Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 130 of 222
Found at i:42015118 original size:15 final size:15
Alignment explanation
Indices: 42015098--42015130 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
42015088 GTCTTATAAC
*
42015098 AAGTTAAATAACAAT
1 AAGTTAAATAAAAAT
42015113 AAGTTAAATAAAAAT
1 AAGTTAAATAAAAAT
42015128 AAG
1 AAG
42015131 CACATACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (15 bp):
AAGTTAAATAAAAAT
Found at i:42020970 original size:49 final size:49
Alignment explanation
Indices: 42020893--42021017 Score: 151
Period size: 49 Copynumber: 2.6 Consensus size: 49
42020883 CACCATTTGT
* * * **
42020893 GGACAAGCCACCACTAATTTGTAGATAAACTGCCACTAAAAAACTTTAA
1 GGACAAGCCACCACTGATTTGAAAATAAACAACCACTAAAAAACTTTAA
* * * **
42020942 GGACAAGCCACCATTGATTTGAAAATAAACAACCACTTAAACACTTTGT
1 GGACAAGCCACCACTGATTTGAAAATAAACAACCACTAAAAAACTTTAA
*
42020991 GGACAAGCCACCACTGATTTGCAAATA
1 GGACAAGCCACCACTGATTTGAAAATA
42021018 GACTACCATA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (49 bp):
GGACAAGCCACCACTGATTTGAAAATAAACAACCACTAAAAAACTTTAA
Found at i:42022862 original size:26 final size:26
Alignment explanation
Indices: 42022832--42022893 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
42022822 TTCCTCCAAC
* *
42022832 AAAATTTTGATAATTTTACCCTAGGT
1 AAAATTTTGACAATTTTACCCTAAGT
* * *
42022858 AAAATTTTAACGATTTTGCCCTAAGT
1 AAAATTTTGACAATTTTACCCTAAGT
42022884 AAAATTTTGA
1 AAAATTTTGA
42022894 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (26 bp):
AAAATTTTGACAATTTTACCCTAAGT
Found at i:42026624 original size:36 final size:36
Alignment explanation
Indices: 42026582--42026653 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
42026572 TACTTTCACA
* *
42026582 CAAAACTCTTTGAATTTGTCAAAGGTTTCACATTTG
1 CAAAACTCTTTAAATTTCTCAAAGGTTTCACATTTG
*
42026618 CAAAACTCTTTAAATTTCTCAAAGGTTTCACTTTTG
1 CAAAACTCTTTAAATTTCTCAAAGGTTTCACATTTG
42026654 TAGGGAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (36 bp):
CAAAACTCTTTAAATTTCTCAAAGGTTTCACATTTG
Found at i:42026634 original size:18 final size:19
Alignment explanation
Indices: 42026582--42026640 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 19
42026572 TACTTTCACA
*
42026582 CAAAACTCTTTGAATTTGT
1 CAAAACTCTTTAAATTTGT
** * *
42026601 CAAAGGT-TTCACATTTG-
1 CAAAACTCTTTAAATTTGT
*
42026618 CAAAACTCTTTAAATTTCT
1 CAAAACTCTTTAAATTTGT
42026637 CAAA
1 CAAA
42026641 GGTTTCACTT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
17 5 0.18
18 14 0.50
19 9 0.32
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (19 bp):
CAAAACTCTTTAAATTTGT
Found at i:42030143 original size:26 final size:26
Alignment explanation
Indices: 42030099--42030210 Score: 152
Period size: 26 Copynumber: 4.3 Consensus size: 26
42030089 AACACGTTAG
* *
42030099 GAAAGAAAGTCTTTATGGCGTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* *
42030125 GAAAGAAAGCTTTTGTGGCATAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* **
42030151 GAAAGAAAACCTTTGTGAAGTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
*
42030177 GAAAGAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
42030203 GAAAGAAA
1 GAAAGAAA
42030211 TGTCTTAGTG
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGGCGTAATAT
Found at i:42030266 original size:27 final size:27
Alignment explanation
Indices: 42030219--42030270 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
42030209 AATGTCTTAG
*
42030219 TGGCAAACTCCGTCAGAAACGCCTTCA
1 TGGCAAACTCCGTAAGAAACGCCTTCA
42030246 TGGCAAACTCCGTAA-AGAACGCCTT
1 TGGCAAACTCCGTAAGA-AACGCCTT
42030271 TGTGGCGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (27 bp):
TGGCAAACTCCGTAAGAAACGCCTTCA
Found at i:42030276 original size:27 final size:27
Alignment explanation
Indices: 42030218--42030276 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
42030208 AAATGTCTTA
*
42030218 GTGGCAAACTCCGTCAGAAACGCCTTC
1 GTGGCAAACTCCGTAAGAAACGCCTTC
* *
42030245 ATGGCAAACTCCGTAA-AGAACGCCTTT
1 GTGGCAAACTCCGTAAGA-AACGCCTTC
42030272 GTGGC
1 GTGGC
42030277 GCACTCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (27 bp):
GTGGCAAACTCCGTAAGAAACGCCTTC
Found at i:42030738 original size:20 final size:21
Alignment explanation
Indices: 42030702--42030740 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
42030692 AAAAATCAGT
42030702 AAATAATATTTCAAAAAATAA
1 AAATAATATTTCAAAAAATAA
42030723 AAAT-ATATTT-AGAAAAAT
1 AAATAATATTTCA-AAAAAT
42030741 TAATTTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 12 0.71
21 4 0.24
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (21 bp):
AAATAATATTTCAAAAAATAA
Found at i:42035109 original size:12 final size:12
Alignment explanation
Indices: 42035092--42035116 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42035082 AATTGAAGAA
42035092 ACTAATAAAATG
1 ACTAATAAAATG
42035104 ACTAATAAAATG
1 ACTAATAAAATG
42035116 A
1 A
42035117 GTGTAGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
ACTAATAAAATG
Found at i:42039949 original size:19 final size:19
Alignment explanation
Indices: 42039925--42039964 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
42039915 TTTTGATCAA
*
42039925 CTATTTTTCGAATATTGCC
1 CTATTTTTCGAATATTACC
42039944 CTATTTTTCGAATATTACC
1 CTATTTTTCGAATATTACC
42039963 CT
1 CT
42039965 TCTCTCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (19 bp):
CTATTTTTCGAATATTACC
Found at i:42040883 original size:27 final size:27
Alignment explanation
Indices: 42040853--42040971 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
42040843 AATAAATTAT
42040853 CGAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
*
42040880 CGAAATACCCCTATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
42040907 CGAAATACCCTCATAGAGTAAAATGAT
1 CGAAATACCCCCATAGGGTAAAATGAC
** * * *
42040934 TTAAATACCACTATAAGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
**
42040961 TAAAATACCCC
1 CGAAATACCCC
42040972 TAGGAGATGA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATGAC
Found at i:42040940 original size:54 final size:54
Alignment explanation
Indices: 42040853--42040971 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
42040843 AATAAATTAT
* * *
42040853 CGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
1 CGAAATACCCCCATAGAGTAAAATGACCGAAATACCACTATAAGGTAAAATGAC
* ***
42040907 CGAAATACCCTCATAGAGTAAAATGATTTAAATACCACTATAAGGTAAAATGAC
1 CGAAATACCCCCATAGAGTAAAATGACCGAAATACCACTATAAGGTAAAATGAC
**
42040961 TAAAATACCCC
1 CGAAATACCCC
42040972 TAGGAGATGA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (54 bp):
CGAAATACCCCCATAGAGTAAAATGACCGAAATACCACTATAAGGTAAAATGAC
Found at i:42044351 original size:23 final size:24
Alignment explanation
Indices: 42044320--42044364 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
42044310 CAGCCCTACC
42044320 TAGATCGGT-TCGTGGTGGTATTTA
1 TAGATCGGTATCGTGGT-GTATTTA
*
42044344 TAGA-CGGTATCTTGGTGTATT
1 TAGATCGGTATCGTGGTGTATT
42044365 CAAGAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.18, C:0.09, G:0.31, T:0.42
Consensus pattern (24 bp):
TAGATCGGTATCGTGGTGTATTTA
Found at i:42048589 original size:26 final size:26
Alignment explanation
Indices: 42048560--42048613 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
42048550 TTGCCACATT
*
42048560 TACTGTTACTGACAGC-TTCACTGCGA
1 TACTATTACTGACAGCTTTC-CTGCGA
*
42048586 TACTATTACTGGCAGCTTTCCTGCGA
1 TACTATTACTGACAGCTTTCCTGCGA
42048612 TA
1 TA
42048614 TTGGTGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (26 bp):
TACTATTACTGACAGCTTTCCTGCGA
Found at i:42048763 original size:28 final size:27
Alignment explanation
Indices: 42048716--42048781 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
42048706 ATTGCACGGT
42048716 ACTGATACTGTATTGAGCTAAGGCCCAC
1 ACTG-TACTGTATTGAGCTAAGGCCCAC
* *
42048744 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTG-TACTGTATTGAGCTAAGGCCCAC
42048772 ACTGTACTGT
1 ACTGTACTGT
42048782 TACTGAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (27 bp):
ACTGTACTGTATTGAGCTAAGGCCCAC
Found at i:42048783 original size:33 final size:31
Alignment explanation
Indices: 42048714--42048803 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 31
42048704 TCATTGCACG
* *
42048714 GTACTGATACTGTATTGAGCTAAGGCCCACA
1 GTACTGTTACTGTATTGGGCTAAGGCCCACA
42048745 -T--TGTTACTGTATTGGGCTAAGGCCCACA
1 GTACTGTTACTGTATTGGGCTAAGGCCCACA
* *
42048773 CTGTACTGTTACTGAATAGGGCTCAA-GCCCA
1 --GTACTGTTACTGTATTGGGCT-AAGGCCCA
42048804 AAATGTCACT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
28 25 0.51
30 1 0.02
31 1 0.02
33 20 0.41
34 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (31 bp):
GTACTGTTACTGTATTGGGCTAAGGCCCACA
Found at i:42053191 original size:25 final size:24
Alignment explanation
Indices: 42053163--42053234 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
42053153 TTCGACTCAC
42053163 AGCTCGTGTGAGCATACGAATTTAT
1 AGCTCGTGTGAGCATACGAATTT-T
* **
42053188 AGCTCATGAAAGCATACCG-ATCTTT
1 AGCTCGTGTGAGCATA-CGAAT-TTT
* *
42053213 AGCTCGAGTGAGCATACCAATT
1 AGCTCGTGTGAGCATACGAATT
42053235 CACAACTCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
24 2 0.06
25 30 0.83
26 4 0.11
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCTCGTGTGAGCATACGAATTTT
Found at i:42063937 original size:144 final size:143
Alignment explanation
Indices: 42063539--42063951 Score: 335
Period size: 153 Copynumber: 2.8 Consensus size: 143
42063529 AATTTTAACG
* * * * * * * ** *
42063539 ATTTCAATAATTCTTAATAAAAAGAGAATTCAATAAAATTAATACTAGCTTACTTTAATGGCAAC
1 ATTTCAACAATTCTTAATAAAAA-AGAATCCAACAAAAGTAACACCAACTTACTACAATGACAAC
* * ** * * * * *
42063604 CATGA-ATAAAAATAGAACTTGCTAATAACATATGTAGAGCATATTCAACAAATGTAACAAAAAT
65 CAT-ACATAAAAACACAACTTTTTCATACCATACGTAGAACATATTCAACAAA---AACAATAAT
*
42063668 ACTAACATAATAATTTTAACGTACA
126 A-T--CATAATAATTCT-A-G--CA
* * * * * *
42063693 ATTTCAACAATTTTTAATAAAAAAGAATCCAATAAAATTAATACCAACTTACTGCAATGGCAACC
1 ATTTCAACAATTCTTAATAAAAAAGAATCCAACAAAAGTAACACCAACTTACTACAATGACAACC
* * * *
42063758 ATATATAAAAATAGATCTTTTTCATACCATACGTAGAACATATTCAACAAAAACAATAATATCAT
66 ATACATAAAAACACAACTTTTTCATACCATACGTAGAACATATTCAACAAAAACAATAATATCAT
42063823 AATAATTCTAGCA
131 AATAATTCTAGCA
* * * * *
42063836 ATTTCAACAATTCTTAGTAAGAAATAATCCAACAAAAGTAACACTAACTTTATTACAATGACAAC
1 ATTTCAACAATTCTTAATAAAAAAGAATCCAACAAAAGTAACACCAAC-TTACTACAATGACAAC
* * * *
42063901 CATACATAATAACACAACTTCTTT-ATATCGTGCGTAGAACATATTCAACAA
65 CATACATAAAAACACAACTT-TTTCATACCATACGTAGAACATATTCAACAA
42063952 TTGTAACGAT
Statistics
Matches: 221, Mismatches: 35, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
143 42 0.19
144 52 0.24
145 4 0.02
146 1 0.00
147 11 0.05
149 1 0.00
150 9 0.04
152 1 0.00
153 79 0.36
154 21 0.10
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (143 bp):
ATTTCAACAATTCTTAATAAAAAAGAATCCAACAAAAGTAACACCAACTTACTACAATGACAACC
ATACATAAAAACACAACTTTTTCATACCATACGTAGAACATATTCAACAAAAACAATAATATCAT
AATAATTCTAGCA
Found at i:42072664 original size:11 final size:11
Alignment explanation
Indices: 42072648--42072673 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42072638 TATTTTTTAA
42072648 TTTTAAAATAC
1 TTTTAAAATAC
42072659 TTTTAAAATAC
1 TTTTAAAATAC
42072670 TTTT
1 TTTT
42072674 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:42072688 original size:50 final size:48
Alignment explanation
Indices: 42072627--42072771 Score: 151
Period size: 50 Copynumber: 3.0 Consensus size: 48
42072617 CCCGAATATA
*
42072627 ATAAATATTTTTATTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTT
1 ATAAAT-TTTTTATTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTT
*
42072677 TTAAA----TT-TTTTTTAATTTTAAAATATTTTTAAAATA--TTTTT
1 ATAAATTTTTTATTTTTTAATTTTAAAATATTTTTAAAATATTTTTTT
*
42072718 AAAATACTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTT
1 ATAA-A-TTTTTT-A-TTTTTTAATTTTAAAATATTTTTAAAAT-ATTTTTTT
42072771 A
1 A
42072772 ATTTTTAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 21
0.76 0.04 0.20
Matches are distributed among these distances:
41 7 0.09
42 1 0.01
44 28 0.35
45 2 0.03
47 2 0.03
50 32 0.41
51 1 0.01
53 6 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (48 bp):
ATAAATTTTTTATTTTTTAATTTTAAAATATTTTTAAAATATTTTTTT
Found at i:42072706 original size:11 final size:11
Alignment explanation
Indices: 42072692--42072768 Score: 76
Period size: 11 Copynumber: 7.4 Consensus size: 11
42072682 TTTTTTTTAA
42072692 TTTTAAAATAT
1 TTTTAAAATAT
42072703 TTTTAAAATAT
1 TTTTAAAATAT
42072714 TTTTAAAATACT
1 TTTTAAAATA-T
*
42072726 TTTT-TAAT-T
1 TTTTAAAATAT
*
42072735 TTTT----TAA
1 TTTTAAAATAT
42072742 TTTTAAAATAT
1 TTTTAAAATAT
42072753 TTTTAAAATAAT
1 TTTTAAAAT-AT
42072765 TTTT
1 TTTT
42072769 TTAATTTTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
9 5 0.09
11 35 0.62
12 11 0.20
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:42072797 original size:22 final size:20
Alignment explanation
Indices: 42072750--42072797 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
42072740 AATTTTAAAA
*
42072750 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
42072770 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
42072793 TATTT
1 TATTT
42072798 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:42073039 original size:22 final size:22
Alignment explanation
Indices: 42072989--42073039 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
42072979 TGCAATGTAA
42072989 TATATTTATAAATAATGAAAAT
1 TATATTTATAAATAATGAAAAT
* *
42073011 T-TAATTTAATATATAGT-AAAAT
1 TAT-ATTT-ATAAATAATGAAAAT
42073033 TATATTT
1 TATATTT
42073040 CGGTTCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TATATTTATAAATAATGAAAAT
Found at i:42077954 original size:18 final size:17
Alignment explanation
Indices: 42077928--42077962 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42077918 AATATTAAGA
*
42077928 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
42077945 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
42077963 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:42077974 original size:120 final size:120
Alignment explanation
Indices: 42077821--42078104 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
42077811 TAATTGAAAA
* * *
42077821 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
42077885 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
42077940 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
42078005 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
42078060 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
42078105 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:42078076 original size:18 final size:17
Alignment explanation
Indices: 42078048--42078082 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42078038 ATTATTAAGA
*
42078048 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
42078065 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
42078083 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:42078082 original size:16 final size:16
Alignment explanation
Indices: 42078048--42078102 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
42078038 ATTATTAAGA
42078048 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
42078065 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
42078081 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
42078095 ATGTTTAA
1 AT-TTTAA
42078103 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:42078339 original size:16 final size:16
Alignment explanation
Indices: 42078318--42078385 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
42078308 GATTTGCTAT
42078318 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
42078334 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
42078350 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42078366 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42078382 TACA
1 TACA
42078386 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:42081571 original size:23 final size:23
Alignment explanation
Indices: 42081519--42081573 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
42081509 AATTTTAATA
*
42081519 ATATTATTTATTAATTCAATTTT
1 ATATTATTTATTAACTCAATTTT
*
42081542 ATTTTATTTAATT-ACTCAATATTT
1 ATATTATTT-ATTAACTCAAT-TTT
42081566 -TATTATTT
1 ATATTATTT
42081574 CTTTATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATTATTTATTAACTCAATTTT
Found at i:42085537 original size:19 final size:17
Alignment explanation
Indices: 42085511--42085554 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
42085501 CATGTTTTAG
*
42085511 TTTTAATTAATCTTAACT
1 TTTTAATTAAGCTTAA-T
42085529 TTCTTAATTAAGCTTAAT
1 TT-TTAATTAAGCTTAAT
42085547 TTTTAATT
1 TTTTAATT
42085555 CCGGAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 5 0.21
19 13 0.54
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTTAATTAAGCTTAAT
Found at i:42088218 original size:18 final size:18
Alignment explanation
Indices: 42088182--42088220 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
42088172 AAGAAATATA
*
42088182 AAAAATACATAATATTTT
1 AAAAATACATAATAATTT
42088200 AAAAATA-ATAATAAATTT
1 AAAAATACATAAT-AATTT
42088218 AAA
1 AAA
42088221 TTTTATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATACATAATAATTT
Found at i:42088251 original size:24 final size:23
Alignment explanation
Indices: 42088224--42088273 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
42088214 ATTTAAATTT
* *
42088224 TATATTAATATTAAATACATATAA
1 TATATCAATATTAAATAAATA-AA
*
42088248 TATATCAATATTACATAAATAAA
1 TATATCAATATTAAATAAATAAA
42088271 TAT
1 TAT
42088274 CTTCCATCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (23 bp):
TATATCAATATTAAATAAATAAA
Found at i:42088963 original size:27 final size:27
Alignment explanation
Indices: 42088910--42088965 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
42088900 AAATTTATGA
*
42088910 TTATATATATTTTAAAAATATTTATTT
1 TTATATATATTTTAAAAATATTCATTT
**
42088937 TTATATAT-TTTTAAATTTATTCCATTT
1 TTATATATATTTTAAAAATATT-CATTT
42088964 TT
1 TT
42088966 TCTTCTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATATATATTTTAAAAATATTCATTT
Found at i:42089976 original size:28 final size:26
Alignment explanation
Indices: 42089932--42089990 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
42089922 AAATTGTTAA
* *
42089932 ATATATAAAAAAATATGAAAATATGT
1 ATATACAAAAAAATATGAAAATAGGT
* *
42089958 ATATACAAAAAAATGTATGTATATAGGT
1 ATATACAAAAAAA--TATGAAAATAGGT
42089986 ATATA
1 ATATA
42089991 TATGTACGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.44
28 15 0.56
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (26 bp):
ATATACAAAAAAATATGAAAATAGGT
Found at i:42090500 original size:21 final size:21
Alignment explanation
Indices: 42090461--42090500 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42090451 TGAATAAAAT
**
42090461 AACTAAAAAAGGGCTAAATTG
1 AACTAAAAAAGGGAAAAATTG
*
42090482 AACTTAAAAAGGGAAAAAT
1 AACTAAAAAAGGGAAAAAT
42090501 GGGGCAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
AACTAAAAAAGGGAAAAATTG
Found at i:42092940 original size:132 final size:132
Alignment explanation
Indices: 42092064--42092938 Score: 1464
Period size: 132 Copynumber: 6.6 Consensus size: 132
42092054 AGATCTGCTT
* * * * * *
42092064 TCTTCGATCGATTCCACTGCCGACCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
42092129 CCTCAGGGAGGTAAAATCTGCCAT-CTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTG
66 CCTCAGGGAGGTAAAATCTGCCATCCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
42092193 TAA
130 TAA
* *
42092196 TCTTCAATCTATTACACTGCTGCCCAGGGAGATAGAATTGCTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
42092261 CCTCAGGGAGGTAAAATCTGTCATCCTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
42092326 AA
131 AA
42092328 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
42092393 CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
42092458 AA
131 AA
* *
42092460 TCTTCAATCTATTCCACTGCTACCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * *
42092525 CCTCAGGGAGGTAAAACCTGCCATCCTTGATTTGCTCAACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
42092590 AA
131 AA
*
42092592 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
42092657 CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTTCGCTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
42092722 AA
131 AA
*
42092724 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * *
42092789 CCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGTTCCACTACTGCTTAGGGAGATAAGATTTGT
66 CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
42092854 AA
131 AA
* * * * *
42092856 TCTTCAATCTATTCTACTGTTGCCCATGGAGATAGAATTACTGACTTCAATGTACTCTACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
*
42092921 CCTCAGGGAGGCAAAATC
66 CCTCAGGGAGGTAAAATC
42092939 CGTCATTAAC
Statistics
Matches: 699, Mismatches: 43, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
132 696 1.00
133 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
AA
Found at i:42095140 original size:20 final size:20
Alignment explanation
Indices: 42095115--42095155 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
42095105 AATTTGGCAG
42095115 AAAAAATC-TAAAAGAATGAA
1 AAAAAATCGT-AAAGAATGAA
42095135 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
42095155 A
1 A
42095156 GAACATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:42099070 original size:28 final size:26
Alignment explanation
Indices: 42099026--42099084 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
42099016 AAATTGTTAA
* *
42099026 ATATATAAAAAAATATGAAAATATGT
1 ATATACAAAAAAATATGAAAATAGGT
* *
42099052 ATATACAAAAAAATGTATGTATATAGGT
1 ATATACAAAAAAA--TATGAAAATAGGT
42099080 ATATA
1 ATATA
42099085 TATGTACGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.44
28 15 0.56
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (26 bp):
ATATACAAAAAAATATGAAAATAGGT
Found at i:42101461 original size:577 final size:580
Alignment explanation
Indices: 42100233--42101554 Score: 1584
Period size: 577 Copynumber: 2.3 Consensus size: 580
42100223 TGGGCTCTAC
* * ** * * * *
42100233 AACATGAGTGGCT-AAGCCGCTTAAGGGAGATTAACAAATGGATGGGGATGTGATTAATGGAGTA
1 AACATGAGTGGCTAAATCC-CTTAGGGGAGATTAATGAGTGGATGGGAATGTGATTAATAGAGGA
** * * * *
42100297 TTTAGGGTTTCCTGAGTGAGATTAGTTAGTATGAATTATGTATGCTTAAATCGCTAAGCTTGACA
65 TTTAGGGTTTCCCAAGAGGGATTAGTTAGTATGAATTATGTATGCTTAAACCACTAAGCTTGACA
* * * * * *
42100362 ACCCTAAGAAGTTACCATAAGCAATACGACCACAAAAACAACAACTATCCACTCAAGCACCAATT
130 ACCCTAGGAAGTTATCATAGGCAAGACGACCACAAAAACAACAACGATCCACTCAAGCACCAAGT
* ** * * * * *
42100427 AATCTTGATGCTAATCACTTCCATAATACGAAAGTAAAAACTTTTTTTTTTAACAAATGAGTGGA
195 AATATCAATACCAATCACTTCCATAATAAGAAAGTAAAAACTTTTTTGTTT-A-AAATGAGTAGA
* * **
42100492 CAACCATTTATATAAGAATGTGGGTTTGATCCCACCATGACTTTTTACCATGAAATATGAGAGTT
258 CAACCATTTATACAAGAATGTGGGTTCGATCCCACCATGACTGCTTACCATGAAATATGAGAGTT
* * * *
42100557 GGTACAGTTCCATTATTGGATCAAATTTTGCGCAACCTCAACTGAACTGGCAGTTGACGTAGTAG
323 GGTACAGTTCCATCATTGGAACAAATTTT-----ACCTCAACCGAACTGGCAGTTGACCTAGTAG
** * * *
42100622 TTTACGAATCCTACGCCTTCTAGAAAGATAAGAAGAATTGCTAGCAACGTGGTGAGATGATCTCT
383 TTTACGAATCCTACGCCTTCTAGAAAGATAAGAAGAATCACTAGCAACGCGGCGAGACGATCTCT
* * * * * **
42100687 CTTGTGGTTGTTAGGGGCAAAGAGGTGTCGATTGCACCTCGCGATCCAATCTATTATTATTCCAT
448 ATCGTGGTTGTTAGGGGAAAAGAGGTGTCGATTGCACCTCGCGATCAAATCCACAATTATTCCAT
* * *
42100752 TCTCTTTTCTCTTCTGAACCGATTGTTTTCTTCACCTGATTTATTCAATCGAGAAAGAGATCGTG
513 TCTCTTTTCTCTTCTGAACCGATCGTTTTCTTCACCTAATTTATTCAATCGAGAAAGAGATCATG
42100817 AAT
578 AAT
* * *
42100820 AACATGAGTGGCTAAATCCCTTAGAGGAGATTAATGAGTGGATGAGAATGTGATTAACAGAGGAT
1 AACATGAGTGGCTAAATCCCTTAGGGGAGATTAATGAGTGGATGGGAATGTGATTAATAGAGGAT
* *
42100885 TTAGGGTTTCCCAAGAGGGATTAGTTAGTATGAATTACGAATGCTTAAACCACTAAGCTTGACAA
66 TTAGGGTTTCCCAAGAGGGATTAGTTAGTATGAATTATGTATGCTTAAACCACTAAGCTTGACAA
* * * * ** ***
42100950 CCCTAGGAATTTATTATAGGTAAGATGACCATGAAAACAACAACGATCCACTCAAGCATTGAGTA
131 CCCTAGGAAGTTATCATAGGCAAGACGACCACAAAAACAACAACGATCCACTCAAGCACCAAGTA
* **
42101015 ATATCAATACCAATCGCTTCCATAATAAGAAAGT-CGAACGGTTTTTTGTTT-AAATGAGTAGAC
196 ATATCAATACCAATCACTTCCATAATAAGAAAGTAAAAAC--TTTTTTGTTTAAAATGAGTAGAC
* * * *
42101078 GATCATTTATACAAGAACATG-GGGTTCGATCCCACCATGACTGCTTACGATGAAATATGGGAGT
259 AACCATTTATACAAG-A-ATGTGGGTTCGATCCCACCATGACTGCTTACCATGAAATATGAGAGT
* *
42101142 TGGTACAGTTCCATCATTGGAACAAA-TTT-CC-CGACCGAACTGGCGGTTGACCTAGTAGTTTA
322 TGGTACAGTTCCATCATTGGAACAAATTTTACCTCAACCGAACTGGCAGTTGACCTAGTAGTTTA
* * * * * **
42101204 TGAATCCTATGCCTTCCT-GAAAGTTAGGGAGAATCACTAGCAGGGCGGCGAGACGATCTCTATC
387 CGAATCCTACGCCTT-CTAGAAAGATAAGAAGAATCACTAGCAACGCGGCGAGACGATCTCTATC
* *
42101268 GTGGTTGTTAGGGGAAAAGAGGTGTTGATTGCACTTCGCGATCAAATCCACAATTA-TCCATTCT
451 GTGGTTGTTAGGGGAAAAGAGGTGTCGATTGCACCTCGCGATCAAATCCACAATTATTCCATTCT
* ** *
42101332 CTTTTCTCTTTTGAATTGATCGTTTTCTTCACCTAATTTATTCAATCGAGAAAGAGATTATGAAT
516 CTTTTCTCTTCTGAACCGATCGTTTTCTTCACCTAATTTATTCAATCGAGAAAGAGATCATGAAT
* * *
42101397 AATATGAGTGGCTAAATCTCTTAGGGGAGATTAATGAGTGGATGGGAATATGATTAATAGAGGAT
1 AACATGAGTGGCTAAATCCCTTAGGGGAGATTAATGAGTGGATGGGAATGTGATTAATAGAGGAT
* ** * * *
42101462 TTAAGGTTTCTTGAA-AGGGATTAGTTAGTATGCATTATGTATGCTTAAACTACTAGGCTTGACA
66 TTAGGGTTTC-CCAAGAGGGATTAGTTAGTATGAATTATGTATGCTTAAACCACTAAGCTTGACA
42101526 ACCCTAGGAAGTTATCATAGGCAAGACGA
130 ACCCTAGGAAGTTATCATAGGCAAGACGA
42101555 GGTTGGGAGA
Statistics
Matches: 623, Mismatches: 105, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
577 203 0.33
578 125 0.20
579 4 0.01
585 26 0.04
586 66 0.11
587 186 0.30
588 13 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (580 bp):
AACATGAGTGGCTAAATCCCTTAGGGGAGATTAATGAGTGGATGGGAATGTGATTAATAGAGGAT
TTAGGGTTTCCCAAGAGGGATTAGTTAGTATGAATTATGTATGCTTAAACCACTAAGCTTGACAA
CCCTAGGAAGTTATCATAGGCAAGACGACCACAAAAACAACAACGATCCACTCAAGCACCAAGTA
ATATCAATACCAATCACTTCCATAATAAGAAAGTAAAAACTTTTTTGTTTAAAATGAGTAGACAA
CCATTTATACAAGAATGTGGGTTCGATCCCACCATGACTGCTTACCATGAAATATGAGAGTTGGT
ACAGTTCCATCATTGGAACAAATTTTACCTCAACCGAACTGGCAGTTGACCTAGTAGTTTACGAA
TCCTACGCCTTCTAGAAAGATAAGAAGAATCACTAGCAACGCGGCGAGACGATCTCTATCGTGGT
TGTTAGGGGAAAAGAGGTGTCGATTGCACCTCGCGATCAAATCCACAATTATTCCATTCTCTTTT
CTCTTCTGAACCGATCGTTTTCTTCACCTAATTTATTCAATCGAGAAAGAGATCATGAAT
Found at i:42104181 original size:13 final size:16
Alignment explanation
Indices: 42104163--42104198 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
42104153 AAAAGGTTAC
42104163 AGAAAGAA-AA-AAG-
1 AGAAAGAAGAAGAAGA
42104176 AGAAAGAAGAAGAAGA
1 AGAAAGAAGAAGAAGA
42104192 AGAAAGA
1 AGAAAGA
42104199 GTAACATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 2 0.10
15 3 0.15
16 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AGAAAGAAGAAGAAGA
Found at i:42109455 original size:25 final size:25
Alignment explanation
Indices: 42109403--42109456 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
42109393 CTCAGTACAG
* *
42109403 TTTCAAAAAGTACTAACTACAGTGT
1 TTTCAAAAAGTACTAACTACAATAT
* * *
42109428 TTTCAGAAAGTTCTAACTATAATAT
1 TTTCAAAAAGTACTAACTACAATAT
42109453 TTTC
1 TTTC
42109457 TAAATTCAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (25 bp):
TTTCAAAAAGTACTAACTACAATAT
Found at i:42113151 original size:35 final size:36
Alignment explanation
Indices: 42113112--42113180 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
42113102 ATTATAATCA
*
42113112 TTGTCACATGGTATGAA-AACATACCCACATATTTG
1 TTGTCACATGGCATGAATAACATACCCACATATTTG
*
42113147 TTGTCACATGGCATGAATAACATGCCCACATATT
1 TTGTCACATGGCATGAATAACATACCCACATATT
42113181 CTCTTTCACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (36 bp):
TTGTCACATGGCATGAATAACATACCCACATATTTG
Found at i:42113190 original size:36 final size:35
Alignment explanation
Indices: 42113112--42113190 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
42113102 ATTATAATCA
* *
42113112 TTGTCACATGGTATGAAAACATACCCACATATTTG
1 TTGTCACATGGCATGAAAACATACCCACATATTTC
*
42113147 TTGTCACATGGCATGAATAACATGCCCACATATTCTC
1 TTGTCACATGGCATGAA-AACATACCCACATATT-TC
42113184 TT-TCACA
1 TTGTCACA
42113191 ACAGTCATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 16 0.41
36 20 0.51
37 3 0.08
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (35 bp):
TTGTCACATGGCATGAAAACATACCCACATATTTC
Found at i:42117501 original size:13 final size:11
Alignment explanation
Indices: 42117469--42117496 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
42117459 GGGGGAGAGC
42117469 TTTTTTGAAGT
1 TTTTTTGAAGT
42117480 TTTTTTGAAGT
1 TTTTTTGAAGT
42117491 TTTTTT
1 TTTTTT
42117497 TTGAAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (11 bp):
TTTTTTGAAGT
Found at i:42118007 original size:18 final size:18
Alignment explanation
Indices: 42117970--42118009 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
42117960 TATATATATG
** *
42117970 TATATTTATTTTTATGTA
1 TATATTTATTTCCATCTA
42117988 TATATTTATTTCCATCTA
1 TATATTTATTTCCATCTA
42118006 TATA
1 TATA
42118010 CGCATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (18 bp):
TATATTTATTTCCATCTA
Found at i:42118488 original size:15 final size:16
Alignment explanation
Indices: 42118468--42118497 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42118458 TTATGTTAAT
42118468 TTGTTTAT-TTATTTA
1 TTGTTTATATTATTTA
42118483 TTGTTTATATTATTT
1 TTGTTTATATTATTT
42118498 CTATACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (16 bp):
TTGTTTATATTATTTA
Found at i:42124578 original size:88 final size:88
Alignment explanation
Indices: 42124425--42124639 Score: 342
Period size: 88 Copynumber: 2.4 Consensus size: 88
42124415 GTGAAGATAA
* * *
42124425 CAGATCTTGCCTTTCTGCACCGACAGCGAAGTAGATCGAAGACACCGACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCGACCTTGCCTCCCTAGGTT
*
42124490 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGAAGCAGGTTAAAAATAG
* * *
42124513 CAGATCTTGCCTTCCTGCACCGACAACAAAGCAGATCGAAGACACC-AGCCTTGCCTTCCTAGGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCGA-CCTTGCCTCCCTAGGT
42124577 TGTAGCGAAGCAGGTTAAAAATAG
65 TGTAGCGAAGCAGGTTAAAAATAG
*
42124601 TAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
42124640 TGGCCCTAGC
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
87 1 0.01
88 115 0.99
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCGACCTTGCCTCCCTAGGTT
GTAGCGAAGCAGGTTAAAAATAG
Found at i:42124713 original size:44 final size:44
Alignment explanation
Indices: 42124650--42124771 Score: 169
Period size: 44 Copynumber: 2.8 Consensus size: 44
42124640 TGGCCCTAGC
42124650 CCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGG-TCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
42124694 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* **
42124738 CCTATCTCCCTGAG-CAACAGTGGGGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
42124772 AATAGCAGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
43 1 0.01
44 68 0.94
45 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:42125181 original size:44 final size:44
Alignment explanation
Indices: 42125084--42125197 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
42125074 GAATATGGAA
* *
42125084 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAC
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTAAAGACAAC
* * * **
42125128 AATCCTATCTCCCTAAAGTTGCAGAGGAGTGGATTAAA-ATTAC
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTAAAGACAAC
* *
42125171 AGATCTTATCTCTCTGAAGTTGTAGAG
1 A-ATCTTATCTCCCTGAAGTTGCAGAG
42125198 AGCAGGTCAT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.05
44 55 0.95
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTAAAGACAAC
Found at i:42126801 original size:18 final size:18
Alignment explanation
Indices: 42126759--42126803 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
42126749 TTTTATATAT
* **
42126759 ATATGTATATTTATTTTT
1 ATATATATATTTATTTCC
*
42126777 ATGTATATATTTATTTCC
1 ATATATATATTTATTTCC
42126795 ATATATATA
1 ATATATATA
42126804 CGCATATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (18 bp):
ATATATATATTTATTTCC
Found at i:42127275 original size:19 final size:20
Alignment explanation
Indices: 42127247--42127292 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
42127237 CATGTCCGCG
*
42127247 TTTATCTATTTA-TGTTAAT
1 TTTATTTATTTATTGTTAAT
*
42127266 TTTATTTATTTATTGTTTAT
1 TTTATTTATTTATTGTTAAT
*
42127286 ATTATTT
1 TTTATTT
42127293 CTACACAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTATTTATTTATTGTTAAT
Found at i:42139332 original size:13 final size:14
Alignment explanation
Indices: 42139314--42139342 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
42139304 TCTACTCGTA
42139314 TGGATTTT-CTTTT
1 TGGATTTTCCTTTT
42139327 TGGATTTTCCTTTT
1 TGGATTTTCCTTTT
42139341 TG
1 TG
42139343 TTTTGTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.07, C:0.10, G:0.17, T:0.66
Consensus pattern (14 bp):
TGGATTTTCCTTTT
Found at i:42147476 original size:40 final size:40
Alignment explanation
Indices: 42147425--42147541 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
42147415 CGTTTGGAGC
* **
42147425 AAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
42147465 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
42147505 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
42147542 TAGATAACGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:42147771 original size:111 final size:112
Alignment explanation
Indices: 42147489--42148412 Score: 1568
Period size: 112 Copynumber: 8.3 Consensus size: 112
42147479 AGAGTGAGCA
** *
42147489 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
42147554 CGAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
42147601 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCGTTAGTGGCGTTTATAGATAACGCCA
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
42147666 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
42147712 TTAGTGGCGTTTATTGTAAAGCGTCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
* *
42147777 CAAGTAATACACCCAAACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
42147823 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
42147888 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-AGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
42147934 TTAGTGGCGTTTATTGTAAAGCACCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
42147999 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
42148046 TTAGTGGCGTTTATTGCAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
42148111 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
42148158 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTAAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
42148223 CAAATAATACACCCAGACGGTGTCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* ** * * * *
42148270 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCC
* *
42148335 GCAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGG-C
65 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
42148382 ATTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 -TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
42148413 TCTAGGTGTT
Statistics
Matches: 773, Mismatches: 36, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
111 322 0.42
112 371 0.48
113 80 0.10
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (112 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:42150199 original size:84 final size:84
Alignment explanation
Indices: 42150088--42150288 Score: 339
Period size: 84 Copynumber: 2.4 Consensus size: 84
42150078 TAGTTAAACT
*** *
42150088 TTTAGTGGCGTTTTTAGGAAAATGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAATGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
42150153 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
* *
42150172 TTTAGTGGCGTTTTTCTAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAATGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
42150237 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
42150256 TTTAGTGGCGTTTTTACCAAAAATGCCACAAAA
1 TTTAGTGGCGTTTTT-CCAAAAATGCCACAAAA
42150289 CGGTGTTAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 94 0.86
85 15 0.14
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTCCAAAAATGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
TCTGTTCACAGCTGTAATA
Found at i:42151506 original size:11 final size:11
Alignment explanation
Indices: 42151486--42151525 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
42151476 GAATATCTCA
42151486 AACT-ATGGGT
1 AACTAATGGGT
42151496 AACTAATGGGT
1 AACTAATGGGT
42151507 AACTAATGGGT
1 AACTAATGGGT
42151518 AACTAATG
1 AACTAATG
42151526 TATTATCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 4 0.14
11 25 0.86
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:42152890 original size:17 final size:17
Alignment explanation
Indices: 42152868--42153227 Score: 164
Period size: 17 Copynumber: 20.6 Consensus size: 17
42152858 GTTAAATTTA
42152868 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
42152885 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
42152902 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
*
42152925 TTACCAAAATACATTAC
1 TTACTAAAATACATTAC
42152942 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
42152959 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
42152982 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
42152999 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
42153022 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
42153039 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
42153056 TTAC-ATAAAT---TT-G
1 TTACTA-AAATACATTAC
** *
42153069 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
42153083 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
42153100 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
42153123 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
42153140 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
42153157 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
42153170 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
42153184 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
42153201 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
42153218 TTACTAAAAT
1 TTACTAAAAT
42153228 TTGTTTAAAT
Statistics
Matches: 269, Mismatches: 26, Indels: 96
0.69 0.07 0.25
Matches are distributed among these distances:
10 8 0.03
11 1 0.00
13 8 0.03
14 8 0.03
16 15 0.06
17 167 0.62
18 4 0.01
22 4 0.01
23 42 0.16
24 12 0.04
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:42152947 original size:57 final size:57
Alignment explanation
Indices: 42152859--42153008 Score: 257
Period size: 57 Copynumber: 2.6 Consensus size: 57
42152849 CGATTGAATG
42152859 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
* *
42152916 TTAAATTTATTACCAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
42152973 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
42153009 TTGTTTAAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
57 87 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:42153046 original size:57 final size:60
Alignment explanation
Indices: 42152985--42153109 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 60
42152975 AAATTTATTT
42152985 CTAAAATACATTACTTAC-TAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACAT-AAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
42153042 CTAAAATACATTACTTACATAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACATAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
42153103 CTAAAAT
1 CTAAAAT
42153110 TTGTTTAAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
57 31 0.50
58 1 0.02
59 1 0.02
60 2 0.03
61 27 0.44
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACATAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:42153047 original size:40 final size:40
Alignment explanation
Indices: 42152942--42153048 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
42152932 AATACATTAC
42152942 TTACTAAAATACATTACTTAC-ATAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTA-AAATTTGTTTAAATTTA
*
42152982 TTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
42153022 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
42153049 ACATTACTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 63 0.98
41 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:42153122 original size:101 final size:101
Alignment explanation
Indices: 42152880--42153210 Score: 573
Period size: 101 Copynumber: 3.3 Consensus size: 101
42152870 ACTAAAATAC
* * *
42152880 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACCAAAATACATTACTTA
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
42152945 CTAAAATACATTACTTACATAAATTTGTTTAAATTT
66 CTAAAATACATTACTTACATAAATTTGTTTAAATTT
42152981 A-T--TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
42153042 CTAAAATACATTACTTACATAAATTTGTTTAAATTT
66 CTAAAATACATTACTTACATAAATTTGTTTAAATTT
*
42153078 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
42153143 CTAAAATACATTACTTAC-TAAAATTTGTTTAAATTT
66 CTAAAATACATTACTTACAT-AAATTTGTTTAAATTT
*
42153179 ATTAATTACTTAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
42153211 ACATTACTTA
Statistics
Matches: 222, Mismatches: 3, Indels: 10
0.94 0.01 0.04
Matches are distributed among these distances:
97 92 0.41
98 3 0.01
100 4 0.02
101 123 0.55
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (101 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
CTAAAATACATTACTTACATAAATTTGTTTAAATTT
Found at i:42153137 original size:40 final size:43
Alignment explanation
Indices: 42153034--42153149 Score: 168
Period size: 44 Copynumber: 2.7 Consensus size: 43
42153024 ACTAAAATAC
*
42153034 ATTACTTACTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTA-AAATTTGTTTAAA-TT
*
42153078 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
42153120 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
42153150 ACATTACTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
40 27 0.40
41 2 0.03
42 1 0.01
44 37 0.54
45 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:42153161 original size:61 final size:57
Alignment explanation
Indices: 42153078--42153260 Score: 285
Period size: 57 Copynumber: 3.1 Consensus size: 57
42153068 GTTTAAATTT
* * *
42153078 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAC
42153135 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAA--T-TT-ATTACTTAAATAC
*
42153196 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAC
*
42153253 GTTACTTA
1 ATTACTTA
42153261 AATTTATTAC
Statistics
Matches: 117, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
57 58 0.50
58 2 0.02
59 2 0.02
60 2 0.02
61 53 0.45
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAC
Found at i:42153250 original size:13 final size:13
Alignment explanation
Indices: 42153232--42153276 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
42153222 TAAAATTTGT
42153232 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
42153245 TTAAATATGTTAC
1 TTAAATTTATTAC
42153258 TTAAATTTATTAC
1 TTAAATTTATTAC
42153271 TTAAAT
1 TTAAAT
42153277 AATTATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:42153506 original size:73 final size:73
Alignment explanation
Indices: 42153423--42153572 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
42153413 TAAAATAAAA
42153423 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
42153488 TTAATAAT
66 TTAATAAT
42153496 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
42153561 TTAATAAT
66 TTAATAAT
42153569 TATA
1 TATA
42153573 TTAGTAATGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:42153539 original size:38 final size:38
Alignment explanation
Indices: 42153424--42153540 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
42153414 AAAATAAAAT
42153424 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
42153462 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
42153497 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
42153535 ATAAAA
1 ATAAAA
42153541 TGTTATTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 13 0.22
35 12 0.21
36 1 0.02
37 1 0.02
38 18 0.31
39 13 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:42153653 original size:25 final size:25
Alignment explanation
Indices: 42153609--42153910 Score: 429
Period size: 25 Copynumber: 12.1 Consensus size: 25
42153599 ATTTTATTAA
*
42153609 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
42153635 ATAATACATTTAACTTACATTACTTAC
1 ATAATACATTTAACTTACA--ACTTAC
*
42153662 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
42153688 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
42153713 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
42153738 ATAATACA--T---TT--AACTTAC
1 ATAATACATTTAACTTACAACTTAC
42153756 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
* *
42153781 ACAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
42153807 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
42153833 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
42153858 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
42153883 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
42153909 AT
1 AT
42153911 TTAACTTACA
Statistics
Matches: 254, Mismatches: 10, Indels: 24
0.88 0.03 0.08
Matches are distributed among these distances:
18 15 0.06
20 3 0.01
23 3 0.01
25 119 0.47
26 90 0.35
27 15 0.06
28 9 0.04
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAATACATTTAACTTACAACTTAC
Found at i:42153781 original size:18 final size:18
Alignment explanation
Indices: 42153628--42153774 Score: 102
Period size: 18 Copynumber: 8.4 Consensus size: 18
42153618 AATAACTTAC
42153628 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
42153646 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
42153664 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
42153681 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
42153699 AACTTACA-ACTTACA--T
1 AACTTACATA-ATACATTT
* *
42153715 AA--TACAT-TTA-ACTTAC
1 AACTTACATAATACA-TT-T
42153731 AACTTACATAATACATTT
1 AACTTACATAATACATTT
42153749 AACTTACATAATACATTT
1 AACTTACATAATACATTT
42153767 AACTTACA
1 AACTTACA
42153775 ACTTACACAA
Statistics
Matches: 102, Mismatches: 8, Indels: 38
0.69 0.05 0.26
Matches are distributed among these distances:
12 1 0.01
13 4 0.04
14 6 0.06
15 2 0.02
16 9 0.09
17 3 0.03
18 54 0.53
19 17 0.17
20 6 0.06
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:42153832 original size:145 final size:146
Alignment explanation
Indices: 42153609--42153929 Score: 513
Period size: 145 Copynumber: 2.2 Consensus size: 146
42153599 ATTTTATTAA
* * *
42153609 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAAT
1 ATAATACAT-TTAACTTACAACTTACACAATACATATAACTTACA-TACTTACATAATACATAAT
*
42153674 AACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACAACTTACA
64 AACTTACAACTTACATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACA
*
42153739 TAATACAT-TTAACTTAC
129 TAATACATAATAACTTAC
42153756 ATAATACATTTAACTTACAACTTACACAATACATAATAACTTACA-ACTTACATAATACATAATA
1 ATAATACATTTAACTTACAACTTACACAATACAT-ATAACTTACATACTTACATAATACATAATA
42153820 ACTTACAACTTACATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACAT
65 ACTTACAACTTACATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACAT
42153885 AATACATAATAACTTAC
130 AATACATAATAACTTAC
*
42153902 A-ACTTACATTTAACTTACATAACTTACA
1 ATA-ATACATTTAACTTAC--AACTTACA
42153930 TAACTTACCA
Statistics
Matches: 163, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
145 91 0.56
146 46 0.28
147 18 0.11
148 8 0.05
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (146 bp):
ATAATACATTTAACTTACAACTTACACAATACATATAACTTACATACTTACATAATACATAATAA
CTTACAACTTACATAATACATTTAACTTACAACTTACACAATACATTTAACTTACAACTTACATA
ATACATAATAACTTAC
Found at i:42153900 original size:19 final size:18
Alignment explanation
Indices: 42153876--42153923 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
42153866 TTTAACTTAC
42153876 AACTTACATAATACATAAT
1 AACTTACATAATACAT-AT
* *
42153895 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATAT
42153913 AACTTACATAA
1 AACTTACATAA
42153924 CTTACATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (18 bp):
AACTTACATAATACATAT
Found at i:42159411 original size:21 final size:21
Alignment explanation
Indices: 42159385--42159455 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
42159375 CTACAACTTA
* *
42159385 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
42159406 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
42159427 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
42159448 AAGCAGAG
1 AAGCAGAG
42159456 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:42159839 original size:43 final size:43
Alignment explanation
Indices: 42159765--42159902 Score: 183
Period size: 42 Copynumber: 3.2 Consensus size: 43
42159755 CCAAAATAGT
* *
42159765 GGCGTTTTTGTATA-AAAGCGCCACTAAAGAACATGGTCTTTAGC
1 GGCGTTTTT-TTTACAAA-CGCCGCTAAAGAACATGGTCTTTAGC
*
42159809 GGCGTTTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTTACAAACGCCGCTAAAGAACATGGTCTTTAGC
* *
42159852 GGCG-TTTTTTT-CTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTTTAC-AAACGCCGCTAAAGAACATGGTCTTTAGC
42159894 GGCGTTTTT
1 GGCGTTTTT
42159903 GTTTGTAAAC
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
41 1 0.01
42 37 0.44
43 35 0.41
44 12 0.14
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (43 bp):
GGCGTTTTTTTTACAAACGCCGCTAAAGAACATGGTCTTTAGC
Found at i:42159873 original size:42 final size:42
Alignment explanation
Indices: 42159765--42159902 Score: 188
Period size: 43 Copynumber: 3.2 Consensus size: 42
42159755 CCAAAATAGT
* *
42159765 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGGTCTTTAGC
1 GGCGTTTTT-T-TTAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* *
42159809 GGCGTTTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTTA-AAGCGCCGCTAAAGAACATGGTCTTTAGC
*
42159852 GGCGTTTTTTTCT-AAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTT-TAAAGCGCCGCTAAAGAACATGGTCTTTAGC
42159894 GGCGTTTTT
1 GGCGTTTTT
42159903 GTTTGTAAAC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
42 37 0.44
43 38 0.45
44 10 0.12
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
GGCGTTTTTTTTAAAGCGCCGCTAAAGAACATGGTCTTTAGC
Found at i:42169152 original size:16 final size:16
Alignment explanation
Indices: 42169131--42169161 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42169121 TTAATTAAAA
*
42169131 TTAATTAATTAATTTC
1 TTAATTAAATAATTTC
42169147 TTAATTAAATAATTT
1 TTAATTAAATAATTT
42169162 TTTCAACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTAAATAATTTC
Found at i:42169408 original size:20 final size:20
Alignment explanation
Indices: 42169385--42169433 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
42169375 AATCAAGTGC
*
42169385 AAATGATTTTAACCAAGTCA
1 AAATGATTTCAACCAAGTCA
* *
42169405 AAATGATTTCAATCAAGTTA
1 AAATGATTTCAACCAAGTCA
*
42169425 AAATCATTT
1 AAATGATTT
42169434 ATAAATGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (20 bp):
AAATGATTTCAACCAAGTCA
Found at i:42173295 original size:149 final size:149
Alignment explanation
Indices: 42173086--42173378 Score: 523
Period size: 149 Copynumber: 2.0 Consensus size: 149
42173076 TGACTCAAGA
* * * **
42173086 CTCTCTTTATATAGGGAGAGTTTAAAGAGCTCAACTATGATTAAACTTAATTACTTTAATATTAA
1 CTCTATTTATATAGGAAGAGTTTAAAGAACTCAACTATGATTAAACTTAACCACTTTAATATTAA
42173151 ATTAATATAATATTTATCAAGACAAAGATTAGATTAAATTTAATATAAAATCTTATTAAAATAAT
66 ATTAATATAATATTTATCAAGACAAAGATTAGATTAAATTTAATATAAAATCTTATTAAAATAAT
42173216 AGAATGTTTATCTATAAGG
131 AGAATGTTTATCTATAAGG
*
42173235 CTCTATTTATATAGGAAGAGTTTAGAGAACTCAACTATGATTAAACTTAACCACTTTAATATTAA
1 CTCTATTTATATAGGAAGAGTTTAAAGAACTCAACTATGATTAAACTTAACCACTTTAATATTAA
*
42173300 ATTAATATAATATTTATCAAGACAAATATTAGATTAAATTTAATATAAAATCTTATTAAAATAAT
66 ATTAATATAATATTTATCAAGACAAAGATTAGATTAAATTTAATATAAAATCTTATTAAAATAAT
42173365 AGAATGTTTATCTA
131 AGAATGTTTATCTA
42173379 CAATATAAAA
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 137 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (149 bp):
CTCTATTTATATAGGAAGAGTTTAAAGAACTCAACTATGATTAAACTTAACCACTTTAATATTAA
ATTAATATAATATTTATCAAGACAAAGATTAGATTAAATTTAATATAAAATCTTATTAAAATAAT
AGAATGTTTATCTATAAGG
Found at i:42179088 original size:17 final size:17
Alignment explanation
Indices: 42179068--42179121 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
42179058 GTCTGCAAAG
42179068 AGATACTCCTGTCACAC
1 AGATACTCCTGTCACAC
42179085 AGATACGAT-CTG-CA-AC
1 AGATAC--TCCTGTCACAC
42179101 GAGATACTCCTGTCACAC
1 -AGATACTCCTGTCACAC
42179119 AGA
1 AGA
42179122 CTTCTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
15 1 0.03
16 5 0.16
17 19 0.61
18 5 0.16
19 1 0.03
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (17 bp):
AGATACTCCTGTCACAC
Found at i:42179097 original size:34 final size:34
Alignment explanation
Indices: 42179053--42179121 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
42179043 TAGCTCTCAT
*
42179053 ATACGGTCTGCAAAGAGATACTCCTGTCACACAG
1 ATACGATCTGCAAAGAGATACTCCTGTCACACAG
*
42179087 ATACGATCTGCAACGAGATACTCCTGTCACACAG
1 ATACGATCTGCAAAGAGATACTCCTGTCACACAG
42179121 A
1 A
42179122 CTTCTCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (34 bp):
ATACGATCTGCAAAGAGATACTCCTGTCACACAG
Found at i:42181150 original size:24 final size:24
Alignment explanation
Indices: 42181110--42181165 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
42181100 ATATATCACA
*
42181110 ATTATAAAATTACATAATATAAAT
1 ATTATAAAATTACATAAAATAAAT
* *
42181134 ATTATAAACATT-TATAAAATAGAT
1 ATTATAAA-ATTACATAAAATAAAT
42181158 ATATATAA
1 AT-TATAA
42181166 TGAGATAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTATAAAATTACATAAAATAAAT
Found at i:42182792 original size:318 final size:318
Alignment explanation
Indices: 42182215--42182852 Score: 949
Period size: 318 Copynumber: 2.0 Consensus size: 318
42182205 CAAATTAATA
* * *
42182215 AAATTTTCTGTTAAAGTCCCTATGGGAGTGTAACTCTTCCACTGCTCAACCACCGAATATCAACC
1 AAATTTTCTGGTAAAGTCCCTATAGGAGTGTAACTATTCCACTGCTCAACCACCGAATATCAACC
* * *
42182280 ACTGCCAACCACCGAAACACCGTCGCCGCAATCGCCGTGTCTAGTGATACAGGTGCAACACTTTT
66 ACCGCCAACCACCGAAACACCGTCGCCGCAACCGCCGTGTCTAGTGATACAGCTGCAACACTTTT
* * * * * * *
42182345 ACAGTACCTCAAACCAGTTTAGTTACTATCGATTCGGTCCGGGTCAGTGATGACCCAATCGGTCC
131 ACAGCACCCCAAACAAGTTCAATTACTATCGATTCGGTCCGGGTCAATGACGACCCAATCGGTCC
* ** * *
42182410 GGTCTAGCCACCGGTTGGATTGTCGACTCAATTTCACATACAGGGCCTGATTTAATCAGTTTTTG
196 GGTCTAACCACCGGTTGGATTGTCGACTCAATTTCACATACAGGGCCCAATTCAACCAGTTTTTG
*
42182475 GGTCTTGGTCTCAGTTTTAGGCTCTCGTGCCCAATTTATGATCTCAAGTCCAATTTTC
261 GGTCTTGGTCTCAGTTTTAGGCTCTCGTACCCAATTTATGATCTCAAGTCCAATTTTC
*
42182533 AAATTTTCTGGTAGAGTCCCTATAGGAGTGTAACTATTCCACTGCTCAACCACCGAATATCAACC
1 AAATTTTCTGGTAAAGTCCCTATAGGAGTGTAACTATTCCACTGCTCAACCACCGAATATCAACC
* * * * * * **
42182598 ACCGCCAGCCACCGGAACGCCGTCGTCGCAGCCGCTGTGTCTAGTGATACAGCTGTGACACTTTT
66 ACCGCCAACCACCGAAACACCGTCGCCGCAACCGCCGTGTCTAGTGATACAGCTGCAACACTTTT
* *
42182663 ACGGCACCCCAAACAAGTTCAATTACTATCGATTTGGTACC-GGTCAATGACGACCCAATCGGTC
131 ACAGCACCCCAAACAAGTTCAATTACTATCGATTCGGT-CCGGGTCAATGACGACCCAATCGGTC
42182727 CGGTCTAACCACCGGTTGGATTGTCGAC-CTAATTTCACATACTA-GGCCCAATTCAACCAGTTT
195 CGGTCTAACCACCGGTTGGATTGTCGACTC-AATTTCACATAC-AGGGCCCAATTCAACCAGTTT
*
42182790 TTGGGTCTTGGTCTCAGTTTTAGGCTCTCGTACCCAATTTATGATCTCAAGTCTAATTTTC
258 TTGGGTCTTGGTCTCAGTTTTAGGCTCTCGTACCCAATTTATGATCTCAAGTCCAATTTTC
42182851 AA
1 AA
42182853 GTTTAATTAC
Statistics
Matches: 286, Mismatches: 31, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
317 1 0.00
318 282 0.99
319 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (318 bp):
AAATTTTCTGGTAAAGTCCCTATAGGAGTGTAACTATTCCACTGCTCAACCACCGAATATCAACC
ACCGCCAACCACCGAAACACCGTCGCCGCAACCGCCGTGTCTAGTGATACAGCTGCAACACTTTT
ACAGCACCCCAAACAAGTTCAATTACTATCGATTCGGTCCGGGTCAATGACGACCCAATCGGTCC
GGTCTAACCACCGGTTGGATTGTCGACTCAATTTCACATACAGGGCCCAATTCAACCAGTTTTTG
GGTCTTGGTCTCAGTTTTAGGCTCTCGTACCCAATTTATGATCTCAAGTCCAATTTTC
Found at i:42187863 original size:3 final size:3
Alignment explanation
Indices: 42187855--42187889 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
42187845 AAGTTAAAAT
42187855 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
42187890 GGAAGAGCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:42188323 original size:15 final size:18
Alignment explanation
Indices: 42188284--42188319 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
42188274 ATTAAAAGTT
42188284 TATAATTCGAATTTATTA
1 TATAATTCGAATTTATTA
42188302 TATAATTCGAATTTATTA
1 TATAATTCGAATTTATTA
42188320 AATTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
TATAATTCGAATTTATTA
Found at i:42192363 original size:19 final size:20
Alignment explanation
Indices: 42192305--42192358 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
42192295 AAATAGTGAG
42192305 AATT-TATTTTCTGAGTATA
1 AATTCTATTTTCTGAGTATA
42192324 AATTCTATTTT-TCGAGTATA
1 AATTCTATTTTCT-GAGTATA
42192344 AATTCTATTTTCTGA
1 AATTCTATTTTCTGA
42192359 AATAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.16
20 26 0.81
21 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (20 bp):
AATTCTATTTTCTGAGTATA
Found at i:42193080 original size:46 final size:46
Alignment explanation
Indices: 42193027--42193117 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
42193017 GATTAAATAA
42193027 TTTATTTAAATTTGATTTAATTTTATTTCAAAATTAAGAAAACTAG
1 TTTATTTAAATTTGATTTAATTTTATTTCAAAATTAAGAAAACTAG
*
42193073 TTTATTTAACTTTGATTTAATTTTATTTCAAAATTAAGAAAACTA
1 TTTATTTAAATTTGATTTAATTTTATTTCAAAATTAAGAAAACTA
42193118 ACTTTTATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (46 bp):
TTTATTTAAATTTGATTTAATTTTATTTCAAAATTAAGAAAACTAG
Found at i:42193284 original size:23 final size:23
Alignment explanation
Indices: 42193242--42193285 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
42193232 CTATATCTCG
*
42193242 AAATGACCTGACCCTCAAATTTA
1 AAATGACCTGAACCTCAAATTTA
* *
42193265 AAATGACCTGAATCTGAAATT
1 AAATGACCTGAACCTCAAATT
42193286 AACTGAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (23 bp):
AAATGACCTGAACCTCAAATTTA
Found at i:42196868 original size:14 final size:14
Alignment explanation
Indices: 42196849--42196876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42196839 TATATTAGTA
42196849 TTTTCTATTCTATT
1 TTTTCTATTCTATT
42196863 TTTTCTATTCTATT
1 TTTTCTATTCTATT
42196877 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:42196888 original size:5 final size:6
Alignment explanation
Indices: 42196873--42196943 Score: 68
Period size: 5 Copynumber: 13.2 Consensus size: 6
42196863 TTTTCTATTC
* *
42196873 TATTAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
42196917 TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
42196944 TAGTGATCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.07
5 28 0.48
6 26 0.45
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.49
Consensus pattern (6 bp):
TATTAG
Found at i:42196888 original size:11 final size:11
Alignment explanation
Indices: 42196874--42196947 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
42196864 TTTCTATTCT
42196874 ATTAGTATTAG
1 ATTAGTATTAG
**
42196885 ATTAGTATTCT
1 ATTAGTATTAG
*
42196896 ATT-CTATTAG
1 ATTAGTATTAG
42196906 --TA-T--TAG
1 ATTAGTATTAG
42196912 ATTAGTATTAG
1 ATTAGTATTAG
42196923 -TTAG-ATTAG
1 ATTAGTATTAG
42196932 ATTAGTATTAG
1 ATTAGTATTAG
42196943 -TTAGT
1 ATTAGT
42196948 GATCCCGGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
6 3 0.06
8 4 0.08
9 6 0.12
10 17 0.34
11 20 0.40
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:42196895 original size:27 final size:27
Alignment explanation
Indices: 42196865--42196920 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
42196855 ATTCTATTTT
42196865 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
42196892 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
42196919 TT
1 TT
42196921 AGTTAGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.54
Consensus pattern (27 bp):
TTCTATTCTATTAGTATTAGATTAGTA
Found at i:42196932 original size:20 final size:21
Alignment explanation
Indices: 42196902--42196947 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
42196892 TTCTATTCTA
42196902 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
42196923 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
42196943 TTAGT
1 TTAGT
42196948 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:42205474 original size:20 final size:20
Alignment explanation
Indices: 42205426--42205474 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
42205416 CAGAAAAGTT
*
42205426 ATTTTTATATATATTAATAA
1 ATTTTTATACATATTAATAA
* *
42205446 ATCTATATACATATTAATAA
1 ATTTTTATACATATTAATAA
42205466 ATTTTTATA
1 ATTTTTATA
42205475 TTTTAAATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTTATACATATTAATAA
Found at i:42206776 original size:32 final size:32
Alignment explanation
Indices: 42206730--42206790 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
42206720 TGTCAATCAT
42206730 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
42206762 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
42206791 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:42206797 original size:27 final size:30
Alignment explanation
Indices: 42206730--42206803 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
42206720 TGTCAATCAT
*
42206730 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
42206762 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
42206790 -TCAATATCTAACAA
1 TTCAATATCTAACAA
42206804 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 14 0.34
28 2 0.05
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:42206814 original size:27 final size:27
Alignment explanation
Indices: 42206731--42206817 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 27
42206721 GTCAATCATT
* *
42206731 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
*
42206762 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
42206790 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
42206817 T
1 T
42206818 AATTTCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 23 0.45
28 2 0.04
29 2 0.04
32 22 0.43
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:42225285 original size:31 final size:31
Alignment explanation
Indices: 42225250--42225312 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
42225240 TTTTTTAAAA
42225250 TTGAACAGCTCAATGACTTAAATAAAAACTT
1 TTGAACAGCTCAATGACTTAAATAAAAACTT
* ** * *
42225281 TTGAATATTTCAATTACTTGAATAAAAACTT
1 TTGAACAGCTCAATGACTTAAATAAAAACTT
42225312 T
1 T
42225313 CGAATATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.37
Consensus pattern (31 bp):
TTGAACAGCTCAATGACTTAAATAAAAACTT
Found at i:42225318 original size:31 final size:30
Alignment explanation
Indices: 42225259--42225327 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
42225249 ATTGAACAGC
*
42225259 TCAATGACTTAAATAAAAACTTTTGAATATT
1 TCAATGACTTAAATAAAAACTTTCGAATA-T
* *
42225290 TCAATTACTTGAATAAAAACTTTCGAATAT
1 TCAATGACTTAAATAAAAACTTTCGAATAT
42225320 TCAATGAC
1 TCAATGAC
42225328 CATTTTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.36
Consensus pattern (30 bp):
TCAATGACTTAAATAAAAACTTTCGAATAT
Found at i:42238232 original size:29 final size:29
Alignment explanation
Indices: 42238200--42238255 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
42238190 AAAGGTCGGT
42238200 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
42238229 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
42238256 ATTTTCCGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:42252806 original size:15 final size:15
Alignment explanation
Indices: 42252788--42252821 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
42252778 ATTTATTTTA
42252788 ATATTATTTTATGGT
1 ATATTATTTTATGGT
42252803 ATATTATTTTATGGT
1 ATATTATTTTATGGT
42252818 ATAT
1 ATAT
42252822 AGTATCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (15 bp):
ATATTATTTTATGGT
Found at i:42256427 original size:25 final size:25
Alignment explanation
Indices: 42256393--42256503 Score: 127
Period size: 25 Copynumber: 4.4 Consensus size: 25
42256383 ACAACTCTCT
42256393 TGAGCTTCCCGATATTTAGCTCATA
1 TGAGCTTCCCGATATTTAGCTCATA
*
42256418 TGAGCTTCCCGAT-TTCTAGCTCGTA
1 TGAGCTTCCCGATATT-TAGCTCATA
* *
42256443 TGAGCTTCCCGATATAT-GACTCGTA
1 TGAGCTTCCCGATATTTAG-CTCATA
* * *
42256468 TGAGCTTCTCGTTACTTAGCTCATA
1 TGAGCTTCCCGATATTTAGCTCATA
*
42256493 TGAGCATCCCG
1 TGAGCTTCCCG
42256504 TTATATGGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
24 3 0.04
25 68 0.93
26 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGATATTTAGCTCATA
Found at i:42256470 original size:50 final size:50
Alignment explanation
Indices: 42256393--42256530 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
42256383 ACAACTCTCT
* * * *
42256393 TGAGCTTCCCGATAT-TTAGCTCATATGAGCTTCCCGATTTC-TAGCTCGTA
1 TGAGCTTCCCGATATATGA-CTCGTATGAGCTTCCCG-TTACTTAGCTCATA
*
42256443 TGAGCTTCCCGATATATGACTCGTATGAGCTTCTCGTTACTTAGCTCATA
1 TGAGCTTCCCGATATATGACTCGTATGAGCTTCCCGTTACTTAGCTCATA
* * * * *
42256493 TGAGCATCCCGTTATATGGCTCGGAAGAGCTTCCCGTT
1 TGAGCTTCCCGATATATGACTCGTATGAGCTTCCCGTT
42256531 TACATGCTTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
49 3 0.04
50 70 0.93
51 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (50 bp):
TGAGCTTCCCGATATATGACTCGTATGAGCTTCCCGTTACTTAGCTCATA
Found at i:42256514 original size:25 final size:25
Alignment explanation
Indices: 42256393--42256530 Score: 120
Period size: 25 Copynumber: 5.5 Consensus size: 25
42256383 ACAACTCTCT
* *
42256393 TGAGCTTCCCGATATTTAGCTCATA
1 TGAGCTTCCCGTTATATAGCTCATA
* *
42256418 TGAGCTTCCCGATT-TCTAGCTCGTA
1 TGAGCTTCCCG-TTATATAGCTCATA
* *
42256443 TGAGCTTCCCGATATAT-GACTCGTA
1 TGAGCTTCCCGTTATATAG-CTCATA
*
42256468 TGAGCTTCTCGTTACT-TAGCTCATA
1 TGAGCTTCCCGTTA-TATAGCTCATA
* * **
42256493 TGAGCATCCCGTTATATGGCTCGGA
1 TGAGCTTCCCGTTATATAGCTCATA
*
42256518 AGAGCTTCCCGTT
1 TGAGCTTCCCGTT
42256531 TACATGCTTG
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.03
25 86 0.93
26 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGTTATATAGCTCATA
Found at i:42264953 original size:21 final size:21
Alignment explanation
Indices: 42264905--42264962 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
42264895 CATTAAAGAG
*
42264905 TGTTGTGGTTGCATCTGATTC
1 TGTTGTGGATGCATCTGATTC
* *
42264926 TGATGTGGATGCATCTAGCTT-
1 TGTTGTGGATGCATCT-GATTC
*
42264947 TGTTGTGGATGAATCT
1 TGTTGTGGATGCATCT
42264963 TAGTGTGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 28 0.90
22 3 0.10
ACGTcount: A:0.16, C:0.12, G:0.29, T:0.43
Consensus pattern (21 bp):
TGTTGTGGATGCATCTGATTC
Found at i:42264971 original size:21 final size:21
Alignment explanation
Indices: 42264929--42264972 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
42264919 CTGATTCTGA
* *
42264929 TGTGGATGCATCTAGCTTTGT
1 TGTGGATGAATCTAGCTGTGT
42264950 TGTGGATGAATCTTAG-TGTGT
1 TGTGGATGAATC-TAGCTGTGT
42264971 TG
1 TG
42264973 ATTGCAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.16, C:0.09, G:0.32, T:0.43
Consensus pattern (21 bp):
TGTGGATGAATCTAGCTGTGT
Found at i:42287410 original size:21 final size:21
Alignment explanation
Indices: 42287371--42287412 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
42287361 GAAATTAAAA
*
42287371 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCACGTTAATT
42287392 TGTTTTAATTTC-CAGTTAATT
1 TGTTTTAATTTCAC-GTTAATT
42287413 ACAAAATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAATTTCACGTTAATT
Found at i:42290375 original size:4 final size:4
Alignment explanation
Indices: 42290366--42290403 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
42290356 TATTAAATCA
42290366 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
42290404 CTATTGTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:42292440 original size:20 final size:20
Alignment explanation
Indices: 42292415--42292456 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
42292405 ATGATGCTGA
42292415 TTAATTTATTATATACTTTT
1 TTAATTTATTATATACTTTT
42292435 TTAATTTATTATATACTTTT
1 TTAATTTATTATATACTTTT
42292455 TT
1 TT
42292457 TCTTGCAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTAATTTATTATATACTTTT
Found at i:42294914 original size:20 final size:20
Alignment explanation
Indices: 42294889--42294991 Score: 65
Period size: 20 Copynumber: 5.5 Consensus size: 20
42294879 ATGTTTTTAA
*
42294889 TTATGTATTGATTCAAAGAC
1 TTATGTAATGATTCAAAGAC
***
42294909 TTATGTAAT-ATTTTTA-A-
1 TTATGTAATGATTCAAAGAC
*
42294926 TTATGTAGTGATTCAAAGAC
1 TTATGTAATGATTCAAAGAC
* ***
42294946 TTATTTAAT-ATTTTTA-A-
1 TTATGTAATGATTCAAAGAC
* *
42294963 TTATGTAGTGATTCAAAGAT
1 TTATGTAATGATTCAAAGAC
42294983 TTATGTAAT
1 TTATGTAAT
42294992 ATTTTTAATT
Statistics
Matches: 58, Mismatches: 19, Indels: 12
0.65 0.21 0.13
Matches are distributed among these distances:
17 15 0.26
18 10 0.17
19 10 0.17
20 23 0.40
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.48
Consensus pattern (20 bp):
TTATGTAATGATTCAAAGAC
Found at i:42294917 original size:37 final size:37
Alignment explanation
Indices: 42294847--42295012 Score: 264
Period size: 37 Copynumber: 4.5 Consensus size: 37
42294837 AAGACTTATA
* *
42294847 TTTTAATTATGT-GTTAATTC-AAGACTTATGTAATGT
1 TTTTAATTATGTAG-TGATTCAAAGACTTATGTAATAT
*
42294883 TTTTAATTATGTATTGATTCAAAGACTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
*
42294920 TTTTAATTATGTAGTGATTCAAAGACTTATTTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
*
42294957 TTTTAATTATGTAGTGATTCAAAGATTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
42294994 TTTTAATTATGTAGTGATT
1 TTTTAATTATGTAGTGATT
42295013 TAATTCGGGT
Statistics
Matches: 121, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
36 17 0.14
37 104 0.86
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (37 bp):
TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
Found at i:42295005 original size:17 final size:17
Alignment explanation
Indices: 42294872--42295006 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
42294862 AATTCAAGAC
*
42294872 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* ***
42294889 TTATGTATTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
42294908 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
* ***
42294926 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
*
42294945 CTTATTTAATATTTTTAA
1 -TTATGTAATATTTTTAA
* ***
42294963 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
42294982 TTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
42295000 TTATGTA
1 TTATGTA
42295007 GTGATTTAAT
Statistics
Matches: 82, Mismatches: 27, Indels: 18
0.65 0.21 0.14
Matches are distributed among these distances:
17 30 0.37
18 14 0.17
19 15 0.18
20 23 0.28
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:42295027 original size:9 final size:9
Alignment explanation
Indices: 42295013--42295091 Score: 88
Period size: 9 Copynumber: 8.6 Consensus size: 9
42295003 TGTAGTGATT
42295013 TAATTCGGG
1 TAATTCGGG
42295022 TAATTCGGG
1 TAATTCGGG
42295031 TAATTTTCGGG
1 TAA--TTCGGG
42295042 TAATTCGGG
1 TAATTCGGG
*
42295051 TAATTCTGG
1 TAATTCGGG
42295060 TAATTAC-GG
1 TAATT-CGGG
*
42295069 TATTTCGGG
1 TAATTCGGG
*
42295078 TATTTCGGG
1 TAATTCGGG
*
42295087 CAATT
1 TAATT
42295092 TTTAACCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
8 1 0.02
9 51 0.82
10 1 0.02
11 9 0.15
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (9 bp):
TAATTCGGG
Found at i:42295055 original size:29 final size:28
Alignment explanation
Indices: 42295013--42295093 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
42295003 TGTAGTGATT
42295013 TAATTCGGGTAATTCGGGTAATTTTCGGG
1 TAATTCGGGTAATTCGGGTAATTTTC-GG
* *
42295042 TAATTCGGGTAATTCTGGTAA-TTACGG
1 TAATTCGGGTAATTCGGGTAATTTTCGG
* * *
42295069 TATTTCGGGTATTTCGGGCAATTTT
1 TAATTCGGGTAATTCGGGTAATTTT
42295094 TAACCAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 19 0.43
28 5 0.11
29 20 0.45
ACGTcount: A:0.21, C:0.11, G:0.27, T:0.41
Consensus pattern (28 bp):
TAATTCGGGTAATTCGGGTAATTTTCGG
Found at i:42296162 original size:41 final size:42
Alignment explanation
Indices: 42296039--42296222 Score: 216
Period size: 42 Copynumber: 4.4 Consensus size: 42
42296029 AGCGCGTCGT
* *
42296039 AGGCTTATTGCCAGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
42296081 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * *
42296123 AGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * * * *
42296164 AGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGCCTAGC
1 AGGCTTAA-TGCCGGTGAAAC-AATATCAGACTTTACGTCTAGC
42296205 AGGC-TAAGTGCCGGTGAA
1 AGGCTTAA-TGCCGGTGAA
42296223 TCTGTTTAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
40 5 0.04
41 60 0.48
42 61 0.48
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
Found at i:42298181 original size:16 final size:16
Alignment explanation
Indices: 42298157--42298202 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
42298147 TCCAAGTCAA
42298157 ATAA-AATAAATAAAT
1 ATAACAATAAATAAAT
*
42298172 ACTAA-GATAAATAAAT
1 A-TAACAATAAATAAAT
42298188 ATAACAATAAATAAA
1 ATAACAATAAATAAA
42298203 ATATTGGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (16 bp):
ATAACAATAAATAAAT
Found at i:42298201 original size:20 final size:19
Alignment explanation
Indices: 42298155--42298202 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
42298145 AATCCAAGTC
* *
42298155 AAATAAAATAAATAAATACT
1 AAAT-AAATAAATAAACAAT
42298175 AAGATAAATAAATATAACAAT
1 AA-ATAAATAAATA-AACAAT
42298196 AAATAAA
1 AAATAAA
42298203 ATATTGGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (19 bp):
AAATAAATAAATAAACAAT
Found at i:42298421 original size:25 final size:25
Alignment explanation
Indices: 42298388--42298451 Score: 119
Period size: 25 Copynumber: 2.5 Consensus size: 25
42298378 TTGTTAAAAC
42298388 TCTTCTAAAAGAAACTCAAGAGAAAT
1 TCTT-TAAAAGAAACTCAAGAGAAAT
42298414 TCTTTAAAAGAAACTCAAGAGAAAT
1 TCTTTAAAAGAAACTCAAGAGAAAT
42298439 TCTTTAAAAGAAA
1 TCTTTAAAAGAAA
42298452 AACTCAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 34 0.89
26 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (25 bp):
TCTTTAAAAGAAACTCAAGAGAAAT
Found at i:42299217 original size:23 final size:23
Alignment explanation
Indices: 42299187--42299235 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
42299177 CATAAGCTTG
42299187 AAGTTGGTCCTTAAGACTCATAT
1 AAGTTGGTCCTTAAGACTCATAT
42299210 AAGTTGGTCCTTAAGACTCATAT
1 AAGTTGGTCCTTAAGACTCATAT
42299233 AAG
1 AAG
42299236 AAAATCTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (23 bp):
AAGTTGGTCCTTAAGACTCATAT
Found at i:42299280 original size:13 final size:13
Alignment explanation
Indices: 42299259--42299291 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
42299249 AAAAAAGTAT
42299259 AAAAAATAAAGAA
1 AAAAAATAAAGAA
*
42299272 AAGAAATAAAGAA
1 AAAAAATAAAGAA
42299285 AAAAAAT
1 AAAAAAT
42299292 TGAAAAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAAATAAAGAA
Found at i:42301460 original size:13 final size:13
Alignment explanation
Indices: 42301439--42301501 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
42301429 TTAGGATTGA
42301439 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
42301452 TTTTAAAAAGTGC
1 TTTTGAAAAGTGC
** *
42301465 AGTGGAAAAGTGC
1 TTTTGAAAAGTGC
* *
42301478 TTTTGAGAAGTAC
1 TTTTGAAAAGTGC
42301491 TTTTGAAAAGT
1 TTTTGAAAAGT
42301502 TTGGTTTAAG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:42305937 original size:25 final size:25
Alignment explanation
Indices: 42305909--42305967 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
42305899 CAACTCGAGA
* *
42305909 GAGCTTACCAATATTCAGTTCGTAT
1 GAGCTTACCAATACTCAGCTCGTAT
**
42305934 GAGCTTACCTTTACTCAGCTCGTAT
1 GAGCTTACCAATACTCAGCTCGTAT
42305959 GAGCTTACC
1 GAGCTTACC
42305968 GATTACAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (25 bp):
GAGCTTACCAATACTCAGCTCGTAT
Done.