196052--30196081 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30196042 AAATTATCCA
30196052 AAAAAAAAGT-AAAAG
1 AAAAAAAAGTGAAAAG
30196067 AAAAAAAAGTGAAAA
1 AAAAAAAAGTGAAAA
30196082 TTAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAAAAAAGTGAAAAG
Found at i:30202757 original size:30 final size:31
Alignment explanation
Indices: 30202723--30202787 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
30202713 ATACATAAAT
* *
30202723 ATTTTCTA-AAAAATATAATAATAAATTTTA
1 ATTTTATATAAAAATATAATAATAAATTTAA
* * *
30202753 ATTTTATATTAATATATATTAATAAATTTAA
1 ATTTTATATAAAAATATAATAATAAATTTAA
30202784 ATTT
1 ATTT
30202788 CATTATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTTTATATAAAAATATAATAATAAATTTAA
Found at i:30202765 original size:21 final size:21
Alignment explanation
Indices: 30202736--30202775 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30202726 TTCTAAAAAA
*
30202736 TATAATAATAAATTTTAATTT
1 TATAATAATAAATATTAATTT
* *
30202757 TATATTAATATATATTAAT
1 TATAATAATAAATATTAAT
30202776 AAATTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATAATAATAAATATTAATTT
Found at i:30202776 original size:31 final size:32
Alignment explanation
Indices: 30202735--30202796 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
30202725 TTTCTAAAAA
* *
30202735 ATATAATAATAAATTTTAATTTTA-TATTAAT
1 ATATAATAATAAATTTAAATTTCATTATTAAT
*
30202766 ATATATTAATAAATTTAAATTTCATTATTAA
1 ATATAATAATAAATTTAAATTTCATTATTAA
30202797 AATTTTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATAATAATAAATTTAAATTTCATTATTAAT
Found at i:30213364 original size:24 final size:25
Alignment explanation
Indices: 30213318--30213367 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
30213308 AAATAAAAAA
*
30213318 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAATAT-ATAAAACAAATAT
30213344 ATTTAAAAATAT-TAAAACAAATAT
1 ATTTAAAAATATATAAAACAAATAT
30213368 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
26 12 0.52
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTTAAAAATATATAAAACAAATAT
Found at i:30213409 original size:12 final size:11
Alignment explanation
Indices: 30213342--30213410 Score: 61
Period size: 12 Copynumber: 6.3 Consensus size: 11
30213332 TAAATCAAAT
*
30213342 ATATTTAAA-A
1 ATATTAAAACA
30213352 ATATTAAAACAA
1 ATATTAAAAC-A
30213364 ATATTAAAACA
1 ATATTAAAACA
* **
30213375 A-ATAAAAATG
1 ATATTAAAACA
*
30213385 ATACTAAAACA
1 ATATTAAAACA
30213396 ATTATTAAAACA
1 A-TATTAAAACA
30213408 ATA
1 ATA
30213411 CACAAATTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
10 15 0.33
11 10 0.22
12 21 0.46
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (11 bp):
ATATTAAAACA
Found at i:30221165 original size:16 final size:16
Alignment explanation
Indices: 30221144--30221174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30221134 GATATTTTAA
30221144 TATATTATATTAATAT
1 TATATTATATTAATAT
*
30221160 TATATTATGTTAATA
1 TATATTATATTAATA
30221175 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:30221271 original size:12 final size:12
Alignment explanation
Indices: 30221254--30221284 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30221244 GAAGCAGGGG
30221254 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
30221266 AGAAAAAGGGAA
1 AGAAAAAGAGAA
30221278 AGAAAAA
1 AGAAAAA
30221285 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:30224014 original size:47 final size:47
Alignment explanation
Indices: 30223905--30224015 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
30223895 CCGGGATAAG
*
30223905 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
30223952 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
30223999 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
30224016 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:30224787 original size:4 final size:4
Alignment explanation
Indices: 30224778--30224802 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
30224768 CCCTTTTCTA
30224778 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
30224803 CACGTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:30226124 original size:17 final size:18
Alignment explanation
Indices: 30226093--30226127 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30226083 GAAAATACTA
30226093 ATAAAAAGTAAAATTTAG
1 ATAAAAAGTAAAATTTAG
*
30226111 ATAAAAA-TAGAATTTAG
1 ATAAAAAGTAAAATTTAG
30226128 GAAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
ATAAAAAGTAAAATTTAG
Found at i:30228437 original size:18 final size:17
Alignment explanation
Indices: 30228411--30228451 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
30228401 CTGCTTCTGA
*
30228411 TTTTTTTTACTTTTGTC
1 TTTTTTTTAATTTTGTC
*
30228428 TTTTTCTTTAATTTTTTC
1 TTTTT-TTTAATTTTGTC
30228446 TTTTTT
1 TTTTTT
30228452 AAGTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTTTAATTTTGTC
Found at i:30228579 original size:23 final size:24
Alignment explanation
Indices: 30228523--30228579 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
30228513 TTTTAAAAAA
30228523 TTTGAAATGTTTTATAATATATATT
1 TTTGAAAT-TTTTATAATATATATT
*
30228548 TTTAAAATTTTTA-AATATATATT
1 TTTGAAATTTTTATAATATATATT
*
30228571 TTTGGAATT
1 TTTGAAATT
30228580 ATTTCTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 17 0.59
24 5 0.17
25 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTGAAATTTTTATAATATATATT
Done.