Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_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: 3811333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 18
Found at i:3617863 original size:26 final size:27
Alignment explanation
Indices: 3617800--3617864 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
3617790 TCAACGGTCA
*
3617800 ACGGGTCAAC-GGTCAACGGGTCGGGT
1 ACGGGTCAACGGGTAAACGGGTCGGGT
3617826 AAACGGGT---CGGGTAAACGGGTCGGGT
1 --ACGGGTCAACGGGTAAACGGGTCGGGT
3617852 -CGGGTCAACGGGT
1 ACGGGTCAACGGGT
3617865 CAGGTCGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
23 5 0.16
25 1 0.03
26 20 0.62
28 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.45, T:0.15
Consensus pattern (27 bp):
ACGGGTCAACGGGTAAACGGGTCGGGT
Found at i:3617870 original size:13 final size:13
Alignment explanation
Indices: 3617795--3617852 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
3617785 TCCGGTCAAC
*
3617795 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
3617810 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
3617823 GGTAAACGGGTCG
1 GGTCAACGGGTCG
*
3617836 GGTAAACGGGTCG
1 GGTCAACGGGTCG
3617849 GGTC
1 GGTC
3617853 GGGTCAACGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.21, C:0.21, G:0.43, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:3620060 original size:24 final size:24
Alignment explanation
Indices: 3620043--3620168 Score: 107
Period size: 24 Copynumber: 5.2 Consensus size: 24
3620033 ATCAAAATAT
*
3620043 AAATCAGGTCAAGTATCATATCAG
1 AAATCAGGTCAAGTATCAAATCAG
* *
3620067 AAATCAGGTCAAGTAACAGATCAG
1 AAATCAGGTCAAGTATCAAATCAG
* *
3620091 -AATCCAAGTCAAGTATCAGATCAG
1 AAAT-CAGGTCAAGTATCAAATCAG
* *
3620115 -AATCCATGTC-AGATATCAGATCAG
1 AAAT-CAGGTCAAG-TATCAAATCAG
* *
3620139 -AATCCATGTCAAGTATCAGATCAG
1 AAAT-CAGGTCAAGTATCAAATCAG
3620163 AAATCA
1 AAATCA
3620169 AATCGAAATC
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
23 5 0.05
24 83 0.89
25 5 0.05
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (24 bp):
AAATCAGGTCAAGTATCAAATCAG
Found at i:3620135 original size:48 final size:47
Alignment explanation
Indices: 3620050--3620164 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 47
3620040 TATAAATCAG
*
3620050 GTCAAGTATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAG-AATCAGGTCAAGTAACAGATCAGAATCCAA
* * *
3620098 GTCAAGTATCAGATCAGAATCCATGTC-AGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAT-CAGGTCAAG-TAACAGATCAGAATCCAA
3620146 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
3620165 ATCAAATCGA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
47 5 0.08
48 56 0.92
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (47 bp):
GTCAAGTATCAGATCAGAATCAGGTCAAGTAACAGATCAGAATCCAA
Found at i:3621291 original size:18 final size:18
Alignment explanation
Indices: 3621270--3621305 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3621260 CTTCTATCCG
*
3621270 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
3621288 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
3621306 GTCCTTTCGA
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:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:3622613 original size:7 final size:7
Alignment explanation
Indices: 3622601--3622632 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
3622591 TGGTCAACTC
3622601 CGGTCAA
1 CGGTCAA
3622608 CGGTCAA
1 CGGTCAA
3622615 CGGGTCAA
1 C-GGTCAA
3622623 CGGTCAA
1 CGGTCAA
3622630 CGG
1 CGG
3622633 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:3622653 original size:18 final size:18
Alignment explanation
Indices: 3622643--3622688 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
3622633 GTCGGGTCAA
3622643 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
3622661 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
3622679 CGGGTCGGGT
1 CGGGTCGGGT
3622689 TGTGACCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.22, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:3622677 original size:26 final size:27
Alignment explanation
Indices: 3622614--3622679 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
3622604 TCAACGGTCA
3622614 ACGGGTCAAC-GGTCAACGGGTCGGGT
1 ACGGGTCAACGGGTCAACGGGTCGGGT
3622640 CAACGGGT---CGGGTCAACGGGTCGGGT
1 --ACGGGTCAACGGGTCAACGGGTCGGGT
3622666 -CGGGTCAACGGGTC
1 ACGGGTCAACGGGTC
3622680 GGGTCGGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 5 0.15
25 1 0.03
26 22 0.65
28 6 0.18
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (27 bp):
ACGGGTCAACGGGTCAACGGGTCGGGT
Found at i:3622679 original size:8 final size:8
Alignment explanation
Indices: 3622602--3622661 Score: 64
Period size: 8 Copynumber: 8.5 Consensus size: 8
3622592 GGTCAACTCC
3622602 GGTCAAC-
1 GGTCAACG
3622609 GGTCAACG
1 GGTCAACG
3622617 GGTCAAC-
1 GGTCAACG
3622624 GGTCAACG
1 GGTCAACG
3622632 GGT---CG
1 GGTCAACG
3622637 GGTCAACG
1 GGTCAACG
3622645 GGT---CG
1 GGTCAACG
3622650 GGTCAACG
1 GGTCAACG
3622658 GGTC
1 GGTC
3622662 GGGTCGGGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
5 10 0.22
7 14 0.31
8 21 0.47
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:3622684 original size:13 final size:13
Alignment explanation
Indices: 3622609--3622666 Score: 89
Period size: 13 Copynumber: 4.3 Consensus size: 13
3622599 TCCGGTCAAC
*
3622609 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
3622624 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3622637 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3622650 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3622663 GGTC
1 GGTC
3622667 GGGTCAACGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
13 30 0.71
15 12 0.29
ACGTcount: A:0.17, C:0.24, G:0.43, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:3623583 original size:16 final size:16
Alignment explanation
Indices: 3623542--3623583 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3623532 TCTGTCTAAA
* *
3623542 TTTTTCTTGCGTTGAT
1 TTTTTCTTGTGTCGAT
3623558 TTTTTCTTGTGTCGAT
1 TTTTTCTTGTGTCGAT
3623574 TTTTTCTTGT
1 TTTTTCTTGT
3623584 AGAATAGCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.12, G:0.17, T:0.67
Consensus pattern (16 bp):
TTTTTCTTGTGTCGAT
Found at i:3624492 original size:34 final size:34
Alignment explanation
Indices: 3624447--3624513 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
3624437 AATACGAATT
*
3624447 ACAACTTCTCTC-GATCTAATAAGGAGAAAACAATG
1 ACAACTTCTCTCTG-T-TAAAAAGGAGAAAACAATG
3624482 ACAA-TTCTCTCTTGTTAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGTTAAAAAGGAGAAAACAA
3624514 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 5 0.17
36 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (34 bp):
ACAACTTCTCTCTGTTAAAAAGGAGAAAACAATG
Found at i:3634286 original size:21 final size:20
Alignment explanation
Indices: 3634258--3634296 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3634248 CATTATAAGA
3634258 ATTTATGGCCTCAACAAAAT
1 ATTTATGGCCTCAACAAAAT
*
3634278 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
3634297 GGCTCTACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAT
Found at i:3637756 original size:20 final size:21
Alignment explanation
Indices: 3637711--3637757 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
3637701 ATGTTTGCAG
* * *
3637711 AGAAAACATCCCCAAACTGTT
1 AGAAATCATCCCCAAACGGCT
3637732 AGAAATCATCCCC-AACGGCT
1 AGAAATCATCCCCAAACGGCT
3637752 AGAAAT
1 AGAAAT
3637758 GGCCACAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.17
Consensus pattern (21 bp):
AGAAATCATCCCCAAACGGCT
Found at i:3643255 original size:287 final size:286
Alignment explanation
Indices: 3642698--3643274 Score: 1073
Period size: 287 Copynumber: 2.0 Consensus size: 286
3642688 AATACAAAAC
* *
3642698 TTGCCCTATTCGAGCTGATGTACGATGCAAGTGACTACATAGTAGGGACGATGCTAGGATAAAGA
1 TTGCCCTATTCGAGCTGATGTACGATGCAAATGACTACATAGTAGGGACGATGCTAGGACAAAGA
3642763 AAAGGTAAAATATTTCATGTCATTTATTATGCTAGTTGTATGATGCATAACTTAAATATACCACC
66 AAAGGTAAAATATTTCATGTCATTTATTATGCTAGTTGTATGATGCATAACTTAAATATACCACC
*
3642828 ACTGAAAAAAAATTGCTTGTTGTGGTATTCACTTTTGATAAGTTTAGGGCATACCTTGTATGCAC
131 ACTGAAAAAAAATTGCTTGTTGTGGTATTCACTTTTGATAAGTTTAGGGCATACCTTATATGCAC
3642893 TAAGGTCATTGTACACACTGGTCACTCAGCCATTAAATACATAGTGAATAAAAAGAATGCCAAGC
196 TAAGGTCATTGTACACACTGGTCACTCAGCCATTAAATACATAGTGAATAAAAAGAATGCCAAGC
3642958 CTAGGCTTATTAGATAGATACTCTTG
261 CTAGGCTTATTAGATAGATACTCTTG
* *
3642984 TTGCTCTATTCGAGCTGATGTACGATGCAAATGACTACATAGTAGGGATGATGCTAGGACAAAGA
1 TTGCCCTATTCGAGCTGATGTACGATGCAAATGACTACATAGTAGGGACGATGCTAGGACAAAGA
3643049 AAAGGTAAAATATTTCATGTCATTTATTATGCTAGTTGTATGATGCATAACTTAAATATACCACC
66 AAAGGTAAAATATTTCATGTCATTTATTATGCTAGTTGTATGATGCATAACTTAAATATACCACC
3643114 ACTGAAAAAAAAATTGCTTGTTGTGGTATTCACTTTTGATAAGTTTAGGGCATACCTTATATGCA
131 ACTG-AAAAAAAATTGCTTGTTGTGGTATTCACTTTTGATAAGTTTAGGGCATACCTTATATGCA
* *
3643179 CTAAGGTCATTGTACACAGTGGTCACTCAGCCATTAAATACATAGTGAATAAAAAGAATGTCAAG
195 CTAAGGTCATTGTACACACTGGTCACTCAGCCATTAAATACATAGTGAATAAAAAGAATGCCAAG
*
3643244 CCTAGGCTTATTAGATATATACTCTTG
260 CCTAGGCTTATTAGATAGATACTCTTG
3643271 TTGC
1 TTGC
3643275 AAGAAGTTGA
Statistics
Matches: 282, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
286 130 0.46
287 152 0.54
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (286 bp):
TTGCCCTATTCGAGCTGATGTACGATGCAAATGACTACATAGTAGGGACGATGCTAGGACAAAGA
AAAGGTAAAATATTTCATGTCATTTATTATGCTAGTTGTATGATGCATAACTTAAATATACCACC
ACTGAAAAAAAATTGCTTGTTGTGGTATTCACTTTTGATAAGTTTAGGGCATACCTTATATGCAC
TAAGGTCATTGTACACACTGGTCACTCAGCCATTAAATACATAGTGAATAAAAAGAATGCCAAGC
CTAGGCTTATTAGATAGATACTCTTG
Found at i:3654521 original size:23 final size:23
Alignment explanation
Indices: 3654495--3654557 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
3654485 ATATAACCAC
3654495 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
3654518 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
3654541 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3654558 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3655020 original size:34 final size:34
Alignment explanation
Indices: 3654980--3655045 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
3654970 AAGTTGTAGA
*
3654980 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
3655014 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
3655046 CTTTGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
Found at i:3655340 original size:18 final size:18
Alignment explanation
Indices: 3655317--3655353 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3655307 CGAAATATAT
3655317 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
3655335 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
3655353 A
1 A
3655354 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:3655833 original size:23 final size:23
Alignment explanation
Indices: 3655771--3655843 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
3655761 ATACTTTACA
3655771 ATAT-AACCACTACCTATTACATT
1 ATATAAACCA-TACCTATTACATT
* *
3655794 ATATAAACGATATCTATTACATT
1 ATATAAACCATACCTATTACATT
* *
3655817 ATATAAGCTCA-ACCTATTACATC
1 ATATAAAC-CATACCTATTACATT
3655840 ATAT
1 ATAT
3655844 GTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
23 37 0.88
24 5 0.12
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (23 bp):
ATATAAACCATACCTATTACATT
Found at i:3656245 original size:25 final size:25
Alignment explanation
Indices: 3656188--3656253 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
3656178 CACTCAAAAG
*
3656188 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*** *
3656213 ACAAACATACATAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
3656238 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
3656254 TTAATGATAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:3656940 original size:183 final size:183
Alignment explanation
Indices: 3656623--3657103 Score: 856
Period size: 183 Copynumber: 2.6 Consensus size: 183
3656613 GTAAGGGTTT
* * *
3656623 AGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCAGTATATTTATACCGGTTATATTAC
1 AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC
* * * *
3656688 AAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGATACTTTTTTAAATCGT
66 AAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAAATCGT
*
3656753 ATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAA
131 ATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTAAAA
3656806 AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC
1 AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC
*
3656871 AAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATATCGACACTTTTTAACAAT-G
66 AAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAA-AATCG
*
3656935 TATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAGATTAAAA
130 TATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTAAAA
3656989 AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC
1 AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC
3657054 AAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
66 AAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
3657104 GCTGTGTATA
Statistics
Matches: 286, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
183 283 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC
AAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAAATCGT
ATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTAAAA
Found at i:3658474 original size:199 final size:198
Alignment explanation
Indices: 3657762--3659124 Score: 2482
Period size: 198 Copynumber: 6.9 Consensus size: 198
3657752 TTTAAATTAG
* * *
3657762 TATCGACACAAACTATATTAGTGTCGATACATTATTTATATATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
3657827 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3657892 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3657956 AAA
196 AAA
* *
3657959 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTACA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
3658024 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3658089 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3658154 AAA
196 AAA
3658157 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
*
3658222 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
3658287 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTAGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3658352 GAAA
196 -AAA
* * *
3658356 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
*
3658421 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3658486 CGACAC--TTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3658548 AAA
196 AAA
* * *
3658551 TATCGACACAAACTATATTAGTGTTGATACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
3658616 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3658681 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3658746 AAA
196 AAA
3658749 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
3658814 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3658879 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3658944 GAAA
196 -AAA
* * *
3658948 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
* * *
3659013 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
3659078 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
3659125 GGCCATATTG
Statistics
Matches: 1129, Mismatches: 30, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
195 132 0.12
196 52 0.05
197 139 0.12
198 500 0.44
199 245 0.22
200 61 0.05
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:3658888 original size:592 final size:594
Alignment explanation
Indices: 3657762--3659124 Score: 2559
Period size: 592 Copynumber: 2.3 Consensus size: 594
3657752 TTTAAATTAG
* * * * * *
3657762 TATCGACACAAACTATATTAGTGTCGATACATTATTTATATATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
*
3657827 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3657892 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
3657957 AATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTA
3658022 CAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 CAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3658087 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
3658152 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
391 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
3658217 GTATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
456 GTATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
3658282 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTA
521 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTA
3658347 GAAAAGAAA
586 GAAAAGAAA
3658356 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
3658421 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3658486 CGACAC-TTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
* *
3658549 AATATCGACACAAACTATATTAGTGTTGATACATTATTTATACATATTATCTCATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTA
*
3658614 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 CAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3658679 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
3658744 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
391 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
*
3658809 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
456 GTATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
3658874 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
521 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTA
3658939 GAAAAGAAA
586 GAAAAGAAA
3658948 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
* *
3659013 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
3659078 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
3659125 GGCCATATTG
Statistics
Matches: 750, Mismatches: 15, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
592 560 0.75
593 24 0.03
594 129 0.17
595 3 0.00
596 34 0.05
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (594 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTA
CAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCG
GTATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTA
GAAAAGAAA
Found at i:3659284 original size:19 final size:19
Alignment explanation
Indices: 3659238--3659286 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
3659228 TTATATTCAC
*
3659238 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
3659257 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
3659276 ATACAAAATTA
1 ATACAAAATTA
3659287 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:3661124 original size:33 final size:32
Alignment explanation
Indices: 3661067--3661131 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3661057 CATCTTAATA
*
3661067 TCACCCCTTAACCCCCAACTTCTTTCACCACT
1 TCACCCCTCAACCCCCAACTTCTTTCACCACT
* *
3661099 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAAC-CCCCAACTTCTTTCACCACT
3661132 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.22, C:0.49, G:0.00, T:0.29
Consensus pattern (32 bp):
TCACCCCTCAACCCCCAACTTCTTTCACCACT
Found at i:3661189 original size:21 final size:21
Alignment explanation
Indices: 3661164--3661228 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
3661154 CCCCTTATGC
* *
3661164 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
3661185 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
3661206 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
3661227 CT
1 CT
3661229 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:3663453 original size:17 final size:18
Alignment explanation
Indices: 3663431--3663473 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
3663421 ATATATCCGG
3663431 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
3663448 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
3663468 TATCAT
1 TATCAT
3663474 ATTTTTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:3663855 original size:177 final size:176
Alignment explanation
Indices: 3663404--3663869 Score: 643
Period size: 178 Copynumber: 2.6 Consensus size: 176
3663394 CGTACTTACG
* *
3663404 AAAGTATCGACAC-TTAAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAAC-GTTTACCGGTTTTATCATTTT-ATACCGGTTT
* *
3663468 TATCATATTTTTACTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTATA
64 TATCATATTTTTACTGTTATATCGTT-TGGATCGATACA-TTTTTAAAAGTATCGACACATTATA
* *
3663533 GGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
127 GGAGCTATAAATGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
3663583 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTACCGGTTTTATCATTTGT-TACCGGTTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTACCGGTTTTATCATTT-TATACCGGTTTT
* *
3663647 ATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACTTTATAG
65 ATCATATTTTTA-CTGTTATATCG-TTTGGATCGATACATTTTTAAAAGTATCGACACATTATAG
** *
3663712 GATTTA-AAATGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
128 GAGCTATAAATGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * *
3663761 AAAGTACCGACACTTTAAATGTAT-CGGTAGCGCTTGACCGGTTTTATCATTTCTATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACG-TTTACCGGTTTTATCATTT-TATACCGGTTT
* * *
3663825 TGTCATAGTTTTACTGTTATATCGTTTGGATCGACACATTTTTAA
64 TATCATATTTTTACTGTTATATCGTTTGGATCGATACATTTTTAA
3663870 TTTGGATCGA
Statistics
Matches: 258, Mismatches: 22, Indels: 16
0.87 0.07 0.05
Matches are distributed among these distances:
177 66 0.26
178 100 0.39
179 73 0.28
180 19 0.07
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (176 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTACCGGTTTTATCATTTTATACCGGTTTTA
TCATATTTTTACTGTTATATCGTTTGGATCGATACATTTTTAAAAGTATCGACACATTATAGGAG
CTATAAATGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:3664444 original size:225 final size:227
Alignment explanation
Indices: 3663933--3664638 Score: 1248
Period size: 225 Copynumber: 3.1 Consensus size: 227
3663923 GACCTACTTT
3663933 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTT-AAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
* *
3663997 ATTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAA
66 ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
*
3664062 TATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
131 AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA-C
3664127 AAATATAATAATAAATATGTTTTCAACAGTGAA
195 AAATATAATAATAAATATGTTTTCAACAGTGAA
**
3664160 A-AAGTATGGACACTTTTATAAAAATGATATATAC-TTTTTGAAAGTTATGTAATTTATGTTTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
*
3664223 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTCATTTACACAAAA
66 ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
3664287 AATTATTTGATTGTTTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAATC
131 AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA-C
3664351 AAATATAATAATAAATATGTTTTCAACAGTGAA
195 AAATATAATAATAAATATGTTTTCAACAGTGAA
3664384 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAA-TTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
3664448 ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
66 ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
*
3664513 AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAACT
131 AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC-
*
3664578 AAAGATAATAATAAATAT-TTTTC-ACAGTGAA
195 AAATATAATAATAAATATGTTTTCAACAGTGAA
*
3664609 ATAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
3664639 GATAATTTAC
Statistics
Matches: 460, Mismatches: 13, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
224 76 0.17
225 165 0.36
226 161 0.35
227 58 0.13
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (227 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACA
AATATAATAATAAATATGTTTTCAACAGTGAA
Found at i:3665020 original size:2 final size:2
Alignment explanation
Indices: 3665004--3665038 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
3664994 TGCATAGTGT
* *
3665004 TA TA TA AA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3665039 TATTGCCTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:3665234 original size:2 final size:2
Alignment explanation
Indices: 3665227--3665262 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3665217 TCCATGCTTT
3665227 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3665263 ACAAAGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3679425 original size:17 final size:17
Alignment explanation
Indices: 3679384--3679455 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
3679374 CATTCATGAT
3679384 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
3679401 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* * *
3679419 CTAGTTCATTCATCAAG
1 CTAGTTCATTAATTAAA
*
3679436 CTAGTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
3679453 CTA
1 CTA
3679456 ACTCTTAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
17 32 0.71
18 13 0.29
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:3679441 original size:34 final size:35
Alignment explanation
Indices: 3679384--3679455 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 35
3679374 CATTCATGAT
*
3679384 CTAGTTCATTGAATAAAGTTAGTTCATTAATTAAA
1 CTAGTTCATTGAATAAAGCTAGTTCATTAATTAAA
* * *
3679419 CTAGTTCATT-CATCAAGCTAGTTCATTTATTAAA
1 CTAGTTCATTGAATAAAGCTAGTTCATTAATTAAA
3679453 CTA
1 CTA
3679456 ACTCTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
34 23 0.70
35 10 0.30
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (35 bp):
CTAGTTCATTGAATAAAGCTAGTTCATTAATTAAA
Found at i:3694608 original size:19 final size:19
Alignment explanation
Indices: 3694556--3694609 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
3694546 AAGTCAACCC
3694556 GACCTGACCCGTTGACTTT
1 GACCTGACCCGTTGACTTT
* *
3694575 GACCCGACCTGTTGACTTT
1 GACCTGACCCGTTGACTTT
* *
3694594 GACCTAACCCATTGAC
1 GACCTGACCCGTTGAC
3694610 CGTTGATCGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.19, T:0.28
Consensus pattern (19 bp):
GACCTGACCCGTTGACTTT
Found at i:3697266 original size:28 final size:30
Alignment explanation
Indices: 3697214--3697277 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
3697204 TTTTACTATG
* * *
3697214 GTTTTAAAAATATGTTTTAAATTTTTA-TT
1 GTTTTAAAAAGATGTTGTAAATTTTCACTT
*
3697243 GTTTTAAAAAGA-GTTGTACATTTTCACTT
1 GTTTTAAAAAGATGTTGTAAATTTTCACTT
3697272 GTTTTA
1 GTTTTA
3697278 TGGAAACACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (30 bp):
GTTTTAAAAAGATGTTGTAAATTTTCACTT
Found at i:3699311 original size:20 final size:22
Alignment explanation
Indices: 3699288--3699327 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3699278 ACCCAAACCG
3699288 TTGACC-GT-TAACCGTTGACT
1 TTGACCGGTATAACCGTTGACT
3699308 TTGACCGGTATAACCGTTGA
1 TTGACCGGTATAACCGTTGA
3699328 ACGTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (22 bp):
TTGACCGGTATAACCGTTGACT
Found at i:3705887 original size:17 final size:17
Alignment explanation
Indices: 3705865--3705901 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3705855 TAGATTTATA
3705865 TGACTACATGAGAAGGG
1 TGACTACATGAGAAGGG
3705882 TGACTACATGAGAAGGG
1 TGACTACATGAGAAGGG
3705899 TGA
1 TGA
3705902 TAAGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.11, G:0.35, T:0.19
Consensus pattern (17 bp):
TGACTACATGAGAAGGG
Found at i:3708153 original size:28 final size:29
Alignment explanation
Indices: 3708107--3708161 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
3708097 CTTAATCGGT
*
3708107 TTTCTAATTTGTATCTTGTATTTATTTGG
1 TTTCTAATTTGTATCTTGTAATTATTTGG
*
3708136 TTTCTAA-TTGTATGTTGTAATTATTT
1 TTTCTAATTTGTATCTTGTAATTATTT
3708162 CAGTCTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.20, C:0.05, G:0.13, T:0.62
Consensus pattern (29 bp):
TTTCTAATTTGTATCTTGTAATTATTTGG
Found at i:3710583 original size:208 final size:210
Alignment explanation
Indices: 3710200--3710874 Score: 1232
Period size: 208 Copynumber: 3.2 Consensus size: 210
3710190 CCACTGCCAG
*
3710200 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
1 TTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
* *
3710265 TTTGTTGACAACCAGCGGTCCC-TCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
3710329 TTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG-TTGTTGACAACCAGCGGTCCCTTC
131 TTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTC
*
3710393 GTTGTGAAGTTGAAC
196 GTCGTGAAGTTGAAC
* *
3710408 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTTGAGAAA-G
1 TTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
3710472 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAGTCCAATATCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
3710536 TTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTC
131 TTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTC
3710601 GTCGTGAAGTTGAAC
196 GTCGTGAAGTTGAAC
*
3710616 TTGCATTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
1 TTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
*
3710681 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
3710746 TTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTCGTTGACAACCAGCGGTCCCTTC
131 TTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTC
3710811 GTCGTGAAGTTGAAC
196 GTCGTGAAGTTGAAC
*
3710826 TTGTGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1 TTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
3710875 TTGGGTAAAA
Statistics
Matches: 452, Mismatches: 11, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
207 92 0.20
208 170 0.38
209 35 0.08
210 155 0.34
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (210 bp):
TTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
TTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTC
GTCGTGAAGTTGAAC
Found at i:3710664 original size:105 final size:105
Alignment explanation
Indices: 3710200--3710874 Score: 1232
Period size: 105 Copynumber: 6.5 Consensus size: 105
3710190 CCACTGCCAG
3710200 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
*
3710265 TTTGTTGACAACCAGCGGTCCC-TCGTTGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
3710304 TTGCGTTGTCTGGAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
*
3710369 -TTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
3710408 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTTGAGAAA-G
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
3710472 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG-TGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
3710511 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
3710576 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
3710616 TTGCATTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
3710681 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
3710721 TTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
*
3710786 TTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
3710826 TTGTGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
3710875 TTGGGTAAAA
Statistics
Matches: 557, Mismatches: 10, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
103 89 0.16
104 209 0.38
105 259 0.46
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (105 bp):
TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
Found at i:3711102 original size:9 final size:9
Alignment explanation
Indices: 3711088--3711125 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
3711078 ACATTCTGGG
3711088 TTTTT-TTT
1 TTTTTGTTT
3711096 TTTTT-TTT
1 TTTTTGTTT
*
3711104 TGTTTGTTT
1 TTTTTGTTT
3711113 TTTTTGTTT
1 TTTTTGTTT
3711122 TTTT
1 TTTT
3711126 GGAGATGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:3720884 original size:83 final size:81
Alignment explanation
Indices: 3720744--3720906 Score: 292
Period size: 83 Copynumber: 2.0 Consensus size: 81
3720734 CTTGGACATT
3720744 ATTCTGTTTCAGGCTGACAGCGGCATAAACTAACCAGTTCTGACACATAGTTTCCCTGAAGACTG
1 ATTCTGTTTCAGGCTGACAGCGGCATAAACTAACCAGTTCTGACACATAGTTTCCCTG-A-ACTG
3720809 TCTCCCTTCTCTTTCTGAC
64 TCTCCCTTC-CTTTCTGAC
3720828 ATTCTGTTTCAGGCTGACAGCGGCAT-AACTAACCAGTTCTGACACATAGTTTCCCTGAACTGTC
1 ATTCTGTTTCAGGCTGACAGCGGCATAAACTAACCAGTTCTGACACATAGTTTCCCTGAACTGTC
3720892 TCCCTTCCTTTCTGA
66 TCCCTTCCTTTCTGA
3720907 GCCTTCTCGG
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
80 8 0.10
81 13 0.16
82 1 0.01
83 31 0.39
84 26 0.33
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.33
Consensus pattern (81 bp):
ATTCTGTTTCAGGCTGACAGCGGCATAAACTAACCAGTTCTGACACATAGTTTCCCTGAACTGTC
TCCCTTCCTTTCTGAC
Found at i:3722239 original size:13 final size:14
Alignment explanation
Indices: 3722211--3722242 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3722201 CATATAAAAT
3722211 AAAA-AAAATAATG
1 AAAATAAAATAATG
3722224 AAAATAAAATAA-G
1 AAAATAAAATAATG
3722237 AAAATA
1 AAAATA
3722243 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
AAAATAAAATAATG
Found at i:3722253 original size:23 final size:22
Alignment explanation
Indices: 3722202--3722281 Score: 58
Period size: 23 Copynumber: 3.5 Consensus size: 22
3722192 AAATATGCAC
3722202 ATATAAAATAAAAAAAATAATGA
1 ATATAAAATAAAAAAAATAAT-A
* *
3722225 AAATAAAAT-AAGAAAATATATA
1 ATATAAAATAAAAAAAATA-ATA
3722247 TATATAACAATAATAGAAAAA-AA-A
1 -ATATAA-AATAA-A-AAAAATAATA
*
3722271 ATGTAAAATAA
1 ATATAAAATAA
3722282 TAGCGTATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
22 14 0.30
23 20 0.43
24 4 0.09
25 2 0.04
26 2 0.04
27 4 0.09
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (22 bp):
ATATAAAATAAAAAAAATAATA
Found at i:3724294 original size:29 final size:29
Alignment explanation
Indices: 3724259--3724316 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
3724249 TTCTTTAATC
3724259 GGTTTCTAATTTGTATCTTGTATTTATTT
1 GGTTTCTAATTTGTATCTTGTATTTATTT
*
3724288 GGTTTCTAATTTGTATGTTGTATTTATTT
1 GGTTTCTAATTTGTATCTTGTATTTATTT
3724317 CAGTCTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.05, G:0.16, T:0.62
Consensus pattern (29 bp):
GGTTTCTAATTTGTATCTTGTATTTATTT
Found at i:3726724 original size:19 final size:19
Alignment explanation
Indices: 3726687--3726725 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3726677 AATCCCTGTA
*
3726687 GTTTTTTAATCGGGTACGG
1 GTTTTTTAATCGGGGACGG
3726706 GTTTTTTAAAT-GGGGACGG
1 GTTTTTT-AATCGGGGACGG
3726725 G
1 G
3726726 GATGGGGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.18, C:0.08, G:0.36, T:0.38
Consensus pattern (19 bp):
GTTTTTTAATCGGGGACGG
Found at i:3727480 original size:23 final size:23
Alignment explanation
Indices: 3727445--3727535 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
3727435 CATCTTATAT
3727445 GGCACTTCAGTGCATTTCTACGC
1 GGCACTTCAGTGCATTTCTACGC
3727468 GGCACTT-AGGTGCATTTCTACGC
1 GGCACTTCA-GTGCATTTCTACGC
* * *
3727491 GGTACTT-AGGTGCAATTCTACGT
1 GGCACTTCA-GTGCATTTCTACGC
*
3727514 GGCACTTCAGTGCATTTATACG
1 GGCACTTCAGTGCATTTCTACG
3727536 AGTTGTGGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
22 1 0.02
23 58 0.97
24 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (23 bp):
GGCACTTCAGTGCATTTCTACGC
Found at i:3728990 original size:40 final size:41
Alignment explanation
Indices: 3728932--3729016 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 41
3728922 TTTAGTGGCG
* * **
3728932 TTTTTATATAAACGCCACTAATTACT-ATACTTTAACGGTA
1 TTTTTATACAAACACCACTAAAAACTCATACTTTAACGGTA
* * *
3728972 TTTTTGTACAAACACCACTAAAAACTCATACTTTAGCGGTG
1 TTTTTATACAAACACCACTAAAAACTCATACTTTAACGGTA
3729013 TTTT
1 TTTT
3729017 AAGCACAATC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 21 0.57
41 16 0.43
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (41 bp):
TTTTTATACAAACACCACTAAAAACTCATACTTTAACGGTA
Found at i:3729141 original size:41 final size:41
Alignment explanation
Indices: 3729096--3729284 Score: 175
Period size: 42 Copynumber: 4.6 Consensus size: 41
3729086 ATTTAACAAT
* *
3729096 ATTTTTATACAAACGTCGGTAAAGACTCGTACTTTAGTGGC
1 ATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGC
* * *
3729137 ATTTTTATACAAACGCCGCTAAAAAGTCATACTTTAGTGGC
1 ATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGC
* * *
3729178 ATTTTAAGTACAAACGCCGCTAAATG-CTTGTACTTTAGTAGC
1 ATTTTTA-TACAAACGCCGCTAAA-GACTCGTACTTTAGTGGC
* * * * *
3729220 GTTTTAAGCACAAACGCCGCTAAATAAAT-GTACTTTAGTGGC
1 ATTTTTA-TACAAACGCCGCTAAA-GACTCGTACTTTAGTGGC
* * * *
3729262 GTTTGTATATAAACACCGCTAAA
1 ATTTTTATACAAACGCCGCTAAA
3729285 TATTTAGTCT
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 55 0.44
42 68 0.55
43 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (41 bp):
ATTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGC
Found at i:3729212 original size:42 final size:42
Alignment explanation
Indices: 3729055--3729261 Score: 163
Period size: 42 Copynumber: 5.0 Consensus size: 42
3729045 ATTAGCAGCG
* * *****
3729055 TTTTAAGTACAAACGTCGCTAAATTACTTGTA-TTTAACAATA
1 TTTTAAGTACAAACGCCGCTAAA-TGCTTGTACTTTAGTGGCA
* * * *
3729097 TTTTTA-TACAAACGTCGGTAAA-GACTCGTACTTTAGTGGCA
1 TTTTAAGTACAAACGCCGCTAAATG-CTTGTACTTTAGTGGCA
* * **
3729138 TTTTTA-TACAAACGCCGCTAAAAAG-TCATACTTTAGTGGCA
1 TTTTAAGTACAAACGCCGCT-AAATGCTTGTACTTTAGTGGCA
* *
3729179 TTTTAAGTACAAACGCCGCTAAATGCTTGTACTTTAGTAGCG
1 TTTTAAGTACAAACGCCGCTAAATGCTTGTACTTTAGTGGCA
* ***
3729221 TTTTAAGCACAAACGCCGCTAAATAAATGTACTTTAGTGGC
1 TTTTAAGTACAAACGCCGCTAAATGCTTGTACTTTAGTGGC
3729262 GTTTGTATAT
Statistics
Matches: 136, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.04
41 61 0.45
42 69 0.51
43 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (42 bp):
TTTTAAGTACAAACGCCGCTAAATGCTTGTACTTTAGTGGCA
Found at i:3732305 original size:31 final size:31
Alignment explanation
Indices: 3732259--3732317 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
3732249 CAAATGACAT
*
3732259 TAAATACACAGTCAATAGCGGCGTTTGTCAC
1 TAAATACACAATCAATAGCGGCGTTTGTCAC
* *
3732290 TAAATATACAATCAATAGTGGCGTTTGT
1 TAAATACACAATCAATAGCGGCGTTTGT
3732318 AAAGAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (31 bp):
TAAATACACAATCAATAGCGGCGTTTGTCAC
Found at i:3732500 original size:43 final size:43
Alignment explanation
Indices: 3732289--3732502 Score: 284
Period size: 43 Copynumber: 5.0 Consensus size: 43
3732279 GCGTTTGTCA
* * * *
3732289 CTAAATATACAATCAATAGTGGCGTTTGTAAAGAAAAACACCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
* * * *
3732332 CTAAATGCACAGTCAATATCGACGTTTGTAAAGAAAAACACCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
* *
3732375 CTAAATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
* * * * **
3732418 CTAAATACACAGTCAATATCGGTGTTTATAAAGACAAACGTTG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
3732461 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCC
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCC
3732503 TTTATATGTC
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 149 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (43 bp):
CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCG
Found at i:3737366 original size:2 final size:2
Alignment explanation
Indices: 3737359--3737388 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3737349 GAGCATAAGG
3737359 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3737389 CTTATTCGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3739791 original size:29 final size:29
Alignment explanation
Indices: 3739758--3739813 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
3739748 CATAAATTAA
3739758 TTTGATGTCATTACTTACATCAATTTAGT
1 TTTGATGTCATTACTTACATCAATTTAGT
*
3739787 TTTGATGTCATTGCTTACATCAATTTA
1 TTTGATGTCATTACTTACATCAATTTA
3739814 ATTATGTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (29 bp):
TTTGATGTCATTACTTACATCAATTTAGT
Found at i:3744389 original size:29 final size:29
Alignment explanation
Indices: 3744342--3744405 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
3744332 ATTTTCGTCG
* *
3744342 TTAGCTTTGACGTCATTGCTTACATCAAT
1 TTAGTTTTGACGTCATTGCTTAAATCAAT
* *
3744371 TTAGTTTTGATGTCTTTGCTTAAATCAAT
1 TTAGTTTTGACGTCATTGCTTAAATCAAT
3744400 TTAGTT
1 TTAGTT
3744406 AGGTGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (29 bp):
TTAGTTTTGACGTCATTGCTTAAATCAAT
Found at i:3746379 original size:2 final size:2
Alignment explanation
Indices: 3746374--3746401 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3746364 TTTGAAAAAG
3746374 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
3746402 GATAAACTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3746704 original size:14 final size:14
Alignment explanation
Indices: 3746681--3746712 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3746671 GATTGGATAA
*
3746681 TTATTTTAATTTAT
1 TTATTCTAATTTAT
3746695 TTATTCTAATTTAT
1 TTATTCTAATTTAT
3746709 TTAT
1 TTAT
3746713 CTTCCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTCTAATTTAT
Found at i:3748351 original size:20 final size:21
Alignment explanation
Indices: 3748326--3748365 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
3748316 GATTTTGGGA
3748326 TATGATATA-ATATTATTGAT
1 TATGATATACATATTATTGAT
3748346 TATGATATATCATATTATTG
1 TATGATATA-CATATTATTG
3748366 CAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (21 bp):
TATGATATACATATTATTGAT
Found at i:3755217 original size:23 final size:23
Alignment explanation
Indices: 3755187--3755232 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3755177 ATGAATTGAA
3755187 ATAACCCATAATTTCCTTTTAAG
1 ATAACCCATAATTTCCTTTTAAG
3755210 ATAACCCATAATTTCCTTTTAAG
1 ATAACCCATAATTTCCTTTTAAG
3755233 TTTCTGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAACCCATAATTTCCTTTTAAG
Found at i:3759602 original size:63 final size:63
Alignment explanation
Indices: 3759530--3759700 Score: 297
Period size: 63 Copynumber: 2.7 Consensus size: 63
3759520 TTAAATTACT
***
3759530 ATTCGAATTATAAATATAACATGATTTCATATAATTTTACTTAATTAGGTTACTATTCGAGTC
1 ATTCGAATTATAAATATAACCCAATTTCATATAATTTTACTTAATTAGGTTACTATTCGAGTC
3759593 ATTCGAATTATAAATATAACCCAATTTCATATAATTTTACTTAATTAGGTTACTATTCGAGTC
1 ATTCGAATTATAAATATAACCCAATTTCATATAATTTTACTTAATTAGGTTACTATTCGAGTC
*
3759656 ATTCGAATTATAAATATAACCCCATTTCATATAAATTTTACTTAA
1 ATTCGAATTATAAATATAACCCAATTTCATAT-AATTTTACTTAA
3759701 GGTCAAATTT
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
63 91 0.88
64 12 0.12
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (63 bp):
ATTCGAATTATAAATATAACCCAATTTCATATAATTTTACTTAATTAGGTTACTATTCGAGTC
Found at i:3759738 original size:54 final size:54
Alignment explanation
Indices: 3759679--3759784 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
3759669 ATATAACCCC
**
3759679 ATTTCATATAAATTTTACTTAAGGTCAAATTTATAAAATTACAACTCAAAATTG
1 ATTTCATATAAATTTTACTTAAGAACAAATTTATAAAATTACAACTCAAAATTG
* *
3759733 ATTTCATATAAATTTTACTTAATAACAAATTTATGAAATTACAACTCAAAAT
1 ATTTCATATAAATTTTACTTAAGAACAAATTTATAAAATTACAACTCAAAAT
3759785 CAATTCAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (54 bp):
ATTTCATATAAATTTTACTTAAGAACAAATTTATAAAATTACAACTCAAAATTG
Found at i:3760621 original size:33 final size:33
Alignment explanation
Indices: 3760579--3760645 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
3760569 AGTTTATGAT
* *
3760579 AATTGAAATACTTAAATACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
*
3760612 AATTCAAATACTTAAAAACTTTCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
3760645 A
1 A
3760646 TTGAAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:3760665 original size:21 final size:21
Alignment explanation
Indices: 3760640--3760681 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3760630 CTTTCAAGTT
3760640 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
3760661 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
3760682 AAAATAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:3763110 original size:27 final size:26
Alignment explanation
Indices: 3763080--3763135 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
3763070 CGATTTTTCC
3763080 CAAATCCAAT-TTCGAATATTTTTTGTG
1 CAAATCCAATATTCG-A-ATTTTTTGTG
**
3763107 CAAAATCGGATATTCGAATTTTTTGTG
1 C-AAATCCAATATTCGAATTTTTTGTG
3763134 CA
1 CA
3763136 CCTCTACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.04
27 12 0.48
28 8 0.32
29 4 0.16
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (26 bp):
CAAATCCAATATTCGAATTTTTTGTG
Found at i:3763730 original size:23 final size:23
Alignment explanation
Indices: 3763702--3763760 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
3763692 ATCAAGTACA
* * *
3763702 ATAATATATTAGGTATCGCTTAT
1 ATAATATAATAGATAGCGCTTAT
3763725 ATAATATAATAGATAGCGCTTAT
1 ATAATATAATAGATAGCGCTTAT
*
3763748 ATAATAAAATAGA
1 ATAATATAATAGA
3763761 CATTTAACCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (23 bp):
ATAATATAATAGATAGCGCTTAT
Found at i:3763822 original size:87 final size:87
Alignment explanation
Indices: 3763674--3763836 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
3763664 AATGTTATAT
* *
3763674 CATTTAACCGGAAATATTATCAAGTACAATAATATATTAGGTATCGCTTATATAATATAATA-GA
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATATG-
3763738 TAGCGCTTATATAATAAAATAGA
65 TAGCGCTTATATAATAAAATAGA
* *
3763761 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATATGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATATGT
3763826 AGCGCTTATAT
66 AGCGCTTATAT
3763837 TGACCTATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 70 0.99
88 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATATGT
AGCGCTTATATAATAAAATAGA
Found at i:3764184 original size:15 final size:15
Alignment explanation
Indices: 3764161--3764199 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
3764151 TGTATCGACA
*
3764161 CTTTATGGTTGCACC
1 CTTTTTGGTTGCACC
3764176 CTTTTTGGTTGCACC
1 CTTTTTGGTTGCACC
3764191 CTTTTTGGT
1 CTTTTTGGT
3764200 ATTCATTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.23, G:0.21, T:0.49
Consensus pattern (15 bp):
CTTTTTGGTTGCACC
Found at i:3767362 original size:200 final size:198
Alignment explanation
Indices: 3766972--3767331 Score: 524
Period size: 200 Copynumber: 1.8 Consensus size: 198
3766962 TTTTTCAACA
* * * * * * * *
3766972 AAGTGTCGATACATGTTGTATATCTATTCTCTCATAAAACAGGTATATTTATACCGGTTACATTG
1 AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACAGATATATGTATACCAGTTACATTA
* * * *
3767037 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATTGACACTTTTTGAAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAAAAAT
* *
3767102 GTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGTCAAAAATTATCGACACAATA
131 GTATCGACACTTTATGCGTGCACCCTTTTTAGCATCCATTATGG--AAAAATTATCGACACAATA
3767167 TTAAT
194 TTAAT
* *
3767172 AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACCGATATATGTATACCAGTTATATTA
1 AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACAGATATATGTATACCAGTTACATTA
3767237 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACAC-TTTTAATAAA
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAA-AAA
*
3767301 TGTATCGACACTTTATGTGTGCAACCCTTTT
130 TGTATCGACACTTTATGCGTGC-ACCCTTTT
3767332 AGATCGACAC
Statistics
Matches: 142, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
199 5 0.04
200 129 0.91
201 8 0.06
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACAGATATATGTATACCAGTTACATTA
CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAAAAAT
GTATCGACACTTTATGCGTGCACCCTTTTTAGCATCCATTATGGAAAAATTATCGACACAATATT
AAT
Found at i:3767561 original size:250 final size:251
Alignment explanation
Indices: 3767086--3767567 Score: 686
Period size: 251 Copynumber: 1.9 Consensus size: 251
3767076 TTTTGGGATT
* * *
3767086 GACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGTCAAA
1 GACACTCTATGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACAAA
* * * *
3767151 AATTATCGACACAATATTAATAAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACCGAT
66 AAATATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCATAAAACCGAT
*
3767216 ATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
131 ATATGTATACCAGTTATATTACAAAATTACCCATTACATTATAATTATGGGTTTCGATGTTTTTG
*
3767281 GGATCGACACTTTTAATAAATGTATCGACACTTTATGTGTGCAACCCTTTTAGATC
196 GGATCGACACTTTTAATAAATGGATCGACACTTTATGTGTGCAACCCTTTTAGATC
* * *
3767337 GACACTCTATGAAAATGTATCGACACTTTGTAG-GTTCCCCCTTTTTGGCATCCATTCTGGACAA
1 GACACTCTATGAAAATGTATCGACACTTTAT-GCGTTCACCCTTTTTGGCATCCATTATGGACAA
* * *
3767401 AAAATATCGACACAATACTAATAAGTGTCGATAAATATTGTAGACATATT-TTTCATAAAACATG
65 AAAATATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCATAAAAC-CG
* *
3767465 -TATATTTATACCGGTTATATTGA-AAAATTACCCATTACATTATAATTATGGGTTTCGATGTTT
129 ATATATGTATACCAGTTATATT-ACAAAATTACCCATTACATTATAATTATGGGTTTCGATG-TT
* *** * *
3767528 TTTGTG-TCTTTACTTTTTATATATGGATCGACACTTTATG
192 TTTGGGATCGACACTTTTAATAAATGGATCGACACTTTATG
3767568 GGAAACTTTA
Statistics
Matches: 204, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
250 93 0.46
251 110 0.54
252 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (251 bp):
GACACTCTATGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACAAA
AAATATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCATAAAACCGAT
ATATGTATACCAGTTATATTACAAAATTACCCATTACATTATAATTATGGGTTTCGATGTTTTTG
GGATCGACACTTTTAATAAATGGATCGACACTTTATGTGTGCAACCCTTTTAGATC
Found at i:3768870 original size:12 final size:12
Alignment explanation
Indices: 3768831--3768894 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
3768821 GTTTGGATCA
*
3768831 TCATCATCATCG
1 TCATCTTCATCG
* * *
3768843 TCGTCGTCGTCG
1 TCATCTTCATCG
*
3768855 TCATCTTCATCA
1 TCATCTTCATCG
*
3768867 TCATATTCATCG
1 TCATCTTCATCG
*
3768879 TCATCTTCATCT
1 TCATCTTCATCG
3768891 TCAT
1 TCAT
3768895 TGACCACTTG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:3768876 original size:18 final size:18
Alignment explanation
Indices: 3768855--3768894 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3768845 GTCGTCGTCG
*
3768855 TCATCTTCATCATCATAT
1 TCATCGTCATCATCATAT
* *
3768873 TCATCGTCATCTTCATCT
1 TCATCGTCATCATCATAT
3768891 TCAT
1 TCAT
3768895 TGACCACTTG
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:0.23, C:0.30, G:0.03, T:0.45
Consensus pattern (18 bp):
TCATCGTCATCATCATAT
Found at i:3770896 original size:201 final size:200
Alignment explanation
Indices: 3770369--3771310 Score: 1519
Period size: 201 Copynumber: 4.7 Consensus size: 200
3770359 TATTTAAATT
*
3770369 AGTATCGACACAAAATTAAAAACGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACTGGT
1 AGTATCGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC-GGT
* * * * * *
3770434 ATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATGGGTTTC-GATGTTTTT
65 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTAT-GGATGCATATGTTTCT
* * *
3770498 GGGATCGACACTTTTTGAAAATGTATTGATACTTTATGCGTTCACCCTTTTTAGCATCCATTCTG
129 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTG
3770563 GACCAAA
194 GACCAAA
* *
3770570 AGTATCGACACAAAATTAAAAACGGGATCGATACATGTTGTAGACCTATTCTCTCATAAAATTGG
1 AGTATCGACACAAAATTAAAAACGTG-TCGATACATGTTGTAGACCTATTCTCTCATAAAA-CGG
*
3770635 TATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCT
64 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCT
* *
3770700 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGTGTTCACCCTTTTTGGCATCCATTTTG
129 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTG
3770765 GACCAAA
194 GACCAAA
3770772 AGTATCGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
1 AGTATCGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA-CGGT
* *
3770837 ATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTA
65 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
* * * *
3770902 GGATCGATACTTTTTGAAAATGTACCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATAG
130 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
3770967 ACCAAA
195 ACCAAA
*
3770973 AGTATCGACACAAAATTTAAAAA-GTGTCGATACATGTTGTAGACCTATTCTCTTATAAAACTGG
1 AGTATCGACACAAAA-TTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC-GG
* *
3771037 TATATTTACACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCT
64 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCT
3771102 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTG
129 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTG
3771167 GACCAAA
194 GACCAAA
* *
3771174 AGTATCGACACAAAATTAAAAAAGTGTCTATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA-CGGT
* * * *
3771239 ATATTTATATCAGTGACATTGTAAATTTACCTATTATATTATACTTATGGATGCATATGTTTCTG
65 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
*
3771304 TGATCGA
130 GGATCGA
3771311 TAAATTTTAC
Statistics
Matches: 693, Mismatches: 41, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
200 8 0.01
201 497 0.72
202 188 0.27
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
AGTATCGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACGGTA
TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGG
GATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGA
CCAAA
Found at i:3773410 original size:33 final size:33
Alignment explanation
Indices: 3773373--3773438 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3773363 CATCTTAAGA
*
3773373 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
* *
3773406 TCACCCCTCAACACCTCTACTTCTTTTACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
3773439 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:3773499 original size:21 final size:21
Alignment explanation
Indices: 3773475--3773515 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3773465 CTTATGCCTC
3773475 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* *
3773496 TCAAGTTTTTCTTCGACTCT
1 TCAAGTGTATCTTCGACTCT
3773516 TAATTGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:3778557 original size:30 final size:30
Alignment explanation
Indices: 3778506--3778585 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
3778496 TTAAAATTAC
*
3778506 AAGGACCAAAATGGGAAAAACAACAACTTA
1 AAGGACCAAAATAGGAAAAACAACAACTTA
* * ** *
3778536 AAGGACCAAAATAGTACAAACATGAATTTA
1 AAGGACCAAAATAGGAAAAACAACAACTTA
* *
3778566 AAGGACTAAAATAGAAAAAA
1 AAGGACCAAAATAGGAAAAA
3778586 TAGAATAATA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.14
Consensus pattern (30 bp):
AAGGACCAAAATAGGAAAAACAACAACTTA
Found at i:3778598 original size:30 final size:28
Alignment explanation
Indices: 3778534--3778613 Score: 72
Period size: 30 Copynumber: 2.8 Consensus size: 28
3778524 AACAACAACT
* * *
3778534 TAAAGGACCAAAATAGTACAAACATGAATT
1 TAAAGGACTAAAATAG-A-AAAAATGAATA
3778564 TAAAGGACTAAAATAGAAAAAATAGAATAA
1 TAAAGGACTAAAATAGAAAAAAT-GAAT-A
* *
3778594 TAAAGGGCT-AAATAGTAAAA
1 TAAAGGACTAAAATAGAAAAA
3778614 CAGAAACTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 5 0.12
29 15 0.35
30 23 0.53
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (28 bp):
TAAAGGACTAAAATAGAAAAAATGAATA
Found at i:3781259 original size:31 final size:31
Alignment explanation
Indices: 3781221--3781339 Score: 175
Period size: 31 Copynumber: 3.8 Consensus size: 31
3781211 GTCGAGGGTT
*
3781221 TACCTATGTTCTACGGAACATATGGACAGTA
1 TACCTATGTTCTAAGGAACATATGGACAGTA
3781252 TACCTATGTTCTAAGGAACATATGGACAGTA
1 TACCTATGTTCTAAGGAACATATGGACAGTA
* * *
3781283 TACCTATGTTCTAAGGAATATATGGACAATT
1 TACCTATGTTCTAAGGAACATATGGACAGTA
** *
3781314 TACCTATGTTCTTTGGGACATATGGA
1 TACCTATGTTCTAAGGAACATATGGA
3781340 TAGTTATCGA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:3781954 original size:21 final size:21
Alignment explanation
Indices: 3781924--3781963 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3781914 TATGAAAGTT
*
3781924 ACTGTTGCAGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
3781945 ACTGTAGCAGTGCATCGAT
1 ACTGTAGCAGTGCATCGAT
3781964 ACATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATGC
Found at i:3782813 original size:3 final size:3
Alignment explanation
Indices: 3782801--3782856 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
3782791 TAATCTAAAT
3782801 TAA T-A TAA TAA TAA TAA TAA TAGA TTAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA
3782847 TAA -AA TAA TA
1 TAA TAA TAA TA
3782857 TTTTTGGTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.08
3 41 0.84
4 2 0.04
5 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3782835 original size:23 final size:21
Alignment explanation
Indices: 3782801--3782856 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 21
3782791 TAATCTAAAT
3782801 TAAT-ATAATAATAATAATAA
1 TAATAATAATAATAATAATAA
3782821 TAGATTAATAATAATAATAATAA
1 TA-A-TAATAATAATAATAATAA
3782844 TAATAA-AATAATA
1 TAATAATAATAATA
3782857 TTTTTGGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.27
21 4 0.12
22 2 0.06
23 18 0.55
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAATAATAATAATAATAATAA
Found at i:3784097 original size:23 final size:23
Alignment explanation
Indices: 3784071--3784118 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3784061 ATAAAGTACA
*
3784071 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
3784094 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
3784117 AT
1 AT
3784119 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:3784803 original size:329 final size:327
Alignment explanation
Indices: 3784158--3784814 Score: 1244
Period size: 329 Copynumber: 2.0 Consensus size: 327
3784148 TTATACCGAT
*
3784158 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCTATACTTTTTATAAAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
*
3784223 TCGATATTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGGTTTCATGTTTTCCA
66 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGGTTTCATGTTTTCCA
3784288 CCTACATATTAATTTAATAATTTCATTTGCACAAAAATTATTTGATTGTTTTGATATTTTATAAA
131 CCTACATATTAATTTAATAATTTCATTTGCACAAAAATTATTTGATTGTTTTGATATTTTATAAA
*
3784353 ATATTATTTAGAATTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCT
196 ATAATATTTAGAATTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCT
3784418 ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG
261 ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG
3784483 TG
326 TG
3784485 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
*
3784550 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTTAATTTTTTTAATAGTGTTTCATGTTTTCC
66 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAG-GTTTCATGTTTTCC
3784615 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
130 ACCTAC-ATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTGTTTTGATATTTTAT
3784680 AAAATAATATTTAGAATTTTAATTTAATAATATATATCGTAACG-AAAAAATAAATCATTAGACG
193 AAAATAATATTTAGAATTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACG
3784744 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
258 CCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCA
3784809 CAGTG
323 CAGTG
3784814 A
1 A
3784815 AAAAAGTATG
Statistics
Matches: 323, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
327 112 0.35
328 20 0.06
329 118 0.37
330 73 0.23
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (327 bp):
AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGGTTTCATGTTTTCCA
CCTACATATTAATTTAATAATTTCATTTGCACAAAAATTATTTGATTGTTTTGATATTTTATAAA
ATAATATTTAGAATTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCT
ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG
TG
Found at i:3784896 original size:23 final size:23
Alignment explanation
Indices: 3784857--3784928 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
3784847 ACACTTTACA
* *
3784857 ATAT-AACCATACATATTACATT
1 ATATAAACGATACCTATTACATT
3784879 ATATAAACGATACCTATTACATT
1 ATATAAACGATACCTATTACATT
* * *
3784902 ATATAAGCGCTACCTATTACATC
1 ATATAAACGATACCTATTACATT
3784925 ATAT
1 ATAT
3784929 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 4 0.09
23 40 0.91
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAAACGATACCTATTACATT
Found at i:3785382 original size:39 final size:39
Alignment explanation
Indices: 3785328--3785414 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
3785318 TCAAGTTGTA
*
3785328 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
3785367 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
3785406 GATTTTGAT
1 GATTTTGAT
3785415 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:3785695 original size:18 final size:18
Alignment explanation
Indices: 3785672--3785708 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3785662 CGAAATATAT
3785672 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
3785690 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
3785708 A
1 A
3785709 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:3786128 original size:25 final size:24
Alignment explanation
Indices: 3786094--3786143 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
3786084 TTTTTCCAAA
*
3786094 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTT-AAT
3786119 TAATGTACCCACAACAATGTTAAT
1 TAATGTACCCACAACAATGTTAAT
3786143 T
1 T
3786144 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (24 bp):
TAATGTACCCACAACAATGTTAAT
Found at i:3786444 original size:23 final size:23
Alignment explanation
Indices: 3786418--3786480 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3786408 ATATAACCAC
*
3786418 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAAGGA
* *
3786441 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAAGGA
*
3786464 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3786481 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAAGGA
Found at i:3786879 original size:25 final size:25
Alignment explanation
Indices: 3786822--3786887 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
3786812 CACTCAAAAG
*
3786822 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
3786847 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
3786872 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
3786888 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:3789654 original size:183 final size:183
Alignment explanation
Indices: 3789340--3790041 Score: 1222
Period size: 183 Copynumber: 3.9 Consensus size: 183
3789330 TTAAAATTAC
* *
3789340 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* *
3789405 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATATCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
3789470 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
3789523 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* *
3789588 ATTAAAAAGTGTTGATATAGGTTGTAGACCTGTTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
3789653 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
3789706 CGACACTTTTTTTAAATCGTATCG--ACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACAC-TTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
3789769 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
*
3789834 TTTATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
3789888 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACAC-A-
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
3789951 A-TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCACAT-AAACCGG--TATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * * **
3790012 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
3790042 ATGTTGAAAG
Statistics
Matches: 500, Mismatches: 16, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
177 38 0.08
179 7 0.01
180 38 0.08
181 18 0.04
182 162 0.32
183 220 0.44
184 17 0.03
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:3791447 original size:3 final size:3
Alignment explanation
Indices: 3791439--3791483 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
3791429 ACTTGTTTGG
* * *
3791439 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
3791484 GCCAGCTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.02, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:3791456 original size:12 final size:12
Alignment explanation
Indices: 3791443--3791531 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
3791433 GTTTGGATCA
* *
3791443 TCATCTTCATCA
1 TCATCGTCATCT
* *
3791455 TCATCATCATCA
1 TCATCGTCATCT
* *
3791467 TCGTCATCATCT
1 TCATCGTCATCT
* *
3791479 TCATCGCCAGCT
1 TCATCGTCATCT
* *
3791491 TTATCGTCATCA
1 TCATCGTCATCT
3791503 TCATCGTCATCT
1 TCATCGTCATCT
*
3791515 TCATCGTCAGCT
1 TCATCGTCATCT
3791527 TCATC
1 TCATC
3791532 TTCTGCGACC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:3791462 original size:18 final size:18
Alignment explanation
Indices: 3791443--3791534 Score: 67
Period size: 18 Copynumber: 5.1 Consensus size: 18
3791433 GTTTGGATCA
* *
3791443 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
3791461 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * * *
3791479 TCATCGCCAGCTTTATCG
1 TCATCATCATCATCATCT
*
3791497 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
3791515 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
3791533 TC
1 TC
3791535 TGCGACCGCT
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.38
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:3791534 original size:6 final size:6
Alignment explanation
Indices: 3791443--3791534 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
3791433 GTTTGGATCA
* * * * * * * *
3791443 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * *
3791491 TTATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
3791535 TGCGACCGCT
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:3793535 original size:197 final size:197
Alignment explanation
Indices: 3792983--3794126 Score: 2060
Period size: 197 Copynumber: 5.9 Consensus size: 197
3792973 TTTAAATTAG
3792983 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
3793047 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3793112 CGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
3793176 AA
196 AA
3793178 TATCGACAC-AACTATATTAGTGTCGACAC-TTATTTAGACAT-TTCTCTCATAAAACCGG--T-
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
3793237 ATTGTACCGGTTAGATTGAAAAATTAC-TATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3793301 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3793365 AAA
195 AAA
3793368 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
3793433 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3793498 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3793563 AAA
195 AAA
3793566 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
3793631 ATTGTACCGGTT-GATTGAAAAATTACATATTACATTATACTTTTGGGTTC---GATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3793692 CGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
3793755 AA
196 AA
*
3793757 TATCGACACAAACTATATTAGTGTCGACACATTA-TTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
3793821 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3793885 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
3793950 AAAA
194 AAAA
3793954 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC--A-TCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
3794016 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
3794081 TTGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
3794127 GGCCATATTG
Statistics
Matches: 922, Mismatches: 5, Indels: 43
0.95 0.01 0.04
Matches are distributed among these distances:
189 43 0.05
190 119 0.13
191 115 0.12
192 70 0.08
193 57 0.06
194 41 0.04
195 97 0.11
196 95 0.10
197 197 0.21
198 88 0.10
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AA
Found at i:3794094 original size:583 final size:580
Alignment explanation
Indices: 3792983--3794126 Score: 2070
Period size: 583 Copynumber: 2.0 Consensus size: 580
3792973 TTTAAATTAG
3792983 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCGGTATAA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCGGTATAA
3793048 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTC-A-GATTTTGGGATC
3793113 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
129 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
3793178 TATCGACACAACTATATTAGTGTCGACACTTATTTAGACATTTCTCTCATAAAACCGGTATTGTA
194 TATCGACACAACTATATTAGTGTCGACACTTATTTAGACATTTCTCTCATAAAACCGGTATTGTA
3793243 CCGGTTAGATTGAAAAATTACTATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
259 CCGGTTAGATTGAAAAATTACTATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
3793308 TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAATATCG
324 TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAATATCG
3793373 ACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGT
389 ACACAAACTATATTAGTGTCGACACATTATTTAGACA-ATTCTCTCATAAAACCGGTATAATTGT
3793438 ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
453 ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
3793503 CTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
518 CTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
3793566 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
3793631 ATTGTACCGGTT-GATTGAAAAATTACATATTACATTATACTTTTGGGTTC-GATTTTGGGATCG
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAGATTTTGGGATCG
3793694 ACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAT
130 ACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAT
*
3793758 ATCGACACAAACTATATTAGTGTCGACACATTA-TTATACATATTCTCTCATAAAACCGGTATAA
195 ATCGACAC-AACTATATTAGTGTCGACAC-TTATTTAGACAT-TTCTCTCATAAAACCGG--T-A
3793822 TTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
254 TTGTACCGGTTAGATTGAAAAATTAC-TATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
3793886 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
318 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG--AAA
3793951 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-A-TCTCTCATAAAACCGGTA
381 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACAATTCTCTCATAAAACCGGTA
* *
3794014 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
446 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGG
*
3794079 GATTGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
510 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
3794127 GGCCATATTG
Statistics
Matches: 546, Mismatches: 4, Indels: 22
0.95 0.01 0.04
Matches are distributed among these distances:
579 15 0.03
580 97 0.18
581 20 0.04
583 206 0.38
584 161 0.29
586 47 0.09
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (580 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAGATTTTGGGATCGA
CACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATA
TCGACACAACTATATTAGTGTCGACACTTATTTAGACATTTCTCTCATAAAACCGGTATTGTACC
GGTTAGATTGAAAAATTACTATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTT
TTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAATATCGAC
ACAAACTATATTAGTGTCGACACATTATTTAGACAATTCTCTCATAAAACCGGTATAATTGTACC
GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTT
TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
Found at i:3796111 original size:33 final size:33
Alignment explanation
Indices: 3796074--3796139 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
3796064 CATCTTAATA
*
3796074 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
*
3796107 TCACCCCTCAACACCCCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
3796140 CCATCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:3798493 original size:20 final size:20
Alignment explanation
Indices: 3798446--3798493 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
3798436 TCCGGTATCA
3798446 TTTTACCGGTTTTTATCATT
1 TTTTACCGGTTTTTATCATT
*
3798466 TTGATACCGG-TTTTATCATAT
1 TT-TTACCGGTTTTTATCAT-T
3798487 TTTTACC
1 TTTTACC
3798494 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTTTTATCATT
Found at i:3798641 original size:20 final size:20
Alignment explanation
Indices: 3798615--3798660 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
3798605 CACTTTTAAA
3798615 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
3798634 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
3798655 TTTACC
1 TTTACC
3798661 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:3801416 original size:41 final size:41
Alignment explanation
Indices: 3801371--3801526 Score: 165
Period size: 41 Copynumber: 3.8 Consensus size: 41
3801361 GAATAAGTAA
** *
3801371 ATCGCAACGCGA-AATGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAAT-ACAAAATCGCAACGCGATACTGACT
3801412 ATCGCAACGCGATAATACAAAATCGCAACGCGATACTGACT
1 ATCGCAACGCGATAATACAAAATCGCAACGCGATACTGACT
* * ** *
3801453 TTCGCAACGCGATACTGAC--TTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAAT-ACAAAATCGCAACGCGATACTGACT
* * * *
3801493 TTCGCAACGAGATAATACAGAATCGCAATGCGAT
1 ATCGCAACGCGATAATACAAAATCGCAACGCGAT
3801527 TTTCAAAGTT
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 32 0.33
41 59 0.60
42 5 0.05
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAATACAAAATCGCAACGCGATACTGACT
Found at i:3801417 original size:20 final size:20
Alignment explanation
Indices: 3801392--3801506 Score: 133
Period size: 20 Copynumber: 5.7 Consensus size: 20
3801382 AAATGGGAAA
*
3801392 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
3801412 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
3801433 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
3801453 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
3801473 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
3801493 TTCGCAACGAGATA
1 ATCGCAACGCGATA
3801507 ATACAGAATC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.77
21 15 0.18
22 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:3801438 original size:21 final size:22
Alignment explanation
Indices: 3801369--3801451 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 22
3801359 GCGAATAAGT
**
3801369 AAATCGCAACGCGA-AATGGGA
1 AAATCGCAACGCGATAATGACA
* *
3801390 AAATCGCAATGCGATACTGAC-
1 AAATCGCAACGCGATAATGACA
*
3801411 -TATCGCAACGCGATAAT-ACA
1 AAATCGCAACGCGATAATGACA
*
3801431 AAATCGCAACGCGATACTGAC
1 AAATCGCAACGCGATAATGAC
3801452 TTTCGCAACG
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.04
20 14 0.29
21 28 0.57
22 5 0.10
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (22 bp):
AAATCGCAACGCGATAATGACA
Found at i:3803506 original size:20 final size:20
Alignment explanation
Indices: 3803471--3803508 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3803461 ATTCATTTGA
* *
3803471 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
3803491 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
3803509 CGCAATGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:3803568 original size:19 final size:19
Alignment explanation
Indices: 3803527--3803610 Score: 124
Period size: 19 Copynumber: 4.7 Consensus size: 19
3803517 GAAATGAAAA
3803527 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
3803543 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3803560 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3803579 TCGCATTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
3803598 TCGCATTGCGATT
1 TCGCATTGCGATT
3803611 CTCTCGTTAC
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
14 11 0.18
16 3 0.05
17 3 0.05
19 44 0.72
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3803600 original size:38 final size:33
Alignment explanation
Indices: 3803527--3803623 Score: 131
Period size: 38 Copynumber: 2.8 Consensus size: 33
3803517 GAAATGAAAA
*
3803527 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTACGATTTTCATT
3803560 TCGCATTGCGATTTTCATTTCGCATTACGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTACGATTTTCATT
*
3803598 TCGCATTGCGATTCTCTCGTTACGAT
1 TCGCATTGCGATTTTCTCGTTACGAT
3803624 AGTCAGTTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
33 23 0.40
35 3 0.05
36 3 0.05
38 28 0.49
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTACGATTTTCATT
Found at i:3803769 original size:14 final size:14
Alignment explanation
Indices: 3803750--3803786 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3803740 CATCAATTAA
3803750 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3803764 ACAAATCATCTTTT
1 ACAAATCAACATTT
3803778 ACAAATCAA
1 ACAAATCAA
3803787 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:3805680 original size:20 final size:20
Alignment explanation
Indices: 3805657--3805710 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
3805647 GAAACTTAAA
*
3805657 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACG
* *
3805677 ATCGCAACGCGGAAATGGCG
1 ATCGCAACGCGAAAATGACG
*
3805697 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
3805711 TGAAAATCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACG
Found at i:3805800 original size:36 final size:34
Alignment explanation
Indices: 3805697--3805809 Score: 146
Period size: 30 Copynumber: 3.4 Consensus size: 34
3805687 GGAAATGGCG
* *
3805697 ATCGCAATGCGAAATGAAAATC-TTAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCTAACGACAAA
*
3805730 ATCGCAATGCGAAATGAAAATCG----CGACAAA
1 ATCGCAACGCGAAATGAAAATCGCTAACGACAAA
3805760 ATCGCAACGCGAAATGAAAATCGCAATAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGC--TAACGACAAA
3805796 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
3805810 CAAAAATCAC
Statistics
Matches: 72, Mismatches: 1, Indels: 11
0.86 0.01 0.13
Matches are distributed among these distances:
30 29 0.40
33 22 0.31
36 21 0.29
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (34 bp):
ATCGCAACGCGAAATGAAAATCGCTAACGACAAA
Found at i:3805816 original size:66 final size:63
Alignment explanation
Indices: 3805697--3805817 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 63
3805687 GGAAATGGCG
* * * **
3805697 ATCGCAATGCGAAATGAAAATCTTAACGACAAAATCGCAATGCGAAATGAAAATCGCGACAAA
1 ATCGCAACGCGAAATGAAAATCATAACGACAAAATCGCAACGCGAAACAAAAATCGCGACAAA
3805760 ATCGCAACGCGAAATGAAAATCGCAATAACGACAAAATCGCAACGCGAAACAAAAATC
1 ATCGCAACGCGAAATGAAAAT--C-ATAACGACAAAATCGCAACGCGAAACAAAAATC
3805818 ACATTGCGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 20 0.40
65 1 0.02
66 29 0.58
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (63 bp):
ATCGCAACGCGAAATGAAAATCATAACGACAAAATCGCAACGCGAAACAAAAATCGCGACAAA
Found at i:3805817 original size:19 final size:18
Alignment explanation
Indices: 3805755--3805814 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 18
3805745 GAAAATCGCG
3805755 ACAAAATCGCAACGCGAA
1 ACAAAATCGCAACGCGAA
* **
3805773 ATGAAAATCGCAATAACG--
1 A-CAAAATCGCAA-CGCGAA
3805791 ACAAAATCGCAACGCGAA
1 ACAAAATCGCAACGCGAA
3805809 ACAAAA
1 ACAAAA
3805815 ATCACATTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.06
17 10 0.31
18 8 0.25
19 10 0.31
20 2 0.06
ACGTcount: A:0.53, C:0.23, G:0.15, T:0.08
Consensus pattern (18 bp):
ACAAAATCGCAACGCGAA
Found at i:3805843 original size:19 final size:19
Alignment explanation
Indices: 3805821--3805951 Score: 84
Period size: 19 Copynumber: 7.3 Consensus size: 19
3805811 AAAAATCACA
3805821 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
3805840 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
3805854 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
*
3805873 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
3805887 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
***
3805906 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
** *
3805926 TTGCGATAGTCATTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
3805946 TTGCGA
1 TTGCGA
3805952 AAGTAAACTA
Statistics
Matches: 87, Mismatches: 13, Indels: 23
0.71 0.11 0.19
Matches are distributed among these distances:
14 15 0.17
15 6 0.07
16 4 0.05
17 4 0.05
18 6 0.07
19 26 0.30
20 23 0.26
21 3 0.03
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:3805857 original size:14 final size:14
Alignment explanation
Indices: 3805838--3805896 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
3805828 TTTCATTTCG
3805838 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
3805852 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
3805869 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
3805885 CGTTGCGATTTT
1 CGTTGCGATTTT
3805897 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:3805863 original size:33 final size:33
Alignment explanation
Indices: 3805821--3805912 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
3805811 AAAAATCACA
*
3805821 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
3805854 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
3805887 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
3805913 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:3805931 original size:20 final size:19
Alignment explanation
Indices: 3805897--3805951 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
3805887 TTGCGATTTT
*
3805897 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
3805916 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
3805936 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
3805952 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:3806459 original size:18 final size:18
Alignment explanation
Indices: 3806433--3806477 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3806423 GTCGATCAGA
*
3806433 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
3806451 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
3806469 TGATGGCTC
1 TGATGGCTC
3806478 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:3807840 original size:20 final size:20
Alignment explanation
Indices: 3807792--3807850 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
3807782 AATAGTTTCT
** *
3807792 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
3807812 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
3807832 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
3807851 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:3808139 original size:22 final size:22
Alignment explanation
Indices: 3808112--3808155 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3808102 GATGGAGATA
3808112 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
3808134 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
3808156 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:3808374 original size:20 final size:20
Alignment explanation
Indices: 3808344--3808457 Score: 140
Period size: 20 Copynumber: 5.7 Consensus size: 20
3808334 GATTATGTAT
*
3808344 TATCGCATTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3808364 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
3808384 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
3808404 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
3808425 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3808445 TATCGCATTGCGA
1 TATCGCGTTGCGA
3808458 TTTTCCCAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:3808461 original size:41 final size:41
Alignment explanation
Indices: 3808324--3808459 Score: 177
Period size: 41 Copynumber: 3.3 Consensus size: 41
3808314 CGCTTTGAAA
* *
3808324 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * *
3808365 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * *
3808405 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
3808446 ATCGCATTGCGATT
1 ATCGCATTGCGATT
3808460 TTCCCAATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.04
40 32 0.39
41 45 0.55
42 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:3808472 original size:41 final size:41
Alignment explanation
Indices: 3808324--3808479 Score: 136
Period size: 41 Copynumber: 3.8 Consensus size: 41
3808314 CGCTTTGAAA
* ** * * * *
3808324 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
* *** * *
3808365 ATCGCGTTGCGAAAGT-CAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
* ** *
3808405 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
3808446 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
3808480 TTACTTATTC
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
40 33 0.35
41 60 0.63
42 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
Found at i:3811065 original size:2 final size:2
Alignment explanation
Indices: 3811048--3811088 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
3811038 TGCATATAAC
* *
3811048 TA TA TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3811089 AATTGTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Done.