Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 25
Found at i:4515873 original size:100 final size:99
Alignment explanation
Indices: 4515745--4515932 Score: 254
Period size: 100 Copynumber: 1.9 Consensus size: 99
4515735 AAATGAAAGA
*
4515745 ATAAATGAAAATAAATAATGGTGCATTATTGACAGAAAGGTGT-CATAAATGAAAAT-TCATAAT
1 ATAAATGAAAATAAATAATGGTGAATTATTGACAGAAAGGT-TCCATAAATGAAAATGT-ATAAT
*
4515808 GGTGCATTATTGGTAGAAATGTGCCATAAAATGCACC
64 GGTGCATT-TTGGCAGAAATGTGCCATAAAATGCACC
* * * * * *
4515845 ATAAATGAAACTACATAGTGGTGAATTATTGGCATAAATGTTCCATAAATGAAAATGTATAATGG
1 ATAAATGAAAATAAATAATGGTGAATTATTGACAGAAAGGTTCCATAAATGAAAATGTATAATGG
*
4515910 TGTATTTTGGCAGAAATGTGCCA
66 TGCATTTTGGCAGAAATGTGCCA
4515933 CAAATGAAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 17 0.22
100 59 0.77
101 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (99 bp):
ATAAATGAAAATAAATAATGGTGAATTATTGACAGAAAGGTTCCATAAATGAAAATGTATAATGG
TGCATTTTGGCAGAAATGTGCCATAAAATGCACC
Found at i:4515896 original size:44 final size:43
Alignment explanation
Indices: 4515843--4515943 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
4515833 ATAAAATGCA
* * *
4515843 CCATAAATGAAACTACATAGTGGTGAATTATTGGCATAAATGTT
1 CCATAAATGAAACTACATAATGGTGAATT-TTGGCAGAAATGTG
* ** *
4515887 CCATAAATGAAAATGTATAATGGTGTATTTTGGCAGAAATGTG
1 CCATAAATGAAACTACATAATGGTGAATTTTGGCAGAAATGTG
*
4515930 CCACAAATGAAACT
1 CCATAAATGAAACT
4515944 TAAATGCATA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
43 24 0.50
44 24 0.50
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (43 bp):
CCATAAATGAAACTACATAATGGTGAATTTTGGCAGAAATGTG
Found at i:4517695 original size:22 final size:22
Alignment explanation
Indices: 4517669--4517720 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
4517659 TCGTAGTATT
4517669 GATACTACTTCTTTATGGCATC
1 GATACTACTTCTTTATGGCATC
* * *
4517691 GATACTAATTCTTTATGGTATT
1 GATACTACTTCTTTATGGCATC
4517713 GATACTAC
1 GATACTAC
4517721 CCCAAGTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (22 bp):
GATACTACTTCTTTATGGCATC
Found at i:4522870 original size:18 final size:19
Alignment explanation
Indices: 4522825--4522874 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
4522815 TGCAATTTTC
*
4522825 TAAATTCGCAACGCGATAG
1 TAAATTCGCAACGCGAAAG
4522844 TCAAATTCGCAACGCGAAAG
1 T-AAATTCGCAACGCGAAAG
4522864 T-AATTCGCAAC
1 TAAATTCGCAAC
4522875 TGAATTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.34
19 1 0.03
20 18 0.62
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (19 bp):
TAAATTCGCAACGCGAAAG
Found at i:4523838 original size:24 final size:24
Alignment explanation
Indices: 4523780--4523826 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
4523770 AGTCAGTATT
4523780 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
4523804 CGAAATTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
4523827 TCGGATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:4526129 original size:18 final size:18
Alignment explanation
Indices: 4526095--4526130 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4526085 AAGCAAAAGG
**
4526095 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
4526113 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
4526131 GAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:4526444 original size:20 final size:20
Alignment explanation
Indices: 4526416--4526465 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
4526406 ATGTTGCGAT
*
4526416 CAACACGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
4526436 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
4526456 CAACGCGAAA
1 CAACGCGAAA
4526466 TAAGCGTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.18, T:0.12
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:4527091 original size:18 final size:18
Alignment explanation
Indices: 4527070--4527106 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4527060 GTAATTGGAG
4527070 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
4527088 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
4527106 T
1 T
4527107 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:4527113 original size:24 final size:24
Alignment explanation
Indices: 4527062--4527114 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
4527052 TTTCATATGT
* * *
4527062 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
4527086 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
4527110 AATTT
1 AATTT
4527115 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:4527461 original size:39 final size:39
Alignment explanation
Indices: 4527418--4527503 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
4527408 TCCGATGCTT
4527418 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
* * *
4527457 ATCAAAATACAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
4527496 AT-AAAATC
1 ATCAAAATC
4527504 TACAACTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 5 0.12
39 38 0.88
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
Found at i:4527767 original size:20 final size:20
Alignment explanation
Indices: 4527742--4527799 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
4527732 GCAACGCTTA
4527742 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
** * *
4527762 TTTCGCGTTGTTATTTTAAC
1 TTTCGCGTTGCGAATTTGAC
*
4527782 TTTCGCATTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
4527800 TACCTTCAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.17, G:0.21, T:0.47
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:4527938 original size:66 final size:60
Alignment explanation
Indices: 4527858--4527997 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 60
4527848 TTTTAGAAAC
*
4527858 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT----AAGC-AAAAAATAAATCTTATTTACAAATC-AATT
4527923 A
60 A
* * **
4527924 AACAAATCAACTTTTACAAATCAATTAATCAAAAAATAAATCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACAAATCAATTA
4527984 AACAAATCAACTTT
1 AACAAATCAACTTT
4527998 CAATGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 19 0.28
61 21 0.30
62 3 0.04
66 26 0.38
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (60 bp):
AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACAAATCAATTA
Found at i:4529614 original size:12 final size:12
Alignment explanation
Indices: 4529595--4529636 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
4529585 GGGCCGCTGA
4529595 AAATAAATTAAT
1 AAATAAATTAAT
* *
4529607 ACATAAATTAGT
1 AAATAAATTAAT
*
4529619 AAATAAATAAAT
1 AAATAAATTAAT
4529631 AAATAA
1 AAATAA
4529637 TGCCGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:4531667 original size:13 final size:13
Alignment explanation
Indices: 4531649--4531680 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4531639 GAGTTTCTTC
4531649 AACAAAAAGACAA
1 AACAAAAAGACAA
4531662 AACAAAAAGACAA
1 AACAAAAAGACAA
4531675 AACAAA
1 AACAAA
4531681 GACAAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.16, G:0.06, T:0.00
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:4531683 original size:11 final size:12
Alignment explanation
Indices: 4531653--4531686 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
4531643 TTCTTCAACA
4531653 AAAAGACAAAAC
1 AAAAGACAAAAC
4531665 AAAAAGACAAAAC
1 -AAAAGACAAAAC
4531678 -AAAGACAAA
1 AAAAGACAAA
4531687 TACTAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
13 12 0.57
ACGTcount: A:0.76, C:0.15, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAGACAAAAC
Found at i:4531918 original size:22 final size:22
Alignment explanation
Indices: 4531888--4531933 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
4531878 GATGGAGATA
*
4531888 GATGGATTTCGTCGAAAATGGG
1 GATGAATTTCGTCGAAAATGGG
* * *
4531910 GATGAATTTTGTCGGAGATGGG
1 GATGAATTTCGTCGAAAATGGG
4531932 GA
1 GA
4531934 CGGATGTCGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.07, G:0.39, T:0.28
Consensus pattern (22 bp):
GATGAATTTCGTCGAAAATGGG
Found at i:4532091 original size:20 final size:20
Alignment explanation
Indices: 4532066--4532230 Score: 215
Period size: 20 Copynumber: 8.2 Consensus size: 20
4532056 GCATAAAAAC
*
4532066 ATTTGACTTTCGCGATGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
4532086 ATTTGACTATCGCGTTGCAA
1 ATTTGACTTTCGCGTTGCGA
*
4532106 ATTTGACTTTCGCATTGCGA
1 ATTTGACTTTCGCGTTGCGA
4532126 ATTTGACTATT-GCGTTGCGA
1 ATTTGACT-TTCGCGTTGCGA
* *
4532146 ATTTGACTCTCGCGTTGTGA
1 ATTTGACTTTCGCGTTGCGA
*
4532166 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
4532186 ATTGGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* * *
4532206 ATTTTACTATCGCATTGCGA
1 ATTTGACTTTCGCGTTGCGA
4532226 ATTTG
1 ATTTG
4532231 GAAAATCGCA
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
19 1 0.01
20 122 0.98
21 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:4532240 original size:21 final size:21
Alignment explanation
Indices: 4532222--4532283 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
4532212 CTATCGCATT
4532222 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
*
4532243 GCGAATTTGGAAAATCGTAAC
1 GCGAATTTGGAAAATCGCAAC
4532264 GCGAATTTGGAAAATCGCAA
1 GCGAATTTGGAAAATCGCAA
4532284 TGTGATTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:4532247 original size:41 final size:41
Alignment explanation
Indices: 4532202--4532317 Score: 101
Period size: 42 Copynumber: 2.8 Consensus size: 41
4532192 CTTTCGCGTT
4532202 GCGAATTTTACTATCGCATTGCGAATTTGGAAAATCGCAAC
1 GCGAATTTTACTATCGCATTGCGAATTTGGAAAATCGCAAC
* ** * ** *
4532243 GCGAATTTGGAAAATCGTAACGCGAATTTGGAAAATCGCAAT
1 GCGAATTT-TACTATCGCATTGCGAATTTGGAAAATCGCAAC
* * *
4532285 GTG-A-TTTACATATTCGCGTTGCGAAATTGGAAA
1 GCGAATTTTAC-TA-TCGCATTGCGAATTTGGAAA
4532318 CTGGGTTGCA
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
39 1 0.02
40 3 0.05
41 24 0.43
42 28 0.50
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (41 bp):
GCGAATTTTACTATCGCATTGCGAATTTGGAAAATCGCAAC
Found at i:4532345 original size:20 final size:20
Alignment explanation
Indices: 4532296--4532346 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4532286 TGATTTACAT
*
4532296 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCAAAATTGGA
* *
4532316 A-ACTGGGTTGCAAAATTGGA
1 ATTC-GCGTTGCAAAATTGGA
4532336 ATTCGCGTTGC
1 ATTCGCGTTGC
4532347 GAATTTGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
ATTCGCGTTGCAAAATTGGA
Found at i:4537201 original size:54 final size:54
Alignment explanation
Indices: 4537119--4537222 Score: 208
Period size: 54 Copynumber: 1.9 Consensus size: 54
4537109 AAACACCTAA
4537119 AAGTATCTTTTTAATAAATTTTAGAAAATCATTTAAAAGAAAAAATTGATTTGT
1 AAGTATCTTTTTAATAAATTTTAGAAAATCATTTAAAAGAAAAAATTGATTTGT
4537173 AAGTATCTTTTTAATAAATTTTAGAAAATCATTTAAAAGAAAAAATTGAT
1 AAGTATCTTTTTAATAAATTTTAGAAAATCATTTAAAAGAAAAAATTGAT
4537223 GTGTGTTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (54 bp):
AAGTATCTTTTTAATAAATTTTAGAAAATCATTTAAAAGAAAAAATTGATTTGT
Found at i:4537726 original size:16 final size:16
Alignment explanation
Indices: 4537705--4537737 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4537695 CTTACTATCA
4537705 TCTCAAAATC-CAAAAT
1 TCTC-AAATCACAAAAT
4537721 TCTCAAATCACAAAAT
1 TCTCAAATCACAAAAT
4537737 T
1 T
4537738 TAAAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (16 bp):
TCTCAAATCACAAAAT
Found at i:4538746 original size:13 final size:14
Alignment explanation
Indices: 4538729--4538777 Score: 68
Period size: 13 Copynumber: 3.7 Consensus size: 14
4538719 TTAAGAAACA
4538729 TTTTTAAAATTATC
1 TTTTTAAAATTATC
*
4538743 TTTTTACAA-TAT-
1 TTTTTAAAATTATC
4538755 TTTTTAAAATTA-C
1 TTTTTAAAATTATC
4538768 TTTTTAAAAT
1 TTTTTAAAAT
4538778 CAAAATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 8 0.26
13 15 0.48
14 8 0.26
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTAAAATTATC
Found at i:4539546 original size:29 final size:30
Alignment explanation
Indices: 4539498--4539556 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
4539488 ACATAAAATA
4539498 TTTTTAAATTAAGTTAATATAAAA-ATTAT
1 TTTTTAAATTAAGTTAATATAAAATATTAT
4539527 TTTTTAAAGTTAA--TATATATAAAATATTAT
1 TTTTTAAA-TTAAGTTA-ATATAAAATATTAT
4539557 GAATTTAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 2 0.07
29 16 0.59
30 9 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TTTTTAAATTAAGTTAATATAAAATATTAT
Found at i:4553108 original size:29 final size:28
Alignment explanation
Indices: 4553048--4553111 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
4553038 TAGGAATTAC
* *
4553048 TTTATTTTGGATATTATTTTCTTTAGTA
1 TTTATTTTGGATATTATTTTATTTAGAA
*
4553076 TTTATTTTGGATTATCT-TTTTATTTTGAA
1 TTTATTTTGGA-TAT-TATTTTATTTAGAA
4553105 TTTATTT
1 TTTATTT
4553112 GTTCCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.35
29 19 0.61
30 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.67
Consensus pattern (28 bp):
TTTATTTTGGATATTATTTTATTTAGAA
Found at i:4558241 original size:35 final size:35
Alignment explanation
Indices: 4558189--4558272 Score: 134
Period size: 35 Copynumber: 2.4 Consensus size: 35
4558179 ATTTCTTTAC
*
4558189 AAAATTCTACTTCAGAAAATATTAATACATTA-TTA
1 AAAATCCTACTTCAGAAAATATTAATACA-TACTTA
*
4558224 GAAATCCTACTTCAGAAAATATTAATACATACTTA
1 AAAATCCTACTTCAGAAAATATTAATACATACTTA
4558259 AAAATCCTACTTCA
1 AAAATCCTACTTCA
4558273 TAAACAATTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 2 0.04
35 43 0.96
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (35 bp):
AAAATCCTACTTCAGAAAATATTAATACATACTTA
Found at i:4568368 original size:36 final size:36
Alignment explanation
Indices: 4568327--4568402 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
4568317 ATTTTCGGGA
*
4568327 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
4568363 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
4568399 TTTT
1 TTTT
4568403 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:4585103 original size:14 final size:14
Alignment explanation
Indices: 4585080--4585117 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
4585070 TAAGGTCTAG
*
4585080 CAGCCATTTTACTT
1 CAGCCGTTTTACTT
4585094 CAGCCGTTTTACTT
1 CAGCCGTTTTACTT
*
4585108 CAGTCGTTTT
1 CAGCCGTTTT
4585118 TCTCAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (14 bp):
CAGCCGTTTTACTT
Found at i:4586455 original size:35 final size:35
Alignment explanation
Indices: 4586416--4586489 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
4586406 GTGACCTTTA
* **
4586416 GAGGCACATTTTA-AGATGAAACAACATGTCTCTTG
1 GAGGCACATTTTAGA-ATAAAACAACACATCTCTTG
* *
4586451 GAGGCACCTTTTAGAATAAAAGAACACATCTCTTG
1 GAGGCACATTTTAGAATAAAACAACACATCTCTTG
4586486 GAGG
1 GAGG
4586490 TACCTATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (35 bp):
GAGGCACATTTTAGAATAAAACAACACATCTCTTG
Found at i:4593057 original size:12 final size:12
Alignment explanation
Indices: 4593037--4593072 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4593027 ATAGAGATAT
4593037 CAGAAATCAGAG
1 CAGAAATCAGAG
* *
4593049 CAGAGATCAGAA
1 CAGAAATCAGAG
4593061 CAGAAATCAGAG
1 CAGAAATCAGAG
4593073 ATCATAAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.25, T:0.08
Consensus pattern (12 bp):
CAGAAATCAGAG
Found at i:4596400 original size:21 final size:21
Alignment explanation
Indices: 4596376--4596415 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4596366 CAAATAAAAT
4596376 TAATATATATATATATAATGC
1 TAATATATATATATATAATGC
* * *
4596397 TAATTTATATTTGTATAAT
1 TAATATATATATATATAAT
4596416 ATTACATGTT
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:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATATATATATATATAATGC
Found at i:4600562 original size:3 final size:3
Alignment explanation
Indices: 4600554--4600618 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
4600544 CATTTGTTAT
* *
4600554 TTA TTA TTA TTA TTA TTA TT- TATA CTA TTC TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
4600598 TTA TTAA TTA -AA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA
4600619 CAGGCCCATA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4600616 original size:29 final size:31
Alignment explanation
Indices: 4600557--4600617 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
4600547 TTGTTATTTA
* *
4600557 TTATTATTATTATTATTTATACTATTCTTATT
1 TTATTATTATTATTAATTATAC-ATTATTATT
4600589 TTATTATTATTATTAATTA-A-ATTATTATT
1 TTATTATTATTATTAATTATACATTATTATT
4600618 ACAGGCCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
31 1 0.04
32 18 0.67
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (31 bp):
TTATTATTATTATTAATTATACATTATTATT
Found at i:4601817 original size:29 final size:30
Alignment explanation
Indices: 4601785--4601862 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
4601775 TAGTCACTAA
*
4601785 TTTTATTTTCATTTATTTTTAATTACA-AG
1 TTTTATTTTCATTTATTTTTAAATACATAG
* *
4601814 TTTTA-TTTCTTTTATATTTTAAATATATAG
1 TTTTATTTTCATTTAT-TTTTAAATACATAG
4601844 TTTTAATTTT-ATTTATTTT
1 TTTT-ATTTTCATTTATTTT
4601863 AGTCACTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 9 0.22
29 14 0.34
30 9 0.22
31 6 0.15
32 3 0.07
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (30 bp):
TTTTATTTTCATTTATTTTTAAATACATAG
Found at i:4601863 original size:29 final size:28
Alignment explanation
Indices: 4601785--4601863 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 28
4601775 TAGTCACTAA
*
4601785 TTTTATTTTCATTTATTTTTAATTACAAG
1 TTTTATTTT-ATTTATTTTAAATTACAAG
* *
4601814 TTTTATTTCTTTTATATTTTAAATATA-TAG
1 TTTTATTT-TATT-TATTTTAAAT-TACAAG
4601844 TTTTAATTTTATTTATTTTA
1 TTTT-ATTTTATTTATTTTA
4601864 GTCACTGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 17 0.40
30 19 0.45
31 6 0.14
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTATTTTATTTATTTTAAATTACAAG
Found at i:4601894 original size:13 final size:14
Alignment explanation
Indices: 4601876--4601927 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
4601866 CACTGTTTAG
4601876 TTATAT-TTTAATT
1 TTATATATTTAATT
*
4601889 TTATATATTTATTT
1 TTATATATTTAATT
4601903 TTCAATATATTTAATT
1 TT--ATATATTTAATT
4601919 ATTAT-TATT
1 -TTATATATT
4601928 ATTATAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 6 0.18
14 12 0.36
15 2 0.06
16 11 0.33
17 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:4602266 original size:23 final size:23
Alignment explanation
Indices: 4602234--4602277 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4602224 CTTTTTATAA
*
4602234 TATTTCTAAATAAATAAATATCT
1 TATTTATAAATAAATAAATATCT
* *
4602257 TATTTATAAATATATATATAT
1 TATTTATAAATAAATAAATAT
4602278 ATATATATAT
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:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCT
Found at i:4602448 original size:17 final size:17
Alignment explanation
Indices: 4602428--4602461 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4602418 TAATTTTTAC
4602428 CTAAACATAATCGACCA
1 CTAAACATAATCGACCA
* *
4602445 CTAAACGTAATTGACCA
1 CTAAACATAATCGACCA
4602462 TGAATCCCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (17 bp):
CTAAACATAATCGACCA
Found at i:4602849 original size:25 final size:26
Alignment explanation
Indices: 4602770--4602849 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
4602760 AAATTAAAAA
* *
4602770 TTCATATATTTA-AGT-TATAATTCTT
1 TTCATATATTTATA-TATATTATTATT
* *
4602795 TTCAAAAATTTTATATATACTTATTATT
1 TTCATATA-TTTATATATA-TTATTATT
4602823 TTCATATATTTATATATATTATT-TT
1 TTCATATATTTATATATATTATTATT
4602848 TT
1 TT
4602850 ATTAATGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
25 10 0.22
26 10 0.22
27 13 0.29
28 12 0.27
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (26 bp):
TTCATATATTTATATATATTATTATT
Found at i:4606187 original size:16 final size:16
Alignment explanation
Indices: 4606168--4606200 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4606158 GATCAATACC
4606168 TTTTACATACATTCAT
1 TTTTACATACATTCAT
*
4606184 TTTTGCATACATTCAT
1 TTTTACATACATTCAT
4606200 T
1 T
4606201 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTACATACATTCAT
Found at i:4607672 original size:11 final size:11
Alignment explanation
Indices: 4607656--4607681 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4607646 CCTTTGATCC
4607656 CCATGAAACCA
1 CCATGAAACCA
4607667 CCATGAAACCA
1 CCATGAAACCA
4607678 CCAT
1 CCAT
4607682 TCCCTTCATA
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:0.42, C:0.38, G:0.08, T:0.12
Consensus pattern (11 bp):
CCATGAAACCA
Found at i:4613550 original size:14 final size:14
Alignment explanation
Indices: 4613529--4613561 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
4613519 GCTTGAAGAA
4613529 GAAAAAAATGAAAAT
1 GAAAAAAAT-AAAAT
4613544 GAAAAAAATAAAAT
1 GAAAAAAATAAAAT
4613558 GAAA
1 GAAA
4613562 TGAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
GAAAAAAATAAAAT
Found at i:4613558 original size:20 final size:21
Alignment explanation
Indices: 4613522--4613579 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
4613512 ATATTATGCT
4613522 TGAAGAAG-AAAAAAATGAAAA
1 TGAA-AAGAAAAAAAATGAAAA
*
4613543 TGAAAA-AAATAAAATG-AAA
1 TGAAAAGAAAAAAAATGAAAA
4613562 TGAAAAGAAAAAAAATGA
1 TGAAAAGAAAAAAAATGA
4613580 TGAAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 9 0.28
20 19 0.59
21 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (21 bp):
TGAAAAGAAAAAAAATGAAAA
Found at i:4616813 original size:116 final size:118
Alignment explanation
Indices: 4616412--4616835 Score: 610
Period size: 119 Copynumber: 3.6 Consensus size: 118
4616402 TGTCAGGTAG
4616412 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
4616477 AACCTTTTGCTCGAATTCATCACTCGATGGATCAGCATCAACTTTTACAGAGAA
66 AACCTTTTGCTCGAATTCATCACTCGATGGATCA-TATCAACTTTTCCAGAGAA
* * *
4616531 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAATAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
4616596 AACCTTTTGTTCGAATTCATCACTCGATGGATCATCATCAACTTTTCCAGAGAA
66 AACCTTTTGCTCGAATTCATCACTCGATGGATCAT-ATCAACTTTTCCAGAGAA
* * *
4616650 AGTTCATAATGAGAATAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
4616714 AACCTTTTGCAT-G-ACTCTATCAC-AGAAGGAGAT-ATATCAACATTTCCAGA-AG
66 AACCTTTTGC-TCGAATTC-ATCACTCG-ATG-GATCATATCAACTTTTCCAGAGAA
*
4616766 TGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
4616830 AACCTT
66 AACCTT
4616836 GCCTTAATTC
Statistics
Matches: 279, Mismatches: 20, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
116 63 0.23
117 21 0.08
118 51 0.18
119 144 0.52
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (118 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCGAATTCATCACTCGATGGATCATATCAACTTTTCCAGAGAA
Found at i:4616937 original size:19 final size:20
Alignment explanation
Indices: 4616913--4616959 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4616903 AGTTCATAAT
4616913 AAGAAGAA-CTCATCTAAAA
1 AAGAAGAAGCTCATCTAAAA
* *
4616932 AAGAAGAAGTTCATCTGAAA
1 AAGAAGAAGCTCATCTAAAA
*
4616952 GAGAAGAA
1 AAGAAGAA
4616960 TTTGTTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.55, C:0.11, G:0.19, T:0.15
Consensus pattern (20 bp):
AAGAAGAAGCTCATCTAAAA
Found at i:4617210 original size:3 final size:3
Alignment explanation
Indices: 4617202--4617297 Score: 108
Period size: 3 Copynumber: 32.0 Consensus size: 3
4617192 CATTTGTTAT
* * *
4617202 TTA TTA TTA TTA TTA TTA TTA ATA TTA TT- TATA CTA TTC TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
4617247 TT- TTA TTA TTGA TTA TTA TTA TTA TTA TTA TTA TTAA TTA -AA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
4617292 TTA TTA
1 TTA TTA
4617298 CAGGCCCACA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.05
3 69 0.87
4 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4618190 original size:62 final size:62
Alignment explanation
Indices: 4618094--4618218 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
4618084 TCTAAGCTAG
4618094 AGAGAGAGAGGAAATGAAAAATGAAGAAAGAATGGCCCAAGAGGGCCGGTTTAAGGGTATAT
1 AGAGAGAGAGGAAATGAAAAATGAAGAAAGAATGGCCCAAGAGGGCCGGTTTAAGGGTATAT
* *
4618156 AGAGAGAGAGGAAATGAAAATTGAAGAAAGAATGGCCCAAGAGGGTCGGTTTAAGGGTATAT
1 AGAGAGAGAGGAAATGAAAAATGAAGAAAGAATGGCCCAAGAGGGCCGGTTTAAGGGTATAT
4618218 A
1 A
4618219 TACCCTCACC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.43, C:0.07, G:0.34, T:0.16
Consensus pattern (62 bp):
AGAGAGAGAGGAAATGAAAAATGAAGAAAGAATGGCCCAAGAGGGCCGGTTTAAGGGTATAT
Found at i:4618652 original size:29 final size:29
Alignment explanation
Indices: 4618620--4618697 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
4618610 TAGTCACTAA
*
4618620 TTTTATTTTCATTTATTTTTAATTACA-AG
1 TTTTATTTT-ATTTATTTTTAAATACATAG
* *
4618649 TTTTA-TTGATTTTATATTTTAAATATATAG
1 TTTTATTTTA-TTTAT-TTTTAAATACATAG
4618679 TTTTAATTTTATTTATTTT
1 TTTT-ATTTTATTTATTTT
4618698 AGTCACTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.03
28 7 0.17
29 14 0.35
30 9 0.22
31 6 0.15
32 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (29 bp):
TTTTATTTTATTTATTTTTAAATACATAG
Found at i:4618758 original size:3 final size:3
Alignment explanation
Indices: 4618750--4618784 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4618740 ATTATATTTA
4618750 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4618785 AAACATATCT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4619119 original size:23 final size:23
Alignment explanation
Indices: 4619087--4619130 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4619077 TCTTTTCTGA
*
4619087 TATTTCTAAATAAATAAATATCT
1 TATTTATAAATAAATAAATATCT
* *
4619110 TATTTATAAATATATATATAT
1 TATTTATAAATAAATAAATAT
4619131 ATATATATTC
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:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCT
Found at i:4625558 original size:21 final size:23
Alignment explanation
Indices: 4625511--4625559 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
4625501 TACTGCATAT
4625511 TTACACCAAATCTAGCAACCCAG
1 TTACACCAAATCTAGCAACCCAG
4625534 TTAC-CCAAAT-TAGCATACCCA-
1 TTACACCAAATCTAGCA-ACCCAG
4625555 TTACA
1 TTACA
4625560 TATTTACACC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.38
22 11 0.46
23 4 0.17
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.22
Consensus pattern (23 bp):
TTACACCAAATCTAGCAACCCAG
Found at i:4627681 original size:32 final size:32
Alignment explanation
Indices: 4627640--4627706 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
4627630 TATAAGCAAC
4627640 TAGATTCAAAGTTAGTGATTACATTTTAAATT
1 TAGATTCAAAGTTAGTGATTACATTTTAAATT
4627672 TAGATTCAAAGTTAGTGATTACATTTTAAATT
1 TAGATTCAAAGTTAGTGATTACATTTTAAATT
4627704 TAG
1 TAG
4627707 TGATTACCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.43
Consensus pattern (32 bp):
TAGATTCAAAGTTAGTGATTACATTTTAAATT
Found at i:4631566 original size:21 final size:21
Alignment explanation
Indices: 4631540--4631586 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
4631530 TAAAGCTAGA
*
4631540 GTTATTTCGCTAAAGCAATTG
1 GTTATTTCACTAAAGCAATTG
4631561 GTTATTTCACTAAAGCAATTG
1 GTTATTTCACTAAAGCAATTG
4631582 GTTAT
1 GTTAT
4631587 AGACGTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (21 bp):
GTTATTTCACTAAAGCAATTG
Found at i:4634273 original size:267 final size:263
Alignment explanation
Indices: 4633778--4634566 Score: 868
Period size: 265 Copynumber: 3.0 Consensus size: 263
4633768 TTTTAGCTCC
* * * **
4633778 AGTAAGTCTTCTAGGCCATCAATAAATCATT-TAAGCCTGATGATTAAATCTTCTTGC-CATCTG
1 AGTAAGTCTTTTGGGCCATCAATAAATC-TTCTAAGCCTGATGATTAAACCTTCAAGCTCATCTG
* * * * *
4633841 TAAGTCTTTTC-AACAAGATAATAAGTCATTCAG-GCCATCTATAAGACC-TCTGGGCATGATGT
65 TAAGT-ATTTCGAGCAAGATGATAAGTCA-TCAGAGCAATCTATAAGACCTTCTAGGCATGATGT
* * *
4633903 TTTCATATTATATTTCTG-GAAAAAAATGAGAAAT-CAATTTTCAAAGTTTCTCATTTAATCTTT
128 TTTCATATGATATTTTTGAG-AAAAAATGAG-AATGCGATTTTCAAAGTTTCTCATTTAATCTTT
* *
4633966 TTCGAAAATGAAAGTTTTGAAAAGTAAAAAAGTGATTTCCAAAGTTTCTTACCTTGTAGATTATT
191 TTCGAAAATGAAA-TTTTGAAAAGTAAAAAAGTGATTTCCAAAGTTTCTTACCTAGTAGAATATT
*
4634031 TCCAAAACT
255 TACAAAACT
** *
4634040 AGTAAGTCTTTTTGGGCCATCAATAAATCTTCTAAGCCTGATGATTAAAGCCTTCGGGCTCATAT
1 AGTAAGTC-TTTTGGGCCATCAATAAATCTTCTAAGCCTGATGATTAAA-CCTTCAAGCTCATCT
*
4634105 GTAAGTATTTCGAGCAAGATGATAAGTCATCAGAGCTATCTATAAGACCTTC-AGGCATGATGTT
64 GTAAGTATTTCGAGCAAGATGATAAGTCATCAGAGCAATCTATAAGACCTTCTAGGCATGATGTT
* * *
4634169 TTCATATGATATTTTTGAAAGAAAAAATAAGAATGTGATTTTCAAAGTTTCTCATATAATCTTTT
129 TTCATATGATATTTTTG--AGAAAAAATGAGAATGCGATTTTCAAAGTTTCTCATTTAATCTTTT
* *
4634234 TCGAAAATGAAATCTTTGAAAAGTAAGAAAGTTATTTCCAAAGTTTCTTACCTAGTAGAATATTT
192 TCGAAAATGAAAT-TTTGAAAAGTAAAAAAGTGATTTCCAAAGTTTCTTACCTAGTAGAATATTT
*
4634299 ATAAAACT
256 ACAAAACT
* * * * * * *
4634307 AG-AAGTCCTTCGGGCCATTAGTAATTTTTCTAAGCTTGATGATTAAATCCTTCAAG-TCATCTG
1 AGTAAGTCTTTTGGGCCATCAATAAATCTTCTAAGCCTGATGATTAAA-CCTTCAAGCTCATCTG
* * * * * * *
4634370 TAAATCTTTCGAGCAAGATGATAAGTCCTCCA-AGCAATCTTTATGACCTCCTA-GCATTATGTT
65 TAAGTATTTCGAGCAAGATGATAAGTCAT-CAGAGCAATCTATAAGACCTTCTAGGCATGATGTT
* * * ** * **
4634433 TTCATGTGATATTTTT--GAAAAAGTGAGAAAGCGATTTTCTCAGTTTCTCATTTAATATTTTAA
129 TTCATATGATATTTTTGAGAAAAAATGAGAATGCGATTTTCAAAGTTTCTCATTTAATCTTTTTC
* ** * * *
4634496 GAAAATGAAATTTTTTAGTAGTAAAAAAATGATTTCCAAAGTTTCTTACCTAGTAGACTATTTTC
194 GAAAATGAAA-TTTTGAAAAGTAAAAAAGTGATTTCCAAAGTTTCTTACCTAGTAGAATATTTAC
4634561 AAAACT
258 AAAACT
4634567 GGCAAGTCCT
Statistics
Matches: 450, Mismatches: 62, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
260 97 0.22
261 1 0.00
262 10 0.02
263 35 0.08
264 85 0.19
265 107 0.24
266 11 0.02
267 103 0.23
268 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (263 bp):
AGTAAGTCTTTTGGGCCATCAATAAATCTTCTAAGCCTGATGATTAAACCTTCAAGCTCATCTGT
AAGTATTTCGAGCAAGATGATAAGTCATCAGAGCAATCTATAAGACCTTCTAGGCATGATGTTTT
CATATGATATTTTTGAGAAAAAATGAGAATGCGATTTTCAAAGTTTCTCATTTAATCTTTTTCGA
AAATGAAATTTTGAAAAGTAAAAAAGTGATTTCCAAAGTTTCTTACCTAGTAGAATATTTACAAA
ACT
Found at i:4636110 original size:43 final size:43
Alignment explanation
Indices: 4635942--4636132 Score: 179
Period size: 44 Copynumber: 4.4 Consensus size: 43
4635932 TATGATAACC
* * *
4635942 AGGAGGTGGATTAACATTC-CCTTTTGCTTGATTCTATCACATA
1 AGGAGGTGGATCAACA-TCACCTTTTGCTAGATTCCATCACATA
* * * * *
4635985 TGAAGTTCGATCAACATCACATTTTTGCTCA-ATTCCATCACATA
1 AGGAGGTGGATCAACATCAC-CTTTTGCT-AGATTCCATCACATA
* * * *
4636029 AGGAGTTGGATCAGCACCACCCTTTTGCTCGATTCCATCACATA
1 AGGAGGTGGATCAACATCA-CCTTTTGCTAGATTCCATCACATA
* * ** *
4636073 AGGAGGTGGATCAACTTGACCTTTTGCTAGATTCCATCTTAGA
1 AGGAGGTGGATCAACATCACCTTTTGCTAGATTCCATCACATA
4636116 AGGAGGTGGATCAACAT
1 AGGAGGTGGATCAACAT
4636133 GATCGAAGGA
Statistics
Matches: 118, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.02
43 48 0.41
44 67 0.57
45 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
AGGAGGTGGATCAACATCACCTTTTGCTAGATTCCATCACATA
Found at i:4636369 original size:21 final size:21
Alignment explanation
Indices: 4636314--4636370 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
4636304 TAAGAAAATG
4636314 AAAATGAAATGAAAAAAAATGGT
1 AAAATG-AA-GAAAAAAAATGGT
4636337 AAAATGAA-AAAAAAAATTGG-
1 AAAATGAAGAAAAAAAA-TGGT
4636357 AGAAA-GAAGAAAAA
1 A-AAATGAAGAAAAA
4636371 GAGCAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 12 0.39
21 11 0.35
22 2 0.06
23 6 0.19
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (21 bp):
AAAATGAAGAAAAAAAATGGT
Found at i:4636400 original size:11 final size:11
Alignment explanation
Indices: 4636384--4636412 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4636374 CAAACAAGAG
4636384 TAATAAATAAA
1 TAATAAATAAA
4636395 TAATAAATAAA
1 TAATAAATAAA
4636406 -AATAAAT
1 TAATAAAT
4636413 TCTCATACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:4640538 original size:16 final size:15
Alignment explanation
Indices: 4640502--4640585 Score: 75
Period size: 15 Copynumber: 5.5 Consensus size: 15
4640492 CAAAAAAGGA
4640502 AAAAATAATAAAATCAAT
1 AAAAA-AATAAAA--AAT
*
4640520 AAAATAAATTAAAAAT
1 AAAA-AAATAAAAAAT
* *
4640536 AAAAAAACAAAAGAT
1 AAAAAAATAAAAAAT
4640551 AAAAAAGATAAAAAAT
1 AAAAAA-ATAAAAAAT
4640567 --AAAAAT-AAAAAT
1 AAAAAAATAAAAAAT
4640579 AAAAAAA
1 AAAAAAA
4640586 ATAATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
12 6 0.11
13 2 0.04
14 9 0.16
15 14 0.25
16 14 0.25
18 10 0.18
19 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:4640540 original size:6 final size:6
Alignment explanation
Indices: 4640520--4640583 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
4640510 TAAAATCAAT
* * * * *
4640520 AAAAT- AAATTA AAAATA AAAAAA CAAAAGA TAAA-A AAGATAA AAAATA
1 AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA AAAAT-A AAAATA
4640568 AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAA
4640584 AAATAATATA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
5 7 0.15
6 30 0.64
7 10 0.21
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:4640540 original size:43 final size:43
Alignment explanation
Indices: 4640501--4640585 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
4640491 TCAAAAAAGG
* *
4640501 AAAAAATAATAAA-ATCAATAAAAT-AAATTAAAAATAAAAAAAC
1 AAAAAATAAAAAAGAT-AA-AAAATAAAAATAAAAATAAAAAAAC
*
4640544 AAAAGATAAAAAAGATAAAAAATAAAAATAAAAATAAAAAAA
1 AAAAAATAAAAAAGATAAAAAATAAAAATAAAAATAAAAAAA
4640586 ATAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 5 0.14
43 30 0.81
44 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (43 bp):
AAAAAATAAAAAAGATAAAAAATAAAAATAAAAATAAAAAAAC
Found at i:4649878 original size:30 final size:30
Alignment explanation
Indices: 4649843--4649933 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 30
4649833 AATGGATTTA
* **
4649843 TTTAGTGACCAAATTATAAA-TTTGGTAAAG
1 TTTAGTGACCAAAGTATAAACTTT-AAAAAG
*
4649873 TTTAGTGATCAAAGTATAAACTTTAAAAAG
1 TTTAGTGACCAAAGTATAAACTTTAAAAAG
* * * *
4649903 TTTAGAGACCAAAATGT-AATTTTAAAAAG
1 TTTAGTGACCAAAGTATAAACTTTAAAAAG
4649932 TT
1 TT
4649934 ACAAATAGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 13 0.25
30 35 0.69
31 3 0.06
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTAGTGACCAAAGTATAAACTTTAAAAAG
Found at i:4650925 original size:30 final size:30
Alignment explanation
Indices: 4650866--4650934 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
4650856 ACAAGCCTTG
* *
4650866 AAAAAGTT-GGGGACCATTTTGTAATTTTT
1 AAAAAGTTAGGGGACAATTTAGTAATTTTT
4650895 AAAAAGTTAGGGGACTAATTTAGTAA-TTTT
1 AAAAAGTTAGGGGAC-AATTTAGTAATTTTT
4650925 AGAAAAGTTA
1 A-AAAAGTTA
4650935 TGAATGGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 8 0.23
30 11 0.31
31 16 0.46
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.36
Consensus pattern (30 bp):
AAAAAGTTAGGGGACAATTTAGTAATTTTT
Found at i:4651501 original size:24 final size:24
Alignment explanation
Indices: 4651469--4651517 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4651459 TGCATGAAAT
4651469 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
4651493 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
4651517 T
1 T
4651518 CAGGAAGACT
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:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:4651971 original size:45 final size:45
Alignment explanation
Indices: 4651920--4652138 Score: 353
Period size: 45 Copynumber: 5.0 Consensus size: 45
4651910 GGTAAGCATG
*
4651920 AAAATAAGCTTATGAGCTTATGGAATAATGGTAAGTATATTGGTA
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTA
*
4651965 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATAGGTA
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTA
4652010 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTA
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTA
4652055 AAAATAAGC-T------TTATGGAATAATGGTAAGTATATTGGTA
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTA
* *
4652093 AAAATAAGCTTACGAGCTTATGAAATAATGGTAAATATATTGGTA
1 AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTA
4652138 A
1 A
4652139 GGAATTTTAT
Statistics
Matches: 162, Mismatches: 5, Indels: 14
0.90 0.03 0.08
Matches are distributed among these distances:
38 37 0.23
39 1 0.01
44 1 0.01
45 123 0.76
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTA
Found at i:4652074 original size:38 final size:38
Alignment explanation
Indices: 4652027--4652103 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
4652017 GCTTACGAGC
4652027 TTATGGAATAATGGTAAGTATATTGGTAAAAATAAGCT
1 TTATGGAATAATGGTAAGTATATTGGTAAAAATAAGCT
4652065 TTATGGAATAATGGTAAGTATATTGGTAAAAATAAGCT
1 TTATGGAATAATGGTAAGTATATTGGTAAAAATAAGCT
4652103 T
1 T
4652104 ACGAGCTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.35
Consensus pattern (38 bp):
TTATGGAATAATGGTAAGTATATTGGTAAAAATAAGCT
Found at i:4652075 original size:83 final size:83
Alignment explanation
Indices: 4651982--4652138 Score: 287
Period size: 83 Copynumber: 1.9 Consensus size: 83
4651972 GCTTACGAGC
* *
4651982 TTATGGAATAATGGTAAGTATATAGGTAAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTA
1 TTATGGAATAATGGTAAGTATATAGGTAAAAATAAGCTTACGAGCTTATGAAATAATGGTAAATA
4652047 TATTGGTAAAAATAAGCT
66 TATTGGTAAAAATAAGCT
*
4652065 TTATGGAATAATGGTAAGTATATTGGTAAAAATAAGCTTACGAGCTTATGAAATAATGGTAAATA
1 TTATGGAATAATGGTAAGTATATAGGTAAAAATAAGCTTACGAGCTTATGAAATAATGGTAAATA
4652130 TATTGGTAA
66 TATTGGTAA
4652139 GGAATTTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.32
Consensus pattern (83 bp):
TTATGGAATAATGGTAAGTATATAGGTAAAAATAAGCTTACGAGCTTATGAAATAATGGTAAATA
TATTGGTAAAAATAAGCT
Found at i:4653821 original size:19 final size:20
Alignment explanation
Indices: 4653797--4653835 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4653787 GTGAATGTAA
4653797 AAACATGG-AAAATAAAAAT
1 AAACATGGAAAAATAAAAAT
4653816 AAACATGGAAAAATAAAAAT
1 AAACATGGAAAAATAAAAAT
4653836 GCAAAGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (20 bp):
AAACATGGAAAAATAAAAAT
Found at i:4656404 original size:19 final size:19
Alignment explanation
Indices: 4656367--4656404 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4656357 TTAAGATTTT
*
4656367 ATATTCGATTTCAAAAATA
1 ATATTCGATTTAAAAAATA
4656386 ATATTCGA-TTAAAATAATA
1 ATATTCGATTTAAAA-AATA
4656405 GAATATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATATTCGATTTAAAAAATA
Found at i:4662505 original size:23 final size:21
Alignment explanation
Indices: 4662456--4662505 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4662446 ACCCCCTTGC
*
4662456 TATGTATCGATACACCTTAAA
1 TATGTACCGATACACCTTAAA
* *
4662477 TTTGTACCGATACATTCCTTGAA
1 TATGTACCGATACA--CCTTAAA
4662500 TATGTA
1 TATGTA
4662506 TCAATACCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 12 0.52
23 11 0.48
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (21 bp):
TATGTACCGATACACCTTAAA
Found at i:4662512 original size:23 final size:21
Alignment explanation
Indices: 4662456--4662512 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
4662446 ACCCCCTTGC
4662456 TATGTATCGATACACCTTAAA
1 TATGTATCGATACACCTTAAA
* * *
4662477 TTTGTACCGATACATTCCTTGAA
1 TATGTATCGATACA--CCTTAAA
*
4662500 TATGTATCAATAC
1 TATGTATCGATAC
4662513 CCCTCACGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 12 0.43
23 16 0.57
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (21 bp):
TATGTATCGATACACCTTAAA
Found at i:4662528 original size:21 final size:22
Alignment explanation
Indices: 4662503--4662544 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4662493 CCTTGAATAT
4662503 GTATCAATACCCCTCA-CGGGG
1 GTATCAATACCCCTCATCGGGG
*
4662524 GTATCGATACCCCTCATCGGG
1 GTATCAATACCCCTCATCGGG
4662545 TTTTGGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.21
Consensus pattern (22 bp):
GTATCAATACCCCTCATCGGGG
Found at i:4672780 original size:19 final size:19
Alignment explanation
Indices: 4672758--4672796 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4672748 TAGTAAAAAA
4672758 ACAAGAATTTAAGTTACAT
1 ACAAGAATTTAAGTTACAT
4672777 ACAAGAATTTAAGTTACAT
1 ACAAGAATTTAAGTTACAT
4672796 A
1 A
4672797 GATATTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
ACAAGAATTTAAGTTACAT
Found at i:4673557 original size:43 final size:43
Alignment explanation
Indices: 4673509--4673911 Score: 554
Period size: 43 Copynumber: 9.3 Consensus size: 43
4673499 TCTTATTATC
* * * *
4673509 GCACATAGCAAAAGAGCTTGGGGAAACTGTAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
*
4673552 GCACATAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
*
4673595 GCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
* * * * *
4673638 GTACACAACAAAGGGACTTGGGGGAAACTCTAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCT-GGGGAAACTGTAAGGCTTACCCTT
* * * *
4673682 ACAAACAGCAAAGGGACCTGGGTAAACTGTAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
* * * *
4673725 GTACACAACAAAGGGACCTGGGGAAACTATAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
*
4673768 GCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
4673811 GCACACAGCAAAGGAACCTGGGGAAAACTGTAAGGCTTACCCTT
1 GCACACAGCAAAGGAACCTGGGG-AAACTGTAAGGCTTACCCTT
* * * *
4673855 GCACACAGCAAAGGGACCTAGGGGATACTGTAAGGTTTACCTTT
1 GCACACAGCAAAGGAACCT-GGGGAAACTGTAAGGCTTACCCTT
*
4673899 GCACACAACAAAG
1 GCACACAGCAAAG
4673912 TGACTTGCTG
Statistics
Matches: 326, Mismatches: 31, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
43 218 0.67
44 104 0.32
45 4 0.01
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (43 bp):
GCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
Found at i:4673701 original size:130 final size:130
Alignment explanation
Indices: 4673528--4673918 Score: 604
Period size: 130 Copynumber: 3.0 Consensus size: 130
4673518 AAAAGAGCTT
*
4673528 GGGGAAACTGTAAGGCTTACCCTTGCACATAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCC
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCC
* *
4673593 TTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGTACACAACAAAGGGACTTG
66 TTGCACACAACAAAGGGACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACTTG
* * * * *
4673658 GGGGAAACTCTAAGGCTTACCCTTACAAACAGCAAAGGGACCTGGGTAAACTGTAAGGCTTACCC
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCC
* * * *
4673723 TTGTACACAACAAAGGGACCTGGGGAAACTATAAGGCTTACCCTTGCACACAACAAAGGAACCT-
66 TTGCACACAACAAAGGGACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACTTG
4673787 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAAACTGTAAGGCTTACC
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG-AAACTGTAAGGCTTACC
* * * * *
4673852 CTTGCACACAGCAAAGGGACCTAGGGGATACTGTAAGGTTTACCTTTGCACACAACAAAGTGACT
65 CTTGCACACAACAAAGGGACCT-GGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACT
4673917 TG
129 TG
4673919 CTGTAACGAT
Statistics
Matches: 232, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
129 42 0.18
130 154 0.66
131 36 0.16
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (130 bp):
GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCC
TTGCACACAACAAAGGGACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACTTG
Found at i:4673847 original size:173 final size:173
Alignment explanation
Indices: 4673527--4673911 Score: 608
Period size: 173 Copynumber: 2.2 Consensus size: 173
4673517 CAAAAGAGCT
* * *
4673527 TGGGGAAACTGTAAGGCTTACCCTTGCACATAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACC
1 TGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTATAAGGCTTACC
* * *
4673592 CTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGTACACAACAAAGGGACTT
66 CTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCT
*
4673657 GGGGGAAACTCTAAGGCTTACCCTTACAAACAGCAAAGGGACC
131 GGGGAAAACTCTAAGGCTTACCCTTACAAACAGCAAAGGGACC
* * *
4673700 TGGGTAAACTGTAAGGCTTACCCTTGTACACAACAAAGGGACCTGGGGAAACTATAAGGCTTACC
1 TGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTATAAGGCTTACC
*
4673765 CTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCT
66 CTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCT
* * *
4673830 GGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACC
131 GGGGAAAACTCTAAGGCTTACCCTTACAAACAGCAAAGGGACC
* * *
4673873 TAGGGGATACTGTAAGGTTTACCTTTGCACACAACAAAG
1 T-GGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAG
4673912 TGACTTGCTG
Statistics
Matches: 192, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
173 160 0.83
174 32 0.17
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (173 bp):
TGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTATAAGGCTTACC
CTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCT
GGGGAAAACTCTAAGGCTTACCCTTACAAACAGCAAAGGGACC
Found at i:4675917 original size:65 final size:65
Alignment explanation
Indices: 4675784--4675943 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
4675774 TACACTAAGA
*
4675784 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
* *
4675848 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
*
4675910 TAT
64 T-G
* *
4675913 GTGCATCAATGCATGAAATGCATCCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
4675944 CAATTTATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 30 0.35
65 52 0.61
66 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:4676445 original size:2 final size:2
Alignment explanation
Indices: 4676433--4676496 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
4676423 TACCAAATTG
4676433 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4676474 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
4676497 GCTTAAGCTG
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4684509 original size:65 final size:65
Alignment explanation
Indices: 4684396--4684521 Score: 175
Period size: 65 Copynumber: 1.9 Consensus size: 65
4684386 TGCACTAAGA
* *
4684396 GTGCATCGATGCATGAAATACATTCGATGTTTCAAAAATAGCCAGAGTGTATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATACATTCGATGTTTCAAAAATAGCCAGAGTGCATCGATGCATGGCTG
* * *
4684461 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATG
1 GTGCATCGATGCATCAAATACATTCGATG-TTTCAAAAATAGC-CAGAGTGCATCGATGCATG
4684522 AAATGCATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 1 0.02
65 45 0.83
66 8 0.15
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATACATTCGATGTTTCAAAAATAGCCAGAGTGCATCGATGCATGGCTG
Found at i:4688344 original size:16 final size:16
Alignment explanation
Indices: 4688306--4688353 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
4688296 TTTTAAATTA
* *
4688306 TAAAAAGATCAAATAT
1 TAAAAATATAAAATAT
4688322 TCAAAAAATATAAAATAT
1 T--AAAAATATAAAATAT
4688340 TAAAAATA-AAAATA
1 TAAAAATATAAAATA
4688354 AATTACTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
18 14 0.50
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (16 bp):
TAAAAATATAAAATAT
Found at i:4688370 original size:2 final size:2
Alignment explanation
Indices: 4688363--4688396 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4688353 AAATTACTAA
4688363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4688397 TAAAAGTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4689049 original size:23 final size:23
Alignment explanation
Indices: 4689004--4689048 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4688994 ATAATTTATA
*
4689004 ATTTTATAATATGTGATATTTTT
1 ATTTTATAATATATGATATTTTT
*
4689027 ATTTTTTAATATAT-ATATTTTT
1 ATTTTATAATATATGATATTTTT
4689049 TTAAAATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
ATTTTATAATATATGATATTTTT
Found at i:4689085 original size:8 final size:8
Alignment explanation
Indices: 4689062--4689140 Score: 53
Period size: 7 Copynumber: 10.2 Consensus size: 8
4689052 AAATTAGTAA
4689062 TTAAT-TT
1 TTAATATT
*
4689069 TTTAT-TT
1 TTAATATT
4689076 TTAATATT
1 TTAATATT
4689084 TT-ATA-T
1 TTAATATT
4689090 TTAAT-TT
1 TTAATATT
4689097 TGTAAATATT
1 T-T-AATATT
*
4689107 TGAATATT
1 TTAATATT
*
4689115 TTTAT-TT
1 TTAATATT
*
4689122 TTAAAATT
1 TTAATATT
4689130 TTAAATATT
1 TT-AATATT
4689139 TT
1 TT
4689141 TTTAAAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
6 3 0.05
7 22 0.39
8 18 0.32
9 10 0.18
10 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TTAATATT
Found at i:4689107 original size:32 final size:33
Alignment explanation
Indices: 4689071--4689141 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
4689061 ATTAATTTTT
*
4689071 TATTTTTAATA-TTTTATATTT-AATTTTGTAAA
1 TATTTTTAATATTTTTATATTTAAAATTT-TAAA
* *
4689103 TA-TTTGAATATTTTTATTTTTAAAATTTTAAA
1 TATTTTTAATATTTTTATATTTAAAATTTTAAA
4689135 TATTTTT
1 TATTTTT
4689142 TTAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
31 7 0.22
32 17 0.53
33 8 0.25
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (33 bp):
TATTTTTAATATTTTTATATTTAAAATTTTAAA
Found at i:4689949 original size:5 final size:5
Alignment explanation
Indices: 4689941--4689968 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4689931 ATCTTATATC
4689941 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
4689969 ATTTTCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:4690053 original size:9 final size:9
Alignment explanation
Indices: 4690035--4690102 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
4690025 TATTTTCTAG
4690035 TATTTTATT
1 TATTTTATT
*
4690044 TATTTCATT
1 TATTTTATT
* *
4690053 TGCTTTTATG
1 T-ATTTTATT
*
4690063 GATTTTATT
1 TATTTTATT
4690072 TA-TTT-TT
1 TATTTTATT
*
4690079 TATGTCT-TT
1 TAT-TTTATT
4690088 TATTTTATT
1 TATTTTATT
4690097 TATTTT
1 TATTTT
4690103 TCTTTTCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
7 4 0.09
8 5 0.11
9 31 0.69
10 5 0.11
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.72
Consensus pattern (9 bp):
TATTTTATT
Found at i:4690081 original size:20 final size:21
Alignment explanation
Indices: 4690056--4690097 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4690046 TTTCATTTGC
4690056 TTTTATGGATTTTA-TTTATT
1 TTTTATGGATTTTATTTTATT
**
4690076 TTTTATGTCTTTTATTTTATT
1 TTTTATGGATTTTATTTTATT
4690097 T
1 T
4690098 ATTTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTTATGGATTTTATTTTATT
Found at i:4690103 original size:15 final size:15
Alignment explanation
Indices: 4690085--4690128 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
4690075 TTTTTATGTC
4690085 TTTTATTTTATTTAT
1 TTTTATTTTATTTAT
* *
4690100 TTTTCTTTTCTTTAT
1 TTTTATTTTATTTAT
*
4690115 TTTTATTTAATTTA
1 TTTTATTTTATTTA
4690129 CTTGTTATCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:4690106 original size:20 final size:22
Alignment explanation
Indices: 4690065--4690123 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
4690055 CTTTTATGGA
4690065 TTTTA-TTTATTT-TTTATGTC
1 TTTTATTTTATTTATTTATGTC
4690085 TTTTATTTTATTTATTT-T-TC
1 TTTTATTTTATTTATTTATGTC
* *
4690105 TTTTCTTTATTTTTATTTA
1 TTTTATTT-TATTTATTTA
4690124 ATTTACTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 14 0.42
21 16 0.48
22 3 0.09
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTATTTTATTTATTTATGTC
Found at i:4690111 original size:25 final size:25
Alignment explanation
Indices: 4690064--4690163 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
4690054 GCTTTTATGG
*
4690064 ATTTTATTTATTTTT-TATGTCTTTT
1 ATTTTATTTATTTTTCT-TTTCTTTT
4690089 ATTTTATTTATTTTTCTTTTC-TTT
1 ATTTTATTTATTTTTCTTTTCTTTT
* * * *
4690113 ATTTTTATTTAATTTACTTGTTATCATT
1 A-TTTTATTTATTTTTCTT-TTCT-TTT
* *
4690141 AATTTA-TTATTATTCTTTTCTTT
1 ATTTTATTTATTTTTCTTTTCTTT
4690164 GTCTTTCTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
24 5 0.08
25 36 0.61
26 11 0.19
27 4 0.07
28 3 0.05
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (25 bp):
ATTTTATTTATTTTTCTTTTCTTTT
Found at i:4695241 original size:73 final size:71
Alignment explanation
Indices: 4695024--4695276 Score: 283
Period size: 72 Copynumber: 3.5 Consensus size: 71
4695014 TCTCACTTGT
* * * *
4695024 GATTGTTTTTCTTAAAGCATACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAATATTTATTT
1 GATTGTTTTTCTTAAAACAAACTTTGTCTCACTTGAGAC-CTTTTACTCGAAAGAAGATTTATTT
4695089 CACTCAA
65 CACTCAA
* * * * * * *
4695096 GTTTGCTTTGCTTAAAACAAACTTTGTCTCACCTAAGACTCTTTTACTCGAAATAAGATTTATTC
1 GATTGTTTTTCTTAAAACAAACTTTGTCTCACTTGAGAC-CTTTTACTCGAAAGAAGATTTATTT
4695161 CACTCAA
65 CACTCAA
* * *
4695168 GATTGTTTTTCTTAAAACCAGA-TTTGTCTCTCTTGGGACCATTTTCACTCGAAAGAAGATTTAT
1 GATTGTTTTTCTTAAAA-CAAACTTTGTCTCACTTGAGACC-TTTT-ACTCGAAAGAAGATTTAT
*
4695232 TTCAGTCAA
63 TTCACTCAA
* * * *
4695241 GATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGA
1 GATTGTTTTTCTTAAAACAAACTTTGTCTCACTTGA
4695277 AACAAATTTC
Statistics
Matches: 151, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
71 1 0.01
72 95 0.63
73 55 0.36
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (71 bp):
GATTGTTTTTCTTAAAACAAACTTTGTCTCACTTGAGACCTTTTACTCGAAAGAAGATTTATTTC
ACTCAA
Found at i:4695272 original size:21 final size:21
Alignment explanation
Indices: 4695243--4695297 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
4695233 TCAGTCAAGA
*
4695243 TTGTTTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
4695264 TTGTCTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
* *
4695285 TCGTCTCCCTTGA
1 TTGTCTCTCTTGA
4695298 GACATTTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (21 bp):
TTGTCTCTCTTGAAACAAATT
Found at i:4695450 original size:63 final size:63
Alignment explanation
Indices: 4695338--4695456 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
4695328 CTCTTGAGTC
** *
4695338 AGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTTGTCTCTTAAGAT
1 AGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAACAAATTTCGTCTCTTAAGAT
* * *
4695401 AGTTTCTCTTGAAACA-AAATCTTTGAATATGTTTCCCTTGAAACAAATTTCGTCTC
1 AGTTTCTCTTGAAACATAAA-CATTGAAAATATTTCCCTTGAAACAAATTTCGTCTC
4695457 CCTTGAGACA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
62 3 0.06
63 46 0.94
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (63 bp):
AGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAACAAATTTCGTCTCTTAAGAT
Found at i:4695509 original size:165 final size:165
Alignment explanation
Indices: 4695272--4695591 Score: 509
Period size: 165 Copynumber: 1.9 Consensus size: 165
4695262 TTTTGTCTCT
4695272 CTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGT
1 CTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGT
* * * *
4695337 CAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTTG-TCTCTTAAGAT
66 CAGTTTCTCTTGAAACATAAAAATTAAAAACATTTCCCTTGAAATAAATTTTGCTCTCTTAAGAT
* *
4695401 AGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCC
131 AGGTTCCCTTGAAACAAAAT-TTTGAATATGTTTCC
* * *
4695437 CTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGA
1 CTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAG-
*
4695502 T-AGTTTCTCTTGAAACATAAAAATTAAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTTGAG
65 TCAGTTTCTCTTGAAACATAAAAATTAAAAACATTTCCCTTGAAATAAATTTTG-CTCTCTTAAG
4695566 ATAGGTTCCCTTGAAACAAAATTTTG
129 ATAGGTTCCCTTGAAACAAAATTTTG
4695592 TCTCCCTTGA
Statistics
Matches: 142, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
165 109 0.77
166 5 0.04
167 28 0.20
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (165 bp):
CTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGT
CAGTTTCTCTTGAAACATAAAAATTAAAAACATTTCCCTTGAAATAAATTTTGCTCTCTTAAGAT
AGGTTCCCTTGAAACAAAATTTTGAATATGTTTCC
Found at i:4695516 original size:102 final size:102
Alignment explanation
Indices: 4695370--4695752 Score: 346
Period size: 102 Copynumber: 3.8 Consensus size: 102
4695360 TTGAAAATAT
** * ** * * *
4695370 TTCCCTTGAAA-TGAATTTTG--TCTCTTAAGATAGTTTCTCTTGAAACA-AAATCTTTGAATAT
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-AATTAAAAAC
* **
4695431 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATT
65 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
** * * * *
4695469 TTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGATAGTTTCTCTTGAAACATAAAAATTAAAAACA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAAAATTAAAAACA
* * * *
4695534 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGG
66 TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
* * *
4695571 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAAAATTAAAAACA
** * * * * * *
4695636 TTTCCCTTGAAATGAATTTTGTCACTCATGAGATAGT
66 TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
* * * ** *
4695673 TTCCCTTGAAGC-AAATTTTGTCTC-CATTGAGACAGTTTCTCTTGAAGCATAAACTTTGAAAAC
1 TTCCCTTGAAACAAAATTTTGTCTCTC-TTGAGATAGTTTCTCTTGAAACATAAAAATTAAAAAC
*
4695736 AGTTTCCTTTGAAACAA
65 A-TTTCCCTTGAAACAA
4695753 CATCTTTCAA
Statistics
Matches: 240, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
99 8 0.03
100 8 0.03
101 47 0.20
102 174 0.73
103 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (102 bp):
TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAAAATTAAAAACA
TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
Found at i:4695594 original size:37 final size:37
Alignment explanation
Indices: 4695535--4695620 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
4695525 TTAAAAACAT
* * *
4695535 TTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGATAGG
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
*
4695571 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGT
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
*
4695608 TTCTCTTGAAACA
1 TTCCCTTGAAACA
4695621 TAAACATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 11 0.25
37 33 0.75
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
Found at i:4695690 original size:36 final size:36
Alignment explanation
Indices: 4695636--4695721 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
4695626 ATTAAAAACA
*** *
4695636 TTTCCCTTGAAATGAATTTTGTCACTCA-TGAGATAG
1 TTTCCCTTGAAGCAAATTTTGTCAC-CATTGAGACAG
*
4695672 TTTCCCTTGAAGCAAATTTTGTCTCCATTGAGACAG
1 TTTCCCTTGAAGCAAATTTTGTCACCATTGAGACAG
*
4695708 TTTCTCTTGAAGCA
1 TTTCCCTTGAAGCA
4695722 TAAACTTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 2 0.05
36 41 0.95
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (36 bp):
TTTCCCTTGAAGCAAATTTTGTCACCATTGAGACAG
Found at i:4695838 original size:21 final size:21
Alignment explanation
Indices: 4695814--4695875 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4695804 TTCTTTTGGA
4695814 AGTTTTTGTCTCTCTTGAGAC
1 AGTTTTTGTCTCTCTTGAGAC
*
4695835 AG----T-T-TCTCTTGAAAC
1 AGTTTTTGTCTCTCTTGAGAC
**
4695850 AAATTTTGTCTCTCTTGAGAC
1 AGTTTTTGTCTCTCTTGAGAC
4695871 AGTTT
1 AGTTT
4695876 CCCTTGAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 1 0.03
19 1 0.03
20 1 0.03
21 15 0.50
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (21 bp):
AGTTTTTGTCTCTCTTGAGAC
Found at i:4695864 original size:36 final size:36
Alignment explanation
Indices: 4695776--4695885 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 36
4695766 GTTTTATGTT
* * * *
4695776 AAACAAATCTTGTCTCCCTTAAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* **
4695812 -GA-AGTTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
4695846 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
4695882 AAAC
1 AAAC
4695886 TTCAATCTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
34 26 0.43
35 2 0.03
36 33 0.54
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:4695943 original size:33 final size:34
Alignment explanation
Indices: 4695903--4695988 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 34
4695893 TTTGAATACA
*
4695903 GTTTCTCTTGAAACAC-AAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
4695936 GTTTCTCTTGAAACACAAAAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACAC---AAAAAAACCTTTGAAAAT
*
4695973 ATTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
4695989 CAAACCCTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
33 16 0.34
37 31 0.66
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
Found at i:4697165 original size:38 final size:37
Alignment explanation
Indices: 4697121--4697204 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 37
4697111 TAGATTACAC
4697121 ATATATATGTTA-ATTTTCATTATCTGTTTTA-TTAATTT
1 ATATATAT-TTACATTTT-ATTATCT-TTTTATTTAATTT
* * *
4697159 ATATATATTTACTATTTTTTTATGTTTTTATTTATTTT
1 ATATATATTTAC-ATTTTATTATCTTTTTATTTAATTT
4697197 ATATATAT
1 ATATATAT
4697205 ACATATTATC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 8 0.20
38 27 0.68
39 5 0.12
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (37 bp):
ATATATATTTACATTTTATTATCTTTTTATTTAATTT
Found at i:4697259 original size:15 final size:16
Alignment explanation
Indices: 4697221--4697262 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
4697211 TATCATTTCG
*
4697221 TTTATCTTATATATAT
1 TTTATTTTATATATAT
*
4697237 TTTA-TTTATTTA-AT
1 TTTATTTTATATATAT
4697251 TTTATTTTATAT
1 TTTATTTTATAT
4697263 TTTCCCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
16 4 0.18
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTTTATATATAT
Found at i:4697345 original size:9 final size:9
Alignment explanation
Indices: 4697327--4697440 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
4697317 TATTTTCTAG
4697327 TATTTTATT
1 TATTTTATT
*
4697336 TATTTCATT
1 TATTTTATT
* *
4697345 TGCTTTTATG
1 T-ATTTTATT
*
4697355 GATTTTATT
1 TATTTTATT
4697364 TA-TTT-TT
1 TATTTTATT
*
4697371 TATGTCT-TT
1 TAT-TTTATT
4697380 TATTTTATT
1 TATTTTATT
*
4697389 TATTTATTTT
1 TATTT-TATT
* *
4697399 TCTTTTCTTT
1 TATTTT-ATT
* *
4697409 TAGTTTCTT
1 TATTTTATT
4697418 TATTTTTATT
1 TA-TTTTATT
* *
4697428 TAATTTACT
1 TATTTTATT
4697437 TATT
1 TATT
4697441 ATCGTTAATT
Statistics
Matches: 78, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
7 4 0.05
8 5 0.06
9 43 0.55
10 26 0.33
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (9 bp):
TATTTTATT
Found at i:4697373 original size:20 final size:21
Alignment explanation
Indices: 4697348--4697395 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
4697338 TTTCATTTGC
4697348 TTTTATGGATTTTA-TTTATT
1 TTTTATGGATTTTATTTTATT
**
4697368 TTTTATGTCTTTTATTTTATT
1 TTTTATGGATTTTATTTTATT
4697389 TATTTAT
1 T-TTTAT
4697396 TTTTCTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
21 7 0.29
22 5 0.21
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTTATGGATTTTATTTTATT
Found at i:4697390 original size:25 final size:24
Alignment explanation
Indices: 4697356--4697433 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
4697346 GCTTTTATGG
4697356 ATTTTATTTATTT-TTTATGTCTTTT
1 ATTTTATTTATTTATTT-T-TCTTTT
4697381 ATTTTATTTATTTATTTTTCTTTT
1 ATTTTATTTATTTATTTTTCTTTT
* * * *
4697405 CTTTTAGTTTCTTTATTTTTATTTA
1 ATTTTA-TTTATTTATTTTTCTTTT
4697430 ATTT
1 ATTT
4697434 ACTTATTATC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 11 0.24
25 32 0.70
26 3 0.07
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.76
Consensus pattern (24 bp):
ATTTTATTTATTTATTTTTCTTTT
Found at i:4697390 original size:29 final size:29
Alignment explanation
Indices: 4697358--4697422 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
4697348 TTTTATGGAT
*
4697358 TTTATTTATTTTT-TATGTCTTTTATTTTA
1 TTTATTTATTTTTCT-TGTCTTTTAGTTTA
* *
4697387 TTTATTTATTTTTCTTTTCTTTTAGTTTC
1 TTTATTTATTTTTCTTGTCTTTTAGTTTA
4697416 TTTATTT
1 TTTATTT
4697423 TTATTTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (29 bp):
TTTATTTATTTTTCTTGTCTTTTAGTTTA
Found at i:4699629 original size:24 final size:26
Alignment explanation
Indices: 4699575--4699630 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
4699565 TTTTGTTTTT
* *
4699575 ATTATTATTATTAATATTATATATATT
1 ATTA-TATTATTAATATTATATAAATA
*
4699602 ATTATATTA-TATTATTAT-TAAATA
1 ATTATATTATTAATATTATATAAATA
4699626 ATTAT
1 ATTAT
4699631 TACAAGCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 9 0.35
25 8 0.31
26 5 0.19
27 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATATTATTAATATTATATAAATA
Found at i:4699632 original size:3 final size:3
Alignment explanation
Indices: 4699573--4699621 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
4699563 CATTTTGTTT
*
4699573 TTA TTA TTA TTA TTA ATA TTA -TA TATA TTA TTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
4699616 TTA TTA
1 TTA TTA
4699622 AATAATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 31 0.77
4 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4700981 original size:120 final size:116
Alignment explanation
Indices: 4700833--4701070 Score: 293
Period size: 121 Copynumber: 2.0 Consensus size: 116
4700823 ATGTTAATCC
* * * * *
4700833 TGTTTTAATATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAA-AACAACTGGATGTC
1 TGTTTTAATAATTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAGAAC--CTAGAAGTC
* * *
4700895 CATTTTCTGATATTTTTAAATAAATAAATATCTTATTTTTATAAATTATATATTAAT
64 C-TTTTCTGATATTTCTAAATAAATAAATAT-TT-TATTTATAAA-TATATATAAAT
* *
4700952 TGTTTTAATTAATTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGAACCTAGAAGTC
1 TGTTTTAA-TAATTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAA-GAACCTAGAAGTC
4701017 CTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAAT
64 CTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAAT
4701070 T
1 T
4701071 AATATTTTTT
Statistics
Matches: 104, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
118 11 0.11
119 17 0.16
120 21 0.20
121 31 0.30
122 21 0.20
124 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (116 bp):
TGTTTTAATAATTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAGAACCTAGAAGTCCT
TTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAAT
Found at i:4701068 original size:29 final size:28
Alignment explanation
Indices: 4701035--4701090 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
4701025 ATATTTCTAA
4701035 ATAAATAAATATTTTATTTATAAATATAT
1 ATAAATAAATATTTT-TTTATAAATATAT
* *
4701064 ATAAATTAATATTTTTTTATAATTATA
1 ATAAATAAATATTTTTTTATAAATATA
4701091 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAAATAAATATTTTTTTATAAATATAT
Found at i:4701596 original size:19 final size:19
Alignment explanation
Indices: 4701572--4701614 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4701562 CTTTTCAAAA
4701572 TTTAT-ATATATATATATAT
1 TTTATAATATATATAT-TAT
*
4701591 TTTATAATATTTATATTAT
1 TTTATAATATATATATTAT
4701610 TTTAT
1 TTTAT
4701615 TAATGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATAATATATATATTAT
Found at i:4701626 original size:19 final size:19
Alignment explanation
Indices: 4701572--4701633 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
4701562 CTTTTCAAAA
*
4701572 TTTAT-ATATATATATATAT
1 TTTATAATATTTATAT-TAT
4701591 TTTATAATATTTATATTAT
1 TTTATAATATTTATATTAT
* *
4701610 TTTATTAATGTTTTATTTTAT
1 TTTA-TAAT-ATTTATATTAT
4701631 TTT
1 TTT
4701634 TCAAGTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 12 0.32
20 13 0.35
21 12 0.32
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATAATATTTATATTAT
Found at i:4707341 original size:114 final size:114
Alignment explanation
Indices: 4707140--4707359 Score: 341
Period size: 114 Copynumber: 1.9 Consensus size: 114
4707130 CACGTTCTCG
* *
4707140 TAGTAGAAATAAGGAGACCTAATAGCATCTTCTAGAAATGTTCTTTAAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAATGTTCTTTAAGTTATCTGATCTGGTTC
* *
4707205 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTCGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTCGCTCA
* * *
4707254 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAATGTTCTTTAAGTTATCTGATCTGGTTC
* * * *
4707319 GGTAGGAACTCCAGAACTAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
4707360 CTGCATGATC
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 95 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAATGTTCTTTAAGTTATCTGATCTGGTTC
GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTCGCTCA
Found at i:4709898 original size:22 final size:22
Alignment explanation
Indices: 4709870--4710036 Score: 262
Period size: 22 Copynumber: 7.6 Consensus size: 22
4709860 ACATCTACAT
4709870 TTTTCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
4709892 TTTTCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
* *
4709914 TCTTCAAAGATGGTAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
*
4709936 TTTTTAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
* *
4709958 TCTTCAAAGATGGTAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
*
4709980 TTTTTAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
*
4710002 TTATCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
*
4710024 TTATCAAAGATGA
1 TTTTCAAAGATGA
4710037 AAGCTTTATC
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 132 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTCTC
Found at i:4711211 original size:228 final size:228
Alignment explanation
Indices: 4710607--4711540 Score: 1475
Period size: 228 Copynumber: 4.2 Consensus size: 228
4710597 CTATTTCCCA
*
4710607 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4710672 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * * *
4710737 GATGTTTTCAAAGCCTTAGGGTCATATGTAAGTCATGCAGTGCATGATGTTACCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
*
4710802 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* * * *
4710835 TATCTGTAAGTCCTACAGTGC---ATGTTACCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4710897 AGCCTTAGGGTCATCTGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
4710962 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
4711027 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* * * *
4711060 CATTTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGAAGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
4711125 AGCCTTAGGGTTATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
4711190 GATATTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
4711255 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
4711288 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4711353 AGCCTTAGGGTCATCTGTAAGTCCT----T-C---A-G----------GCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
4711399 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
*
4711464 TGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
4711497 CATCTGTAAGTCATTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
4711541 TTATCTGTAA
Statistics
Matches: 667, Mismatches: 36, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
207 8 0.01
208 4 0.01
209 140 0.21
219 1 0.00
220 1 0.00
223 1 0.00
224 1 0.00
225 213 0.32
228 298 0.45
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:4711358 original size:29 final size:29
Alignment explanation
Indices: 4711322--4711415 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
4711312 ATGTTTCAAA
4711322 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
* * * * * *
4711351 AAAGCCTTAGGG-TC-ATCTGTAAGTCCTTC
1 AAAGCCTTCGGGAGCTTTTTG-ATGT-TTTC
*
4711380 -AGGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
4711408 AAAGCCTT
1 AAAGCCTT
4711416 AGGGTCATCT
Statistics
Matches: 46, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
27 3 0.07
28 16 0.35
29 24 0.52
30 3 0.07
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:4711381 original size:76 final size:76
Alignment explanation
Indices: 4710607--4711377 Score: 1323
Period size: 76 Copynumber: 10.2 Consensus size: 76
4710597 CTATTTCCCA
4710607 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4710672 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4710683 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4710748 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
4710759 CATATGTAAGTCATGCAGTGCATGATGTTACCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4710824 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
4710835 TATCTGTAAGTCCTACAGTGC---ATGTTACCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4710897 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4710908 CATCTGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4710973 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4710984 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4711049 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * * *
4711060 CATTTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGAAGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4711125 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
4711136 TATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4711201 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
4711212 CATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4711277 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
4711288 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4711353 AGCCTTAGGGT
66 AGCCTTAGGGT
4711364 CATCTGTAAGTCCT
1 CATCTGTAAGTCCT
4711378 TCAGGCCTTC
Statistics
Matches: 654, Mismatches: 38, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
73 70 0.11
76 584 0.89
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:4711413 original size:57 final size:57
Alignment explanation
Indices: 4711325--4711434 Score: 220
Period size: 57 Copynumber: 1.9 Consensus size: 57
4711315 TTTCAAAAAA
4711325 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAG
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAG
4711382 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCT
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCT
4711435 ACAATGCATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (57 bp):
GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAG
Found at i:4711487 original size:133 final size:133
Alignment explanation
Indices: 4711249--4711514 Score: 478
Period size: 133 Copynumber: 2.0 Consensus size: 133
4711239 TTTTCAAAAA
* *
4711249 GCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGAT
1 GCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGAT
*
4711314 GTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTT
66 GTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATT
4711379 CAG
131 CAG
*
4711382 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGAT
1 GCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGAT
* *
4711447 GTTTCCAAAAAGCCTTCTGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATT
66 GTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATT
4711512 CAG
131 CAG
4711515 TGCATGATGT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 127 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (133 bp):
GCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGAT
GTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATT
CAG
Found at i:4711508 original size:76 final size:76
Alignment explanation
Indices: 4711382--4711540 Score: 259
Period size: 76 Copynumber: 2.1 Consensus size: 76
4711372 AGTCCTTCAG
*
4711382 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAATGCATGAT
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATACAATGCATGAT
4711447 GTTTCCAAAAA
66 GTTTCCAAAAA
* * *
4711458 GCCTTCTGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATTCAGTGCATGAT
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATACAATGCATGAT
*
4711523 GTTTTC-AAAA
66 GTTTCCAAAAA
4711533 -CCTTCGGG
1 GCCTTCGGG
4711541 TTATCTGTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
74 7 0.09
75 4 0.05
76 66 0.86
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (76 bp):
GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATACAATGCATGAT
GTTTCCAAAAA
Found at i:4711547 original size:45 final size:45
Alignment explanation
Indices: 4711474--4711575 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 45
4711464 TGGAGCTTTT
* *
4711474 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCATTCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCATTCAGTGCA
* * *
4711519 TGATGTTTTCAAAACCTTCGGGTTATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCATTCAGTGCA
4711564 TGATGTTTTCAA
1 TGATGTTTTCAA
4711576 CATTTCCATC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCATTCAGTGCA
Done.