Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 47 of 290
Found at i:15659447 original size:29 final size:30
Alignment explanation
Indices: 15659394--15659466 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
15659384 CATGTGACAA
15659394 AAAATTATAA-AAAAATAAATAAAAA-ATATT
1 AAAATT-TAATAAAAATAAATAAAAATAT-TT
*
15659424 AAAATTTAATAAAAA-ATATAAAAATATTT
1 AAAATTTAATAAAAATAAATAAAAATATTT
*
15659453 AAAATTTATTAAAA
1 AAAATTTAATAAAA
15659467 CTTAGAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAATTTAATAAAAATAAATAAAAATATTT
Found at i:15659452 original size:22 final size:21
Alignment explanation
Indices: 15659392--15659454 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
15659382 CACATGTGAC
* *
15659392 AAAAAATTATAAAAAAATAAAT
1 AAAAAA-TATAAAAAATTTAAT
*
15659414 AAAAAATAT-TAAAATTTAAT
1 AAAAAATATAAAAAATTTAAT
15659434 AAAAAATATAAAAATATTTAA
1 AAAAAATATAAAAA-ATTTAA
15659455 AATTTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 17 0.49
21 6 0.17
22 12 0.34
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATATAAAAAATTTAAT
Found at i:15659518 original size:20 final size:19
Alignment explanation
Indices: 15659404--15659518 Score: 67
Period size: 19 Copynumber: 6.2 Consensus size: 19
15659394 AAAATTATAA
*
15659404 AAAAATAAATAAAAAATAT
1 AAAAATATATAAAAAATAT
* *
15659423 TAAAATTTAATAAAAAATAT
1 AAAAATAT-ATAAAAAATAT
* **
15659443 AAAAATATTTAAAATTTAT
1 AAAAATATATAAAAAATAT
* * *
15659462 TAAAA-CT-T-AGAAATA-
1 AAAAATATATAAAAAATAT
* *** *
15659477 AAAAATACATAAATCGTAA
1 AAAAATATATAAAAAATAT
15659496 AAAAATATATAAAAAATAT
1 AAAAATATATAAAAAATAT
15659515 AAAA
1 AAAA
15659519 TGCATCAAAA
Statistics
Matches: 66, Mismatches: 25, Indels: 10
0.65 0.25 0.10
Matches are distributed among these distances:
15 4 0.06
16 4 0.06
17 2 0.03
18 4 0.06
19 35 0.53
20 17 0.26
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAATATATAAAAAATAT
Found at i:15659879 original size:28 final size:27
Alignment explanation
Indices: 15659832--15659886 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
15659822 TTATAATTTT
15659832 TTTCTAATTTTTTATAAAAATTAAATA
1 TTTCTAATTTTTTATAAAAATTAAATA
* * *
15659859 TTTCTTATATTTTTATTAAAATTTAATA
1 TTTCTAAT-TTTTTATAAAAATTAAATA
15659887 ATATAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTCTAATTTTTTATAAAAATTAAATA
Found at i:15660304 original size:29 final size:29
Alignment explanation
Indices: 15660256--15660320 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
15660246 TGCTTTAGCC
*
15660256 TTTTTATTCTTTTAAGTTGTATCA-GCTT
1 TTTTTTTTCTTTTAAGTTGTATCAGGCTT
*
15660284 TTTTTTTTC-TTTAAGCCTTGTTTCAGGCTT
1 TTTTTTTTCTTTTAAG--TTGTATCAGGCTT
15660314 TTTTTTT
1 TTTTTTT
15660321 ATCTGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 8 0.25
29 7 0.22
30 11 0.34
ACGTcount: A:0.12, C:0.12, G:0.11, T:0.65
Consensus pattern (29 bp):
TTTTTTTTCTTTTAAGTTGTATCAGGCTT
Found at i:15664565 original size:19 final size:19
Alignment explanation
Indices: 15664541--15664578 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
15664531 AACCTAAGGG
15664541 TAAAATAGTAAA-TAAATAA
1 TAAAAT-GTAAATTAAATAA
15664560 TAAAATGTAAATTAAATAA
1 TAAAATGTAAATTAAATAA
15664579 AACTTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
TAAAATGTAAATTAAATAA
Found at i:15664786 original size:24 final size:24
Alignment explanation
Indices: 15664754--15664802 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15664744 CCGAGGGTCA
15664754 ATTTGTAAAACTGTTAAATGTTAT
1 ATTTGTAAAACTGTTAAATGTTAT
15664778 ATTTGTAAAACTGTTAAATGTTAT
1 ATTTGTAAAACTGTTAAATGTTAT
15664802 A
1 A
15664803 GATTATGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (24 bp):
ATTTGTAAAACTGTTAAATGTTAT
Found at i:15669049 original size:73 final size:73
Alignment explanation
Indices: 15668953--15669136 Score: 199
Period size: 73 Copynumber: 2.5 Consensus size: 73
15668943 TTCAAAAATT
* * * * * *
15668953 ATTTTTAAAATAATACAAACTAAAAAAATTTGAATCAATATTTTAAATAATTACAGAGTGATAAA
1 ATTTTTAAAAAAATACAAACTAAAAAAATTTGAATCAATAGTTTAAAAAATGACAAAGTCATAAA
15669018 TTTAGAAA
66 TTTAGAAA
*
15669026 ATTTTTAAAAAAATGAC-AACTAAAAAATTTTGAATCAATAGTTTAAAAAATGACAAAGTCATAC
1 ATTTTTAAAAAAAT-ACAAACTAAAAAAATTTGAATCAATAGTTTAAAAAATGACAAAGTCATA-
* *
15669090 ATTTTGAAAAA
64 AATTT-AGAAA
* * * *
15669101 AGATTTTAAAAAATTTACAAACTAATAAATTTTGAA
1 A-TTTTTAAAAAA-ATACAAACTAAAAAAATTTGAA
15669137 AAAAAGATTA
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
73 53 0.57
74 6 0.06
75 5 0.05
76 12 0.13
77 17 0.18
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (73 bp):
ATTTTTAAAAAAATACAAACTAAAAAAATTTGAATCAATAGTTTAAAAAATGACAAAGTCATAAA
TTTAGAAA
Found at i:15669078 original size:37 final size:37
Alignment explanation
Indices: 15668955--15669136 Score: 120
Period size: 38 Copynumber: 4.8 Consensus size: 37
15668945 CAAAAATTAT
*
15668955 TTTTAAAATAAT-ACAAACTAAAAAAATTTGAATCAATA
1 TTTTAAAA-AATGAC-AACTAAAAAATTTTGAATCAATA
* * * * * *
15668993 TTTTAAATAATTACAGAGTGATAAATTTAGAA--AAT-
1 TTTTAAAAAATGACA-ACTAAAAAATTTTGAATCAATA
15669028 TTTTAAAAAAATGACAACTAAAAAATTTTGAATCAATA
1 TTTT-AAAAAATGACAACTAAAAAATTTTGAATCAATA
* * * * * ** *
15669066 GTTTAAAAAATGACAAAGTCATACATTTTGAAAAAAGA
1 TTTTAAAAAATGAC-AACTAAAAAATTTTGAATCAATA
* *
15669104 TTTTAAAAAATTTACAAACTAATAAATTTTGAA
1 TTTTAAAAAA-TGAC-AACTAAAAAATTTTGAA
15669137 AAAAAGATTA
Statistics
Matches: 111, Mismatches: 25, Indels: 15
0.74 0.17 0.10
Matches are distributed among these distances:
35 16 0.14
36 12 0.11
37 17 0.15
38 48 0.43
39 18 0.16
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (37 bp):
TTTTAAAAAATGACAACTAAAAAATTTTGAATCAATA
Found at i:15669113 original size:39 final size:40
Alignment explanation
Indices: 15669028--15669145 Score: 120
Period size: 39 Copynumber: 3.0 Consensus size: 40
15669018 TTTAGAAAAT
* * *
15669028 TTTTAAAAAAATGAC-AACTAAAAAATTTTGAATCAATAG-
1 TTTTAAAAAAATGACAAACTAATAAATTTTGAA-AAAAAGA
* * *
15669067 -TTT-AAAAAATGACAAAGTCATACATTTTG-AAAAAAGA
1 TTTTAAAAAAATGACAAACTAATAAATTTTGAAAAAAAGA
* *
15669104 TTTTAAAAAATTTACAAACTAATAAATTTTGAAAAAAAGA
1 TTTTAAAAAAATGACAAACTAATAAATTTTGAAAAAAAGA
15669144 TT
1 TT
15669146 AATAATAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
36 4 0.06
37 11 0.17
38 17 0.27
39 21 0.33
40 10 0.16
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (40 bp):
TTTTAAAAAAATGACAAACTAATAAATTTTGAAAAAAAGA
Found at i:15670282 original size:140 final size:140
Alignment explanation
Indices: 15670040--15670329 Score: 490
Period size: 140 Copynumber: 2.1 Consensus size: 140
15670030 TGACCTTGGG
* *
15670040 ACACGCCCGTGTTAGAGGCCGTGTTCGACCCTGTGCAACACTCTGACTTGCACACACAGCCAAGC
1 ACACGCCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTCTGACTTGCACACACAACCAAGC
* *
15670105 TACACACCTGTGTGCTAGGCCTTCTAGTTAATTAATTCAATTCGAAATTAGGTGTAGGTTTCACA
66 TACACACCTGTGTGCTAGGCCATCTAGTTAATTAATTCAATTCGAAATTAGGTGCAGGTTTCACA
*
15670170 TGACCAAGAC
131 CGACCAAGAC
*
15670180 ACACGTCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTCTGACTTGCACACACAACCAAGC
1 ACACGCCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTCTGACTTGCACACACAACCAAGC
* * * *
15670245 TACACGCCTGTGTGCTAGGCCATCTGGTTAATTAATTCAATTTGAAATTAGGTGCAGGTTTGACA
66 TACACACCTGTGTGCTAGGCCATCTAGTTAATTAATTCAATTCGAAATTAGGTGCAGGTTTCACA
15670310 CGACCAAGAC
131 CGACCAAGAC
15670320 ACACGCCCGT
1 ACACGCCCGT
15670330 CTGGCACACA
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (140 bp):
ACACGCCCGTGTTAGAGGCCGTGTTCGACCCCGTGCAACACTCTGACTTGCACACACAACCAAGC
TACACACCTGTGTGCTAGGCCATCTAGTTAATTAATTCAATTCGAAATTAGGTGCAGGTTTCACA
CGACCAAGAC
Found at i:15671722 original size:12 final size:11
Alignment explanation
Indices: 15671705--15671753 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
15671695 CAAAAATTTG
15671705 AAATAAATCATA
1 AAATAAAT-ATA
15671717 AAATAAATA-A
1 AAATAAATATA
*
15671727 AAATAAAAATA
1 AAATAAATATA
15671738 AAA-AATATATA
1 AAATAA-ATATA
15671749 AAATA
1 AAATA
15671754 TAAAGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 11 0.34
11 12 0.38
12 9 0.28
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (11 bp):
AAATAAATATA
Found at i:15671726 original size:16 final size:16
Alignment explanation
Indices: 15671705--15671753 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
15671695 CAAAAATTTG
*
15671705 AAATAAATCATAAAAT
1 AAATAAATAATAAAAT
15671721 AAATAAA-AATAAAAAT
1 AAATAAATAAT-AAAAT
15671737 AAA-AAATATATAAAAT
1 AAATAAATA-ATAAAAT
15671753 A
1 A
15671754 TAAAGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 5 0.17
16 22 0.76
17 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATAATAAAAT
Found at i:15673031 original size:13 final size:13
Alignment explanation
Indices: 15673009--15673041 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15672999 AATAGATTCA
15673009 AAAG-AAGAAAAT
1 AAAGAAAGAAAAT
*
15673021 AAATAAAGAAAAT
1 AAAGAAAGAAAAT
15673034 AAAGAAAG
1 AAAGAAAG
15673042 CCAAAAGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 3 0.17
13 15 0.83
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAGAAAGAAAAT
Found at i:15673504 original size:13 final size:13
Alignment explanation
Indices: 15673486--15673518 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
15673476 ATTTGATTTA
15673486 TTATTTTTTGGTT
1 TTATTTTTTGGTT
15673499 TTA-TTTTTGGTT
1 TTATTTTTTGGTT
15673511 TTGATTTT
1 TT-ATTTT
15673519 GGTGTAGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.61
13 4 0.22
14 3 0.17
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (13 bp):
TTATTTTTTGGTT
Found at i:15673505 original size:12 final size:13
Alignment explanation
Indices: 15673490--15673518 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15673480 GATTTATTAT
15673490 TTTTTGGTTTT-A
1 TTTTTGGTTTTGA
15673502 TTTTTGGTTTTGA
1 TTTTTGGTTTTGA
15673515 TTTT
1 TTTT
15673519 GGTGTAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.76
Consensus pattern (13 bp):
TTTTTGGTTTTGA
Found at i:15674913 original size:20 final size:20
Alignment explanation
Indices: 15674884--15674948 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
15674874 AGCACATATA
*
15674884 TTCATAAAATTTTAAAATTT
1 TTCATCAAATTTTAAAATTT
15674904 TTCATCAAATTTTAAAATTT
1 TTCATCAAATTTTAAAATTT
* *
15674924 TTCATCAAATTTTACAACTT
1 TTCATCAAATTTTAAAATTT
15674944 TTCAT
1 TTCAT
15674949 TTTAGTCCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATCAAATTTTAAAATTT
Found at i:15674915 original size:12 final size:12
Alignment explanation
Indices: 15674898--15674936 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
15674888 TAAAATTTTA
15674898 AAATTTTTCATC
1 AAATTTTTCATC
15674910 AAA-TTTT-A--
1 AAATTTTTCATC
15674918 AAATTTTTCATC
1 AAATTTTTCATC
15674930 AAATTTT
1 AAATTTT
15674937 ACAACTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 3 0.13
9 4 0.17
10 2 0.09
11 4 0.17
12 10 0.43
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATTTTTCATC
Found at i:15681176 original size:41 final size:41
Alignment explanation
Indices: 15681115--15681200 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
15681105 GCATTTAAAG
* * *
15681115 TAGGCAAATTCATCATTTAACAAGGCATACCATTGCATGCA
1 TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
15681156 TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
1 TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
15681197 TAGG
1 TAGG
15681201 TGGTTATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (41 bp):
TAGGCAAATTCACCACTTAACAAGGCATACCATTGCATACA
Found at i:15684958 original size:51 final size:52
Alignment explanation
Indices: 15684849--15685120 Score: 145
Period size: 52 Copynumber: 5.1 Consensus size: 52
15684839 CCTAAAAAAT
* * * *
15684849 ATTTTTTTTAACTAGTAAAAAGGGTGTTGGTCATCAATGTCCCAACACCTCA
1 ATTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
* * * * *
15684901 ATTTTTTTTAATTTGAAAAAAGGGTGTCGGTTATTAGTGTTCCAACACCCCA
1 ATTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
* * * * * * *
15684953 A-TTTTTTTAATTCTAG-AAAAGGGGTATCAGCCATCACTGTCCCAGCACCCTA
1 ATTTTTTTTAA-T-TAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
***** * * * *
15685005 AAAAAATTTAATCAGATAAAAA-GGTGTCAGCCATCAGTGTCCCAACACCCCAAAAAA
1 ATTTTTTTTAATTAGA-AAAAAGGGTGTCGGTCATCAATGTCCCAACACCCC-----A
* * * ** * **
15685062 ACTTTTTTTTAATCAGATAAAGGGGTGTCGACCATCAATATCATAACACCCCA
1 A-TTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
15685115 ATTTTT
1 ATTTTT
15685121 GTTCAATACT
Statistics
Matches: 165, Mismatches: 43, Indels: 24
0.71 0.19 0.10
Matches are distributed among these distances:
51 11 0.07
52 103 0.62
53 13 0.08
57 5 0.03
58 33 0.20
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (52 bp):
ATTTTTTTTAATTAGAAAAAAGGGTGTCGGTCATCAATGTCCCAACACCCCA
Found at i:15685089 original size:58 final size:56
Alignment explanation
Indices: 15684952--15685098 Score: 153
Period size: 52 Copynumber: 2.6 Consensus size: 56
15684942 CCAACACCCC
* * *
15684952 AATTTTTTTAATTCTAGA-AAAGGGGTATCAGCCATCACTGTCCCAGCACCCTAAAAA
1 AATTTTTTTAA-TC-AGATAAAGGGGTGTCAGCCATCACTGTCCCAACACCCCAAAAA
** *
15685009 AA----TTTAATCAGATAAAAAGGTGTCAGCCATCAGTGTCCCAACACCCCAAAAA
1 AATTTTTTTAATCAGATAAAGGGGTGTCAGCCATCACTGTCCCAACACCCCAAAAA
15685061 AACTTTTTTTTAATCAGATAAAGGGGTGTC-GACCATCA
1 AA--TTTTTTTAATCAGATAAAGGGGTGTCAG-CCATCA
15685099 ATATCATAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
51 3 0.04
52 37 0.50
53 5 0.07
57 3 0.04
58 26 0.35
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (56 bp):
AATTTTTTTAATCAGATAAAGGGGTGTCAGCCATCACTGTCCCAACACCCCAAAAA
Found at i:15685675 original size:7 final size:7
Alignment explanation
Indices: 15685665--15685693 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
15685655 TGATAATTGA
15685665 TTGATAG
1 TTGATAG
15685672 TTGATAG
1 TTGATAG
15685679 TTGATAG
1 TTGATAG
15685686 TTGATAG
1 TTGATAG
15685693 T
1 T
15685694 GGATTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (7 bp):
TTGATAG
Found at i:15690039 original size:22 final size:20
Alignment explanation
Indices: 15689988--15690039 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 20
15689978 GAACACAAGG
*
15689988 GAAGGAAAATAAAGAAGAAA
1 GAAGGAAAAAAAAGAAGAAA
**
15690008 GATAAAAAAAAATAAGAAGAAGA
1 GA-AGGAAAAAA-AAGAAGAA-A
15690031 GAAGGAAAA
1 GAAGGAAAA
15690040 TGTTTTTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 2 0.08
21 6 0.25
22 13 0.54
23 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (20 bp):
GAAGGAAAAAAAAGAAGAAA
Found at i:15692569 original size:22 final size:22
Alignment explanation
Indices: 15692519--15692572 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
15692509 AATATTAGAC
* *
15692519 AAAATAATTATATTTTTAAAGGA
1 AAAATAA-TAAATTTTTAAAGAA
15692542 AAAATAATAAATTTTTAAA-AA
1 AAAATAATAAATTTTTAAAGAA
15692563 AATAATAATA
1 AA-AATAATA
15692573 TGAACGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 18 0.64
23 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAATAATAAATTTTTAAAGAA
Found at i:15696670 original size:19 final size:19
Alignment explanation
Indices: 15696634--15696672 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15696624 ATCGTTTCCC
*
15696634 AAAAACAAAAGAAGAGAAA
1 AAAAACAAAAGAAAAGAAA
15696653 AAAAACAAACA-AAAAGAAA
1 AAAAACAAA-AGAAAAGAAA
15696672 A
1 A
15696673 CCCCTAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAAACAAAAGAAAAGAAA
Found at i:15704973 original size:40 final size:40
Alignment explanation
Indices: 15704906--15705112 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
15704896 CCTTCAGAGT
* *
15704906 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
15704945 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
15704985 TTAGCCCGGATATAGTAACTCGTACAAATTCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
15705025 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
15705064 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
15705104 TTAGCCCGG
1 TTAGCCCGG
15705113 TTATCAATCC
Statistics
Matches: 153, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 40 0.26
40 112 0.73
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:15706310 original size:41 final size:42
Alignment explanation
Indices: 15706256--15706350 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 42
15706246 TTTTTCCTTC
15706256 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGC-TT
1 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
15706297 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
1 TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
15706339 TTTTTCTTTCTT
1 TTTTTCTTTCTT
15706351 TTTTTTTCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 39 0.74
42 14 0.26
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (42 bp):
TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
Found at i:15709001 original size:127 final size:127
Alignment explanation
Indices: 15708775--15709029 Score: 465
Period size: 127 Copynumber: 2.0 Consensus size: 127
15708765 CCAGAAATCG
*
15708775 AGAATATAATCCAGAAGAAAATAATAAAGATAATCCAGAAAATCCCTCAGAGAAAACTAGAAGGA
1 AGAATATAATCCAGAAGAAAATAATAAAGATAATCCAGAAAATCCCTCAGAGAAAACCAGAAGGA
**
15708840 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCGTATATATA
66 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
* *
15708902 AGAATATAATCTAGAAGAAAATAATAAAGATAATCTAGAAAATCCCTCAGAGAAAACCAGAAGGA
1 AGAATATAATCCAGAAGAAAATAATAAAGATAATCCAGAAAATCCCTCAGAGAAAACCAGAAGGA
15708967 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
66 AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
15709029 A
1 A
15709030 ATCATAATCA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (127 bp):
AGAATATAATCCAGAAGAAAATAATAAAGATAATCCAGAAAATCCCTCAGAGAAAACCAGAAGGA
AACTATTGTCTATACGCTCTAGAATTCCTCATAACAAAGATAACATAATTCCCACATATATA
Found at i:15709975 original size:46 final size:46
Alignment explanation
Indices: 15709882--15710003 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
15709872 TAACCATGTC
* * *
15709882 GATGCATGTCCTAGACATGTCTTACACTAGCTAACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACATCTCAAGGCT
** * *
15709928 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACATCTCAAGGCT
* *
15709974 GATGCCATGTCCCAAACACGGTCTTACACT
1 GATG-CATGTCCCAGACA-TGTCTTACACT
15710004 GGCACACAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 43 0.66
47 12 0.18
48 10 0.15
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCAACATCTCAAGGCT
Found at i:15714435 original size:47 final size:47
Alignment explanation
Indices: 15713809--15714427 Score: 1055
Period size: 47 Copynumber: 13.1 Consensus size: 47
15713799 TATTTGAATA
* * *
15713809 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
15713856 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15713905 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15713952 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15713999 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15714046 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15714093 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15714140 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15714187 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
15714234 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
15714281 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTAATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
** * *
15714328 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
15714375 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
15714422 GATGTG
1 AATGTG
15714428 GAAGTGTATA
Statistics
Matches: 556, Mismatches: 12, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 510 0.92
49 44 0.08
50 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:15718222 original size:26 final size:26
Alignment explanation
Indices: 15718193--15718248 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
15718183 TGGTACAAAT
15718193 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15718219 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15718245 TGAT
1 TGAT
15718249 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15724477 original size:40 final size:40
Alignment explanation
Indices: 15724126--15724468 Score: 580
Period size: 40 Copynumber: 8.6 Consensus size: 40
15724116 CCAGCATGAT
* * * * *
15724126 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCAC-AA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
15724165 CTGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 -TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15724206 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15724246 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15724286 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15724326 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15724366 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
15724406 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
15724446 TGCTCTTCGGGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
15724469 CATTTCACTC
Statistics
Matches: 290, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 288 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:15739755 original size:26 final size:26
Alignment explanation
Indices: 15739726--15739833 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
15739716 TGGTACAAAT
15739726 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
15739752 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15739778 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15739804 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15739830 TGAT
1 TGAT
15739834 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15743814 original size:17 final size:17
Alignment explanation
Indices: 15743794--15743867 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 17
15743784 AAATGGCAGC
* *
15743794 TCATGCAAAATAATAAT
1 TCATACAAAATAACAAT
** * *
15743811 TCATATGAAATATCAGT
1 TCATACAAAATAACAAT
**
15743828 TCATACCGAATAACAAT
1 TCATACAAAATAACAAT
*
15743845 TCATGCAAAATAACAAT
1 TCATACAAAATAACAAT
15743862 TCATAC
1 TCATAC
15743868 TCCATCATAA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (17 bp):
TCATACAAAATAACAAT
Found at i:15743849 original size:51 final size:51
Alignment explanation
Indices: 15743758--15743866 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
15743748 CCAAACATTT
* ** * *
15743758 ATTCATATGAAATAACAGTTCTTACCAAATGGCAGCTCATGCAAAATAATA
1 ATTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACA
* * *
15743809 ATTCATATGAAATATCAGTTCATACCGAATAACAATTCATGCAAAATAACA
1 ATTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACA
15743860 ATTCATA
1 ATTCATA
15743867 CTCCATCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (51 bp):
ATTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAACA
Found at i:15743951 original size:22 final size:23
Alignment explanation
Indices: 15743925--15743972 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15743915 TTTTTATGAA
15743925 ACATAT-AGGGGACTTTATCACC
1 ACATATAAGGGGACTTTATCACC
* * *
15743947 ACATATAAGTGGATTTTATTACC
1 ACATATAAGGGGACTTTATCACC
15743970 ACA
1 ACA
15743973 CATTGAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (23 bp):
ACATATAAGGGGACTTTATCACC
Found at i:15744516 original size:20 final size:20
Alignment explanation
Indices: 15744493--15744536 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
15744483 AAAATCTCAC
* *
15744493 AATACACAGTTCGCCATATT
1 AATACACAGATCACCATATT
15744513 AAT--ACAGATCACCATATT
1 AATACACAGATCACCATATT
15744531 AATACA
1 AATACA
15744537 TATTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
18 16 0.80
20 4 0.20
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (20 bp):
AATACACAGATCACCATATT
Found at i:15747125 original size:34 final size:34
Alignment explanation
Indices: 15747082--15747150 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
15747072 GTAAGTTTAG
*
15747082 TTTCGTTATACGAACAAATTAAGCATGTAATGCT
1 TTTCGTTATACGAACAAACTAAGCATGTAATGCT
**
15747116 TTTCGTTATACGAACTTACTAAGCATGTAATGCT
1 TTTCGTTATACGAACAAACTAAGCATGTAATGCT
15747150 T
1 T
15747151 ACTCCGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (34 bp):
TTTCGTTATACGAACAAACTAAGCATGTAATGCT
Found at i:15751538 original size:20 final size:20
Alignment explanation
Indices: 15751513--15751578 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
15751503 TCCAAAGCAT
15751513 GACCTAAGACAACCTTTTCA
1 GACCTAAGACAACCTTTTCA
* * *
15751533 GACCTAAGA-GA-GTTTT-G
1 GACCTAAGACAACCTTTTCA
*
15751550 GCCCTAAGACAACCTTTTCA
1 GACCTAAGACAACCTTTTCA
15751570 GACCTAAGA
1 GACCTAAGA
15751579 GAGTTTTGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 8 0.23
18 5 0.14
19 5 0.14
20 17 0.49
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
GACCTAAGACAACCTTTTCA
Found at i:15751565 original size:37 final size:37
Alignment explanation
Indices: 15751515--15751589 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
15751505 CAAAGCATGA
15751515 CCTAAGACAACCTTTTCAGACCTAAGAGAGTTTTGGC
1 CCTAAGACAACCTTTTCAGACCTAAGAGAGTTTTGGC
15751552 CCTAAGACAACCTTTTCAGACCTAAGAGAGTTTTGGC
1 CCTAAGACAACCTTTTCAGACCTAAGAGAGTTTTGGC
15751589 C
1 C
15751590 AAAGTCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (37 bp):
CCTAAGACAACCTTTTCAGACCTAAGAGAGTTTTGGC
Found at i:15756081 original size:25 final size:25
Alignment explanation
Indices: 15756052--15756099 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15756042 TTATAATATG
** *
15756052 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
15756077 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
15756100 GTTTAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:15756268 original size:25 final size:25
Alignment explanation
Indices: 15756230--15756324 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
15756220 GAGGAAATGC
* * *
15756230 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
15756255 AAAGGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
15756280 AAAAGAGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
15756305 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
15756325 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:15756284 original size:50 final size:48
Alignment explanation
Indices: 15756230--15756349 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 48
15756220 GAGGAAATGC
* *
15756230 AAAAGGGCTATGCCCCAGTTTACCGAAAGGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAG-TTAT-A
* * * * *
15756280 AAAAGAGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCTAGTTATT
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTATA
*
15756328 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
15756350 ATATGATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
48 5 0.09
49 10 0.17
50 43 0.74
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTATA
Found at i:15756337 original size:24 final size:24
Alignment explanation
Indices: 15756229--15756337 Score: 112
Period size: 25 Copynumber: 4.4 Consensus size: 24
15756219 GGAGGAAATG
* * *
15756229 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAAGGCTTTGCCCCAGTTTAT
**
15756253 CGAAAGGGGCTTTGCCCCAGTTTAT
1 C-AAAAAGGCTTTGCCCCAGTTTAT
15756278 CAAAAAGAGCTTTGCCCCAGTTTAT
1 CAAAAAG-GCTTTGCCCCAGTTTAT
*
15756303 CAAAAAGGGCTTTGCCCTAG-TTAT
1 CAAAAA-GGCTTTGCCCCAGTTTAT
*
15756327 TAAAAGAGGCT
1 CAAAA-AGGCT
15756338 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
24 17 0.23
25 56 0.76
26 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTTAT
Found at i:15756584 original size:31 final size:31
Alignment explanation
Indices: 15756546--15756660 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
15756536 CGTTTGTAGT
*
15756546 AAAGGCTTCGGCGCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
15756577 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
15756608 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
15756639 AAATGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
15756661 CTGAGATTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
30 4 0.05
31 72 0.95
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:15759931 original size:37 final size:37
Alignment explanation
Indices: 15759881--15759959 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
15759871 TTATTACGAA
* *
15759881 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
15759918 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
15759955 GTCTT
1 GTCTT
15759960 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:15760156 original size:47 final size:47
Alignment explanation
Indices: 15760080--15760198 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
15760070 CTTCGGGACT
* * *
15760080 TATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
15760127 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
15760174 TATCACATATATATACATTCACATC
1 TATCACATATATACACTTTCACATC
15760199 ACAATTATCC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:15761182 original size:260 final size:260
Alignment explanation
Indices: 15760721--15761240 Score: 1004
Period size: 260 Copynumber: 2.0 Consensus size: 260
15760711 CTAATCTGAC
* *
15760721 CACTCTTCACTACGAATCAGATTTCTCATTTTACAGAATTCAAAATGTGTTGTATTTGATTTCAT
1 CACTCTTCACTACGAATCAAATTTATCATTTTACAGAATTCAAAATGTGTTGTATTTGATTTCAT
*
15760786 TTGAAACTAGACTCATTAAGGAGTCTAAGCATATAAATTTTATCTTATAACCATTTTTGTACAAT
66 TTGAAACTAGACTCATTAAGGAGTCTAAGAATATAAATTTTATCTTATAACCATTTTTGTACAAT
15760851 TTATAATGATTTTCTAAAAACAGAACAGAGGATTACAGTGTCATTCTGCGCTGTCTCACACAACT
131 TTATAATGATTTTCTAAAAACAGAACAGAGGATTACAGTGTCATTCTGCGCTGTCTCACACAACT
15760916 TTAAGTATCTCATTATCGGAAATTCCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
196 TTAAGTATCTCATTATCGGAAATTCCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
15760981 CACTCTTCACTACGAATCAAATTTATCATTTTACAGAATTCAAAATGTGTTGTATTTGATTTCAT
1 CACTCTTCACTACGAATCAAATTTATCATTTTACAGAATTCAAAATGTGTTGTATTTGATTTCAT
*
15761046 TTGAAACTAGACTCATTAAGGAGTCTCAGAATATAAATTTTATCTTATAACCATTTTTGTACAAT
66 TTGAAACTAGACTCATTAAGGAGTCTAAGAATATAAATTTTATCTTATAACCATTTTTGTACAAT
15761111 TTATAATGATTTTCTAAAAACAGAACAGAGGATTACAGTGTCATTCTGCGCTGTCTCACACAACT
131 TTATAATGATTTTCTAAAAACAGAACAGAGGATTACAGTGTCATTCTGCGCTGTCTCACACAACT
15761176 TTAAGTATCTCATTATCGGAAATTCCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
196 TTAAGTATCTCATTATCGGAAATTCCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
15761241 TAAGCTTTAA
Statistics
Matches: 256, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
260 256 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (260 bp):
CACTCTTCACTACGAATCAAATTTATCATTTTACAGAATTCAAAATGTGTTGTATTTGATTTCAT
TTGAAACTAGACTCATTAAGGAGTCTAAGAATATAAATTTTATCTTATAACCATTTTTGTACAAT
TTATAATGATTTTCTAAAAACAGAACAGAGGATTACAGTGTCATTCTGCGCTGTCTCACACAACT
TTAAGTATCTCATTATCGGAAATTCCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
Found at i:15763102 original size:14 final size:16
Alignment explanation
Indices: 15763067--15763103 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15763057 AATTTTAATT
15763067 ATTATTATGAGATAAA
1 ATTATTATGAGATAAA
*
15763083 ATTATTATTAGA-AAA
1 ATTATTATGAGATAAA
15763098 A-TATTA
1 ATTATTA
15763104 CTGTATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTATTATGAGATAAA
Found at i:15765194 original size:25 final size:25
Alignment explanation
Indices: 15765165--15765212 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15765155 TTATAATATG
** *
15765165 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
15765190 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
15765213 GTTTAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:15765438 original size:25 final size:25
Alignment explanation
Indices: 15765343--15765434 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
15765333 GAGGAAGTGC
* * *
15765343 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAATTTATCA
15765368 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAATTTATCA
* *
15765393 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAATTTATCA
15765418 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
15765435 GTTTTTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAATTTATCA
Found at i:15765697 original size:31 final size:31
Alignment explanation
Indices: 15765659--15765773 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
15765649 CGTTTGCAGT
*
15765659 AAAGGCTTCGGCGCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
15765690 AAAGGCTTCGGCCTAGTGTTATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
15765721 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
15765752 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
15765774 CTGAGATTGA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 4 0.05
31 71 0.95
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:15782584 original size:51 final size:51
Alignment explanation
Indices: 15782508--15782609 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
15782498 ATGACCCAAG
*
15782508 AAGCTAACCTCTCTTAACCAGAACTCTCACTTACTGAACTTAGCATATAAC
1 AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAAC
15782559 AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAAC
1 AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAAC
15782610 TGCTTATCCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.26
Consensus pattern (51 bp):
AAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAAC
Found at i:15786686 original size:80 final size:80
Alignment explanation
Indices: 15786553--15786857 Score: 574
Period size: 80 Copynumber: 3.8 Consensus size: 80
15786543 AACACATTTA
* * * *
15786553 CCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
15786618 CATCTCGCATAATTG
66 CATCTCGCATAATTG
15786633 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
15786698 CATCTCGCATAATTG
66 CATCTCGCATAATTG
15786713 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
15786778 CATCTCGCATAATTG
66 CATCTCGCATAATTG
15786793 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
15786858 TCCAATGCTC
Statistics
Matches: 221, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 221 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (80 bp):
CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
CATCTCGCATAATTG
Found at i:15786858 original size:40 final size:40
Alignment explanation
Indices: 15786553--15786857 Score: 475
Period size: 40 Copynumber: 7.6 Consensus size: 40
15786543 AACACATTTA
* *
15786553 CCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTG
1 CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
* *
15786593 CCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
* *
15786633 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
* *
15786673 CCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
* *
15786713 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
* *
15786753 CCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
* *
15786793 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
*
15786833 CCTTCGGGTCTTAGCCCGGATATAT
1 CCTTCGGGTCTTAGCCCGGACATAT
15786858 TCCAATGCTC
Statistics
Matches: 239, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 239 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAATTG
Found at i:15789321 original size:25 final size:25
Alignment explanation
Indices: 15789287--15789343 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
15789277 TCATCTTTGG
*
15789287 AACTGATCAATCTATTATTTATTCT
1 AACTAATCAATCTATTATTTATTCT
15789312 AACTAATCAATCTATTATTTATTCT
1 AACTAATCAATCTATTATTTATTCT
15789337 AACTAAT
1 AACTAAT
15789344 TGTCCTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.46
Consensus pattern (25 bp):
AACTAATCAATCTATTATTTATTCT
Found at i:15792433 original size:25 final size:25
Alignment explanation
Indices: 15792399--15792455 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
15792389 TCATCTTTGG
*
15792399 AACTGATCAATCTATTATTTATTCT
1 AACTAATCAATCTATTATTTATTCT
15792424 AACTAATCAATCTATTATTTATTCT
1 AACTAATCAATCTATTATTTATTCT
15792449 AACTAAT
1 AACTAAT
15792456 TGTCCTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.46
Consensus pattern (25 bp):
AACTAATCAATCTATTATTTATTCT
Found at i:15796471 original size:19 final size:18
Alignment explanation
Indices: 15796458--15796535 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 18
15796448 CTTAAAATAA
15796458 ATAAAAATATTT-AAATT
1 ATAAAAATATTTAAAATT
*
15796475 ATAAAAATAATTAAAATCT
1 ATAAAAATATTTAAAAT-T
15796494 ATAAAAATATTAATACAAATT
1 ATAAAAATATT--TA-AAATT
* * *
15796515 CTAAAAATATTAAAAAAT
1 ATAAAAATATTTAAAATT
15796533 ATA
1 ATA
15796536 TAAACAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 11 0.22
18 10 0.20
19 12 0.24
21 13 0.26
22 4 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAAAATATTTAAAATT
Found at i:15796481 original size:18 final size:18
Alignment explanation
Indices: 15796458--15796506 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
15796448 CTTAAAATAA
*
15796458 ATAAAAATATTTAAAT-T
1 ATAAAAATATTAAAATCT
15796475 ATAAAAATAATTAAAATCT
1 ATAAAAAT-ATTAAAATCT
15796494 ATAAAAATATTAA
1 ATAAAAATATTAA
15796507 TACAAATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 8 0.28
18 12 0.41
19 9 0.31
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAAATATTAAAATCT
Found at i:15801285 original size:47 final size:48
Alignment explanation
Indices: 15801226--15801324 Score: 175
Period size: 47 Copynumber: 2.1 Consensus size: 48
15801216 CATTCATAAG
*
15801226 CAAA-AAATTTAATCAATAGTATAAAGTATTTCAAAAATTAAATAGCA
1 CAAACAAATTTAATCAATAGTATAAAGTATTTCAAAAAGTAAATAGCA
15801273 CAAACAAA-TTAATCAATAGTATAAAGTATTTCAAAAAGTAAATAGCA
1 CAAACAAATTTAATCAATAGTATAAAGTATTTCAAAAAGTAAATAGCA
15801320 CAAAC
1 CAAAC
15801325 CAATAACTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 47 0.94
48 3 0.06
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (48 bp):
CAAACAAATTTAATCAATAGTATAAAGTATTTCAAAAAGTAAATAGCA
Found at i:15802842 original size:67 final size:67
Alignment explanation
Indices: 15802764--15802896 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
15802754 GATGGAATGG
15802764 AGTGGATGCTTTAAATGTGTTATGAACAATTATGAGTTAAACTAAGGGTTGCTAAATTACCATTG
1 AGTGGATGCTTTAAATGTGTTATGAACAATTATGAGTTAAACTAAGGGTTGCTAAATTACCATTG
15802829 TT
66 TT
*
15802831 AGTGGATGCTTTAAATGTGTTTTGAACAATTATGAGTTAAACTAAGGGTTGCTAAATTACCATTG
1 AGTGGATGCTTTAAATGTGTTATGAACAATTATGAGTTAAACTAAGGGTTGCTAAATTACCATTG
15802896 T
66 T
15802897 CATTGCCGAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (67 bp):
AGTGGATGCTTTAAATGTGTTATGAACAATTATGAGTTAAACTAAGGGTTGCTAAATTACCATTG
TT
Found at i:15803344 original size:27 final size:27
Alignment explanation
Indices: 15803310--15803487 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
15803300 TCAACTGTAC
15803310 AGCACTAAGTGTGCGATATGACTATGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
15803337 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATATGACTATGT
* *
15803363 ATGCACTAAGTGTGCGAAATGA-TCATGC
1 A-GCACTAAGTGTGCGATATGACT-ATGT
* *
15803391 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TATGACTATGT
* * *
15803419 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATATGACTATGT
* * *
15803446 GGCACTAAGTGTGCGAGT-TGATTATAT
1 AGCACTAAGTGTGCGA-TATGACTATGT
*
15803473 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15803488 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 22 0.17
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATATGACTATGT
Found at i:15803425 original size:82 final size:81
Alignment explanation
Indices: 15803311--15803461 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
15803301 CAACTGTACA
* *
15803311 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
15803375 TGCGAAATGATCATGCG
65 TGCGAAATGATCATGCG
* ** *
15803392 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
15803457 TGCGA
65 TGCGA
15803462 GTTGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGATCATGCG
Found at i:15803478 original size:82 final size:81
Alignment explanation
Indices: 15803307--15803487 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
15803297 GATTCAACTG
* *
15803307 TACAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15803372 GTGTGCGAAATGATCA
66 GTGTGCGAAATGATCA
* * * ** *
15803388 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
** *
15803452 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAAATGATCA
* *
15803470 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15803488 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAAATGATCA
Found at i:15813871 original size:120 final size:120
Alignment explanation
Indices: 15813644--15813884 Score: 304
Period size: 120 Copynumber: 2.0 Consensus size: 120
15813634 ACAATAAACC
* * ** * *
15813644 TTGGGTAAAATTACCCCATAAACCCTTTTTTTCTTTCCTTACTAAAAACTAATACTTTATAGAAT
1 TTGGGAAAAATCACCCCATAAACCCTTTCCTTCTTTCATTACTAAAAACTAATACTTTATACAAT
* ** **
15813709 TAACCACTTAATTTGACTTTTCTTGCAACTTTGTCCACAGCCTAATTTAATAAAA
66 TAACCACTCAATTTGACTTTTCTTGCAAAATAATCCACAGCCTAATTTAATAAAA
* * * *
15813764 TTGGGAAAAATCACCTCATAAACCCTTTCCTTCTTTTATTACTAAAAA-TCAGTACTTTATACTA
1 TTGGGAAAAATCACCCCATAAACCCTTTCCTTCTTTCATTACTAAAAACT-AATACTTTATACAA
* * *
15813828 TTAACCACTCAATTTGACTTTTCTTGCAAAATAATCTATAGCCTAATTTAATGAAA
65 TTAACCACTCAATTTGACTTTTCTTGCAAAATAATCCACAGCCTAATTTAATAAAA
15813884 T
1 T
15813885 CCTTTATCTA
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
119 1 0.01
120 101 0.99
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (120 bp):
TTGGGAAAAATCACCCCATAAACCCTTTCCTTCTTTCATTACTAAAAACTAATACTTTATACAAT
TAACCACTCAATTTGACTTTTCTTGCAAAATAATCCACAGCCTAATTTAATAAAA
Found at i:15815869 original size:28 final size:28
Alignment explanation
Indices: 15815832--15815885 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
15815822 ACTCTGGATG
15815832 TTAGCACGTCCGGAGGTGGTCAAGTTGT
1 TTAGCACGTCCGGAGGTGGTCAAGTTGT
* * *
15815860 TTAGTACGTCTGGAGTTGGTCAAGTT
1 TTAGCACGTCCGGAGGTGGTCAAGTT
15815886 TTTGGTGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (28 bp):
TTAGCACGTCCGGAGGTGGTCAAGTTGT
Found at i:15817204 original size:29 final size:29
Alignment explanation
Indices: 15817171--15817230 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
15817161 GTAAATTTAG
15817171 GGAAAGAGACAACAGTAGATAAATAGAAT
1 GGAAAGAGACAACAGTAGATAAATAGAAT
* *
15817200 GGAAAGAGACAACTGTAGATAAGTAGAAT
1 GGAAAGAGACAACAGTAGATAAATAGAAT
15817229 GG
1 GG
15817231 CACAACGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.50, C:0.07, G:0.28, T:0.15
Consensus pattern (29 bp):
GGAAAGAGACAACAGTAGATAAATAGAAT
Found at i:15819596 original size:29 final size:29
Alignment explanation
Indices: 15819555--15819612 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
15819545 AAGCATTTTC
15819555 ACTAAAAACCACTTAGTAAAAGTTATTCA
1 ACTAAAAACCACTTAGTAAAAGTTATTCA
* *
15819584 ACTAAAAATCACTTAGTAAAAGTTGTTCA
1 ACTAAAAACCACTTAGTAAAAGTTATTCA
15819613 TTACACCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (29 bp):
ACTAAAAACCACTTAGTAAAAGTTATTCA
Found at i:15826157 original size:17 final size:19
Alignment explanation
Indices: 15826130--15826166 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
15826120 TTAGTATTCT
15826130 TACCAAAAGTTCAT-CTCA
1 TACCAAAAGTTCATACTCA
15826148 TACC-AAAGTTCATACTCA
1 TACCAAAAGTTCATACTCA
15826166 T
1 T
15826167 GGGTTTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (19 bp):
TACCAAAAGTTCATACTCA
Found at i:15831715 original size:23 final size:24
Alignment explanation
Indices: 15831677--15831721 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
15831667 TTTAAATTCA
*
15831677 GTTTTAATTATCTTTT-TTCTTGG
1 GTTTTAATTATATTTTGTTCTTGG
*
15831700 GTTTTAATTTTATTTTGTTCTT
1 GTTTTAATTATATTTTGTTCTT
15831722 TATTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.13, C:0.07, G:0.11, T:0.69
Consensus pattern (24 bp):
GTTTTAATTATATTTTGTTCTTGG
Found at i:15835711 original size:18 final size:19
Alignment explanation
Indices: 15835669--15835712 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
15835659 CCGGAAAATA
*
15835669 ATTTTTGAAAAATGATTTAT
1 ATTTTTGAAAAA-GATTAAT
*
15835689 TTTTTTGAAAAA-ATTAAT
1 ATTTTTGAAAAAGATTAAT
15835707 ATTTTT
1 ATTTTT
15835713 TCGTGTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTTTTGAAAAAGATTAAT
Found at i:15836248 original size:22 final size:22
Alignment explanation
Indices: 15836204--15836263 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
15836194 TTAAAATAAA
*
15836204 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
15836224 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
15836246 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
15836264 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:15836352 original size:5 final size:6
Alignment explanation
Indices: 15836336--15836360 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15836326 TAAATATTTT
15836336 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
15836361 TATTATTAAT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:15841173 original size:21 final size:21
Alignment explanation
Indices: 15841147--15841199 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
15841137 AGCAGTGGCG
*
15841147 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
15841168 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
15841189 GTGAGATTAGA
1 GTGAGATTAGA
15841200 AACAGCGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:15844306 original size:45 final size:45
Alignment explanation
Indices: 15844252--15844375 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 45
15844242 CATTTCATCG
*
15844252 GCATTATAGCCTGCTAGGCTCGAAA-GCCTGAATAGTATCTCACCA
1 GCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCA
* * *
15844297 GCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCACCG
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCA
* *
15844342 GCATAATAGCTTGCTAGGCTCAAAGGCCCGAATA
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
15844376 TAATACCAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
44 3 0.04
45 68 0.96
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (45 bp):
GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCA
Found at i:15844424 original size:38 final size:37
Alignment explanation
Indices: 15844368--15844527 Score: 203
Period size: 38 Copynumber: 4.2 Consensus size: 37
15844358 GGCTCAAAGG
*
15844368 CCCGAATATAATACCAGCACTAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCA-TAAGCCTGCGGGATTTAA
* *
15844406 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCA-TAAGCCTGCGGGATTTAA
* *
15844444 CCCGGATATATTACCAGCATGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCAT-AAGCCTGCGGGATTTAA
* **
15844482 CCCGGATATAATTCCAGCATATAGCCTGCGGTCTTTAA
1 CCCGGATATAATACCAGCATA-AGCCTGCGGGATTTAA
*
15844520 GCCGGATA
1 CCCGGATA
15844528 CAAATATCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 106 0.99
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (37 bp):
CCCGGATATAATACCAGCATAAGCCTGCGGGATTTAA
Found at i:15844905 original size:43 final size:44
Alignment explanation
Indices: 15844797--15844931 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
15844787 ACATAACATT
*
15844797 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
15844843 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* *
15844885 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
15844929 TCA
1 TCA
15844932 CATTTCGATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.45
44 10 0.13
45 30 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:15857453 original size:43 final size:43
Alignment explanation
Indices: 15857311--15857481 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
15857301 CATATAGCTC
* * *
15857311 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * * * *
15857352 ATATCATTGCCACTGTCCTAGAC-TGGGTTTTACATGTAATCGATTA
1 ATA-CAATGCCAATGTCCCAGACAT-GGTCTTACATGTAATC-A-CA
* * *
15857398 AT--GATGCAAATGTCCCAGACATGGTCTTACACGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* *
15857439 ATACAATGCCAATGTCCCAAACATGGTCTTACATGTAACCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
15857482 TCTCAGTAAC
Statistics
Matches: 100, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 6 0.06
42 8 0.08
43 82 0.82
44 2 0.02
46 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:15870912 original size:189 final size:189
Alignment explanation
Indices: 15870592--15870967 Score: 734
Period size: 189 Copynumber: 2.0 Consensus size: 189
15870582 CAACTCGAAA
15870592 ATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATTTATTTTTTTCTAGAAT
1 ATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATTTATTTTTTTCTAGAAT
15870657 TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACA
66 TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACA
*
15870722 CTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCCATACTGATGCC
131 CTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATGCC
15870781 ATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATTTATTTTTTTCTAGAAT
1 ATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATTTATTTTTTTCTAGAAT
*
15870846 TTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACA
66 TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACA
15870911 CTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATG
131 CTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATG
15870968 ACGTTTGTTT
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 185 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (189 bp):
ATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATTTATTTTTTTCTAGAAT
TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACA
CTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATGCC
Found at i:15872087 original size:93 final size:93
Alignment explanation
Indices: 15871928--15872112 Score: 361
Period size: 93 Copynumber: 2.0 Consensus size: 93
15871918 CATATCCCCG
15871928 TATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGT
1 TATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGT
15871993 ACCTTCGGGATTTAACCGGATATAGCTA
66 ACCTTCGGGATTTAACCGGATATAGCTA
*
15872021 TATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTTATTACCAAATCACGT
1 TATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGT
15872086 ACCTTCGGGATTTAACCGGATATAGCT
66 ACCTTCGGGATTTAACCGGATATAGCT
15872113 CCTCGTTCAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (93 bp):
TATTGGGATGTTTTTCGAGTATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGT
ACCTTCGGGATTTAACCGGATATAGCTA
Found at i:15872212 original size:40 final size:40
Alignment explanation
Indices: 15872122--15872344 Score: 220
Period size: 40 Copynumber: 5.6 Consensus size: 40
15872112 TCCTCGTTCA
* * * * *
15872122 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
15872161 AATGCCTTCGGGA-TGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACT-TAACCCGGATTTAATAACTCGCACG
*
15872201 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
15872241 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
15872281 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
15872321 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15872345 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 35 0.22
40 112 0.72
41 9 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:15872353 original size:41 final size:41
Alignment explanation
Indices: 15872276--15872353 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15872266 TTAGTATCTC
* * *
15872276 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15872317 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15872354 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:15878287 original size:68 final size:64
Alignment explanation
Indices: 15878048--15878302 Score: 183
Period size: 68 Copynumber: 3.9 Consensus size: 64
15878038 AGTTCGGCTT
* * * * * * * * *
15878048 TCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTC
1 TCTTGTTCACATGATGTACACATAGCACCACACATGCGACCTAGCTACATATATCTCGTAGCTC
* * * * * *
15878111 TCTTG-TCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCTCGTAG
1 TCTTGTTC-ACATGATG---TACACATAGCACCACACATGCGACCTAGCTACATATATCTCGTAG
15878175 CTC
62 CTC
* * * * * *
15878178 TCTTGTTTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAG
1 TCTTGTTCACATGATGTACACATAGCACCACACATGCGACCTAGCTACAT-AT-A--TCTCGTAG
15878243 CTC
62 CTC
* * *
15878246 TCTTGTTCACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATACTATCT
1 TCTTGTTCACATGATGTACACAT-AGCACCACACATGCGACCTAGCTACATA-TATCT
15878303 GTATCATCCA
Statistics
Matches: 155, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 13 0.08
64 28 0.18
65 5 0.03
66 25 0.16
67 31 0.20
68 52 0.34
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (64 bp):
TCTTGTTCACATGATGTACACATAGCACCACACATGCGACCTAGCTACATATATCTCGTAGCTC
Found at i:15881364 original size:19 final size:20
Alignment explanation
Indices: 15881328--15881373 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
15881318 GTATCATACA
15881328 CCCGTGTGGTACGTGGCCGG
1 CCCGTGTGGTACGTGGCCGG
15881348 CCCGTGTGGTA-GTGGCCGG
1 CCCGTGTGGTACGTGGCCGG
15881367 CCCGTGT
1 CCCGTGT
15881374 TTGTCGCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.04, C:0.30, G:0.43, T:0.22
Consensus pattern (20 bp):
CCCGTGTGGTACGTGGCCGG
Found at i:15893129 original size:40 final size:40
Alignment explanation
Indices: 15893069--15893149 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
15893059 CAAGTAATTC
* * *
15893069 CTGGTGTGTGGTTCTGTATTCCAGAAAAGTTCTGGAAGAG
1 CTGGCGTGTGGTTCTGTATTCCAAAAAAGTTCTAGAAGAG
*
15893109 CTGGCGTGTGGTTTTGTATTCCAAAAAAGTTCTAGAAGAG
1 CTGGCGTGTGGTTCTGTATTCCAAAAAAGTTCTAGAAGAG
15893149 C
1 C
15893150 GGCCCCCTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.32
Consensus pattern (40 bp):
CTGGCGTGTGGTTCTGTATTCCAAAAAAGTTCTAGAAGAG
Found at i:15895999 original size:3 final size:3
Alignment explanation
Indices: 15895991--15896261 Score: 114
Period size: 3 Copynumber: 91.0 Consensus size: 3
15895981 ATCCTTTTCA
15895991 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
15896039 TAT CAT TAT T-T TGT TGA- TAT TGC TAT TAT AAT TA- TAT T-T TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
15896081 TTT TA- TAT T-T TATT TATT TAT TCAT T-T TGT TAT TAAT TCAT TGATT
1 TAT TAT TAT TAT TA-T TA-T TAT T-AT TAT TAT TAT T-AT T-AT T-A-T
* * * * * * * *
15896127 TAT CAT TAT TAA CA- CAT TCT TAT TAT TTT TAT TA- AAG TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * ** * *
15896173 TAT TATT TGT TGT T-C TAT TTT TAT TAC TAT TAT TAT CAT CCT GAA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
15896218 CAT TAT TAT TAT TAA TA- TAT TAT TAT TAT TGC TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15896262 CTCTTGTATG
Statistics
Matches: 203, Mismatches: 48, Indels: 34
0.71 0.17 0.12
Matches are distributed among these distances:
2 19 0.09
3 162 0.80
4 20 0.10
5 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:15896102 original size:13 final size:13
Alignment explanation
Indices: 15896070--15896095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15896060 GCTATTATAA
15896070 TTATATTTTATTT
1 TTATATTTTATTT
15896083 TTATATTTTATTT
1 TTATATTTTATTT
15896096 ATTTATTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATATTTTATTT
Found at i:15896447 original size:15 final size:15
Alignment explanation
Indices: 15896437--15896479 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
15896427 ATTATTGTTG
15896437 TTATTACTATTCTTA
1 TTATTACTATTCTTA
* *
15896452 TTATTCCTATATCTTT
1 TTATTACTAT-TCTTA
*
15896468 TTATTATTATTC
1 TTATTACTATTC
15896480 CTTCTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTACTATTCTTA
Found at i:15899046 original size:19 final size:19
Alignment explanation
Indices: 15899022--15899067 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
15899012 CTTCCTTTCT
*
15899022 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
15899041 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
15899060 TTTGCATT
1 TTTGCATT
15899068 AGACTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:15902910 original size:52 final size:53
Alignment explanation
Indices: 15902848--15902950 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 53
15902838 ATGTCCGATA
* *
15902848 AATTTTCTTCTTATTGCA-TTGCTACCTTTGATTAACATATTCATTTTGAGTT
1 AATTTCCTTCTTATTGCATTTGCAACCTTTGATTAACATATTCATTTTGAGTT
** **
15902900 AATTTCCTTCTTATTGCATTTGCAATTTTTGATTAATTTATTCATTTTGAG
1 AATTTCCTTCTTATTGCATTTGCAACCTTTGATTAACATATTCATTTTGAG
15902951 CTATGTTCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 17 0.39
53 27 0.61
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.53
Consensus pattern (53 bp):
AATTTCCTTCTTATTGCATTTGCAACCTTTGATTAACATATTCATTTTGAGTT
Found at i:15903952 original size:87 final size:87
Alignment explanation
Indices: 15903785--15905721 Score: 2549
Period size: 87 Copynumber: 22.3 Consensus size: 87
15903775 TTCACAAGCC
* * * *
15903785 TTAACCCCCTAAGCAGTAGGGAAACAGACTGAATTGACAGATCTTAA-CCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
*
15903849 AACAGATCGAAGATGATGGGAT
66 AACAGATCGAAGATGATGGGCT
* * *
15903871 TTAACCCTCTAAGTAGTAGGGTAACAGGCTAAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
*
15903936 AACAGATCAAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15903958 TTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACAAATCTTAACCCCCTAAGCAATAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
15904023 AACAGATCGAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904045 TTAACCCCCTAAGTAGGAGGGTAACAGGCTAAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
*
15904110 AACAGATCAAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904132 TTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACAAATCTTAACCCCCTAAGCAATAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
15904197 AACAGATCGAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904219 TTAACCCCCTAAGTAGGAGGGTAACAGGCTAAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
*
15904284 AACAGATCAAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904306 TTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACAAATCTTAACCCCCTAAGCAATAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
15904371 AACAGATCGAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904393 TTAACCCCCTAAGTAGGAGGGTAACAGGCTAAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
*
15904458 AACAGATCAAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904480 TTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACAAATCTTAACCCCCTAAGCAATAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
15904545 AACAGATCGAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904567 TTAACCCCCTAAGTAGGAGGGTAACAGGCTAAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
*
15904632 AACAGATCAAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* * *
15904654 TTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACAAATCTTAACCCCCTAAGCAATAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
15904719 AACAGATCGAAGATGATGGGCT
66 AACAGATCGAAGATGATGGGCT
* *
15904741 TTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAACAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
* * *
15904806 AATAGATCGAAGGTGATGGTCT
66 AACAGATCGAAGATGATGGGCT
* * * * * * * *
15904828 TTATCCCCATAAGCAGTAGGGTAACAAGCTGAATTTATAGA-CTTAAACCTCTAAGCAGTAGGGT
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
* * * * *** *
15904892 AACAGGTTGAA-TTCACAAGCC
66 AACAGATCGAAGATGATGGGCT
* * * *
15904913 TTATCTCCCTAAGCAGTAGGGTAATAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
** ** *
15904978 AACAGATCGAAGGCGACAGGCC
66 AACAGATCGAAGATGATGGGCT
* *
15905000 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
** ** *
15905065 AACAGATCGAAGGCGACAGGCC
66 AACAGATCGAAGATGATGGGCT
* *
15905087 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
** ** *
15905152 AACAGATCGAAGGCGACAGGCC
66 AACAGATCGAAGATGATGGGCT
* *
15905174 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
** ** *
15905239 AACAGATCGAAGGCGACAGGCC
66 AACAGATCGAAGATGATGGGCT
* *
15905261 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
* ***
15905326 AAAAGATCGAAGATGACAAG-T
66 AACAGATCGAAGATGATGGGCT
* * *
15905347 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTAACCCCCTAAGCAGTAGGG
1 -TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
* ** * *
15905412 AAATAGATCGAAGGCGATGGACC
65 AAACAGATCGAAGATGATGGGCT
* * *
15905435 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
* ** * *
15905500 AATAGATCGAAGGCGATGGACC
66 AACAGATCGAAGATGATGGGCT
* * * * *
15905522 TTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GG
* * * * *
15905587 -AGCAGATCAAAGACGAAGGGCC
65 AAACAGATCGAAGATGATGGGCT
* * * * * * *
15905609 TTAAACCCCTAAGTAGTAGGGTAACAGACTGAA-TTGCAGATCTTATCTCCCTAAGAAGTA-GTA
1 TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
** * * *
15905672 GAGTAGATCGAAGACGA-AGGAT
66 -AACAGATCGAAGATGATGGGCT
* *
15905694 CTTAACCCCCTAAGTAGTAAGGAAACAG
1 -TTAACCCCCTAAGTAGTAGGGTAACAG
15905722 ATCAGAGGTG
Statistics
Matches: 1687, Mismatches: 155, Indels: 18
0.91 0.08 0.01
Matches are distributed among these distances:
84 1 0.00
85 41 0.02
86 160 0.09
87 1483 0.88
88 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (87 bp):
TTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
AACAGATCGAAGATGATGGGCT
Found at i:15907310 original size:3 final size:3
Alignment explanation
Indices: 15907302--15907611 Score: 154
Period size: 3 Copynumber: 104.0 Consensus size: 3
15907292 GTCCTTTTCA
15907302 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
15907350 TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT CAT CAT CAT CAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** ** * *
15907397 TGT TGC TAT TGC TAT TAT AAT TA- TAT T-T TAT TTT TA- TAT T-T TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * *
15907442 TATT TAT TCAT T-T TAT TAT TAAT TCAT TGATT TAT CAT TAT TAA CA-
1 TA-T TAT T-AT TAT TAT TAT T-AT T-AT T-A-T TAT TAT TAT TAT TAT
* * * * * * * *
15907488 CAT TCT TAT TAT TTT TAT TA- AAG TAT TAT TAT TATT TGT TGT T-C
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * * * *
15907532 TAT TTT TAT TAC TAT TAT TAT CAT TCT GAA CAT TAT TAT TAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
15907579 TAT TAT TAT TAT TCT TAT TGC TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15907612 CTCTTGTATG
Statistics
Matches: 240, Mismatches: 52, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
2 18 0.08
3 200 0.83
4 20 0.08
5 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:15907449 original size:13 final size:13
Alignment explanation
Indices: 15907417--15907442 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15907407 GCTATTATAA
15907417 TTATATTTTATTT
1 TTATATTTTATTT
15907430 TTATATTTTATTT
1 TTATATTTTATTT
15907443 ATTTATTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATATTTTATTT
Found at i:15907466 original size:16 final size:17
Alignment explanation
Indices: 15907434--15907469 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
15907424 TTATTTTTAT
*
15907434 ATTTTATTTATTTATTC
1 ATTTTATTTATTAATTC
15907451 ATTTTA-TTATTAATTC
1 ATTTTATTTATTAATTC
15907467 ATT
1 ATT
15907470 GATTTATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTATTTATTAATTC
Found at i:15907797 original size:15 final size:15
Alignment explanation
Indices: 15907787--15907829 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
15907777 ATTATTGTTG
15907787 TTATTACTATTCTTA
1 TTATTACTATTCTTA
* *
15907802 TTATTCCTATATCTTT
1 TTATTACTAT-TCTTA
*
15907818 TTATTATTATTC
1 TTATTACTATTC
15907830 CTTCTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTACTATTCTTA
Found at i:15909771 original size:5 final size:5
Alignment explanation
Indices: 15909761--15909860 Score: 55
Period size: 5 Copynumber: 19.0 Consensus size: 5
15909751 ATGTCTTTCG
* *
15909761 AAATA AAAT- -AATA AAATTG AAATGA AAATAA AAATCA AAAGAA AAATA
1 AAATA AAATA AAATA AAA-TA AAAT-A AAAT-A AAAT-A AAA-TA AAATA
* *
15909809 AAA-A TAAATA AAATA AAATA AGAATAA AAATA AGAAT- AATTA AAATT
1 AAATA -AAATA AAATA AAATA A-AAT-A AAATA A-AATA AAATA AAATA
15909856 AAATA
1 AAATA
15909861 GGAGGATTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 35 0.47
6 31 0.42
7 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:15909795 original size:12 final size:11
Alignment explanation
Indices: 15909770--15909847 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
15909760 GAAATAAAAT
**
15909770 AATAAAATTGA
1 AATAAAATAAA
15909781 AATGAAAATAAA
1 AAT-AAAATAAA
*
15909793 AATCAAAAGAAA
1 AAT-AAAATAAA
*
15909805 AATAAAA-ATA
1 AATAAAATAAA
15909815 AATAAAAT-AA
1 AATAAAATAAA
15909825 AATAAGAATAAA
1 AATAA-AATAAA
15909837 AATAAGAATAA
1 AATAA-AATAA
15909848 TTAAAATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
10 15 0.26
11 10 0.18
12 32 0.56
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:15909809 original size:38 final size:36
Alignment explanation
Indices: 15909765--15909860 Score: 93
Period size: 38 Copynumber: 2.5 Consensus size: 36
15909755 CTTTCGAAAT
*
15909765 AAAATAATAAAATTGAAATGAAAATAAAAATCAAAAGA
1 AAAATAATAAAATT-AAAT-AAAATAAAAATAAAAAGA
* * * *
15909803 AAAATAAAAATAAATAAAATAAAATAAGAATAAAAATA
1 AAAAT-AATA-AAATTAAATAAAATAAAAATAAAAAGA
*
15909841 AGAATAATTAAAATTAAATA
1 AAAATAA-TAAAATTAAATA
15909861 GGAGGATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
37 11 0.23
38 25 0.53
39 7 0.15
40 4 0.09
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (36 bp):
AAAATAATAAAATTAAATAAAATAAAAATAAAAAGA
Found at i:15909813 original size:6 final size:6
Alignment explanation
Indices: 15909780--15909847 Score: 64
Period size: 6 Copynumber: 11.0 Consensus size: 6
15909770 AATAAAATTG
* * * *
15909780 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA ATAAAATA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATA-A AAATAA
* *
15909830 GAATAA AAATAA GAATAA
1 AAATAA AAATAA AAATAA
15909848 TTAAAATTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
6 42 0.84
7 6 0.12
8 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:15909838 original size:32 final size:31
Alignment explanation
Indices: 15909770--15909860 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 31
15909760 GAAATAAAAT
*
15909770 AATAAAATTGAAATGAAAATAAAAATCAAAAGAAA
1 AATAAAAAT-AAAT-AAAAT-AAAAT-AAAAGAAA
*
15909805 AATAAAAATAAATAAAATAAAATAAGAATAAA
1 AATAAAAATAAATAAAATAAAATAA-AAGAAA
* * *
15909837 AATAAGAATAATTAAAATTAAATA
1 AATAAAAATAAATAAAATAAAATA
15909861 GGAGGATTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
31 2 0.04
32 31 0.62
33 5 0.10
34 4 0.08
35 8 0.16
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (31 bp):
AATAAAAATAAATAAAATAAAATAAAAGAAA
Found at i:15915235 original size:13 final size:13
Alignment explanation
Indices: 15915213--15915245 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15915203 AAGGATTTGT
15915213 TTAT-TAAACTAA
1 TTATCTAAACTAA
15915225 TTATCTAAACTAA
1 TTATCTAAACTAA
*
15915238 TTAACTAA
1 TTATCTAA
15915246 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:15921189 original size:29 final size:29
Alignment explanation
Indices: 15921154--15921238 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 29
15921144 GGGATGTTAC
*
15921154 ATGGCCCATTAGGCCCAAATCACATTTAA
1 ATGGCCCATTAGGCCCAAATCACATTCAA
* *
15921183 ATGGCCCATTTGGCCCAAATCACATTCAC
1 ATGGCCCATTAGGCCCAAATCACATTCAA
*
15921212 ATGGCCCATTAGGCCC-AATCACTTTCA
1 ATGGCCCATTAGGCCCAAATCACATTCA
15921239 TATTCATGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 10 0.20
29 41 0.80
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTCAA
Found at i:15925919 original size:17 final size:17
Alignment explanation
Indices: 15925897--15925931 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15925887 ATTTCATACG
15925897 AGCTTACTAAGCTTTAT
1 AGCTTACTAAGCTTTAT
15925914 AGCTTACTAAGCTTTAT
1 AGCTTACTAAGCTTTAT
15925931 A
1 A
15925932 ATTCCATGTT
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:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (17 bp):
AGCTTACTAAGCTTTAT
Found at i:15926949 original size:20 final size:19
Alignment explanation
Indices: 15926909--15926949 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15926899 GTCCCCTGTA
*
15926909 TTTTGTAAAATTTTCTAAG
1 TTTTGTAAAATTTCCTAAG
*
15926928 TTTTGTAAAAATTTCCTGAG
1 TTTTGT-AAAATTTCCTAAG
15926948 TT
1 TT
15926950 ATCGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.51
Consensus pattern (19 bp):
TTTTGTAAAATTTCCTAAG
Found at i:15929818 original size:43 final size:43
Alignment explanation
Indices: 15929771--15929876 Score: 187
Period size: 43 Copynumber: 2.5 Consensus size: 43
15929761 AAAACAATAG
15929771 TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
1 TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
* *
15929814 TGTAAGTTATGATAATCATTTACTTTAAATGTTTAAATGTTTA
1 TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
15929857 TGTAAGTTA-TATAATCATTA
1 TGTAAGTTATTATAATCATTA
15929877 TTTTGAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 9 0.15
43 50 0.85
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (43 bp):
TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
Found at i:15929943 original size:59 final size:59
Alignment explanation
Indices: 15929873--15930151 Score: 331
Period size: 55 Copynumber: 4.9 Consensus size: 59
15929863 TTATATAATC
* * * *
15929873 ATTATTTTGAAATATGATTATTTATTTAGTTAATCGAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* *
15929932 ATTATTATGAAATATGATTA--T--TTAATTAATCAAAAATTAAATAAATATTCATAAA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* * ** * *
15929987 ATTATTATGGAATATGATTATTTATTTAATTAA-C--TGA-TAATTGATTATTCATAGA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* * * * *
15930042 ATTATTATAAAATATGGTTATTTAATAAATTAATCAAAAATTAATTAATTGTTCATAGA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* *
15930101 ATTGTTATGAAATATGATTATTTAATTAATTAATCAAAAATGAATTAATTA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTA
15930152 GGGTTGCAAA
Statistics
Matches: 185, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
55 91 0.49
56 2 0.01
57 2 0.01
58 2 0.01
59 88 0.48
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (59 bp):
ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
Found at i:15930001 original size:114 final size:117
Alignment explanation
Indices: 15929873--15930151 Score: 349
Period size: 114 Copynumber: 2.4 Consensus size: 117
15929863 TTATATAATC
* *
15929873 ATTATTTTGAAATATGATTATTTATTTAGTTAATCGAAAATTAATTAATTATTCATAAAATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTATTCATAAAATTATT
*
15929938 ATGAAATATGATTA-TT-T-AATTAATCAAAAATTAAATAAATATTCATAAA
66 ATAAAATATGATTATTTATAAATTAATCAAAAATTAAATAAATATTCATAAA
* * *
15929987 ATTATTATGGAATATGATTATTTATTTAATTAA-CTG---A-TAATTGATTATTCATAGAATTAT
1 ATTATTATGAAATATGATTATTTATTTAATTAATC-GAAAATTAATTAATTATTCATAAAATTAT
* * * * *
15930047 TATAAAATATGGTTATTTAATAAATTAATCAAAAATTAATTAATTGTTCATAGA
65 TATAAAATATGATTATTT-ATAAATTAATCAAAAATTAAATAAATATTCATAAA
* * * *
15930101 ATTGTTATGAAATATGATTATTTAATTAATTAATCAAAAATGAATTAATTA
1 ATTATTATGAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTA
15930152 GGGTTGCAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
110 34 0.25
111 3 0.02
113 2 0.01
114 89 0.64
115 1 0.01
117 1 0.01
118 8 0.06
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (117 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTATTCATAAAATTATT
ATAAAATATGATTATTTATAAATTAATCAAAAATTAAATAAATATTCATAAA
Found at i:15930330 original size:20 final size:20
Alignment explanation
Indices: 15930267--15930330 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
15930257 CGGTCAGCCT
* *
15930267 AAATATAAAATAAATCAAAAA
1 AAATATAAATTATAT-AAAAA
* *
15930288 ATATATAAATTCTATAAAAA
1 AAATATAAATTATATAAAAA
15930308 AAATATAAATTATA-AAAATA
1 AAATATAAATTATATAAAA-A
15930328 AAA
1 AAA
15930331 AAATAGTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.11
20 21 0.58
21 11 0.31
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATATAAATTATATAAAAA
Found at i:15931620 original size:78 final size:78
Alignment explanation
Indices: 15931477--15931642 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 78
15931467 ACAGACGTTG
* * * * **
15931477 GGGAAAAGATTTAGGGATTTCAGGGAAGGGTGGAACTGATTTGGGGAAAAAAAAGTTGGGG-AAA
1 GGGAAAA-AGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAG-TGGGGAAAA
*
15931541 AAATAAAGGGAATTA
64 AAAGAAAGGGAATTA
15931556 GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAATAAAA-TGGGGAAAAA
1 GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAA-AAAAGTGGGG-AAAA
* *
15931620 AAAGAAAGGGATTTC
64 AAAGAAAGGGAATTA
15931635 GGGAAAAA
1 GGGAAAAA
15931643 ATTAGGAATT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
77 5 0.07
78 36 0.48
79 34 0.45
ACGTcount: A:0.45, C:0.04, G:0.33, T:0.18
Consensus pattern (78 bp):
GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAGTGGGGAAAAAA
AGAAAGGGAATTA
Found at i:15931654 original size:79 final size:76
Alignment explanation
Indices: 15931477--15931654 Score: 196
Period size: 79 Copynumber: 2.2 Consensus size: 76
15931467 ACAGACGTTG
* * * **
15931477 GGGAAAAGATTTAGGGATTTCAGGGAAGGGTGGAACTGATTTGGGGAAAAAAAAGTTGGGGAAAA
1 GGGAAAA-AATTA-GGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAG-TGGGGAAAA
*
15931542 AATAAAGGGAATTA
63 AAGAAAGGGAATTA
*
15931556 GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAATAAAA-TGGGGAAAAA
1 GGGAAAAAATT-AGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAA-AAAAGTGGGG--AAA
* *
15931620 AAAGAAAGGGATTTC
62 AAAGAAAGGGAATTA
15931635 GGGAAAAAATTAGGAATTTC
1 GGGAAAAAATTAGG-ATTTC
15931655 GGGGAGGGGG
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
77 5 0.06
78 38 0.45
79 42 0.49
ACGTcount: A:0.44, C:0.04, G:0.32, T:0.20
Consensus pattern (76 bp):
GGGAAAAAATTAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAGTGGGGAAAAAAG
AAAGGGAATTA
Found at i:15934437 original size:40 final size:41
Alignment explanation
Indices: 15934375--15934621 Score: 241
Period size: 40 Copynumber: 6.2 Consensus size: 41
15934365 CGGATGATAA
*
15934375 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCTAATAT
* * *
15934415 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGGCTAATAT
* *
15934455 CCGGGCTAAGTCCCGAAGGCGTTTGTG-T-G-AGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA--ATAT
* *
15934495 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT---TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
* ** *
15934533 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
*
15934574 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
15934614 CC-GGCTAA
1 CCGGGCTAA
15934622 ACTCCGAAGG
Statistics
Matches: 174, Mismatches: 19, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
37 2 0.01
38 4 0.02
39 39 0.22
40 122 0.70
41 5 0.03
42 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
Found at i:15934578 original size:79 final size:80
Alignment explanation
Indices: 15934416--15934598 Score: 287
Period size: 79 Copynumber: 2.3 Consensus size: 80
15934406 TGGCTAATTT
*
15934416 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
** * *
15934481 GTGAGCTATTATATC
66 GCAAGCTACTATAAC
* *
15934496 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
15934560 GCAAGTTACTATAAC
66 GCAAGCTACTATAAC
15934575 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
15934599 AGCTAGTGGC
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 59 0.62
80 36 0.38
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAAC
Found at i:15934631 original size:79 final size:79
Alignment explanation
Indices: 15934416--15934621 Score: 281
Period size: 79 Copynumber: 2.6 Consensus size: 79
15934406 TGGCTAATTT
*
15934416 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
** * *
15934481 GTGAGCTATTATATC
65 GCAAGCTACTATAAC
*
15934496 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
15934560 GCAAGTTACTATAAC
65 GCAAGCTACTATAAC
* * *
15934575 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
15934622 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 73 0.65
80 38 0.34
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAAC
Found at i:15937470 original size:63 final size:63
Alignment explanation
Indices: 15937324--15937598 Score: 234
Period size: 63 Copynumber: 4.4 Consensus size: 63
15937314 TGCCACATGG
* * * * * * *
15937324 CCTGGGCACATGCCCATGTACCTTGGCCATGTGGTTTTTA-AGC-ACAAACAATGAGTTACATGA
1 CCTGGGCACACGCCCGTGT-CCCTAGCCATGTGATTTTTATA-CTACAAACAGTGAGTTACACGA
* * * *
15937387 CCTGGGCACACGCCCATGTCCCTAGCCATATGGTTTTTATTCCT-CAAACAGTGAGTTACACGA
1 CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTA-TACTACAAACAGTGAGTTACACGA
* * * * * **
15937450 CCTGGGCACATGTCTGTGTCCCTGGCCTTGTGATTTTTATACTACAAACAGTGTTTTACAC-A
1 CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTATACTACAAACAGTGAGTTACACGA
* * * * * * * * *
15937512 GCATAGGCACATGCCCGTGTCCCTAGCCGTGTGATTTTTATACTACAAAAAGTTAGTTAAATGG
1 -CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTATACTACAAACAGTGAGTTACACGA
*
15937576 CCTGGGCACACGTCCGTGTCCCT
1 CCTGGGCACACGCCCGTGTCCCT
15937599 GGCTGTGTGA
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
62 21 0.12
63 150 0.88
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (63 bp):
CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTATACTACAAACAGTGAGTTACACGA
Found at i:15938195 original size:4 final size:4
Alignment explanation
Indices: 15938186--15938216 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
15938176 CCAAAGTTTT
*
15938186 GAAA GAAA GAAA GAAA GAAA GAAA AAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
15938217 CGATAACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:15947514 original size:126 final size:127
Alignment explanation
Indices: 15947364--15947616 Score: 499
Period size: 127 Copynumber: 2.0 Consensus size: 127
15947354 TAACCACGTT
15947364 TTGTTTTGTTTAGAAATAAC-AAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
1 TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
15947428 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
66 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
15947490 TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
1 TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
15947555 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
66 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
15947617 ACATTTCAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 20 0.16
127 106 0.84
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.35
Consensus pattern (127 bp):
TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
Found at i:15947870 original size:18 final size:18
Alignment explanation
Indices: 15947813--15947877 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
15947803 CTATGTTAAT
15947813 TTTTGTAATTT-TTTTATA
1 TTTT-TAATTTATTTTATA
15947831 TTTTTAATTTTGATTTTA-A
1 TTTTTAA-TTT-ATTTTATA
15947850 -TTTTAATTTATTTTAATA
1 TTTTTAATTTATTTT-ATA
15947868 TTTTTAATTT
1 TTTTTAATTT
15947878 TATATTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.12
17 7 0.17
18 14 0.34
19 10 0.24
20 5 0.12
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTATTTTATA
Found at i:15947872 original size:25 final size:26
Alignment explanation
Indices: 15947844--15947901 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 26
15947834 TTAATTTTGA
*
15947844 TTTTAATTTTA-ATTTATTTTAA-TAT
1 TTTTAATTTTATATTT-TTTAAATTAT
15947869 TTTTAATTTTATATTTTTTAAATTAT
1 TTTTAATTTTATATTTTTTAAATTAT
15947895 TTATTAA
1 TT-TTAA
15947902 CGTGACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 16 0.55
26 9 0.31
27 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTAATTTTATATTTTTTAAATTAT
Found at i:15947879 original size:15 final size:14
Alignment explanation
Indices: 15947824--15947886 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
15947814 TTTGTAATTT
15947824 TTTTATATTTTTAA
1 TTTTATATTTTTAA
*
15947838 TTTT-GA-TTTTAA
1 TTTTATATTTTTAA
15947850 TTTTA-A--TTT-A
1 TTTTATATTTTTAA
15947860 TTTTAATATTTTTAA
1 TTTT-ATATTTTTAA
15947875 TTTTATATTTTT
1 TTTTATATTTTT
15947887 TAAATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
10 5 0.12
11 4 0.10
12 12 0.29
13 1 0.02
14 15 0.36
15 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTATATTTTTAA
Found at i:15947887 original size:24 final size:24
Alignment explanation
Indices: 15947844--15947897 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
15947834 TTAATTTTGA
15947844 TTTTAATTTTAATTTATTTTAATAT
1 TTTTAATTTTAATTTATTTTAA-AT
15947869 TTTTAATTTT-ATATT-TTTTAAAT
1 TTTTAATTTTAAT-TTATTTTAAAT
15947892 TATTTA
1 T-TTTA
15947898 TTAACGTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.11
24 12 0.44
25 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTAATTTTAATTTATTTTAAAT
Done.