Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 4 of 136
Found at i:882090 original size:54 final size:54
Alignment explanation
Indices: 882032--882146 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
882022 TCATCACCCT
* **
882032 TGTAACTAACTGAGATGCCCCAAACGCTTGTGTGCCAGACC-GTGTGCTAGGCAG
1 TGTAACTAACTGAGATGCCACAAACGCCCGTGTGCCAG-CCTGTGTGCTAGGCAG
** * * * * *
882086 TGTAACTCTCTGAGTTGTCACAAATGCCCGTGTGCCCGCCTGTGTGCTAGGCCG
1 TGTAACTAACTGAGATGCCACAAACGCCCGTGTGCCAGCCTGTGTGCTAGGCAG
882140 TGTAACT
1 TGTAACT
882147 CTCTGAGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (54 bp):
TGTAACTAACTGAGATGCCACAAACGCCCGTGTGCCAGCCTGTGTGCTAGGCAG
Found at i:884651 original size:5 final size:5
Alignment explanation
Indices: 884641--884665 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
884631 TTGGGTGTGT
884641 GCATA GCATA GCATA GCATA GCATA
1 GCATA GCATA GCATA GCATA GCATA
884666 CATGAGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
GCATA
Found at i:895780 original size:22 final size:19
Alignment explanation
Indices: 895743--895785 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
895733 ATACCTATCT
895743 AAAATACACCAAAACATGTC
1 AAAATACACCAAAACAT-TC
*
895763 AAAATATACCAAATAACATTC
1 AAAATACACC-AA-AACATTC
895784 AA
1 AA
895786 CCTAAGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAATACACCAAAACATTC
Found at i:896155 original size:158 final size:158
Alignment explanation
Indices: 895867--896178 Score: 570
Period size: 158 Copynumber: 2.0 Consensus size: 158
895857 CAAAACTAAA
* *
895867 TTTCCAAGCTTATACATTCACCAAATCAACAACAAATACCAAATGCCAAATTCATCAATTGTAGT
1 TTTCCAAGCTTATACATTCACCAAATCAACAACAAATACCAAATGCAAAATTCATCAATTGAAGT
*
895932 TCACCAATTAGCCTATCATATAAATACCATTTCAACAATCCAAGTATGCGTTAAGGATTTCAACA
66 TCACCAATTAGCCTATCATATAAATACCATTTCAACAATCCAAGTATGCATTAAGGATTTCAACA
895997 TGCCTATGACATCAAAGACCAAACGAAC
131 TGCCTATGACATCAAAGACCAAACGAAC
896025 TTTCCAAGCTTATACATTCACCAAATCAACAACAAATACCAAATGCAAAATTCATCAATTGAAGT
1 TTTCCAAGCTTATACATTCACCAAATCAACAACAAATACCAAATGCAAAATTCATCAATTGAAGT
*
896090 TCACCAATTAGCCTATCATATAAATACCATTTCAACAATCCAATTATGCATTAAGGATTTCAACA
66 TCACCAATTAGCCTATCATATAAATACCATTTCAACAATCCAAGTATGCATTAAGGATTTCAACA
* *
896155 TGCCTATGAGATCGAAGACCAAAC
131 TGCCTATGACATCAAAGACCAAAC
896179 CAACCAAAAT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 148 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (158 bp):
TTTCCAAGCTTATACATTCACCAAATCAACAACAAATACCAAATGCAAAATTCATCAATTGAAGT
TCACCAATTAGCCTATCATATAAATACCATTTCAACAATCCAAGTATGCATTAAGGATTTCAACA
TGCCTATGACATCAAAGACCAAACGAAC
Found at i:897155 original size:2 final size:2
Alignment explanation
Indices: 897143--897173 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
897133 TCTATTTAAC
*
897143 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
897174 GATCACATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:906314 original size:27 final size:26
Alignment explanation
Indices: 906264--906314 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
906254 TTGAGATAAT
* *
906264 TTGGTTTTGAGTCATTTAAATTCAAA
1 TTGGTTTTGACTCATTCAAATTCAAA
*
906290 TTGGTTTTGACTCAATTCAAGTTCA
1 TTGGTTTTGACTC-ATTCAAATTCA
906315 TGACGTCGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (26 bp):
TTGGTTTTGACTCATTCAAATTCAAA
Found at i:926605 original size:16 final size:16
Alignment explanation
Indices: 926584--926616 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
926574 GAAAAGCTTA
926584 GTCTTTTGCAGCAACT
1 GTCTTTTGCAGCAACT
926600 GTCTTTTGCAGCAACT
1 GTCTTTTGCAGCAACT
926616 G
1 G
926617 AACAAACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.36
Consensus pattern (16 bp):
GTCTTTTGCAGCAACT
Found at i:928934 original size:22 final size:20
Alignment explanation
Indices: 928884--928935 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
928874 GTAAAGTTTT
*
928884 ATTTTTATTTTTATTTATTTA
1 ATTTTTA-TTTTACTTATTTA
*
928905 TTTATTTATTTTACTTAGTTTAA
1 ATT-TTTATTTTACTTA-TTT-A
928928 ATTTTTAT
1 ATTTTTAT
928936 ATTCAGTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 10 0.40
22 12 0.48
23 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTTTATTTTACTTATTTA
Found at i:929873 original size:6 final size:6
Alignment explanation
Indices: 929862--929897 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
929852 CGATCTTCTT
929862 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
929898 GCGATCCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:940223 original size:15 final size:15
Alignment explanation
Indices: 940199--940228 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
940189 TCCAAAGAGA
940199 TTTAAATTAAAAATT
1 TTTAAATTAAAAATT
*
940214 TTTAATTTAAAAATT
1 TTTAAATTAAAAATT
940229 ATTTTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAATTAAAAATT
Found at i:953211 original size:26 final size:26
Alignment explanation
Indices: 953176--953235 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
953166 TTAGCTCTTA
*
953176 TGAGCATCCTG-TTACATGGCTCTTCG
1 TGAGCTTCCTGTTTA-ATGGCTCTTCG
* *
953202 TGAGCTTCCTGTTTATTGGCTCTTTG
1 TGAGCTTCCTGTTTAATGGCTCTTCG
953228 TGAGCTTC
1 TGAGCTTC
953236 ACATTTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (26 bp):
TGAGCTTCCTGTTTAATGGCTCTTCG
Found at i:954870 original size:17 final size:17
Alignment explanation
Indices: 954825--954897 Score: 76
Period size: 17 Copynumber: 4.3 Consensus size: 17
954815 CATTTGTGCA
954825 AACCCTCCATATGTGTG
1 AACCCTCCATATGTGTG
* * *
954842 AACTCGT-TATATATGTG
1 AAC-CCTCCATATGTGTG
* *
954859 AACCCTCCATATGCGCG
1 AACCCTCCATATGTGTG
*
954876 AACCTTCCATATGTGTG
1 AACCCTCCATATGTGTG
954893 AACCC
1 AACCC
954898 CTACTATATA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
16 2 0.05
17 38 0.90
18 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (17 bp):
AACCCTCCATATGTGTG
Found at i:954965 original size:17 final size:18
Alignment explanation
Indices: 954943--954977 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
954933 ATGTTCTATA
*
954943 CATGTTA-TGTGCGAACC
1 CATGTTATTATGCGAACC
954960 CATGTTATTATGCGAACC
1 CATGTTATTATGCGAACC
954978 ATGGTACGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (18 bp):
CATGTTATTATGCGAACC
Found at i:955761 original size:18 final size:17
Alignment explanation
Indices: 955706--955776 Score: 54
Period size: 18 Copynumber: 4.1 Consensus size: 17
955696 TGATGTGGTA
* * *
955706 TGAACTATTGTTTAATG
1 TGAACTGTTATTTTATG
*
955723 TGAACTGATATTTTACT-
1 TGAACTGTTATTTTA-TG
955740 TGAACTGCTTATTTTATG
1 TGAACTG-TTATTTTATG
* *
955758 TGAATTGTTTATTCTATG
1 TGAACTG-TTATTTTATG
955776 T
1 T
955777 AAATCGCTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
17 19 0.44
18 24 0.56
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.51
Consensus pattern (17 bp):
TGAACTGTTATTTTATG
Found at i:964519 original size:27 final size:27
Alignment explanation
Indices: 964489--964546 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
964479 ATGAGCTAGT
*
964489 GTTCATTATCAAGTTTGGCAAGCTGGG
1 GTTCATTAGCAAGTTTGGCAAGCTGGG
* *
964516 GTTCATTAGCAGGTTTGGCAAGCTGTG
1 GTTCATTAGCAAGTTTGGCAAGCTGGG
964543 GTTC
1 GTTC
964547 GCTGGTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (27 bp):
GTTCATTAGCAAGTTTGGCAAGCTGGG
Found at i:965125 original size:13 final size:13
Alignment explanation
Indices: 965107--965131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
965097 TGAACAATAA
965107 TATGCGAGCTCTC
1 TATGCGAGCTCTC
965120 TATGCGAGCTCT
1 TATGCGAGCTCT
965132 ATGTGAACAG
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:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (13 bp):
TATGCGAGCTCTC
Found at i:969430 original size:25 final size:25
Alignment explanation
Indices: 969402--969466 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
969392 CTATTTTTAT
*
969402 AGCTTGTGTGAGCATTCTGATTCAC
1 AGCTTGTGTGAGCATTCTGATTCAA
969427 AGCTTGTGTGAGCATTCTGATTCAA
1 AGCTTGTGTGAGCATTCTGATTCAA
*
969452 AGCTCGTGTGAGCAT
1 AGCTTGTGTGAGCAT
969467 ACATGTATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (25 bp):
AGCTTGTGTGAGCATTCTGATTCAA
Found at i:975540 original size:3 final size:3
Alignment explanation
Indices: 975532--975576 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
975522 ATAATTTCCT
975532 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
975577 GGGTGAACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:977091 original size:9 final size:9
Alignment explanation
Indices: 977077--977107 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
977067 GTTAAACGAA
977077 TCGAGTTAT
1 TCGAGTTAT
*
977086 TCGAGTTAA
1 TCGAGTTAT
977095 TCGAGTTAT
1 TCGAGTTAT
977104 TCGA
1 TCGA
977108 ATCAAATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:979443 original size:30 final size:31
Alignment explanation
Indices: 979409--979466 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
979399 AAACCTTTTA
*
979409 TTTTCCCCCAAAATTTTTACT-CCTTCCTAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCTAC
* *
979439 TTTTCCCCTAAAACTTTTATTCCCTTCC
1 TTTTCCCCCAAAACTTTTACTCCCTTCC
979467 CGACTCACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.45
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCTAC
Found at i:980649 original size:21 final size:21
Alignment explanation
Indices: 980608--980650 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
980598 ACCCCAAACT
* *
980608 CTCAAATCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
980629 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
980650 C
1 C
980651 ACTTTTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:980841 original size:30 final size:30
Alignment explanation
Indices: 980794--980852 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
980784 AATTTTTTAT
*
980794 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
*
980823 TTTCCTCCTAAAACTTTTACTCCCTTCCCA
1 TTTCC-CCCAAAACTTTTACTCCCTTCCCA
980853 TCTCACNNNN
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 16 0.62
31 5 0.19
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.37
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:985765 original size:50 final size:53
Alignment explanation
Indices: 985654--985777 Score: 137
Period size: 56 Copynumber: 2.3 Consensus size: 53
985644 ATTTGGGTAA
* * *
985654 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCA-T-AGG-TATG
* *
985710 AGAGGTCCCATGTAAGACCATATTTGGGACATGGCGTTGGCACCA-A-G-ATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCATAGGTATG
**
985760 AGAGGTCCCCCGTAAGAC
1 AGAGGTCCCATGTAAGAC
985778 ATTTCAGCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
50 19 0.31
52 1 0.02
53 1 0.02
56 40 0.66
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCATAGGTATG
Found at i:986921 original size:15 final size:16
Alignment explanation
Indices: 986889--986922 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
986879 ATTTTGTGTG
986889 TTTATTATGTGAGAAT
1 TTTATTATGTGAGAAT
*
986905 TTTATTGTGTG-GAAT
1 TTTATTATGTGAGAAT
986920 TTT
1 TTT
986923 CGTGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTATTATGTGAGAAT
Found at i:988115 original size:43 final size:42
Alignment explanation
Indices: 988064--988190 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
988054 AGGATTTCCG
*
988064 ATATGTGTTATCGTGTAATACAACGTCTGGGACGTTGGCATCA
1 ATATGTGTTATCGTGTAAAAC-ACGTCTGGGACGTTGGCATCA
* *
988107 ACT-TGTGTT-TACGTGTAAAACCCTGTCTGGGACAG-TGGCATCG
1 A-TATGTGTTAT-CGTGTAAAACAC-GTCTGGGAC-GTTGGCATCA
* *
988150 ATATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTG-TTATCGTGTAA-AACACGTCTGGGACGTTGGCAT
988191 TGTACGAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
42 4 0.06
43 58 0.84
44 7 0.10
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
ATATGTGTTATCGTGTAAAACACGTCTGGGACGTTGGCATCA
Found at i:988857 original size:14 final size:15
Alignment explanation
Indices: 988833--988867 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
988823 TACTTTAATC
988833 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
988848 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
988863 ATGGT
1 ATGGT
988868 AATGTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:988966 original size:29 final size:29
Alignment explanation
Indices: 988933--988988 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
988923 TGTCAAATTT
*
988933 TGATGTATAATTGCAGTCCAATTATATTG
1 TGATGTATAAATGCAGTCCAATTATATTG
988962 TGATGTATAAATGCAGTCCAATTATAT
1 TGATGTATAAATGCAGTCCAATTATAT
988989 ATGTATATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (29 bp):
TGATGTATAAATGCAGTCCAATTATATTG
Found at i:989052 original size:21 final size:23
Alignment explanation
Indices: 988992--989344 Score: 135
Period size: 24 Copynumber: 14.8 Consensus size: 23
988982 ATTATATATG
988992 TATATGCTGTCAAATTTTGATGTA
1 TATATGCTGTCAAATTTTGA-GTA
* *
989016 TAAATGCAGTTC-AATTTT-A-TA
1 TATATGCTG-TCAAATTTTGAGTA
989037 TATATGCTGTCAAATTTTGATGTA
1 TATATGCTGTCAAATTTTGA-GTA
*
989061 TA-ATTGCAGTCCAATTATATTGTGATGTA
1 TATA-TGCTGT-CAA--AT-TT-TGA-GTA
* * * *
989090 TAAATGCAGTCCAATTATAT-A-TG
1 TATATGCTGTCAAATT-T-TGAGTA
989113 TATATGCTGTCAAATTTTGATGTA
1 TATATGCTGTCAAATTTTGA-GTA
* * * * *
989137 TAAATGCAGTCCACTTATAT-A-TG
1 TATATGCTGTCAAATT-T-TGAGTA
989160 TATATGCTGTCAAATTTTGATGTA
1 TATATGCTGTCAAATTTTGA-GTA
* *
989184 TAAATGCAGTTC-AATTTT-A-TA
1 TATATGCTG-TCAAATTTTGAGTA
989205 TATATGCTGTCAAATTTTGATGTA
1 TATATGCTGTCAAATTTTGA-GTA
*
989229 TA-ATTGCAGTCCAATTATATTGTGATGTA
1 TATA-TGCTGT-CAA--AT-TT-TGA-GTA
* * * *
989258 TAAATGCAGTCCAATTATAT-A-TG
1 TATATGCTGTCAAATT-T-TGAGTA
989281 TATATGCTGTCAAATTTTGACGTA
1 TATATGCTGTCAAATTTTGA-GTA
* * *
989305 TAAATGCAGTCCAATTTT--GTA
1 TATATGCTGTCAAATTTTGAGTA
*
989326 TATATGCTGTCCAATTTTG
1 TATATGCTGTCAAATTTTG
989345 GTGAAAAAAA
Statistics
Matches: 252, Mismatches: 39, Indels: 78
0.68 0.11 0.21
Matches are distributed among these distances:
20 4 0.02
21 52 0.21
22 8 0.03
23 45 0.18
24 74 0.29
25 16 0.06
26 9 0.04
27 4 0.02
28 8 0.03
29 30 0.12
30 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (23 bp):
TATATGCTGTCAAATTTTGAGTA
Found at i:989056 original size:45 final size:47
Alignment explanation
Indices: 988962--989344 Score: 211
Period size: 47 Copynumber: 8.0 Consensus size: 47
988952 AATTATATTG
*
988962 TGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTT
1 TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTT
*
989009 TGATGTATAAATGCAGTTCAATT-T-TATATATATGCTGTCAAATTT
1 TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTT
* * * *
989054 TGATGTATAATTGCAGTCCAATTATATTGTGATGTATAAATGCAGTCCAATTAT
1 TGATGTATAAATGCAGTCCAATTATA---T-A--TATATATGCTGTCAAATT-T
* * * * * * * *
989108 AT-ATGTAT--ATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTAT
1 -TGATGTATAAATGCAGTCCAATTAT-ATATATATATGCTGTCAAATT-T
* * * * * *
989155 AT-ATGTAT--ATGCTGTCAAATTTTGATGTATAAATGCAGTTC-AATTT
1 -TGATGTATAAATGCAGTCCAATTAT-ATATATATATGCTG-TCAAATTT
* * * * * *
989201 T-A--TATATATGCTGTCAAATTTTGATGTATA-ATTGCAGTCCAATTATATT
1 TGATGTATAAATGCAGTCCAATTAT-ATATATATA-TGCTGT-CAA--AT-TT
*
989250 GTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTT
1 -TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTT
* * *
989298 TGACGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTCCAATTT
1 TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTT
989343 TG
1 TG
989345 GTGAAAAAAA
Statistics
Matches: 286, Mismatches: 25, Indels: 52
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.01
44 2 0.01
45 92 0.32
46 5 0.02
47 104 0.36
48 6 0.02
49 4 0.01
50 3 0.01
51 5 0.02
52 21 0.07
53 33 0.12
54 7 0.02
55 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (47 bp):
TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTT
Found at i:989094 original size:74 final size:76
Alignment explanation
Indices: 989009--989156 Score: 246
Period size: 76 Copynumber: 2.0 Consensus size: 76
988999 TGTCAAATTT
* *
989009 TGATGTATAAATGCAGTTCAATT-T-TATATATATGCTGTCAAATTTTGATGTATAATTGCAGTC
1 TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
989072 CAATTATATTG
66 CAATTATATTG
*
989083 TGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTC
1 TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
*
989148 CACTTATAT
66 CAATTATAT
989157 ATGTATATGC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 22 0.32
75 1 0.01
76 45 0.66
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (76 bp):
TGATGTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTC
CAATTATATTG
Found at i:989097 original size:29 final size:29
Alignment explanation
Indices: 989054--989109 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
989044 TGTCAAATTT
*
989054 TGATGTATAATTGCAGTCCAATTATATTG
1 TGATGTATAAATGCAGTCCAATTATATTG
989083 TGATGTATAAATGCAGTCCAATTATAT
1 TGATGTATAAATGCAGTCCAATTATAT
989110 ATGTATATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (29 bp):
TGATGTATAAATGCAGTCCAATTATATTG
Found at i:989106 original size:121 final size:123
Alignment explanation
Indices: 988892--989320 Score: 571
Period size: 121 Copynumber: 3.5 Consensus size: 123
988882 TATATATATA
* *
988892 GTATAAATGCAGTTCAATT-T-TATATATATGCTGTCAAATTTTGATGTATAATTGCAGTCCAAT
1 GTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAT
988955 TATATTGTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
66 TATATTGTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
* *
989013 GTATAAATGCAGTTCAATT-T-TATATATATGCTGTCAAATTTTGATGTATAATTGCAGTCCAAT
1 GTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAT
989076 TATATTGTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
66 TATATTGTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
* * *
989134 GTATAAATGCAGTCCACTTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTTC-A-
1 GTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAT
* * * *
989197 -AT-TT-T-A--TATATATGCTGTCAAATT-T-TGATGTATAATTGCAGTCCAATTATATTGTGA
66 TATATTGTGATGTATAAATGCAGTCCAATTATAT-ATGTAT-A-TGCTGT-CAA--AT-TT-TGA
989254 T
123 T
* *
989255 GTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGACGTATAAATGCAGTCCAAT
1 GTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAT
989320 T
66 T
989321 TTGTATATAT
Statistics
Matches: 283, Mismatches: 12, Indels: 23
0.89 0.04 0.07
Matches are distributed among these distances:
113 1 0.00
114 7 0.02
115 16 0.06
116 5 0.02
117 4 0.01
118 1 0.00
119 4 0.01
120 4 0.01
121 201 0.71
122 3 0.01
123 37 0.13
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (123 bp):
GTATAAATGCAGTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAT
TATATTGTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
Found at i:989240 original size:168 final size:168
Alignment explanation
Indices: 988962--989344 Score: 707
Period size: 168 Copynumber: 2.3 Consensus size: 168
988952 AATTATATTG
988962 TGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTT
1 TGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTT
989027 CAATTTTATATATATGCTGTCAAATTTTGATGTATAATTGCAGTCCAATTATATTGTGATGTATA
66 CAATTTTATATATATGCTGTCAAATTTTGATGTATAATTGCAGTCCAATTATATTGTGATGTATA
989092 AATGCAGTCCAATTATATATGTATATGCTGTCAAATTT
131 AATGCAGTCCAATTATATATGTATATGCTGTCAAATTT
*
989130 TGATGTATAAATGCAGTCCACTTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTT
1 TGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTT
989195 CAATTTTATATATATGCTGTCAAATTTTGATGTATAATTGCAGTCCAATTATATTGTGATGTATA
66 CAATTTTATATATATGCTGTCAAATTTTGATGTATAATTGCAGTCCAATTATATTGTGATGTATA
989260 AATGCAGTCCAATTATATATGTATATGCTGTCAAATTT
131 AATGCAGTCCAATTATATATGTATATGCTGTCAAATTT
* * * *
989298 TGACGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTCCAATTTTG
1 TGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTG
989345 GTGAAAAAAA
Statistics
Matches: 209, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
166 20 0.10
167 1 0.00
168 188 0.90
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (168 bp):
TGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTT
CAATTTTATATATATGCTGTCAAATTTTGATGTATAATTGCAGTCCAATTATATTGTGATGTATA
AATGCAGTCCAATTATATATGTATATGCTGTCAAATTT
Found at i:989255 original size:29 final size:29
Alignment explanation
Indices: 989222--989277 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
989212 TGTCAAATTT
*
989222 TGATGTATAATTGCAGTCCAATTATATTG
1 TGATGTATAAATGCAGTCCAATTATATTG
989251 TGATGTATAAATGCAGTCCAATTATAT
1 TGATGTATAAATGCAGTCCAATTATAT
989278 ATGTATATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (29 bp):
TGATGTATAAATGCAGTCCAATTATATTG
Found at i:991516 original size:17 final size:17
Alignment explanation
Indices: 991494--991528 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
991484 AATTTTTTTT
991494 TCTAGGAATAACAATAC
1 TCTAGGAATAACAATAC
991511 TCTAGGAATAACAATAC
1 TCTAGGAATAACAATAC
991528 T
1 T
991529 ATCGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (17 bp):
TCTAGGAATAACAATAC
Found at i:994508 original size:6 final size:6
Alignment explanation
Indices: 994497--994522 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
994487 CATCAAAACT
994497 TTTATC TTTATC TTTATC TTTATC TT
1 TTTATC TTTATC TTTATC TTTATC TT
994523 CAACTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATC
Found at i:995334 original size:30 final size:30
Alignment explanation
Indices: 995298--995356 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
995288 GCTCGCAATG
995298 TTTCTTCTTCTACGTGCTCCCAAAGCCTTA
1 TTTCTTCTTCTACGTGCTCCCAAAGCCTTA
* * *
995328 TTTCTTCTTCTTCGTGCTTCCAATGCCTT
1 TTTCTTCTTCTACGTGCTCCCAAAGCCTT
995357 GATGCTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.32, G:0.10, T:0.46
Consensus pattern (30 bp):
TTTCTTCTTCTACGTGCTCCCAAAGCCTTA
Found at i:998832 original size:150 final size:151
Alignment explanation
Indices: 998652--998958 Score: 607
Period size: 150 Copynumber: 2.0 Consensus size: 151
998642 TTAATAGGCT
998652 CGACATGATTTAAACTGAGTTTAGATAATAATAAAAAAATTACACATTCTGAATTTCATTTAAAT
1 CGACATGATTTAAACTGAGTTTAGATAATAATAAAAAAATTACACATTCTGAATTTCATTTAAAT
998717 AATAAAAAAATATATAACATATCTAAAAATATATTTTAAATATTTTATGAATTTTTAAATAATGA
66 AATAAAAAAATATATAACATATCTAAAAATATATTTTAAATATTTTATGAATTTTTAAATAATGA
998782 AACCAA-TTTTTTGAATAAAC
131 AACCAATTTTTTTGAATAAAC
998802 CGACATGATTTAAACTGAGTTTAGATAATAATAAAAAAATTACACATTCTGAATTTCATTTAAAT
1 CGACATGATTTAAACTGAGTTTAGATAATAATAAAAAAATTACACATTCTGAATTTCATTTAAAT
998867 AATAAAAAAATATATAACATATCTAAAAATATATTTTAAATATTTTATGAATTTTTAAATAATGA
66 AATAAAAAAATATATAACATATCTAAAAATATATTTTAAATATTTTATGAATTTTTAAATAATGA
998932 AACCAATTTTTTTGAATAAAC
131 AACCAATTTTTTTGAATAAAC
998953 CGACAT
1 CGACAT
998959 AAAAATGAAC
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
150 136 0.87
151 20 0.13
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (151 bp):
CGACATGATTTAAACTGAGTTTAGATAATAATAAAAAAATTACACATTCTGAATTTCATTTAAAT
AATAAAAAAATATATAACATATCTAAAAATATATTTTAAATATTTTATGAATTTTTAAATAATGA
AACCAATTTTTTTGAATAAAC
Found at i:1008499 original size:137 final size:139
Alignment explanation
Indices: 1008355--1009111 Score: 815
Period size: 137 Copynumber: 5.1 Consensus size: 139
1008345 TATTTTGGCT
1008355 CTTTGTTCGTATTTTTT-C-TTTAAAAAAATTACTATTTTCTAATTTTATTATTTTACATTATTT
1 CTTTGTTCGTATTTTTTCCGTTTAAAAAAATTACTATTTTCTAATTTTATTATTTTACATTATTT
*
1008418 TAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTTAATAAATTTTTAAAAAAACCTT
66 TAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTTAAAAAAACCTT
1008483 ATTTCCGCC
131 ATTTCCGCC
1008492 CTTTGTTCGTATTTTTT-C-TTTAAAAAAATTACTATTTTCTAATTTTATTATTTTACATTATTT
1 CTTTGTTCGTATTTTTTCCGTTTAAAAAAATTACTATTTTCTAATTTTATTATTTTACATTATTT
*
1008555 TAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTTAATAAATTTTTAAAAAAACCTT
66 TAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTTAAAAAAACCTT
1008620 ATTTCCGCC
131 ATTTCCGCC
* **
1008629 CTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTAT
1 CTTTGTTCGTATTTTTT-CC-G----------TTT-AA-AAAAAT-TACTATTTTCTAATTTTAT
* *
1008694 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA-
51 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
* *
1008758 TTTAAATAAAAACTCTTATTT-TGACC
116 TTTTAA-AAAAAC-CTTATTTCCG-CC
* *
1008784 CTTTGTTCCTATTTTTTTCCCTGGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTCT
1 CTTTGTTCGTA-TTTTTT-CC--G----T-TTA-----AAAAAAT-TACTATTTTCTAATTTTAT
* * * *
1008849 AATTTTACATTTTTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAAT
51 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
*
1008914 TTTTAAAAAAAGCCTTATTTCGGCC
116 TTTTAAAAAAA-CCTTATTTCCGCC
*
1008939 CTTTGTTCGTATTTTTTCTCCGGATTTTATTACTTTAAAAATAGACTATTTTCTAATTTTATTAT
1 CTTTGTTCGTA-TTTTT-TCC-G--TTTA--A----AAAAAT-TACTATTTTCTAATTTTATTAT
* * *
1009004 TTTACATTACTTTAATACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAATTTTT
54 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA--ATT
* *
1009069 TTTAAAAAAAACTCCTTATTTCGGTC
117 TTT-AAAAAAA--CCTTATTTCCGCC
1009095 CTTTGTTCGTATTTTTT
1 CTTTGTTCGTATTTTTT
1009112 TTCCGAATTT
Statistics
Matches: 547, Mismatches: 33, Indels: 63
0.85 0.05 0.10
Matches are distributed among these distances:
137 154 0.28
139 1 0.00
148 3 0.01
151 9 0.02
152 87 0.16
153 11 0.02
154 92 0.17
155 147 0.27
156 41 0.07
157 2 0.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (139 bp):
CTTTGTTCGTATTTTTTCCGTTTAAAAAAATTACTATTTTCTAATTTTATTATTTTACATTATTT
TAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTTAAAAAAACCTT
ATTTCCGCC
Found at i:1008692 original size:154 final size:155
Alignment explanation
Indices: 1008502--1009139 Score: 879
Period size: 155 Copynumber: 4.1 Consensus size: 155
1008492 CTTTGTTCGT
1008502 ATTTT-TT-CTTTAA-AAAAAT-TACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACAT
1 ATTTTATTACTTTAATAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACAT
* * * *
1008563 TATGTTTGAAATGTATTCATTTAGTGTGTTTTTTTAATAAATTTTTAAAAAAA-CCTTATTTCCG
66 TATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAAACCCTTATTTCGG
1008627 CCCTTTGTTCGTA-TTTTTTCCCGG
131 CCCTTTGTTCGTATTTTTTTCCCGG
*
1008651 ATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTAC
1 ATTTTATTACTTT-AATAAAAATATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTAC
* *
1008715 ATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA-TTTAAATAAAAACTCTTATTT
64 ATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTTAA-AAAAACCCTTATTT
* * *
1008779 TGACCCTTTGTTCCTATTTTTTTCCCTGG
128 CGGCCCTTTGTTCGTATTTTTTTCCC-GG
* * * *
1008808 ATTTTATTACTTTTA-AAAAATATACTATTTTCTAATTTTCTAATTTTACATTTTTTTAGTACAT
1 ATTTTATTACTTTAATAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACAT
*
1008872 TATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAAAGCCTTATTTCGG
66 TATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAAACCCTTATTTCGG
1008937 CCCTTTGTTCGTA-TTTTTTCTCCGG
131 CCCTTTGTTCGTATTTTTTTC-CCGG
* * *
1008962 ATTTTATTAC-TT--TAAAAATAGACTATTTTCTAATTTTATTATTTTACATTACTTTAATACAT
1 ATTTTATTACTTTAATAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACAT
* * *
1009024 TATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAATTTTTTTTAAAAAAAACTCCTTATT
66 TATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAA--ATTTTT-AAAAAAAC-CCTTATT
* * *
1009089 TCGGTCCTTTGTTCGTATTTTTTTTCCGA
127 TCGGCCCTTTGTTCGTATTTTTTTCCCGG
1009118 ATTTTATTACTTTCAATAAAAA
1 ATTTTATTACTTT-AATAAAAA
1009140 ACACACTAAA
Statistics
Matches: 432, Mismatches: 34, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
149 5 0.01
150 2 0.00
151 4 0.01
152 83 0.19
153 13 0.03
154 107 0.25
155 138 0.32
156 51 0.12
157 23 0.05
160 6 0.01
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (155 bp):
ATTTTATTACTTTAATAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACAT
TATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAAACCCTTATTTCGG
CCCTTTGTTCGTATTTTTTTCCCGG
Found at i:1011297 original size:3 final size:3
Alignment explanation
Indices: 1011289--1011327 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1011279 CCTCAATGTT
1011289 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1011328 AACCACCACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1011458 original size:11 final size:11
Alignment explanation
Indices: 1011442--1011479 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1011432 AATTTCCTCT
1011442 TTTCTTCTTCA
1 TTTCTTCTTCA
*
1011453 TTTCTTCCTCA
1 TTTCTTCTTCA
*
1011464 TTT-TTATTCA
1 TTTCTTCTTCA
1011474 TTTCTT
1 TTTCTT
1011480 GCTGACTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTCTTCTTCA
Found at i:1011475 original size:21 final size:22
Alignment explanation
Indices: 1011435--1011479 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1011425 TCATTGAAAT
* *
1011435 TTCCTCTTTTCTTCTTCATTTC
1 TTCCTCATTTCTTATTCATTTC
1011457 TTCCTCATTT-TTATTCATTTC
1 TTCCTCATTTCTTATTCATTTC
1011478 TT
1 TT
1011480 GCTGACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (22 bp):
TTCCTCATTTCTTATTCATTTC
Found at i:1012855 original size:13 final size:14
Alignment explanation
Indices: 1012831--1012859 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1012821 AATTAAAATA
1012831 AAAAATAGTTTTTT
1 AAAAATAGTTTTTT
1012845 AAAAATA-TTTTTT
1 AAAAATAGTTTTTT
1012858 AA
1 AA
1012860 TCAATTACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
AAAAATAGTTTTTT
Found at i:1017208 original size:3 final size:3
Alignment explanation
Indices: 1017200--1017250 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
1017190 TGTAGTATCT
1017200 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1017248 TTA
1 TTA
1017251 CCTATTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1017478 original size:17 final size:18
Alignment explanation
Indices: 1017439--1017480 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1017429 GTGCTTTAAT
* *
1017439 TTTTATTTGTTTATTTAC
1 TTTTATTTGATGATTTAC
1017457 TTTTATTTGATGATTT-C
1 TTTTATTTGATGATTTAC
1017474 TTTTATT
1 TTTTATT
1017481 ATGTATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (18 bp):
TTTTATTTGATGATTTAC
Found at i:1017623 original size:69 final size:70
Alignment explanation
Indices: 1017550--1017688 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
1017540 CATCATTATT
1017550 GTTATTTTACATTCTTATTACTCGAATTTATC-AAAAAAAAACGACAAAAAATTTCAAAATAAAA
1 GTTATTTTACATTCTTATTACTCGAATTTATCAAAAAAAAAACGACAAAAAATTTCAAAATAAAA
1017614 GTAAC
66 GTAAC
*
1017619 GTTATTTTACATTCTTATTACTCGAATTTATCAAAAAAAAAACGACGAAAAATTTCAAAATAAAA
1 GTTATTTTACATTCTTATTACTCGAATTTATCAAAAAAAAAACGACAAAAAATTTCAAAATAAAA
1017684 GTAAC
66 GTAAC
1017689 AATCGGTATT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 32 0.47
70 36 0.53
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (70 bp):
GTTATTTTACATTCTTATTACTCGAATTTATCAAAAAAAAAACGACAAAAAATTTCAAAATAAAA
GTAAC
Found at i:1020926 original size:21 final size:21
Alignment explanation
Indices: 1020902--1020971 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
1020892 GTTTGAGTTT
1020902 GAGGTTTAAGAGTCAAGATTC
1 GAGGTTTAAGAGTCAAGATTC
1020923 GAGGTTTAAG-GTTCAAGATTC
1 GAGGTTTAAGAG-TCAAGATTC
* * * *
1020944 AAAGTTTAA-AGTCAGGGTTC
1 GAGGTTTAAGAGTCAAGATTC
*
1020964 GACGTTTA
1 GAGGTTTA
1020972 GGGTTCAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (21 bp):
GAGGTTTAAGAGTCAAGATTC
Found at i:1034196 original size:46 final size:46
Alignment explanation
Indices: 1034129--1034472 Score: 208
Period size: 46 Copynumber: 7.8 Consensus size: 46
1034119 TAGGTTCATT
*
1034129 ATACAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
1 ATACAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
*
1034175 ATACAAGTCTTATCTCTCTGAGATTACAGTGGAGCAGACCGAAGAA
1 ATACAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
* * * * * *
1034221 TTGC-AGATCTAATCTCCCTGAGATTACAGCGGAGCAGATC-AA-AG
1 ATACAAG-TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
* * * **
1034265 ATAGTAA-TCCTATCTCCTTGAGATTACAGTGGAGC-G---G-ATTA
1 ATA-CAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
** * * ** * *
1034306 A-AGGA-TCTTATCTCTCTGA-AGTTACAGTAGAGTGGATC---G-C
1 ATACAAGTCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAA
*
1034346 AT-CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
1 ATACAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
* * * * * * *
1034391 TTGC-AGATCTGATCTCCCTGAGCTTACAGCGGAGCAGATC-AA-AG
1 ATACAAG-TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
* * *
1034435 ATAGTAA-TCCTATCTCCTTGAGATTACAGTGGAGCAGA
1 ATA-CAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGA
1034473 TTAAAGGATT
Statistics
Matches: 226, Mismatches: 51, Indels: 44
0.70 0.16 0.14
Matches are distributed among these distances:
38 1 0.00
39 22 0.10
40 4 0.02
41 27 0.12
42 1 0.00
43 1 0.00
44 55 0.24
45 8 0.04
46 107 0.47
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (46 bp):
ATACAAGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
Found at i:1034371 original size:80 final size:79
Alignment explanation
Indices: 1034275--1034549 Score: 266
Period size: 80 Copynumber: 3.3 Consensus size: 79
1034265 ATAGTAATCC
*
1034275 TATCTCCTTGAGATTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTG
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTG
1034340 GATCGCATCAGGTCT
66 GATCG-ATCAGGTCT
** * * *
1034355 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTGATCTCCCTG-AGCTTACA
1 TATCTCCCTGAGATTACAGTGGAGC-G---GATTAA-AG--GATCTTATCTCTCTGAAG-TTACA
** ** * *
1034419 GCGGAGCAGATCAAAGAT-AGTAATCC
58 GTAGAGTGGATC---GATCAG--GTCT
* * *
1034445 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTG
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTG
1034510 GATCGTATCAGGTCT
66 GATCG-ATCAGGTCT
1034525 TATCTCCCTGAGATTACAGTGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
1034550 AAACCGAAGA
Statistics
Matches: 152, Mismatches: 27, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
80 51 0.34
81 3 0.02
82 2 0.01
83 25 0.16
84 6 0.04
85 2 0.01
86 6 0.04
87 26 0.17
88 2 0.01
89 2 0.01
90 27 0.18
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (79 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTG
GATCGATCAGGTCT
Found at i:1034423 original size:170 final size:170
Alignment explanation
Indices: 1034181--1034728 Score: 839
Period size: 170 Copynumber: 3.2 Consensus size: 170
1034171 AGAAATACAA
*
1034181 GTCTTATCTCTCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTAATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTAATCTCCCTGAGATT
1034246 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAGGA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAGGA
*
1034311 TCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGCATCAG
131 TCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAG
* *
1034351 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTGATCTCCCTGAGCTT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTAATCTCCCTGAGATT
*
1034416 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAGGA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAGGA
*
1034481 TTTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAG
131 TCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAG
* * * *
1034521 GTCTTATCTCCCTGAGATTACAGTGGAGCAAACCGAAGAATTGCAGATCTTATTTACCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTAATCTCCCTGAGATT
* ** * * *
1034586 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGA-T----TA
* *
1034651 AAGGATCTTATCTCTCTGAAGTTACAGTAGAG-GAGATCGTGTCGG
126 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTG-GATCGTATCAG
* *
1034696 GTCTTATCTCCCTGATG-TTGCAGTGGAACAGAC
1 GTCTTATCTCCCTGA-GATTACAGTGGAGCAGAC
1034729 TGAAAACGTA
Statistics
Matches: 347, Mismatches: 24, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
170 274 0.79
171 1 0.00
174 1 0.00
175 70 0.20
176 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (170 bp):
GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTAATCTCCCTGAGATT
ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAGGA
TCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAG
Found at i:1034461 original size:90 final size:87
Alignment explanation
Indices: 1034355--1034638 Score: 273
Period size: 90 Copynumber: 3.3 Consensus size: 87
1034345 CATCAGGTCT
*
1034355 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTGATCTCCCTGAGCTTACAG
1 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAG-TTACAG
*
1034420 CGGAGCAGATCAAAGATAGTAATCC
65 CGGAGTAGATC-AAG-TAGTAATCC
* ** * *
1034445 TATCTCCTTGAGATTACAGTGGAGCAGA--TTA-AA--G--GATTTTATCTCTCTGAAGTTACAG
1 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTG-AGTTACAG
** * * *
1034503 TAGAGTGGATC--GTA-TCAGGTCT
65 CGGAGTAGATCAAGTAGT-A-ATCC
* * *
1034525 TATCTCCCTGAGATTACAGTGGAGCAAACCGAAGAATTGCAGATCTTATTTACCTGAGATTACAG
1 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAG-TTACAG
*
1034590 CGGAGTAGATTGAAGCTAGTAATCC
65 CGGAGTAGA-TCAAG-TAGTAATCC
1034615 TATCTCCCTGAGATTACAGTGGAG
1 TATCTCCCTGAGATTACAGTGGAG
1034639 TGGATTAAAA
Statistics
Matches: 152, Mismatches: 26, Indels: 32
0.72 0.12 0.15
Matches are distributed among these distances:
78 1 0.01
79 3 0.02
80 29 0.19
82 1 0.01
83 27 0.18
84 2 0.01
85 2 0.01
86 2 0.01
87 25 0.16
88 2 0.01
90 54 0.36
91 3 0.02
92 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGTTACAGC
GGAGTAGATCAAGTAGTAATCC
Found at i:1036269 original size:181 final size:181
Alignment explanation
Indices: 1035965--1036326 Score: 724
Period size: 181 Copynumber: 2.0 Consensus size: 181
1035955 GCAGCGCATT
1035965 ACAATTTGATCTTTTTTCGTTATTTTCTTTTTTTAATTTGGCCCTGCAATTTTACTTTTGTTTCG
1 ACAATTTGATCTTTTTTCGTTATTTTCTTTTTTTAATTTGGCCCTGCAATTTTACTTTTGTTTCG
1036030 ATTTAGCCCACTGCAGCGCTGCGTTTTGGGGGCTCTGGTTTATTCGCAGTCTTGGTCCCCCTCTT
66 ATTTAGCCCACTGCAGCGCTGCGTTTTGGGGGCTCTGGTTTATTCGCAGTCTTGGTCCCCCTCTT
1036095 TTTGGCGCGTATTGCAATCTAGTCCTTTCTATTTTTATTTATTTCGAATTC
131 TTTGGCGCGTATTGCAATCTAGTCCTTTCTATTTTTATTTATTTCGAATTC
1036146 ACAATTTGATCTTTTTTCGTTATTTTCTTTTTTTAATTTGGCCCTGCAATTTTACTTTTGTTTCG
1 ACAATTTGATCTTTTTTCGTTATTTTCTTTTTTTAATTTGGCCCTGCAATTTTACTTTTGTTTCG
1036211 ATTTAGCCCACTGCAGCGCTGCGTTTTGGGGGCTCTGGTTTATTCGCAGTCTTGGTCCCCCTCTT
66 ATTTAGCCCACTGCAGCGCTGCGTTTTGGGGGCTCTGGTTTATTCGCAGTCTTGGTCCCCCTCTT
1036276 TTTGGCGCGTATTGCAATCTAGTCCTTTCTATTTTTATTTATTTCGAATTC
131 TTTGGCGCGTATTGCAATCTAGTCCTTTCTATTTTTATTTATTTCGAATTC
1036327 GCCCAGTATT
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 181 1.00
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (181 bp):
ACAATTTGATCTTTTTTCGTTATTTTCTTTTTTTAATTTGGCCCTGCAATTTTACTTTTGTTTCG
ATTTAGCCCACTGCAGCGCTGCGTTTTGGGGGCTCTGGTTTATTCGCAGTCTTGGTCCCCCTCTT
TTTGGCGCGTATTGCAATCTAGTCCTTTCTATTTTTATTTATTTCGAATTC
Found at i:1043729 original size:98 final size:99
Alignment explanation
Indices: 1043560--1043751 Score: 368
Period size: 98 Copynumber: 1.9 Consensus size: 99
1043550 NNNNNNNNNA
1043560 AAAATATCATAATATTAACTAATTTGAACATTATTTGAATACATATTTTTACTTCACAATATCAT
1 AAAATATCATAATATTAACTAATTTGAACATTATTTGAATACATATTTTTACTTCACAATATCAT
1043625 GTCTAAAATTAATATTA-TGAATAGCTTTTTACT
66 GTCTAAAATTAATATTATTGAATAGCTTTTTACT
1043658 AAAATATCATAATATTAACTAATTTGAACATTATTTGAATACATATTTTTACTTCACAATATCAT
1 AAAATATCATAATATTAACTAATTTGAACATTATTTGAATACATATTTTTACTTCACAATATCAT
1043723 GTCTAAAATTAATATTATTTGAATAGCTT
66 GTCTAAAATTAATATTA-TTGAATAGCTT
1043752 GGAGTTTTAA
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 82 0.89
100 10 0.11
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (99 bp):
AAAATATCATAATATTAACTAATTTGAACATTATTTGAATACATATTTTTACTTCACAATATCAT
GTCTAAAATTAATATTATTGAATAGCTTTTTACT
Found at i:1043743 original size:49 final size:49
Alignment explanation
Indices: 1043589--1043747 Score: 170
Period size: 49 Copynumber: 3.2 Consensus size: 49
1043579 TAATTTGAAC
1043589 ATTATTTGAATACATATTTTTACTTCACAATATCATGTCTAAAATTAAT
1 ATTATTTGAATACATATTTTTACTTCACAATATCATGTCTAAAATTAAT
* * * *
1043638 ATTA--TGAATAGC---TTTTTAC-T-AAAATATCATAATATTAACTAATTTGAAC
1 ATTATTTGAATA-CATATTTTTACTTCACAATATCAT-GT-CTAA--AA-TT-AAT
1043687 ATTATTTGAATACATATTTTTACTTCACAATATCATGTCTAAAATTAAT
1 ATTATTTGAATACATATTTTTACTTCACAATATCATGTCTAAAATTAAT
1043736 ATTATTTGAATA
1 ATTATTTGAATA
1043748 GCTTGGAGTT
Statistics
Matches: 88, Mismatches: 8, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
43 9 0.10
44 2 0.02
45 10 0.11
47 8 0.09
48 3 0.03
49 24 0.27
50 3 0.03
51 8 0.09
53 10 0.11
54 2 0.02
55 9 0.10
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (49 bp):
ATTATTTGAATACATATTTTTACTTCACAATATCATGTCTAAAATTAAT
Found at i:1047766 original size:30 final size:28
Alignment explanation
Indices: 1047730--1047791 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
1047720 AAAAAACCGT
1047730 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTT-AAAATTTACCGAAATGGGCC-A
** *
1047760 TTTTTTTATTATTTACCGGAATGGGCCA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
1047788 TTTT
1 TTTT
1047792 CCGGGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 17 0.59
30 7 0.24
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:1051129 original size:80 final size:80
Alignment explanation
Indices: 1050996--1051155 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
1050986 ATTTCCCGTC
1050996 GAGTGGTTACCGCTGAGCCTCCGTCGCACCGACCCGCCTATGTCTGTGGATTACCTGAACAGAAC
1 GAGTGGTTACCGCTGAGCCTCCGTCGCACCGACCCGCCTATGTCTGTGGATTACCTGAACAGAAC
1051061 AGACAAACGGATGTG
66 AGACAAACGGATGTG
1051076 GAGTGGTTACCGCTGAGCCTCCGTCGCACCGACCCGCCTATGTCTGTGGATTACCTGAACAGAAC
1 GAGTGGTTACCGCTGAGCCTCCGTCGCACCGACCCGCCTATGTCTGTGGATTACCTGAACAGAAC
1051141 AGACAAACGGATGTG
66 AGACAAACGGATGTG
1051156 AGTTTATGTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.20
Consensus pattern (80 bp):
GAGTGGTTACCGCTGAGCCTCCGTCGCACCGACCCGCCTATGTCTGTGGATTACCTGAACAGAAC
AGACAAACGGATGTG
Found at i:1061842 original size:21 final size:20
Alignment explanation
Indices: 1061817--1061866 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
1061807 ACTAATCATC
1061817 ATTTAATTAGCACAAATATA-T
1 ATTTAATTA-CA-AAATATATT
1061838 ATTTAAAATTACAAAATATATT
1 ATTT--AATTACAAAATATATT
1061860 ATTTAAT
1 ATTTAAT
1061867 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 3 0.12
21 11 0.42
22 7 0.27
23 5 0.19
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTAATTACAAAATATATT
Found at i:1061858 original size:23 final size:24
Alignment explanation
Indices: 1061832--1061882 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1061822 ATTAGCACAA
1061832 ATATATATTT-A-AAATTACAAAAT
1 ATATATATTTAATAAATTA-AAAAT
1061855 ATAT-TATTTAATAAATTAAAAAT
1 ATATATATTTAATAAATTAAAAAT
*
1061878 GTATA
1 ATATA
1061883 AAATCACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 5 0.21
23 13 0.54
24 6 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATATATTTAATAAATTAAAAAT
Found at i:1061865 original size:22 final size:23
Alignment explanation
Indices: 1061821--1061865 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1061811 ATCATCATTT
1061821 AATTAGCACAAATATATATTTAA
1 AATTAGCACAAATATATATTTAA
1061844 AATTA-CA-AAATATATTATTTAA
1 AATTAGCACAAATATA-TATTTAA
1061866 TAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTAGCACAAATATATATTTAA
Found at i:1068139 original size:124 final size:124
Alignment explanation
Indices: 1067916--1068157 Score: 308
Period size: 124 Copynumber: 2.0 Consensus size: 124
1067906 TATCAGGTAG
* * * *
1067916 AACCAACTTTCTTGAGGTACGATTTATAGTGTGTATGATCTTTTCTTGCGGATAAATTTCGATCT
1 AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGATCTTTTCTTGCAGAGAAATTTCGATCT
* * * *
1067981 GGAAAATCAAAAGCATTGTAAACACTGGCCATTCTTTGGACCCCCAATATTTCAAGCAA
66 GGAAAATCAAAAGCATTCTAAACACTGACCATTCTTTAGAACCCCAATATTTCAAGCAA
* * * *
1068040 AACCAACTGTCTTGAGGTATGATTTACAGTGTGTATGCTCTTTTCTTGTAGAGAAATTTTGATCT
1 AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGATCTTTTCTTGCAGAGAAATTTCGATCT
* * * *
1068105 GGAAAATTC-GAAGTATTCTAAACA-TCGACTATTCTTTAGAACCCCACTATTTC
66 GGAAAA-TCAAAAGCATTCTAAACACT-GACCATTCTTTAGAACCCCAATATTTC
1068158 TGGTATCAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
123 1 0.01
124 97 0.97
125 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (124 bp):
AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGATCTTTTCTTGCAGAGAAATTTCGATCT
GGAAAATCAAAAGCATTCTAAACACTGACCATTCTTTAGAACCCCAATATTTCAAGCAA
Found at i:1071958 original size:43 final size:43
Alignment explanation
Indices: 1071897--1071983 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
1071887 GCTGCTAAAA
*
1071897 TTCAAGATTGGTTTAAGTAAGTTTTAAATAGACAACCTACTAT
1 TTCAAGACTGGTTTAAGTAAGTTTTAAATAGACAACCTACTAT
1071940 TTCAAGACTGGTTTAAGTAAGTTTTAAATAGACAACCTACTAT
1 TTCAAGACTGGTTTAAGTAAGTTTTAAATAGACAACCTACTAT
1071983 T
1 T
1071984 ATAGAACCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (43 bp):
TTCAAGACTGGTTTAAGTAAGTTTTAAATAGACAACCTACTAT
Found at i:1077931 original size:31 final size:31
Alignment explanation
Indices: 1077896--1077955 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1077886 GAACAAACCT
* *
1077896 TTAGCGACGCTTCTTGCAAAAACGCCGCTTC
1 TTAGCAACGCTTCTCGCAAAAACGCCGCTTC
*
1077927 TTAGCAACGCTTCTCGCAAAAACGGCGCT
1 TTAGCAACGCTTCTCGCAAAAACGCCGCT
1077956 AAAAACATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (31 bp):
TTAGCAACGCTTCTCGCAAAAACGCCGCTTC
Found at i:1080057 original size:21 final size:21
Alignment explanation
Indices: 1080031--1080076 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
1080021 GCATGTAAAA
1080031 AAACCAGACCAATACTAAGCT
1 AAACCAGACCAATACTAAGCT
*
1080052 AAACCAGATCAATACTAAGCT
1 AAACCAGACCAATACTAAGCT
1080073 AAAC
1 AAAC
1080077 ATATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.09, T:0.15
Consensus pattern (21 bp):
AAACCAGACCAATACTAAGCT
Found at i:1084737 original size:14 final size:14
Alignment explanation
Indices: 1084627--1084738 Score: 59
Period size: 14 Copynumber: 7.9 Consensus size: 14
1084617 CCCCAGCCTT
*
1084627 TAAACCGTAAACCA
1 TAAACCCTAAACCA
* * * *
1084641 TAAATCATAACCCC
1 TAAACCCTAAACCA
**
1084655 TAAACCCATATTCCA
1 TAAACCC-TAAACCA
*
1084670 TAAACCTTAAA--A
1 TAAACCCTAAACCA
*
1084682 TAGTAACTCCTAAACCT
1 TA--AAC-CCTAAACCA
*
1084699 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
1084713 TATACCCTAAACCA
1 TAAACCCTAAACCA
1084727 -AAACCCTTAAAC
1 TAAACCC-TAAAC
1084739 TATAGTGATA
Statistics
Matches: 72, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
12 3 0.04
13 5 0.07
14 44 0.61
15 18 0.25
17 2 0.03
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:1085208 original size:40 final size:39
Alignment explanation
Indices: 1085152--1085272 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 39
1085142 CTAAAGCCCC
1085152 GAGCATTAGTGGCACTTTTTTAAAAACGCCGCTAAAAAT
1 GAGCATTAGTGGCACTTTTTTAAAAACGCCGCTAAAAAT
* * * **
1085191 AGAGTATTAGTGGCACTTTCTAAAAAACGCCGCTAAAGCCCT
1 -GAGCATTAGTGGCACTTTTTTAAAAACGCCGCTAAA--AAT
*
1085233 GAGCATTAGCGGCACTTTTTTAAAAAACCGCCGCTAAAAA
1 GAGCATTAGTGGCACTTTTTT-AAAAA-CGCCGCTAAAAA
1085273 CCTAAGCCCA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
40 33 0.50
41 17 0.26
42 6 0.09
43 10 0.15
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (39 bp):
GAGCATTAGTGGCACTTTTTTAAAAACGCCGCTAAAAAT
Found at i:1085258 original size:41 final size:41
Alignment explanation
Indices: 1085039--1085270 Score: 195
Period size: 41 Copynumber: 5.7 Consensus size: 41
1085029 TGAATTTTTT
* * *
1085039 GCGGCGCTTTTTCAAAAACGCTGCTAAA---ATAGAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCT-GAGCATTA
* * * * *
1085078 GCGCCGCTTCTTCAAAAACGCCGCTAAAGCCTTAAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
1085119 GCAGCGCATTTTCAGAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * ** *
1085160 GTGGCACTTTTTTAAAAACGCCGCTAAA--AATAGAGTATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCT-GAGCATTA
* * *
1085200 GTGGCACTTTCTAAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
1085241 GCGGCACTTTTTTAAAAAACCGCCGCTAAA
1 GCGGCAC-TTTTTCAAAAA-CGCCGCTAAA
1085271 AACCTAAGCC
Statistics
Matches: 155, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
39 25 0.16
40 33 0.21
41 75 0.48
42 12 0.08
43 10 0.06
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (41 bp):
GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:1094649 original size:46 final size:46
Alignment explanation
Indices: 1094597--1094691 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
1094587 ACAAAGATAG
*
1094597 AAACCAAAATATTATCTCCTAAACTTTAGCATTTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1094643 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1094689 AAA
1 AAA
1094692 AGAAAAGAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.35
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:1097731 original size:17 final size:16
Alignment explanation
Indices: 1097704--1097735 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1097694 CTGCTTTCAG
1097704 TACAAACACTTCGGAA
1 TACAAACACTTCGGAA
1097720 TACAATACACTTCGGA
1 TACAA-ACACTTCGGA
1097736 TTAAGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (16 bp):
TACAAACACTTCGGAA
Found at i:1099684 original size:89 final size:91
Alignment explanation
Indices: 1099578--1099763 Score: 243
Period size: 97 Copynumber: 2.0 Consensus size: 91
1099568 CTTTATTAAA
* * *
1099578 AAATTGATAGAAACTTTAT-G-GTTACCATTTCTCAATAAAAGCACAATTTACATGGCTCTTTTC
1 AAATTGACAGAAACTTTATAGACTTACCATTTCTCAATAAAAGCACAATTTACATGGCTATTTTC
*
1099641 TAGTGGATAAAA-TGAACGGTGGCTGC
66 TAGTGGATAAAACAG-ACGGTGGCTGC
1099667 AAATTGACAGAAACTTTATAGTTACCAACTTACCATTTCTCAATAAAAGCACAATTTACATGGCT
1 AAATTGACAGAAACTTTATAG------ACTTACCATTTCTCAATAAAAGCACAATTTACATGGCT
*
1099732 ATTTTCTAGTGGTTAAAACAGACGGTGGCTGC
60 ATTTTCTAGTGGATAAAACAGACGGTGGCTGC
1099764 CCCTAATTAA
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
89 18 0.22
90 1 0.01
97 63 0.76
98 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (91 bp):
AAATTGACAGAAACTTTATAGACTTACCATTTCTCAATAAAAGCACAATTTACATGGCTATTTTC
TAGTGGATAAAACAGACGGTGGCTGC
Found at i:1102818 original size:121 final size:122
Alignment explanation
Indices: 1102679--1102922 Score: 481
Period size: 121 Copynumber: 2.0 Consensus size: 122
1102669 CACATGTCAG
1102679 ACTTCAGAGATTTGTTTAAAAATCTATGAGAAGAAAAGTCATGTCTTCTGAGCAGATATGTATAT
1 ACTTCAGAGATTTGTTTAAAAATCTATGAGAAGAAAAGTCATGTCTTCTGAGCAGATATGTATAT
1102744 TTTTGATAATCCTCTATTTTATAAAATGGATTAGTTCTAGGTTTTTT-TTTTAATTT
66 TTTTGATAATCCTCTATTTTATAAAATGGATTAGTTCTAGGTTTTTTATTTTAATTT
1102800 ACTTCAGAGATTTGTTTAAAAATCTATGAGAAGAAAAGTCATGTCTTCTGAGCAGATATGTATAT
1 ACTTCAGAGATTTGTTTAAAAATCTATGAGAAGAAAAGTCATGTCTTCTGAGCAGATATGTATAT
1102865 TTTTGATAATCCTCTATTTTATAAAATGGATTAGTTCTAGGTTTTTTATTTTAATTT
66 TTTTGATAATCCTCTATTTTATAAAATGGATTAGTTCTAGGTTTTTTATTTTAATTT
1102922 A
1 A
1102923 ATAATAATTA
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 112 0.92
122 10 0.08
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (122 bp):
ACTTCAGAGATTTGTTTAAAAATCTATGAGAAGAAAAGTCATGTCTTCTGAGCAGATATGTATAT
TTTTGATAATCCTCTATTTTATAAAATGGATTAGTTCTAGGTTTTTTATTTTAATTT
Found at i:1104937 original size:36 final size:36
Alignment explanation
Indices: 1104882--1104952 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
1104872 ATCAAGGGCT
* *
1104882 ACAATTAAAAGCTGCATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGATGCATACAATTAAAACTCTAAGAC
* *
1104918 ACAATTAGAAGATGTATACAATTAAAACTCTAAGA
1 ACAATTAAAAGATGCATACAATTAAAACTCTAAGA
1104953 TTACATAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.24
Consensus pattern (36 bp):
ACAATTAAAAGATGCATACAATTAAAACTCTAAGAC
Found at i:1106272 original size:18 final size:18
Alignment explanation
Indices: 1106240--1106293 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1106230 AATTAGAAAA
1106240 AAATTTATAAA-AAATAAT
1 AAATTT-TAAATAAATAAT
* *
1106258 ACATTTTAAATAAATTATT
1 AAATTTTAAATAAA-TAAT
1106277 AAATTTT-AATAAA-AAT
1 AAATTTTAAATAAATAAT
1106293 A
1 A
1106294 TAAAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 14 0.47
19 9 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTTAAATAAATAAT
Found at i:1108074 original size:23 final size:24
Alignment explanation
Indices: 1108017--1108074 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
1108007 AGAAACAATT
*
1108017 AATAAATAATAAAATACAATTTAAAAC
1 AATAAAT--TAAAATAAAATTT-AAAC
*
1108044 AATTAATTAAAATAAAATTT-AAC
1 AATAAATTAAAATAAAATTTAAAC
1108067 AATAAATT
1 AATAAATT
1108075 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 10 0.36
25 12 0.43
27 6 0.21
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (24 bp):
AATAAATTAAAATAAAATTTAAAC
Found at i:1109218 original size:103 final size:103
Alignment explanation
Indices: 1109098--1109306 Score: 402
Period size: 103 Copynumber: 2.0 Consensus size: 103
1109088 AGTTATAGAA
1109098 AATCTTTTTTTTTAAAATTATT-AAATTTATTTTATTTATTTTACGAAAGAAAATCTTTAATTTA
1 AATCTTTTTTTTTAAAATTATTAAAATTTATTTTA-TTATTTTACGAAAGAAAATCTTTAATTTA
1109162 TAATCTTTTCATTTGTTTCAATTTCTAAAAATATTAGTC
65 TAATCTTTTCATTTGTTTCAATTTCTAAAAATATTAGTC
1109201 AATCTTTTTTTTTAAAATTATTAAAATTTATTTTATTATTTTACGAAAGAAAATCTTTAATTTAT
1 AATCTTTTTTTTTAAAATTATTAAAATTTATTTTATTATTTTACGAAAGAAAATCTTTAATTTAT
1109266 AATCTTTTCATTTGTTTCAATTTCTAAAAATATTAGTC
66 AATCTTTTCATTTGTTTCAATTTCTAAAAATATTAGTC
1109304 AAT
1 AAT
1109307 TAGTTAGTAT
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
103 93 0.89
104 12 0.11
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.53
Consensus pattern (103 bp):
AATCTTTTTTTTTAAAATTATTAAAATTTATTTTATTATTTTACGAAAGAAAATCTTTAATTTAT
AATCTTTTCATTTGTTTCAATTTCTAAAAATATTAGTC
Found at i:1111606 original size:19 final size:19
Alignment explanation
Indices: 1111582--1111621 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1111572 CTTATGGCAT
1111582 AAGGTATATTGTTTAGCTC
1 AAGGTATATTGTTTAGCTC
1111601 AAGGTATATTGTTTAGCTC
1 AAGGTATATTGTTTAGCTC
1111620 AA
1 AA
1111622 CTGTATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (19 bp):
AAGGTATATTGTTTAGCTC
Found at i:1113724 original size:37 final size:37
Alignment explanation
Indices: 1113670--1113760 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
1113660 TTATTGCTGA
1113670 GGCGTGTTATCAGTTGGATTAGCTCTCATGAGCGCTT
1 GGCGTGTTATCAGTTGGATTAGCTCTCATGAGCGCTT
* * *
1113707 GGCGTGTTAT-TGTTTGGATTAGCTCTTATGAGCGTTT
1 GGCGTGTTATCAG-TTGGATTAGCTCTCATGAGCGCTT
* *
1113744 GGTGTGTT-TCGGTTGGA
1 GGCGTGTTATCAGTTGGA
1113761 CTACTTGTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 7 0.15
37 40 0.85
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.41
Consensus pattern (37 bp):
GGCGTGTTATCAGTTGGATTAGCTCTCATGAGCGCTT
Found at i:1119148 original size:23 final size:23
Alignment explanation
Indices: 1119122--1119176 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
1119112 AATCAATATT
*
1119122 TTTAAAAGCTGAAT-CCATTAAAA
1 TTTAAAA-CTCAATACCATTAAAA
*
1119145 TTTAAAACTCAATACCCATTAATA
1 TTTAAAACTCAATA-CCATTAAAA
1119169 TTTAAAAC
1 TTTAAAAC
1119177 CAAAATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 16 0.57
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
TTTAAAACTCAATACCATTAAAA
Found at i:1121506 original size:17 final size:17
Alignment explanation
Indices: 1121486--1121519 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1121476 TATGAAAAAA
1121486 ATAAGTGAAA-TAAAATT
1 ATAAGT-AAATTAAAATT
1121503 ATAAGTAAATTAAAATT
1 ATAAGTAAATTAAAATT
1121520 TCTTTTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
ATAAGTAAATTAAAATT
Found at i:1121556 original size:15 final size:15
Alignment explanation
Indices: 1121536--1121569 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1121526 TCCAACTCAA
1121536 AAAAATCTAAAATCC
1 AAAAATCTAAAATCC
*
1121551 AAAAATCTAAAATCG
1 AAAAATCTAAAATCC
1121566 AAAA
1 AAAA
1121570 TTTTCGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATCTAAAATCC
Found at i:1121890 original size:9 final size:9
Alignment explanation
Indices: 1121876--1121907 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1121866 TTATTCATTT
1121876 AATTAATTA
1 AATTAATTA
1121885 AATTAATTA
1 AATTAATTA
*
1121894 AACTAATTA
1 AATTAATTA
1121903 AATTA
1 AATTA
1121908 TACCCTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:1125205 original size:15 final size:13
Alignment explanation
Indices: 1125186--1125218 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1125176 TAAAAATTGA
*
1125186 TATAATAA-ATAT
1 TATAATAATAAAT
1125198 TATAATAATAAAT
1 TATAATAATAAAT
1125211 TATAATAA
1 TATAATAA
1125219 AATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATAATAAAT
Found at i:1131305 original size:2 final size:2
Alignment explanation
Indices: 1131298--1131331 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1131288 CGCATAAATT
1131298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1131332 AATTTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1131495 original size:17 final size:17
Alignment explanation
Indices: 1131462--1131493 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1131452 TATTTATAAG
1131462 AAAAATTATAAATAAAT
1 AAAAATTATAAATAAAT
1131479 AAAAATT-TAAATAAA
1 AAAAATTATAAATAAA
1131494 ATGGTGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATTATAAATAAAT
Found at i:1133231 original size:49 final size:49
Alignment explanation
Indices: 1133178--1133274 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 49
1133168 TGGTTCTAAT
** * * * * *
1133178 TATTTACATATTTTATCATCTTGGGTGGCCCTACAACGATGGTTTCCAC
1 TATTTACATATCCTACCATCTCGGATGGCCCGACAACGATGATTTCCAC
* *
1133227 TATTTGCATATCCTACCATCTCGGATGGCTCGACAACGATGATTTCCA
1 TATTTACATATCCTACCATCTCGGATGGCCCGACAACGATGATTTCCA
1133275 TCCTAAGGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (49 bp):
TATTTACATATCCTACCATCTCGGATGGCCCGACAACGATGATTTCCAC
Found at i:1138290 original size:284 final size:284
Alignment explanation
Indices: 1137773--1138320 Score: 902
Period size: 284 Copynumber: 1.9 Consensus size: 284
1137763 CCAAAAAGGA
* *
1137773 GTTTGTCTGTAAAAATGCTCACCCAACTAAATGTTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
1 GTTTGCCTGTAAAAATGCTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
* *
1137838 AATCCCATCAAAGTTCACTTAAAAAATTTTCGTGTCGCATCCTATAAATCTCCCATTACTTTGTG
66 AATCCCATCAAAGTTCACATAAAAAATTTTCGTGTCGCATCCCATAAATCTCCCATTACTTTGTG
*
1137903 GTTGACTCTATAAAGCATACTCAAATCACATCTTATCACATATCTATATGAATTCATGAGAAGGG
131 GTTGACTCTACAAAGCATACTCAAATCACATCTTATCACATATCTATATGAATTCATGAGAAGGG
* *
1137968 ATTGCATGAAACCATGATTCTACGTTATCGCAACCCTTTCCAATAGGAGAATGACAAATAAGCTT
196 ATTGCATGAAACCATGATTCTACGTCATCGCAACCCTTTCCAATAGGAGAATGACAAATAAGATT
1138033 TTTTCTCCTAATTTTTAGCATTTT
261 TTTTCTCCTAATTTTTAGCATTTT
*
1138057 GTTTGCCTGTAAAAATGTTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
1 GTTTGCCTGTAAAAATGCTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
* **
1138122 AATCCCATCAAAGTTCACATAAAAAATTTTCGTTTCTTATCCCATAAATCTCCCATTACTTTGTG
66 AATCCCATCAAAGTTCACATAAAAAATTTTCGTGTCGCATCCCATAAATCTCCCATTACTTTGTG
* *
1138187 GTTGACTCTACAAAGCATACTCAAATCACATCTTATCACATCTCTATATGAATTCTTGAGAAGGG
131 GTTGACTCTACAAAGCATACTCAAATCACATCTTATCACATATCTATATGAATTCATGAGAAGGG
* * * * *
1138252 ATTGTATGAAA-CAGTGATTCTACGTCCTC-CTTACCCTTTCTAATAGGAGAATGACAAATTAGA
196 ATTGCATGAAACCA-TGATTCTACGTCATCGC-AACCCTTTCCAATAGGAGAATGACAAATAAGA
1138315 TTTTTT
259 TTTTTT
1138321 TTCTCCTGGT
Statistics
Matches: 244, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
283 3 0.01
284 241 0.99
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (284 bp):
GTTTGCCTGTAAAAATGCTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
AATCCCATCAAAGTTCACATAAAAAATTTTCGTGTCGCATCCCATAAATCTCCCATTACTTTGTG
GTTGACTCTACAAAGCATACTCAAATCACATCTTATCACATATCTATATGAATTCATGAGAAGGG
ATTGCATGAAACCATGATTCTACGTCATCGCAACCCTTTCCAATAGGAGAATGACAAATAAGATT
TTTTCTCCTAATTTTTAGCATTTT
Found at i:1140541 original size:21 final size:20
Alignment explanation
Indices: 1140515--1140556 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1140505 TGATTCTCAT
1140515 TCATTGTTCGGAGAAATCGAA
1 TCATTGTTCGGAGAAA-CGAA
* *
1140536 TCATTGTTGGGGGAAACGAA
1 TCATTGTTCGGAGAAACGAA
1140556 T
1 T
1140557 ATGACGCCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (20 bp):
TCATTGTTCGGAGAAACGAA
Found at i:1144997 original size:21 final size:21
Alignment explanation
Indices: 1144973--1145029 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
1144963 CACAGCCGTG
*
1144973 TGGCTAAAACGCACAACCATA
1 TGGCTAAAACACACAACCATA
*
1144994 TGGCTGAAACACACAACCATA
1 TGGCTAAAACACACAACCATA
*
1145015 TGGCTAAAAGACACA
1 TGGCTAAAACACACA
1145030 CACGTGTGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (21 bp):
TGGCTAAAACACACAACCATA
Found at i:1146097 original size:28 final size:28
Alignment explanation
Indices: 1146066--1146120 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1146056 TTTATTTTTA
*
1146066 TAAAA-TTTTATTAATTTTTAATCATTTC
1 TAAAATTTTTA-TAATATTTAATCATTTC
*
1146094 TAAAATTTTTATAATATTTAATGATTT
1 TAAAATTTTTATAATATTTAATCATTT
1146121 TTCAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
TAAAATTTTTATAATATTTAATCATTTC
Found at i:1149197 original size:17 final size:17
Alignment explanation
Indices: 1149152--1149197 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
1149142 GTGGCATGTG
* *
1149152 CCTAAGTAATATATATA
1 CCTAAGTAATGTTTATA
1149169 CCTAAGTAATGTTTATA
1 CCTAAGTAATGTTTATA
*
1149186 CCTAAGTGATGT
1 CCTAAGTAATGT
1149198 ATAGGAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (17 bp):
CCTAAGTAATGTTTATA
Found at i:1153719 original size:11 final size:10
Alignment explanation
Indices: 1153705--1153743 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 10
1153695 TTATATTTTA
1153705 AAAAAATTAT
1 AAAAAATTAT
*
1153715 AAAAAA-TCT
1 AAAAAATTAT
1153724 AAAAAATATAT
1 AAAAAAT-TAT
1153735 AAAAAATTA
1 AAAAAATTA
1153744 AGATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 8 0.32
10 8 0.32
11 9 0.36
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:1153728 original size:20 final size:20
Alignment explanation
Indices: 1153705--1153741 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1153695 TTATATTTTA
1153705 AAAAAAT-TATAAAAAATCT
1 AAAAAATATATAAAAAATCT
1153724 AAAAAATATATAAAAAAT
1 AAAAAATATATAAAAAAT
1153742 TAAGATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAATATATAAAAAATCT
Found at i:1157068 original size:12 final size:12
Alignment explanation
Indices: 1157051--1157078 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1157041 AAACAAGTCA
1157051 AAAAAAAAAAAG
1 AAAAAAAAAAAG
1157063 AAAAAAAAAAAG
1 AAAAAAAAAAAG
1157075 AAAA
1 AAAA
1157079 GAAGCAAGCT
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:1160044 original size:46 final size:46
Alignment explanation
Indices: 1159977--1160175 Score: 312
Period size: 46 Copynumber: 4.4 Consensus size: 46
1159967 ACTTCTAATC
* *
1159977 AGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCA
1 AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
* * * *
1160023 AGTGACAAAGTGATAAATGTTAGCTTTAGCTGCACTTATCTGATCA
1 AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
1160069 AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
1 AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
*
1160115 AGTGACCAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC-
1 AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
*
1160160 AGGGAC-AAGTGATAAG
1 AGTGACAAAGTGATAAG
1160176 GGATCATACT
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
44 10 0.07
45 5 0.03
46 130 0.90
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (46 bp):
AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
Found at i:1161885 original size:93 final size:94
Alignment explanation
Indices: 1161781--1161967 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 94
1161771 AAAATAATTT
1161781 AAGTATGTTTTTTTTAAGGATAAACTATAAAAATAGTCACTTTTGTTTGTTTCAGATTACATTTT
1 AAGTATGTTTTTTTTAAGGATAAACTATAAAAATAGTCACTTTTGTTTGTTTCAGATTACATTTT
1161846 AGTCATTTATGTTTG-AATGTTAAGTTTA
66 AGTCATTTATGTTTGAAATGTTAAGTTTA
1161874 AAGTATGTTTTTTTTAAGGATAAACTATAAAAATAGTCACTTTTGTTTGTTTCAGATTACATTTT
1 AAGTATGTTTTTTTTAAGGATAAACTATAAAAATAGTCACTTTTGTTTGTTTCAGATTACATTTT
1161939 AGTCATTTATGTTTGAAATGTTAAGTTTA
66 AGTCATTTATGTTTGAAATGTTAAGTTTA
1161968 GTCACTTGCA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 80 0.86
94 13 0.14
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (94 bp):
AAGTATGTTTTTTTTAAGGATAAACTATAAAAATAGTCACTTTTGTTTGTTTCAGATTACATTTT
AGTCATTTATGTTTGAAATGTTAAGTTTA
Found at i:1164250 original size:19 final size:20
Alignment explanation
Indices: 1164221--1164259 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1164211 AATAAAGTTT
1164221 TATAGTATATGTGTATGGTA
1 TATAGTATATGTGTATGGTA
*
1164241 TATA-TATATGTGTGTGGTA
1 TATAGTATATGTGTATGGTA
1164260 ATTTTGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (20 bp):
TATAGTATATGTGTATGGTA
Found at i:1174936 original size:54 final size:54
Alignment explanation
Indices: 1174873--1174979 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
1174863 TTCTAATCTC
1174873 TGGGCTTCTTAAAACTTGTTGGAGGTAGAGGTCTAGAAAATCCATGCTTCATTT
1 TGGGCTTCTTAAAACTTGTTGGAGGTAGAGGTCTAGAAAATCCATGCTTCATTT
*
1174927 TGGGCTTCTTAAAACTTGTTGGAGGTAGAGGTCTAGAAAATCCGTGCTTCATT
1 TGGGCTTCTTAAAACTTGTTGGAGGTAGAGGTCTAGAAAATCCATGCTTCATT
1174980 CTTTCTCTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (54 bp):
TGGGCTTCTTAAAACTTGTTGGAGGTAGAGGTCTAGAAAATCCATGCTTCATTT
Found at i:1175791 original size:15 final size:15
Alignment explanation
Indices: 1175773--1175802 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1175763 TATCGCGATA
*
1175773 ATAAATACAATAATG
1 ATAAATACAACAATG
1175788 ATAAATACAACAATG
1 ATAAATACAACAATG
1175803 GCATAGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAAATACAACAATG
Found at i:1176205 original size:20 final size:22
Alignment explanation
Indices: 1176159--1176205 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1176149 TTTTCGAAAA
*
1176159 AATATATATAAAAATATGTACG
1 AATATATATAAAAATATATACG
* *
1176181 TATATATATAAATATA-ATA-G
1 AATATATATAAAAATATATACG
1176201 AATAT
1 AATAT
1176206 TCGAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.24
21 2 0.10
22 14 0.67
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (22 bp):
AATATATATAAAAATATATACG
Found at i:1178163 original size:45 final size:45
Alignment explanation
Indices: 1178096--1178342 Score: 142
Period size: 45 Copynumber: 5.6 Consensus size: 45
1178086 TTAATCTGCT
*
1178096 CCACTGTAACTTCAGGGAGATAAGA-TTCGCCAT-CTTCAGTCTACC
1 CCACTGCAACTTCAGGGAGATAAGACTTCG-CATACTT-AGTCTACC
* * * * * *
1178141 CCACTGCAACTTTAGGGGGATAAGACTTTGCTTACTTAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTCGCATACTTAGTCTACC
* * *
1178186 CCACTGCAACTTCAGGGAGATAAGAC-T---AGA-TGAGATCT-GC
1 CCACTGCAACTTCAGGGAGATAAGACTTCGCATACTTAG-TCTACC
* * * * *
1178226 TCTCTGCAACTTCAGAGAGATAAGATCTGT-G-AT-TTTAATC--CC
1 CCACTGCAACTTCAGGGAGATAAGA-CT-TCGCATACTTAGTCTACC
* * * * * *
1178268 TCCACTGCACAACTTTAGGGGGATAAGACTTTGCTTACTTAGTCTGCT
1 -CCACTG--CAACTTCAGGGAGATAAGACTTCGCATACTTAGTCTACC
1178316 CCACTGCAACTTCAGGGAGATAAGACT
1 CCACTGCAACTTCAGGGAGATAAGACT
1178343 AGATGAGATC
Statistics
Matches: 154, Mismatches: 32, Indels: 32
0.71 0.15 0.15
Matches are distributed among these distances:
40 25 0.16
41 5 0.03
42 1 0.01
43 8 0.05
44 7 0.05
45 90 0.58
46 11 0.07
47 6 0.04
48 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTCGCATACTTAGTCTACC
Found at i:1178281 original size:130 final size:129
Alignment explanation
Indices: 1178141--1178465 Score: 532
Period size: 130 Copynumber: 2.5 Consensus size: 129
1178131 TCAGTCTACC
1178141 CCACTGCAACTTTAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTTAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
1178206 TAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC-CT
66 TAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACT
1178269 CCACTGCACAACTTTAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
1 CCACTG--CAACTTTAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
1178334 GATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCAC
64 GATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCAC
1178399 T
129 T
* * * * * *
1178400 CCACTGCAACTTCAGGGAGATAGGATTATTGGC-T--TTAATCTACTCCACTGCAACTTCAGGGA
1 CCACTGCAACTTTAGGGGGATAAGACT-TT-GCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
1178462 GATA
64 GATA
1178466 GGATTATTGG
Statistics
Matches: 186, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
128 36 0.19
129 17 0.09
130 123 0.66
131 10 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (129 bp):
CCACTGCAACTTTAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACT
Found at i:1178409 original size:44 final size:44
Alignment explanation
Indices: 1178002--1178513 Score: 360
Period size: 44 Copynumber: 11.8 Consensus size: 44
1177992 ATTTGATGCG
* * * *
1178002 ATCTGCT-CTCTGCAACTCCAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTTA
* ** * **
1178045 ATCCGCTCCACTATAACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TTGATTTTA
* * *
1178089 ATCTGCTCCACTGTAACTTCAGGGAGATAAGA--TTCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTG--AT-TTTA
* * * * * *
1178134 GTCTACCCCACTGCAACTTTAGGGGGATAAGA-CTTTGCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATT--TTA
* * *
1178179 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-TAGA--TGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTTA
* * *
1178219 GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTTA
* * * *
1178263 ATC-CCTCCACTGCACAACTTTAGGGGGATAAGA-CTTTGCTTACTTA
1 ATCTGCTCCACTG--CAACTTCAGGGAGATAAGATCTTTGATT--TTA
* * *
1178309 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-TAGA--TGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTTA
* * *
1178349 GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTTA
** * **
1178393 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TTGATTTTA
* * **
1178437 ATCTACTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TTGATTTTA
*
1178481 ATCTACTCCACTGCAACTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1178514 TCGCCATCTT
Statistics
Matches: 374, Mismatches: 69, Indels: 51
0.76 0.14 0.10
Matches are distributed among these distances:
40 48 0.13
41 14 0.04
42 8 0.02
43 22 0.06
44 172 0.46
45 94 0.25
46 8 0.02
47 8 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTTGATTTTA
Found at i:1179226 original size:267 final size:267
Alignment explanation
Indices: 1178521--1179344 Score: 1247
Period size: 268 Copynumber: 3.1 Consensus size: 267
1178511 GATTCGCCAT
* * * *
1178521 CTTCAGTCTTTTAAATTGCAATGCTGGGGAAACAAGATTTGCCGTCGTAGCTTCAACCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTTGCCGTCGTAGCTTCAATCTGTTCCA
* * *
1178586 CTACACCGCCAGGGGAGTAAGATTCACCGTCGTGG-TTTCAATCTTCTCCACTGTAATGCCAAAG
66 CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTT-AATCTGCTCCACTGTAATGCCAAAG
** * *
1178650 AGATAGGATTTTCTACCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAG
130 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAG
* * * *
1178715 AGAGATAAGATTTGCCGTTGTGGCTTCAATCTGCTCCGCTACAATGCCAAGGAAATAAGATTCAC
195 AGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAAGGAAATAAGATTCGC
*
1178780 CATTGTGG
260 CATTGCGG
* * * *
1178788 CTTCAATCTTTTAAATTGCAATGTTGGGGGAAACGAGATTTTCCGTCGTAGCCTCAATTTGTTCT
1 CTTCAATCTTTTAAATTGCAATGTT-GGGGAAACGAGATTTGCCGTCGTAGCTTCAATCTGTTCC
**
1178853 ACTACACCGCCAGGGGAGTAAGATTTGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAG
65 ACTACACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAG
* * *
1178918 AGATAGGATTCGCTGCCCACAGCTTTAATCTGCTTTACTTCAGCTAATCCAAGCCTTAACACCAG
130 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAG
* *
1178983 GGAGATAAGATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAAGGAAATAAGATTCGC
195 AGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAAGGAAATAAGATTCGC
*
1179048 CATTACGG
260 CATTGCGG
* * *
1179056 GTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCCATCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTTGCCGTCGTAGCTTCAATCTGTTCCA
* * * *
1179121 CTACACCGCTAGGGGAGTAAGATTCACCATTGGGGCTTTAATCTGCTCCACTATAATGCCAAAGA
66 CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
1179186 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCA-A
131 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGA
* *
1179250 TGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGTCAGGGTAAATAAGATTCG
196 -GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAAGG-AAATAAGATTCG
1179315 CCATTGCGG
259 CCATTGCGG
**
1179324 CTTCAATCTTTTCTATTGCAA
1 CTTCAATCTTTTAAATTGCAA
1179345 CGTTCAGGTG
Statistics
Matches: 501, Mismatches: 52, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
267 224 0.45
268 274 0.55
269 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (267 bp):
CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTTGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGGAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGA
GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAAGGAAATAAGATTCGCC
ATTGCGG
Found at i:1180668 original size:55 final size:55
Alignment explanation
Indices: 1180565--1180668 Score: 122
Period size: 55 Copynumber: 1.9 Consensus size: 55
1180555 TAGTCTCAAG
****
1180565 GCGCCCTTTGCGGGTTTTCACCTTGGTCTCTCCATTTTTTTTTTTGAAAATCAGA
1 GCGCCCTTTGCGGGTTTTCACCTTGGTCTCTCCATTTTTTCAAGTGAAAATCAGA
* *
1180620 GCGCCCTTTGCGGGTTTTCACTTTGAT-TCCTCC-TTTCTTTCAAGTGAAA
1 GCGCCCTTTGCGGGTTTTCACCTTGGTCT-CTCCATTT-TTTCAAGTGAAA
1180669 TATTTCTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
54 4 0.10
55 37 0.90
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.42
Consensus pattern (55 bp):
GCGCCCTTTGCGGGTTTTCACCTTGGTCTCTCCATTTTTTCAAGTGAAAATCAGA
Found at i:1191552 original size:22 final size:24
Alignment explanation
Indices: 1191527--1191577 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1191517 AATTTTGAAT
*
1191527 TATAA-AATTTATATAAATAAA-A
1 TATAAGAATTTATAAAAATAAATA
*
1191549 TATAATGCATTTATAAAAATAAATA
1 TATAA-GAATTTATAAAAATAAATA
1191574 TATA
1 TATA
1191578 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
TATAAGAATTTATAAAAATAAATA
Found at i:1197601 original size:6 final size:6
Alignment explanation
Indices: 1197590--1197615 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1197580 GACATACATA
1197590 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
1197616 TATTCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:1202714 original size:92 final size:93
Alignment explanation
Indices: 1202552--1202742 Score: 366
Period size: 92 Copynumber: 2.1 Consensus size: 93
1202542 CCCTAATTTA
1202552 CTAGCCTAACCCAAACAACACAATCCAAGCCCAACCAGGCCCAATACCCAAATCAGACCCAAATT
1 CTAG-CTAACCCAAACAACACAATCCAAGCCCAACCAGGCCCAATACCCAAATCAGACCCAAATT
1202617 TTAAACTAGGGTTTCAGAAAA-TGAAACC
65 TTAAACTAGGGTTTCAGAAAATTGAAACC
1202645 CTAGCTAACCCAAACAACACAATCCAAGCCCAACCAGGCCCAATACCCAAATCAGACCCAAATTT
1 CTAGCTAACCCAAACAACACAATCCAAGCCCAACCAGGCCCAATACCCAAATCAGACCCAAATTT
1202710 TAAACTAGGGTTTCAGAAAATTGAAACC
66 TAAACTAGGGTTTCAGAAAATTGAAACC
1202738 CTAGC
1 CTAGC
1202743 CTAGCCTAGT
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
92 81 0.84
93 16 0.16
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (93 bp):
CTAGCTAACCCAAACAACACAATCCAAGCCCAACCAGGCCCAATACCCAAATCAGACCCAAATTT
TAAACTAGGGTTTCAGAAAATTGAAACC
Found at i:1206714 original size:33 final size:33
Alignment explanation
Indices: 1206650--1206712 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1206640 ATATTTATGC
*
1206650 CTTAAATAGAAAATGATTTTTATATAAGGGGAG
1 CTTAAATAGAAAATGACTTTTATATAAGGGGAG
*
1206683 CTTAAATTGAAAATGACTTTTAT-TAAGGGG
1 CTTAAATAGAAAATGACTTTTATATAAGGGG
1206713 GAACAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (33 bp):
CTTAAATAGAAAATGACTTTTATATAAGGGGAG
Found at i:1224529 original size:6 final size:6
Alignment explanation
Indices: 1224518--1224542 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1224508 GTCAAAATCA
1224518 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
1224543 ACATCAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:1232378 original size:18 final size:17
Alignment explanation
Indices: 1232347--1232395 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
1232337 TCTCATTGAC
1232347 ACCACAATTCAATTATCA-
1 ACCA-AATTCAATT-TCAT
1232365 ACCAAATTCAAATTTCAT
1 ACCAAATTC-AATTTCAT
1232383 ACCAAATT-AATTT
1 ACCAAATTCAATTT
1232396 GCATTCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 16 0.55
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (17 bp):
ACCAAATTCAATTTCAT
Found at i:1238850 original size:18 final size:19
Alignment explanation
Indices: 1238809--1238853 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1238799 TCCTTTTTTT
1238809 AAAAAAAATCGTAAATAAG
1 AAAAAAAATCGTAAATAAG
*
1238828 TAAAAATAATCG-AAA-AAG
1 -AAAAAAAATCGTAAATAAG
1238846 AAAAAAAA
1 AAAAAAAA
1238854 GAAAATAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 3 0.13
19 3 0.13
20 10 0.43
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAAAAAATCGTAAATAAG
Found at i:1239075 original size:21 final size:21
Alignment explanation
Indices: 1239049--1239124 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
1239039 AATCATATCT
1239049 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
1239070 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
1239091 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
1239110 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
1239125 CCTCGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:1239084 original size:19 final size:19
Alignment explanation
Indices: 1239062--1239125 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
1239052 AAGATTGTAT
1239062 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
1239081 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
1239102 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
1239121 ATATC
1 ATATC
1239126 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:1239517 original size:44 final size:45
Alignment explanation
Indices: 1239461--1239766 Score: 198
Period size: 44 Copynumber: 7.0 Consensus size: 45
1239451 GAGACAGGAT
*
1239461 TTGTTTATTTAGTCTGC-CTCACTGCAACTTCAGGAG-GATAAGAC
1 TTGTTTACTTAGTCTGCTC-CACTGCAACTTCAGGAGAGATAAGAC
1239505 TTGTTTACTTAGTCTGCTCCACTGCAACTTCA-GAGAGATAAGAC
1 TTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGAC
* ** * * *
1239549 TAG---ACGCAATCTGCT-CTCTACAACTTCA-GAGAGATAAGATCC
1 TTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGA--C
* * * * *
1239591 AATGTTT--TGA-TCTGCTCCACTGTAACTTCA-GCGAGATAGGA-
1 -TTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGAC
*** * * *
1239632 TTGTCGGCTCTAATCTACTCCACTGCAACTTCAGG-GAGATAAGAT
1 TTGTTTACT-TAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGAC
** *
1239677 TTG-CCATCTTCAGTCTAC-CTCACTGCAACTTCAGGAG-GATAAGAC
1 TTGTTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGAGAGATAAGAC
* * *
1239722 TTGCTTGCTGAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGAC
1 TTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGAC
1239766 T
1 T
1239767 AGATGCGATC
Statistics
Matches: 208, Mismatches: 32, Indels: 44
0.73 0.11 0.15
Matches are distributed among these distances:
40 25 0.12
41 9 0.04
42 2 0.01
43 12 0.06
44 118 0.57
45 41 0.20
46 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
TTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGAGAGATAAGAC
Found at i:1239762 original size:217 final size:217
Alignment explanation
Indices: 1239424--1239904 Score: 711
Period size: 217 Copynumber: 2.2 Consensus size: 217
1239414 AAATCCATCA
* * * * * * *
1239424 CTCTAATCCACTCCACTACAACTT-AAGGAGACAGGATTTGTTTAT-TT-AGTCTGCCTCACTGC
1 CTCTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TCATCTTCAGTCTACCTCACTGC
* *
1239486 AACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTA
65 AACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTA
* * *
1239551 GACGCAATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAATGTTTTGATCTGCTCCACTGTAA
130 GACGCAATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAA
* *
1239616 C-TTCAGCGAGATAGGATTGTCGG
195 CTTTAAG-GAGATAGGATTATCGG
*
1239639 CTCTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCA
1 CTCTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTCACTGCA
* *
1239704 ACTTCAGGAGGATAAGACTTGCTTGCTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG
66 ACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAG
* * **
1239769 ATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAAC
131 ACGCAATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAAC
1239834 TTTAAGGAGATAGGATTATCGG
196 TTTAAGGAGATAGGATTATCGG
*
1239856 CTTTAATCT-CTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCA
1 CTCTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCA
1239905 ACCTACTCTG
Statistics
Matches: 239, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
215 24 0.10
216 54 0.23
217 157 0.66
218 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (217 bp):
CTCTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTCACTGCA
ACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAG
ACGCAATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAAC
TTTAAGGAGATAGGATTATCGG
Found at i:1239800 original size:40 final size:43
Alignment explanation
Indices: 1239471--1239804 Score: 169
Period size: 44 Copynumber: 7.7 Consensus size: 43
1239461 TTGTTTATTT
* ** * *
1239471 AGTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTT
1 AGTCTGCTC-CACTGCAACTTCAGGA-GATAAGACTAGCATGCTG
*
1239515 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAG-ACGC--
1 AGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTAGCATGCTG
* * * * *
1239556 AATCTGCT-CTCTACAACTTCAGAGAGATAAGA-T-CCAATGTTTTG
1 AGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTAGC-ATG--CTG
* * * * *
1239600 A-TCTGCTCCACTGTAACTTCAGCGAGATAGGA-TTGTC-GGCTCT
1 AGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTAG-CATGCT-G
* * * * *
1239643 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTC
1 AGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTAG-CATGC-TG
* * *
1239688 AGTCTAC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTG
1 AGTCTGCTC-CACTGCAACTTCAGGA-GATAAGACTAGCATGCTG
1239732 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-G
1 AGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTAGCATGCTG
* *
1239774 A-TCTGCT-CTCTGTAACTTCAGAGAGATAAGA
1 AGTCTGCTCCACTGCAACTTCAG-GAGATAAGA
1239805 TCCAAGGTTT
Statistics
Matches: 233, Mismatches: 34, Indels: 50
0.74 0.11 0.16
Matches are distributed among these distances:
39 2 0.01
40 44 0.19
41 13 0.06
42 3 0.01
43 11 0.05
44 115 0.49
45 43 0.18
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
AGTCTGCTCCACTGCAACTTCAGGAGATAAGACTAGCATGCTG
Found at i:1239844 original size:44 final size:43
Alignment explanation
Indices: 1239787--1239892 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 43
1239777 TGCTCTCTGT
*
1239787 AACTTC-AGAGAGATAAGATCCA-AGGTTTTAATCTGCTCCACTGC
1 AACTTCAAG-GAGATAAGAT-CATAGGCTTTAATCT-CTCCACTGC
* * * *
1239831 AACTTTAAGGAGATAGGATTATCGGCTTTAATCTCTCCACTGC
1 AACTTCAAGGAGATAAGATCATAGGCTTTAATCTCTCCACTGC
*
1239874 AACTTCAGGGAGATAAGAT
1 AACTTCAAGGAGATAAGAT
1239893 TTGTCATCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 26 0.50
44 24 0.46
45 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (43 bp):
AACTTCAAGGAGATAAGATCATAGGCTTTAATCTCTCCACTGC
Found at i:1240018 original size:132 final size:132
Alignment explanation
Indices: 1239880--1240206 Score: 566
Period size: 132 Copynumber: 2.5 Consensus size: 132
1239870 CTGCAACTTC
* * * * ** *
1239880 AGGGAGATAAGATTTGTC-ATCTTCAACCTACTCTGCTGCTGCTGGGGGAGATAAGGCTTGGTGG
1 AGGGAGATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
1239944 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTG
65 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTG
1240009 CTT
130 CTT
1240012 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1240077 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGC
1240142 TT
131 TT
*
1240144 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTG
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
1240207 TTTCACCGGT
Statistics
Matches: 186, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
131 1 0.01
132 185 0.99
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:1240020 original size:44 final size:44
Alignment explanation
Indices: 1239972--1240194 Score: 164
Period size: 44 Copynumber: 5.1 Consensus size: 44
1239962 TATCTTGGAA
* *
1239972 AGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
1240016 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** *** * * *
1240060 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTACAGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
1240104 AGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
1240148 AGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTTACAGTCTTCAATCTGCTCCACTACTGCTTAGGG
1240192 AGA
1 AGA
1240195 CAAGGCTTGG
Statistics
Matches: 130, Mismatches: 43, Indels: 12
0.70 0.23 0.06
Matches are distributed among these distances:
42 6 0.05
43 4 0.03
44 112 0.86
45 4 0.03
46 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
AGATAAGATTTACAGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:1241452 original size:6 final size:6
Alignment explanation
Indices: 1241441--1241469 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1241431 GGCCTCTCCA
1241441 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1241470 ATCACTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Done.