Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_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: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 37
Found at i:3737809 original size:20 final size:20
Alignment explanation
Indices: 3737780--3737850 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
3737770 ACGATTTTAA
3737780 CAAA-TCGCAACGTGATTTC
1 CAAATTCGCAACGTGATTTC
3737799 CAAATTCGCAACACG-GAATTT-
1 CAAATTCGC-A-ACGTG-ATTTC
3737820 CAAATTCGCAAC-TCGATTTC
1 CAAATTCGCAACGT-GATTTC
**
3737840 TGAATTCGCAA
1 CAAATTCGCAA
3737851 TGCGAATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
19 10 0.23
20 15 0.35
21 11 0.26
22 7 0.16
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACGTGATTTC
Found at i:3737885 original size:20 final size:20
Alignment explanation
Indices: 3737857--3737930 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 20
3737847 GCAATGCGAA
3737857 TTTCTTTTCGCAACACAAGT
1 TTTCTTTTCGCAACACAAGT
*
3737877 TTCCTTTTCG-AA-ACAAGAT
1 TTTCTTTTCGCAACACAAG-T
*
3737896 TTTCTAATTCGCAACACGAA-T
1 TTTCT-TTTCGCAACAC-AAGT
*
3737917 TTTGTTTTCGCAAC
1 TTTCTTTTCGCAAC
3737931 TCGATTTTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.11
19 7 0.16
20 21 0.48
21 7 0.16
22 2 0.05
23 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
TTTCTTTTCGCAACACAAGT
Found at i:3737911 original size:40 final size:40
Alignment explanation
Indices: 3737863--3737958 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
3737853 CGAATTTCTT
*
3737863 TTCGCAACAC-AAGTTTCCTTTTCGAAACAAGATTTTCTAA
1 TTCGCAACACGAA-TTTCCTTTTCGAAACAAGATTTTCGAA
** * **
3737903 TTCGCAACACGAATTTTGTTTTCGCAACTCGATTTTCGAA
1 TTCGCAACACGAATTTCCTTTTCGAAACAAGATTTTCGAA
*
3737943 TTCACAACACGAATTT
1 TTCGCAACACGAATTT
3737959 TAATTTCGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.35
Consensus pattern (40 bp):
TTCGCAACACGAATTTCCTTTTCGAAACAAGATTTTCGAA
Found at i:3737959 original size:40 final size:40
Alignment explanation
Indices: 3737893--3737970 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
3737883 TTCGAAACAA
* * **
3737893 GATTTTCTAATTCGCAACACGAATTTTGTTTTCGCAACTC
1 GATTTTCGAATTCACAACACGAATTTTAATTTCGCAACTC
3737933 GATTTTCGAATTCACAACACGAATTTTAATTTCGCAAC
1 GATTTTCGAATTCACAACACGAATTTTAATTTCGCAAC
3737971 AGCTTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (40 bp):
GATTTTCGAATTCACAACACGAATTTTAATTTCGCAACTC
Found at i:3738147 original size:14 final size:14
Alignment explanation
Indices: 3738128--3738163 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3738118 TTCCCATCTC
3738128 TAATTTTTTTTACA
1 TAATTTTTTTTACA
* *
3738142 TAATTTTATTTATA
1 TAATTTTTTTTACA
3738156 TAATTTTT
1 TAATTTTT
3738164 CAATGATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TAATTTTTTTTACA
Found at i:3738759 original size:12 final size:12
Alignment explanation
Indices: 3738742--3738775 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
3738732 ACCACATTTC
3738742 CAATATCAAACA
1 CAATATCAAACA
3738754 CAATATCAAACA
1 CAATATCAAACA
*
3738766 CAATCTCAAA
1 CAATATCAAA
3738776 ACCCACAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:3738952 original size:24 final size:24
Alignment explanation
Indices: 3738894--3738940 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
3738884 AATCAGTATT
*
3738894 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
3738918 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
3738941 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:3741073 original size:15 final size:15
Alignment explanation
Indices: 3741050--3741083 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3741040 TGAGTTATTA
*
3741050 CCCGTCCCGCATCCG
1 CCCGCCCCGCATCCG
*
3741065 CCCGCCCCGCATCTG
1 CCCGCCCCGCATCCG
3741080 CCCG
1 CCCG
3741084 TCTAGGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.62, G:0.21, T:0.12
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:3742363 original size:20 final size:20
Alignment explanation
Indices: 3742321--3742373 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3742311 GAATTGAATT
* **
3742321 GAAAGTCAAATTCTCAATGC
1 GAAAGTCAAATTCACAACAC
*
3742341 GAACGTCAAATTCACAACAC
1 GAAAGTCAAATTCACAACAC
*
3742361 GAAAATCAAATTC
1 GAAAGTCAAATTC
3742374 GACACGCGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (20 bp):
GAAAGTCAAATTCACAACAC
Found at i:3742383 original size:20 final size:20
Alignment explanation
Indices: 3742346--3742386 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3742336 AATGCGAACG
3742346 TCAAATTCACAACACGAAAA
1 TCAAATTCACAACACGAAAA
*
3742366 TCAAATTCGAC-ACGCGAAAA
1 TCAAATTC-ACAACACGAAAA
3742386 T
1 T
3742387 AAAAATCGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.24, G:0.10, T:0.17
Consensus pattern (20 bp):
TCAAATTCACAACACGAAAA
Found at i:3742400 original size:20 final size:20
Alignment explanation
Indices: 3742355--3742403 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
3742345 GTCAAATTCA
* * *
3742355 CAACACGAAAATCAAATTCG
1 CAACGCGAAAATAAAAATCG
3742375 -ACACGCGAAAATAAAAATCG
1 CA-ACGCGAAAATAAAAATCG
3742395 CAACGCGAA
1 CAACGCGAA
3742404 TTTGACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.51, C:0.24, G:0.14, T:0.10
Consensus pattern (20 bp):
CAACGCGAAAATAAAAATCG
Found at i:3743956 original size:21 final size:21
Alignment explanation
Indices: 3743930--3743969 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3743920 ATGCCATGTG
*
3743930 GATCCTGAACGGTGGGAGGTT
1 GATCCTGAACGATGGGAGGTT
3743951 GATCCTGAACGATGGGAGG
1 GATCCTGAACGATGGGAGG
3743970 GGCCTCTTGA
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:0.15, G:0.42, T:0.20
Consensus pattern (21 bp):
GATCCTGAACGATGGGAGGTT
Found at i:3743980 original size:21 final size:21
Alignment explanation
Indices: 3743956--3744007 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
3743946 AGGTTGATCC
*
3743956 TGAACGATGGGAGGGGCCTCT
1 TGAACGATGAGAGGGGCCTCT
3743977 TGAACGATGAGAGGGGCCTCT
1 TGAACGATGAGAGGGGCCTCT
3743998 TGAACGATGA
1 TGAACGATGA
3744008 CAGGTGATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.38, T:0.19
Consensus pattern (21 bp):
TGAACGATGAGAGGGGCCTCT
Found at i:3744040 original size:21 final size:21
Alignment explanation
Indices: 3744016--3744058 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3744006 GACAGGTGAT
* *
3744016 TCCTGAATAATGGGATGTGGA
1 TCCTGAACAATGGGAGGTGGA
*
3744037 TCCTGAACAATGGTAGGTGGA
1 TCCTGAACAATGGGAGGTGGA
3744058 T
1 T
3744059 TGGGCTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (21 bp):
TCCTGAACAATGGGAGGTGGA
Found at i:3744493 original size:21 final size:21
Alignment explanation
Indices: 3744469--3744518 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
3744459 ACCATTGTCG
*
3744469 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGTACCAACCTCA
** *
3744490 TCACACAAAGTACTAACCTCA
1 TCACGTAAAGTACCAACCTCA
3744511 TCACGTAA
1 TCACGTAA
3744519 CTCCCCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.32, G:0.10, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGTACCAACCTCA
Found at i:3744694 original size:42 final size:42
Alignment explanation
Indices: 3744635--3744731 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
3744625 GATGGAATAT
* * * *
3744635 GTGATGGCTCTCAGTGTCTAGGTGTATAATCGGCTCGATCAG
1 GTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATCAG
3744677 GTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATCAG
1 GTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATCAG
*
3744719 GTGATGGTTCTCG
1 GTGATGGCTCTCG
3744732 AAGTGGGGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (42 bp):
GTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATCAG
Found at i:3746789 original size:19 final size:20
Alignment explanation
Indices: 3746767--3746804 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3746757 ATATTCGTGT
*
3746767 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCAAAAATAAAA
*
3746786 TTCGCATTGCAAAAATAAA
1 TTCGAATTGCAAAAATAAA
3746805 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCAAAAATAAAA
Found at i:3746937 original size:42 final size:39
Alignment explanation
Indices: 3746830--3746981 Score: 110
Period size: 42 Copynumber: 3.7 Consensus size: 39
3746820 TGATTTCTGT
* ** *
3746830 GTTGCGAATTTGGAAAATCGCGTTGCGGAA-AAGAAATTCGA
1 GTTGCGAATTT-GAAAAT-GTGTTGC-GAATTGGAAATTCGC
* * *
3746871 GTTACGAATTTCAAAAATGAGTTGCGAATCTAGGAAATTCGC
1 GTTGCGAATTT-GAAAATGTGTTGCGAAT-T-GGAAATTCGC
* * *
3746913 GTTGCGAATTTGGAAACTGTGTTGCAAAATTGG-AGTTCGC
1 GTTGCGAATTT-GAAAATGTGTTGC-GAATTGGAAATTCGC
* *
3746953 GTTGCGAATTTGAGATTGTGTTGCGAATT
1 GTTGCGAATTTGAAAATGTGTTGCGAATT
3746982 TGTTGGTTAT
Statistics
Matches: 90, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
38 4 0.04
39 14 0.16
40 23 0.26
41 17 0.19
42 29 0.32
43 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.31
Consensus pattern (39 bp):
GTTGCGAATTTGAAAATGTGTTGCGAATTGGAAATTCGC
Found at i:3746975 original size:19 final size:19
Alignment explanation
Indices: 3746913--3746983 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
3746903 GGAAATTCGC
* *
3746913 GTTGCGAATTTGGAAACTGT
1 GTTGCGAATTT-GAGATTGT
* * *
3746933 GTTGCAAAATTG-GAGTTCGC
1 GTTGCGAATTTGAGA-TT-GT
3746953 GTTGCGAATTTGAGATTGT
1 GTTGCGAATTTGAGATTGT
3746972 GTTGCGAATTTG
1 GTTGCGAATTTG
3746984 TTGGTTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
18 1 0.03
19 15 0.38
20 22 0.55
21 2 0.05
ACGTcount: A:0.23, C:0.10, G:0.31, T:0.37
Consensus pattern (19 bp):
GTTGCGAATTTGAGATTGT
Found at i:3747909 original size:6 final size:6
Alignment explanation
Indices: 3747898--3747928 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
3747888 GAGATAGTCA
3747898 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
3747929 CAAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:3757528 original size:46 final size:46
Alignment explanation
Indices: 3757474--3757565 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
3757464 GACTATATAG
3757474 AGCATTTGCTCTTTATAAGTACAGATTCTAATGGAGAGCTTCACCC
1 AGCATTTGCTCTTTATAAGTACAGATTCTAATGGAGAGCTTCACCC
3757520 AGCATTTGCTCTTTATAAGTACAGATTCTAATGGAGAGCTTCACCC
1 AGCATTTGCTCTTTATAAGTACAGATTCTAATGGAGAGCTTCACCC
3757566 CGTGCCAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (46 bp):
AGCATTTGCTCTTTATAAGTACAGATTCTAATGGAGAGCTTCACCC
Found at i:3765848 original size:103 final size:103
Alignment explanation
Indices: 3765669--3765878 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 103
3765659 TTTCTTCCCT
* *
3765669 ACAAGGGATTGCCAAAGCACCCATAGGGTGATTGAAACCAAACTCTTCTTCGACTTGACTCAACA
1 ACAAGGGATTGCCAAAGCACCCATAGGGTGATCGAAACCAAACTCTTCTTCGACTTGACTAAACA
3765734 AATTCTGGAATGAAGGATTATTCAGTAATGATATTGGC
66 AATTCTGGAATGAAGGATTATTCAGTAATGATATTGGC
* *
3765772 ACAAGGGATTGCCAAAGCACCCATAGGGTGATCGACACCAAACTCTTCTTCGGCTTGACTAAACA
1 ACAAGGGATTGCCAAAGCACCCATAGGGTGATCGAAACCAAACTCTTCTTCGACTTGACTAAACA
*
3765837 AATTCTGGAATGAAGGATTATTCAGTAATGATATTGGG
66 AATTCTGGAATGAAGGATTATTCAGTAATGATATTGGC
3765875 ACAA
1 ACAA
3765879 CAAATCGCTT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (103 bp):
ACAAGGGATTGCCAAAGCACCCATAGGGTGATCGAAACCAAACTCTTCTTCGACTTGACTAAACA
AATTCTGGAATGAAGGATTATTCAGTAATGATATTGGC
Found at i:3773681 original size:17 final size:17
Alignment explanation
Indices: 3773659--3773699 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
3773649 AGAAATATGG
3773659 CTGCAAGAACGAGACTT
1 CTGCAAGAACGAGACTT
3773676 CTGCAAGAACGAGACTT
1 CTGCAAGAACGAGACTT
3773693 CTGCAAG
1 CTGCAAG
3773700 TAAGATGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (17 bp):
CTGCAAGAACGAGACTT
Found at i:3780370 original size:31 final size:31
Alignment explanation
Indices: 3780334--3780392 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
3780324 AACTTAAAAG
*
3780334 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
3780365 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
3780393 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:3780441 original size:22 final size:22
Alignment explanation
Indices: 3780416--3780759 Score: 607
Period size: 22 Copynumber: 15.6 Consensus size: 22
3780406 ATAATAAATT
3780416 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
3780438 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
3780460 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
3780482 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
3780504 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
3780526 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
3780548 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
3780570 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
3780592 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
3780614 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
3780636 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
***
3780658 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
3780680 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
3780702 TTTTAAAAATAAATCAATCCATA
1 TTTT-AAAATAAATCAATCCATA
*
3780725 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
3780747 TTTTAAAATAAAT
1 TTTTAAAATAAAT
3780760 TTTAAAATAG
Statistics
Matches: 308, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
22 286 0.93
23 22 0.07
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:3780776 original size:11 final size:12
Alignment explanation
Indices: 3780746--3780785 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
3780736 ATCAATCTAT
3780746 ATTTTAAAATAA
1 ATTTTAAAATAA
*
3780758 ATTTTAAAATAG
1 ATTTTAAAATAA
3780770 A-TTT-AAAT-A
1 ATTTTAAAATAA
3780779 ATTTTAA
1 ATTTTAA
3780786 TTTTCCCGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:3783160 original size:14 final size:14
Alignment explanation
Indices: 3783149--3783175 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3783139 AAATAAATGA
3783149 TAAAAGATAAATAT
1 TAAAAGATAAATAT
3783163 TAAAAGATAAATA
1 TAAAAGATAAATA
3783176 GAAGTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
TAAAAGATAAATAT
Found at i:3784237 original size:15 final size:16
Alignment explanation
Indices: 3784217--3784249 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3784207 AAATGATATT
3784217 TCTAAA-AAAAATAAA
1 TCTAAACAAAAATAAA
*
3784232 TCTAAACAGAAATAAA
1 TCTAAACAAAAATAAA
3784248 TC
1 TC
3784250 AATAGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (16 bp):
TCTAAACAAAAATAAA
Found at i:3785772 original size:18 final size:20
Alignment explanation
Indices: 3785732--3785776 Score: 67
Period size: 18 Copynumber: 2.3 Consensus size: 20
3785722 AAGAATAAAA
3785732 TAAATTATCAATAAAAATATT
1 TAAATTAT-AATAAAAATATT
3785753 TAAATTAT-ATAAAAAT-TT
1 TAAATTATAATAAAAATATT
3785771 TAAATT
1 TAAATT
3785777 TTAAAAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
21 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATTATAATAAAAATATT
Found at i:3797028 original size:183 final size:183
Alignment explanation
Indices: 3796720--3797093 Score: 667
Period size: 183 Copynumber: 2.0 Consensus size: 183
3796710 AGAGGTATAT
** *
3796720 CAGTAGTTCCAGATTCTTCAGGAACACCATCGGAATCATTATCATTAAATGCAAGGAAATCAGCA
1 CAGTAGTTCCAGATTCTAAAGGAACACCATCGGAATCATTATCATTAAATGCAAGGAAATCAGAA
*
3796785 CCATTTGACTCGGATGCCTTAGCCAACAGAGAATGATCATCCACCACAGTAGTTTCTTGCAAAAG
66 CCATTTGACTCGGATGCCATAGCCAACAGAGAATGATCATCCACCACAGTAGTTTCTTGCAAAAG
*
3796850 CGCCTCTTTACTTTTAGAAGATGCCTTAGCCAACAAAGAATCACCATCCACCA
131 CGCCTCTTTACTTTCAGAAGATGCCTTAGCCAACAAAGAATCACCATCCACCA
*
3796903 CAGTAGTTCCAGATTCTAAAGGAACACCATCGGAATCATTATCATTAGATGCAAGGAAATCAGAA
1 CAGTAGTTCCAGATTCTAAAGGAACACCATCGGAATCATTATCATTAAATGCAAGGAAATCAGAA
3796968 CCATTTGACTCGGATGCCATAGCCAACAGAGAATGATCATCCACCACAGTAGTTTCTTGCAAAAG
66 CCATTTGACTCGGATGCCATAGCCAACAGAGAATGATCATCCACCACAGTAGTTTCTTGCAAAAG
* * *
3797033 CGCCTCTTTACTTTCAGAAGATGCCTTAGCCAACAGAGAATCGCTATCCACCA
131 CGCCTCTTTACTTTCAGAAGATGCCTTAGCCAACAAAGAATCACCATCCACCA
3797086 CAGTAGTT
1 CAGTAGTT
3797094 ACTTGCAAAA
Statistics
Matches: 182, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 182 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (183 bp):
CAGTAGTTCCAGATTCTAAAGGAACACCATCGGAATCATTATCATTAAATGCAAGGAAATCAGAA
CCATTTGACTCGGATGCCATAGCCAACAGAGAATGATCATCCACCACAGTAGTTTCTTGCAAAAG
CGCCTCTTTACTTTCAGAAGATGCCTTAGCCAACAAAGAATCACCATCCACCA
Found at i:3797099 original size:72 final size:72
Alignment explanation
Indices: 3796980--3797196 Score: 310
Period size: 72 Copynumber: 3.0 Consensus size: 72
3796970 ATTTGACTCG
* *
3796980 GATGCCATAGCCAACAGAGAAT-GATCATCCACCACAGTAGTTTCTTGCAAAAGCGCCTCTTTAC
1 GATGCCTTAGCCAACAGAGAATCGCT-ATCCACCACAGTAGTTTCTTGCAAAAGCGCCTCTTTAC
3797044 TTTCAGAA
65 TTTCAGAA
* *
3797052 GATGCCTTAGCCAACAGAGAATCGCTATCCACCACAGTAGTTACTTGCAAAAGCGCCTCTTTAAT
1 GATGCCTTAGCCAACAGAGAATCGCTATCCACCACAGTAGTTTCTTGCAAAAGCGCCTCTTTACT
*
3797117 TTTAGAA
66 TTCAGAA
* * * * * * *
3797124 GATGCCTTAGCCAATAGAGAATCACCATTCGCCACAGTAGTTTCTTGCAAAAGCACCTCTCTACT
1 GATGCCTTAGCCAACAGAGAATCGCTATCCACCACAGTAGTTTCTTGCAAAAGCGCCTCTTTACT
3797189 TTCAGAA
66 TTCAGAA
3797196 G
1 G
3797197 CATCATTCAC
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
72 127 0.98
73 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (72 bp):
GATGCCTTAGCCAACAGAGAATCGCTATCCACCACAGTAGTTTCTTGCAAAAGCGCCTCTTTACT
TTCAGAA
Found at i:3803372 original size:23 final size:23
Alignment explanation
Indices: 3803323--3803373 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
3803313 TTGTGAACGC
* * *
3803323 TAAATGAACATGTTTATGAAGAT
1 TAAATGAACATGTTCACGAAGAA
* *
3803346 TAAATGAACATGTTCGCGAATAA
1 TAAATGAACATGTTCACGAAGAA
3803369 TAAAT
1 TAAAT
3803374 AAACGAACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (23 bp):
TAAATGAACATGTTCACGAAGAA
Found at i:3807694 original size:30 final size:32
Alignment explanation
Indices: 3807644--3807702 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
3807634 TATTTAAAAT
*
3807644 ATATTTATTAATATTTCTAATAATATAATATA
1 ATATTTATTAATATTTCTAATAAAATAATATA
3807676 ATATTT-TTAATA-TTCTAATAAAATAAT
1 ATATTTATTAATATTTCTAATAAAATAAT
3807703 CAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.54
31 6 0.23
32 6 0.23
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATTTATTAATATTTCTAATAAAATAATATA
Found at i:3807700 original size:22 final size:22
Alignment explanation
Indices: 3807653--3807700 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3807643 TATATTTATT
*
3807653 AATATTTCTAATAATATAATAT
1 AATATTTCTAATAATATAATAA
* * *
3807675 AATATTTTTAATATTCTAATAA
1 AATATTTCTAATAATATAATAA
3807697 AATA
1 AATA
3807701 ATCAATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATTTCTAATAATATAATAA
Found at i:3807712 original size:32 final size:32
Alignment explanation
Indices: 3807643--3807722 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 32
3807633 ATATTTAAAA
*
3807643 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTCTAATAAAATAATAT
*
3807675 AATATTT-TTAATA-TTCTAATAAAATAATCAAT
1 TATATTTATTAATATTTCTAATAAAATAAT--AT
*
3807707 TATATTATAATAATAT
1 TATATT-TATTAATAT
3807723 AATTGATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 14 0.36
31 6 0.15
32 13 0.33
33 1 0.03
34 5 0.13
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (32 bp):
TATATTTATTAATATTTCTAATAAAATAATAT
Found at i:3807734 original size:53 final size:53
Alignment explanation
Indices: 3807661--3807762 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 53
3807651 TTAATATTTC
*
3807661 TAATAATATAATATAATATTTTTAATATTCTAATAA-A-ATAATCAATTATATTA
1 TAATAATATAATATAATATTTTT--TATTCTAATAATATATAATAAATTATATTA
* *
3807714 TAATAATATAAT-TGATTATTTTTTATTTTAATAATATATAATAAATTAT
1 TAATAATATAATAT-AATATTTTTTATTCTAATAATATATAATAAATTAT
3807763 TAATAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
51 10 0.23
52 2 0.05
53 31 0.72
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (53 bp):
TAATAATATAATATAATATTTTTTATTCTAATAATATATAATAAATTATATTA
Found at i:3807835 original size:19 final size:18
Alignment explanation
Indices: 3807811--3807879 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
3807801 ATATTATTAA
3807811 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
3807830 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
3807848 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
3807870 ATT-TTAATAA
1 ATTATTAATAA
3807880 AGATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:3807854 original size:27 final size:27
Alignment explanation
Indices: 3807774--3807859 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
3807764 AATAAAATTT
* *
3807774 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
3807801 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
3807828 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
3807857 ATA
1 ATA
3807860 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:3807900 original size:23 final size:23
Alignment explanation
Indices: 3807874--3807918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3807864 AATAATATTT
3807874 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
3807897 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
3807919 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:3808027 original size:32 final size:32
Alignment explanation
Indices: 3807958--3808027 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
3807948 AATATAATTT
**
3807958 ATAATATTTTATTTCAATAAAATATACCAATA
1 ATAATATTTTATTTCAATAAAATATAAAAATA
*
3807990 TTAATATTTT-TATT-AATAAAATTATAAAAATA
1 ATAATATTTTAT-TTCAATAAAA-TATAAAAATA
3808022 ATAATA
1 ATAATA
3808028 ATAAATAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (32 bp):
ATAATATTTTATTTCAATAAAATATAAAAATA
Found at i:3808271 original size:20 final size:20
Alignment explanation
Indices: 3808232--3808271 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3808222 TTACGGAAAA
**
3808232 CATTTTCCAGAAATGTAATT
1 CATTTTCCAGAAATCAAATT
*
3808252 CATTTTCCAGAATTCAAATT
1 CATTTTCCAGAAATCAAATT
3808272 AAAGTAATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.40
Consensus pattern (20 bp):
CATTTTCCAGAAATCAAATT
Found at i:3808300 original size:29 final size:29
Alignment explanation
Indices: 3808246--3808301 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
3808236 TTCCAGAAAT
* **
3808246 GTAATTCATTTTCCAGAATTCAAATTAAA
1 GTAATTCAATTTCCAGAAAACAAATTAAA
*
3808275 GTAATTCAATTTCCAGAAAACCAATTA
1 GTAATTCAATTTCCAGAAAACAAATTA
3808302 CAGCCAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (29 bp):
GTAATTCAATTTCCAGAAAACAAATTAAA
Found at i:3812345 original size:19 final size:20
Alignment explanation
Indices: 3812307--3812347 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3812297 TTTTCCTATC
*
3812307 ACAAAACTTCTGTTGCAGTT
1 ACAAAACTTCTGTGGCAGTT
3812327 ACAAAACTTCT-TGGCAGTT
1 ACAAAACTTCTGTGGCAGTT
3812346 AC
1 AC
3812348 TACAAGCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (20 bp):
ACAAAACTTCTGTGGCAGTT
Found at i:3821343 original size:19 final size:19
Alignment explanation
Indices: 3821319--3821369 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
3821309 GAAAATATTC
3821319 AGAGTGCATCGATGTATGG
1 AGAGTGCATCGATGTATGG
* *
3821338 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGTATGG
3821357 A-A-TGCATCGATGT
1 AGAGTGCATCGATGT
3821370 TCAATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 9 0.32
18 1 0.04
19 18 0.64
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.25
Consensus pattern (19 bp):
AGAGTGCATCGATGTATGG
Found at i:3821345 original size:65 final size:62
Alignment explanation
Indices: 3821215--3821370 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 62
3821205 TGCACCAAGT
* ***
3821215 GTGCATCGATGCATGAATGCATCGATG-TTTGAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAATGCATCGATGTTTTGAAAATAGCCAGATGCATCGATGCATGGAGA
* ** *
3821276 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGTATGGAGA
1 GTGCATCGATGCAT-GAATGCA-TCGATGTTTTGAAAATAGCCAGA-TGCATCGATGCATGGAGA
*
3821341 GTGCATCGGTGCATGGAATGCATCGATGTT
1 GTGCATCGATGCAT-GAATGCATCGATGTT
3821371 CAATTAATTC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
61 14 0.17
62 6 0.08
63 6 0.08
64 21 0.26
65 33 0.41
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (62 bp):
GTGCATCGATGCATGAATGCATCGATGTTTTGAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:3827811 original size:22 final size:21
Alignment explanation
Indices: 3827769--3827808 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3827759 GAGTTTGTTT
*
3827769 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3827790 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3827809 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:3829665 original size:15 final size:16
Alignment explanation
Indices: 3829638--3829670 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3829628 GGCCAAGTCG
3829638 GAGCAGACCCGAAGCA
1 GAGCAGACCCGAAGCA
3829654 GAGCAG-CCCGAAGCA
1 GAGCAGACCCGAAGCA
3829669 GA
1 GA
3829671 ACAGTTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.36, C:0.30, G:0.33, T:0.00
Consensus pattern (16 bp):
GAGCAGACCCGAAGCA
Found at i:3842415 original size:8 final size:8
Alignment explanation
Indices: 3842390--3842534 Score: 85
Period size: 9 Copynumber: 16.4 Consensus size: 8
3842380 TTGCTTGAAG
3842390 AAGAAATAA
1 AAGAAA-AA
3842399 AAGAGAAAA
1 AAGA-AAAA
3842408 GAAGAAAAA
1 -AAGAAAAA
3842417 AAGAGAAAA
1 AAGA-AAAA
3842426 GAAGAAAAA
1 -AAGAAAAA
3842435 AAGAGAAAA
1 AAGA-AAAA
3842444 AAGAAAAA
1 AAGAAAAA
3842452 ATGATGGAAAAA
1 A--A--GAAAAA
*
3842464 ACGAAAAGA
1 AAGAAAA-A
3842473 AA-AAAAA
1 AAGAAAAA
*
3842480 GAGAAAAA
1 AAGAAAAA
* *
3842488 ATGGAAAA
1 AAGAAAAA
* *
3842496 AGGAAGGAA
1 AAGAA-AAA
3842505 AAGAGAAAA
1 AAGA-AAAA
*
3842514 ATGAAAAA
1 AAGAAAAA
3842522 AGAGAAATAA
1 A-AGAAA-AA
3842532 AAG
1 AAG
3842535 GAGGGTTCAA
Statistics
Matches: 108, Mismatches: 13, Indels: 30
0.72 0.09 0.20
Matches are distributed among these distances:
7 2 0.02
8 40 0.37
9 44 0.41
10 15 0.14
12 7 0.06
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.04
Consensus pattern (8 bp):
AAGAAAAA
Found at i:3842417 original size:10 final size:10
Alignment explanation
Indices: 3842387--3842452 Score: 61
Period size: 10 Copynumber: 7.0 Consensus size: 10
3842377 ATTTTGCTTG
*
3842387 AAGAAGAAAT
1 AAGAAGAAAA
*
3842397 AA-AAGAGAA
1 AAGAAGAAAA
3842406 AAGAAG-AAA
1 AAGAAGAAAA
*
3842415 AA-AAGAGAA
1 AAGAAGAAAA
3842424 AAGAAGAAAA
1 AAGAAGAAAA
3842434 AA-AGAGAAAA
1 AAGA-AGAAAA
3842444 AAGAA-AAAA
1 AAGAAGAAAA
3842453 TGATGGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
8 3 0.07
9 20 0.43
10 22 0.48
11 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (10 bp):
AAGAAGAAAA
Found at i:3842420 original size:18 final size:17
Alignment explanation
Indices: 3842390--3842528 Score: 124
Period size: 18 Copynumber: 7.9 Consensus size: 17
3842380 TTGCTTGAAG
3842390 AAGAAATAAAAGAGAAAA
1 AAGAAA-AAAAGAGAAAA
3842408 GAAGAAAAAAAGAGAAAA
1 -AAGAAAAAAAGAGAAAA
3842426 GAAGAAAAAAAGAGAAAA
1 -AAGAAAAAAAGAGAAAA
*
3842444 AAGAAAAAATGATGGAAAA
1 AAGAAAAAAAGA--GAAAA
3842463 AACGAAAAGAAA-A-AAAA
1 AA-GAAAA-AAAGAGAAAA
* *
3842480 GAGAAAAAATG-GAAAA
1 AAGAAAAAAAGAGAAAA
* *
3842496 AGGAAGGAAAAGAGAAAA
1 AAGAA-AAAAAGAGAAAA
*
3842514 ATG-AAAAAAGAGAAA
1 AAGAAAAAAAGAGAAA
3842529 TAAAAGGAGG
Statistics
Matches: 102, Mismatches: 10, Indels: 19
0.78 0.08 0.15
Matches are distributed among these distances:
15 2 0.02
16 22 0.22
17 21 0.21
18 36 0.35
19 13 0.13
20 6 0.06
21 2 0.02
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.04
Consensus pattern (17 bp):
AAGAAAAAAAGAGAAAA
Found at i:3842470 original size:45 final size:45
Alignment explanation
Indices: 3842414--3842528 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 45
3842404 AAAAGAAGAA
* *
3842414 AAAAAGAGAAAAGAAGAAAAAAAGAGAAAAAA-GAAAAAATGATGG
1 AAAAA-AGAAAAGAAGAAAAAAAGAGAAAAAATGAAAAAAGGAAGG
*
3842459 AAAAAACGAAAAG-A-AAAAAAAGAGAAAAAATGGAAAAAGGAAGG
1 AAAAAA-GAAAAGAAGAAAAAAAGAGAAAAAATGAAAAAAGGAAGG
* *
3842503 AAAAGAGAAAA-ATG-AAAAAAGAGAAA
1 AAAAAAGAAAAGAAGAAAAAAAGAGAAA
3842529 TAAAAGGAGG
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
43 33 0.54
44 17 0.28
45 11 0.18
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.03
Consensus pattern (45 bp):
AAAAAAGAAAAGAAGAAAAAAAGAGAAAAAATGAAAAAAGGAAGG
Found at i:3842533 original size:27 final size:26
Alignment explanation
Indices: 3842391--3842534 Score: 111
Period size: 26 Copynumber: 5.4 Consensus size: 26
3842381 TGCTTGAAGA
3842391 AGAAATAAAAGAGAAAAGAAGAAAAAAAG
1 AGAAA-AAAAGAGAAAA-AAG-AAAAAAG
*
3842420 AGAAAAGAAGA-AAAAAAGAGAAAAA-
1 AGAAAAAAAGAGAAAAAAGA-AAAAAG
*
3842445 AGAAAAAATGATGGAAAAAACG--AAAAG
1 AGAAAAAAAGA--GAAAAAA-GAAAAAAG
*
3842472 A-AAAAAAAGAGAAAAAATGGAAAAAG
1 AGAAAAAAAGAGAAAAAA-GAAAAAAG
* *
3842498 -GAAGGAAAAGAGAAAAATGAAAAAAG
1 AGAA-AAAAAGAGAAAAAAGAAAAAAG
3842524 AGAAATAAAAG
1 AGAAA-AAAAG
3842535 GAGGGTTCAA
Statistics
Matches: 94, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
24 8 0.09
25 10 0.11
26 34 0.36
27 25 0.27
28 11 0.12
29 6 0.06
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.04
Consensus pattern (26 bp):
AGAAAAAAAGAGAAAAAAGAAAAAAG
Found at i:3844316 original size:153 final size:152
Alignment explanation
Indices: 3843852--3844358 Score: 798
Period size: 153 Copynumber: 3.3 Consensus size: 152
3843842 AATTAGTTCG
3843852 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTC
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTC
* *
3843917 CTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAA
66 CTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCCCTGAA
* *
3843982 TGAATAGGGAGCGGACAAGTTCG
131 AGAATAGGGAGCGGACAAGTT-T
3844005 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTC
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTC
*
3844070 CTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCCCTGAA
66 CTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCCCTGAA
3844135 AGAATAGGGAGCGGACAAGTTT
131 AGAATAGGGAGCGGACAAGTTT
3844157 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGT
1 -TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGT
* ** *
3844222 CCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTATTGAAGAACGAGTTCTATACTCCCTGA
65 CCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCCCTGA
* * **
3844287 ACGGATAGGGAGCGGACCCGTTT
130 AAGAATAGGGAGCGGACAAGTTT
* * * *
3844310 TATGAAGATTGTTCGAGTTCTATACTCCCTGAACGGATAGGGAGCGGAC
1 T-TGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
3844359 CCGTTTTATG
Statistics
Matches: 330, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
152 1 0.00
153 296 0.90
156 2 0.01
157 31 0.09
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (152 bp):
TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTC
CTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCCCTGAA
AGAATAGGGAGCGGACAAGTTT
Found at i:3844317 original size:51 final size:51
Alignment explanation
Indices: 3843846--3844303 Score: 799
Period size: 51 Copynumber: 9.0 Consensus size: 51
3843836 GAAGCAAATT
3843846 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
3843897 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
3843948 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
3843999 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
*
3844050 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
* * *
3844101 AGTTTGTTGAAGATTGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
*
3844152 AGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
3844203 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
** ** * * * *
3844254 AGTTTATTGAAGAACGAGTTCTATACTCCCTGAACGGATAGGGAGCGGAC
1 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
3844304 CCGTTTTATG
Statistics
Matches: 393, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 393 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (51 bp):
AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
Found at i:3844416 original size:56 final size:55
Alignment explanation
Indices: 3844065--3844430 Score: 261
Period size: 51 Copynumber: 6.9 Consensus size: 55
3844055 GTTGAAGATT
* * * * **
3844065 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTTGT-TGAAGA---TT-
1 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTT-TATGAAGATTGTTC
* * * **
3844116 GAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACAAGTTTGT-TGAAGA---TT-
1 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTT-TATGAAGATTGTTC
* * * * ** *
3844167 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTT-TTATGAAGATTGTTC
* * * * ** *
3844218 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTTATTGAAGA----AC
1 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
3844269 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
3844324 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
* * * * *
3844379 GAGTTCTTATACTCCTTGAAAGAAAAGGGAGCAGACCCGTTATT-TGAAGATT
1 GAGTTC-TATACTCCCTGAACGGATAGGGAGCGGACCCGTT-TTATGAAGATT
3844431 TTTCAAGTAT
Statistics
Matches: 286, Mismatches: 18, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 179 0.63
52 4 0.01
55 62 0.22
56 37 0.13
57 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (55 bp):
GAGTTCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:3844629 original size:15 final size:16
Alignment explanation
Indices: 3844602--3844634 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3844592 GGCCAAGTCG
3844602 GAGCAGACCCGAAGCA
1 GAGCAGACCCGAAGCA
3844618 GAGCAG-CCCGAAGCA
1 GAGCAGACCCGAAGCA
3844633 GA
1 GA
3844635 ACAGTTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.36, C:0.30, G:0.33, T:0.00
Consensus pattern (16 bp):
GAGCAGACCCGAAGCA
Found at i:3847360 original size:64 final size:63
Alignment explanation
Indices: 3847292--3847521 Score: 212
Period size: 64 Copynumber: 3.6 Consensus size: 63
3847282 TTGGAACACT
* *** *
3847292 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTTGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
3847356 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * * *
3847420 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-TC
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATAGC
*
3847483 A
63 C
* *
3847484 TCGATGCATCGATGCATGGACTGATGCATCGGTGCATG
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCATG
3847522 CCTTTGAATA
Statistics
Matches: 137, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 69 0.50
65 64 0.47
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:3847444 original size:19 final size:19
Alignment explanation
Indices: 3847420--3847470 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
3847410 GAAAATATTC
3847420 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
3847439 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
3847458 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
3847471 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:3847446 original size:65 final size:65
Alignment explanation
Indices: 3847313--3847472 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
3847303 TGCACCAAGT
* * ***
3847313 GTGCATCGATGCATGAAATGCATTTGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
3847377 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
3847441 A
65 A
* *
3847442 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
3847473 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:3847512 original size:65 final size:64
Alignment explanation
Indices: 3847314--3847521 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
3847304 GCACCAAGTG
* * * ** *
3847314 TGCATCGATGCATGAAATGCATTTGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGATGCATCGATGCATGGAC-TG
3847378 -
64 A
* * *
3847378 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGA-TGCATCGATGCATGGACTG
3847441 A
64 A
* *
3847442 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGATGCATCGATGCATGGAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GATGCATCGATGCATGGAC
3847505 TGA
62 TGA
3847508 TGCATCGGTGCATG
1 TGCATCGGTGCATG
3847522 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 51 0.41
65 59 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGATGCATCGATGCATGGACTGA
Found at i:3849754 original size:18 final size:17
Alignment explanation
Indices: 3849731--3849787 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
3849721 TTAGATAAAC
3849731 AAGATAAAGAAAACAAAT
1 AAGATAAAGAAAA-AAAT
**
3849749 AAGATACAAGGGAAAAAT
1 AAGATA-AAGAAAAAAAT
* *
3849767 AAAATAAATAAAATAAAT
1 AAGATAAAGAAAA-AAAT
3849785 AAG
1 AAG
3849788 TAAGATAAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.12, T:0.14
Consensus pattern (17 bp):
AAGATAAAGAAAAAAAT
Found at i:3849854 original size:2 final size:2
Alignment explanation
Indices: 3849849--3849894 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3849839 AAAAAAGGAA
3849849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3849891 AT AT
1 AT AT
3849895 CAAAGTATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3850839 original size:37 final size:37
Alignment explanation
Indices: 3850789--3850892 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
3850779 GTGCTTGTGG
* * * * *
3850789 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTAT
* * *
3850826 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTAT
*
3850863 ATCCTATTTTTATGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
3850893 TGACGAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTAT
Found at i:3853617 original size:22 final size:22
Alignment explanation
Indices: 3853569--3853622 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
3853559 TTCAGCTATT
* *
3853569 ATAACTCCTGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* * *
3853591 GTAACCCCTGGAATTAAATCAA
1 ATAACTCCTGAAATTAAATCAA
3853613 ATAACTCCTG
1 ATAACTCCTG
3853623 TAACTCCTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:3854477 original size:67 final size:67
Alignment explanation
Indices: 3854365--3854493 Score: 215
Period size: 67 Copynumber: 1.9 Consensus size: 67
3854355 CTCCTAATTC
* *
3854365 ATCTTTTAAATGAAACAAGTCGTTAGCTAGGTTTTGTATTTGCAACTTACATTTTTGTGTTTCAT
1 ATCTTTTAAATGAAACAAGTCATTAGCTAGGTTTTGTATTAGCAACTTACATTTTTGTGTTTCAT
3854430 TA
66 TA
*
3854432 ATCTTTTAAATGAAACAAGTCATTAGCTAGGTTTTGT-TTGAGCAACTTGCATTTTTGTGTTT
1 ATCTTTTAAATGAAACAAGTCATTAGCTAGGTTTTGTATT-AGCAACTTACATTTTTGTGTTT
3854494 GCATGTGGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 2 0.03
67 56 0.97
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (67 bp):
ATCTTTTAAATGAAACAAGTCATTAGCTAGGTTTTGTATTAGCAACTTACATTTTTGTGTTTCAT
TA
Found at i:3866569 original size:42 final size:42
Alignment explanation
Indices: 3866510--3866600 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
3866500 CACTATTAGG
* *
3866510 TGCTATTGCGGGTGTAGCGGGTAACTCGGACGACGGCGAAAC
1 TGCTATTGCGGGTGTAGCAGGTAACTCGGACGACGACGAAAC
*
3866552 TGCTATTGCGGGTGTAGCAGGTAACTCGGACGGCGACGAAAC
1 TGCTATTGCGGGTGTAGCAGGTAACTCGGACGACGACGAAAC
*
3866594 TACTATT
1 TGCTATT
3866601 TCGCGGATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (42 bp):
TGCTATTGCGGGTGTAGCAGGTAACTCGGACGACGACGAAAC
Found at i:3872507 original size:59 final size:60
Alignment explanation
Indices: 3872417--3872562 Score: 170
Period size: 59 Copynumber: 2.4 Consensus size: 60
3872407 ATAAATTTGA
*** * *
3872417 AACATATAGATAATCATGTAATCATTTTATAACTTTTAATAA-TCAAGTAACTCGATAAAAT
1 AACA-ATAGATAATCAAAAAATTATTTTATAACTTTTAATAATTCAAGT-ACTCAATAAAAT
* *
3872478 AACAATAGATAAT-AAAAAATTATTTTATAACTTTTAATAATTGAAGTATTCAATAAAAT
1 AACAATAGATAATCAAAAAATTATTTTATAACTTTTAATAATTCAAGTACTCAATAAAAT
* * *
3872537 AATATTATATAATCAAAAAATTATTT
1 AACAATAGATAATCAAAAAATTATTT
3872563 ATACATTTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 43 0.59
60 26 0.36
61 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (60 bp):
AACAATAGATAATCAAAAAATTATTTTATAACTTTTAATAATTCAAGTACTCAATAAAAT
Found at i:3876835 original size:29 final size:30
Alignment explanation
Indices: 3876792--3876859 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
3876782 TAAAGGAGAT
3876792 GGGGACCGGG-AAAAACCGTTTATGCTAAAC
1 GGGGA-CGGGAAAAAACCGTTTATGCTAAAC
* *
3876822 GGGGACGGGAAAAAACCGTTTATGTTAAAT
1 GGGGACGGGAAAAAACCGTTTATGCTAAAC
*
3876852 AGGGACGG
1 GGGGACGG
3876860 AGACGAGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.18
Consensus pattern (30 bp):
GGGGACGGGAAAAAACCGTTTATGCTAAAC
Found at i:3876984 original size:38 final size:40
Alignment explanation
Indices: 3876935--3877022 Score: 144
Period size: 38 Copynumber: 2.2 Consensus size: 40
3876925 TAATTATTAT
3876935 ATATATATATAATATTAATAAATTTAATTTAAAT-T-TAA
1 ATATATATATAATATTAATAAATTTAATTTAAATATATAA
* *
3876973 ATATATATATAATATTTATATATTTAATTTAAATATATAA
1 ATATATATATAATATTAATAAATTTAATTTAAATATATAA
3877013 ATATATATAT
1 ATATATATAT
3877023 CCGGCCCGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 32 0.70
39 1 0.02
40 13 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (40 bp):
ATATATATATAATATTAATAAATTTAATTTAAATATATAA
Found at i:3876986 original size:32 final size:33
Alignment explanation
Indices: 3876939--3877011 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 33
3876929 TATTATATAT
3876939 ATATATAATATTAATAAATTTA-AT-TTAAATTTAA
1 ATATAT-ATATTAAT--ATTTATATATTAAATTTAA
*
3876973 ATATATATA-TAATATTTATATATTTAATTTAA
1 ATATATATATTAATATTTATATATTAAATTTAA
3877005 ATATATA
1 ATATATA
3877012 AATATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 5 0.14
31 2 0.06
32 20 0.56
33 3 0.08
34 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
ATATATATATTAATATTTATATATTAAATTTAA
Found at i:3882824 original size:24 final size:24
Alignment explanation
Indices: 3882796--3882854 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
3882786 CTTTAAGTTC
* *
3882796 CCTCCGTTGCCGAAGTGGCACCAT
1 CCTCCATTGCCGAAGTGGAACCAT
*
3882820 CCTCCATTGCCTAAGTGGAACCAT
1 CCTCCATTGCCGAAGTGGAACCAT
*
3882844 CCTCCTTTGCC
1 CCTCCATTGCC
3882855 AACGTTTCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.17, C:0.39, G:0.19, T:0.25
Consensus pattern (24 bp):
CCTCCATTGCCGAAGTGGAACCAT
Found at i:3883025 original size:57 final size:57
Alignment explanation
Indices: 3882916--3883253 Score: 424
Period size: 57 Copynumber: 5.9 Consensus size: 57
3882906 CCCTCCCATC
* * * * * * * * * *
3882916 TACAAGAAACCTCTTCCACCCCCGGTTCCGGTGTACAAGCCCCCGCCAGTTCCTGTA
1 TACAAAAAACCACTTCCTCCACCTGTTCCGGTCTATAAACCTCCTCCAGTTCCTGTA
** * * * *
3882973 TATGAAAAACCACTTCCTCCACCTGTTCCAGTTTATAAACCTCCTCCTGTTCCTGTT
1 TACAAAAAACCACTTCCTCCACCTGTTCCGGTCTATAAACCTCCTCCAGTTCCTGTA
* * *
3883030 TACAAAAAACCACTCCCTCCACCTGTTCCGGTCTATGAACCTCCTCCAGTTCCAGTA
1 TACAAAAAACCACTTCCTCCACCTGTTCCGGTCTATAAACCTCCTCCAGTTCCTGTA
* * *
3883087 TACAAAAAACCACTTCCTCCACCTGTTCCGGTTTATAAACCTCCTCCTGTTCCTGTT
1 TACAAAAAACCACTTCCTCCACCTGTTCCGGTCTATAAACCTCCTCCAGTTCCTGTA
* * *
3883144 TACAAAAAACCACTCCCTCCACCTGTTCCGGTCTATGAACCTCCTCCAGTTCCAGTA
1 TACAAAAAACCACTTCCTCCACCTGTTCCGGTCTATAAACCTCCTCCAGTTCCTGTA
* * *
3883201 TACAAAAAACCACTTCCTCCACCTGTTCCAGTCTATAAGCCTCCACCAGTTCC
1 TACAAAAAACCACTTCCTCCACCTGTTCCGGTCTATAAACCTCCTCCAGTTCC
3883254 AGTCTATAAG
Statistics
Matches: 240, Mismatches: 41, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 240 1.00
ACGTcount: A:0.25, C:0.38, G:0.11, T:0.27
Consensus pattern (57 bp):
TACAAAAAACCACTTCCTCCACCTGTTCCGGTCTATAAACCTCCTCCAGTTCCTGTA
Found at i:3883055 original size:33 final size:32
Alignment explanation
Indices: 3883012--3883172 Score: 102
Period size: 33 Copynumber: 5.4 Consensus size: 32
3883002 AGTTTATAAA
*
3883012 CCTCCTCCTGTTCCTGTTTACAAAAAACCACT
1 CCTCCACCTGTTCCTGTTTACAAAAAACCACT
* * **
3883044 CCCTCCACCTGTTCC-G-GT-CTATGAA-C-CT
1 -CCTCCACCTGTTCCTGTTTACAAAAAACCACT
* *
3883072 CCTCCA---GTTCCAGTATACAAAAAACCACTT
1 CCTCCACCTGTTCCTGTTTACAAAAAACCAC-T
* *
3883102 CCTCCACCTGTTCCGGTTT---ATAAA-C-CT
1 CCTCCACCTGTTCCTGTTTACAAAAAACCACT
3883129 CCT---CCTGTTCCTGTTTACAAAAAACCACT
1 CCTCCACCTGTTCCTGTTTACAAAAAACCACT
3883158 CCCTCCACCTGTTCC
1 -CCTCCACCTGTTCC
3883173 GGTCTATGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 36
0.66 0.10 0.25
Matches are distributed among these distances:
24 17 0.18
25 1 0.01
26 1 0.01
27 18 0.19
28 5 0.05
29 5 0.05
30 18 0.19
31 1 0.01
32 1 0.01
33 29 0.30
ACGTcount: A:0.23, C:0.39, G:0.09, T:0.29
Consensus pattern (32 bp):
CCTCCACCTGTTCCTGTTTACAAAAAACCACT
Found at i:3883088 original size:114 final size:114
Alignment explanation
Indices: 3882961--3883253 Score: 514
Period size: 114 Copynumber: 2.6 Consensus size: 114
3882951 CAAGCCCCCG
* **
3882961 CCAGTTCCTGTATATGAAAAACCACTTCCTCCACCTGTTCCAGTTTATAAACCTCCTCCTGTTCC
1 CCAGTTCCAGTATACAAAAAACCACTTCCTCCACCTGTTCCAGTTTATAAACCTCCTCCTGTTCC
3883026 TGTTTACAAAAAACCACTCCCTCCACCTGTTCCGGTCTATGAACCTCCT
66 TGTTTACAAAAAACCACTCCCTCCACCTGTTCCGGTCTATGAACCTCCT
*
3883075 CCAGTTCCAGTATACAAAAAACCACTTCCTCCACCTGTTCCGGTTTATAAACCTCCTCCTGTTCC
1 CCAGTTCCAGTATACAAAAAACCACTTCCTCCACCTGTTCCAGTTTATAAACCTCCTCCTGTTCC
3883140 TGTTTACAAAAAACCACTCCCTCCACCTGTTCCGGTCTATGAACCTCCT
66 TGTTTACAAAAAACCACTCCCTCCACCTGTTCCGGTCTATGAACCTCCT
* * * *
3883189 CCAGTTCCAGTATACAAAAAACCACTTCCTCCACCTGTTCCAGTCTATAAGCCTCCACCAGTTCC
1 CCAGTTCCAGTATACAAAAAACCACTTCCTCCACCTGTTCCAGTTTATAAACCTCCTCCTGTTCC
3883254 AGTCTATAAG
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 170 1.00
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.29
Consensus pattern (114 bp):
CCAGTTCCAGTATACAAAAAACCACTTCCTCCACCTGTTCCAGTTTATAAACCTCCTCCTGTTCC
TGTTTACAAAAAACCACTCCCTCCACCTGTTCCGGTCTATGAACCTCCT
Found at i:3883243 original size:24 final size:24
Alignment explanation
Indices: 3883216--3883280 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
3883206 AAAACCACTT
*
3883216 CCTCCACCTGTTCCAGTCTATAAG
1 CCTCCACCAGTTCCAGTCTATAAG
3883240 CCTCCACCAGTTCCAGTCTATAAG
1 CCTCCACCAGTTCCAGTCTATAAG
3883264 CCTCCACCAGTTCCAGT
1 CCTCCACCAGTTCCAGT
3883281 ATACAAGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.22, C:0.40, G:0.12, T:0.26
Consensus pattern (24 bp):
CCTCCACCAGTTCCAGTCTATAAG
Found at i:3883247 original size:81 final size:81
Alignment explanation
Indices: 3883159--3883319 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 81
3883149 AAAACCACTC
* * *
3883159 CCTCCACCTGTTCCGGTCTATGAA-CCTCCTCCAGTTCCAGTATACAAAAAACCACTTCCTCCAC
1 CCTCCACCAGTTCCAGTCTAT-AAGCCTCCACCAGTTCCAGTATACAAAAAACCACTTCCTCCAC
* *
3883223 CTGTTCCAGTCTATAAG
65 CAGTTCCAGTATATAAG
* *
3883240 CCTCCACCAGTTCCAGTCTATAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACC
1 CCTCCACCAGTTCCAGTCTATAAGCCTCCACCAGTTCCAGTATACAAAAAACCACTTCCTCCACC
3883305 AGTTCCAGTATATAA
66 AGTTCCAGTATATAA
3883320 AAAGCCACTT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.03
81 70 0.97
ACGTcount: A:0.27, C:0.37, G:0.11, T:0.25
Consensus pattern (81 bp):
CCTCCACCAGTTCCAGTCTATAAGCCTCCACCAGTTCCAGTATACAAAAAACCACTTCCTCCACC
AGTTCCAGTATATAAG
Found at i:3883294 original size:24 final size:24
Alignment explanation
Indices: 3883243--3883294 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
3883233 CTATAAGCCT
* * ***
3883243 CCACCAGTTCCAGTCTATAAGCCT
1 CCACCAGTTCCAGTATACAAGAAG
3883267 CCACCAGTTCCAGTATACAAGAAG
1 CCACCAGTTCCAGTATACAAGAAG
3883291 CCAC
1 CCAC
3883295 TTCCTCCACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.37, G:0.13, T:0.19
Consensus pattern (24 bp):
CCACCAGTTCCAGTATACAAGAAG
Found at i:3883301 original size:33 final size:33
Alignment explanation
Indices: 3883264--3883377 Score: 201
Period size: 33 Copynumber: 3.5 Consensus size: 33
3883254 AGTCTATAAG
3883264 CCTCCACCAGTTCCAGTATACAAGAAGCCACTT
1 CCTCCACCAGTTCCAGTATACAAGAAGCCACTT
* *
3883297 CCTCCACCAGTTCCAGTATATAAAAAGCCACTT
1 CCTCCACCAGTTCCAGTATACAAGAAGCCACTT
*
3883330 CCTCCCCCAGTTCCAGTATACAAGAAGCCACTT
1 CCTCCACCAGTTCCAGTATACAAGAAGCCACTT
3883363 CCTCCACCAGTTCCA
1 CCTCCACCAGTTCCA
3883378 ATCTATAAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.29, C:0.39, G:0.11, T:0.22
Consensus pattern (33 bp):
CCTCCACCAGTTCCAGTATACAAGAAGCCACTT
Found at i:3883303 original size:57 final size:57
Alignment explanation
Indices: 3883240--3883467 Score: 303
Period size: 57 Copynumber: 3.8 Consensus size: 57
3883230 AGTCTATAAG
*
3883240 CCTCCACCAGTTCCAGTCTATAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTT
1 CCTCCACCAGTTCCAATCTATAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTT
* * *
3883297 CCTCCACCAGTTCCAGTATATAAAAAGCCACTTCCTCCCCCAGTTCCAGTATACAAGAAGCCACT
1 CCTCCACCAGTTCCA--ATCT-ATAAG------CCTCCACCAGTTCCAGTATACAAGAAGCCACT
3883362 T
57 T
*
3883363 CCTCCACCAGTTCCAATCTATAAGCCTCCGCCAGTTCCAGTATACAAGAAGCCACTT
1 CCTCCACCAGTTCCAATCTATAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTT
* * *
3883420 CCTCCACCAGTTCCAATCTATAAACCTCCTCCAGTTCCAGTCTACAAG
1 CCTCCACCAGTTCCAATCTATAAGCCTCCACCAGTTCCAGTATACAAG
3883468 CCTCCAGTCT
Statistics
Matches: 152, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
57 92 0.61
59 2 0.01
60 4 0.03
63 4 0.03
64 3 0.02
66 47 0.31
ACGTcount: A:0.29, C:0.37, G:0.11, T:0.23
Consensus pattern (57 bp):
CCTCCACCAGTTCCAATCTATAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTT
Found at i:3883370 original size:66 final size:66
Alignment explanation
Indices: 3883264--3883605 Score: 281
Period size: 66 Copynumber: 5.4 Consensus size: 66
3883254 AGTCTATAAG
*
3883264 CCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAGTATATAAAAAGCCACT
1 CCTCCGCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAGTATATAAAAAGCCACT
3883329 T
66 T
* * *
3883330 CCTCCCCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCA--ATCT-ATAAG-----
1 CCTCCGCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAGTATATAAAAAGCCACT
3883387 -
66 T
* *
3883387 CCTCCGCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCA--ATCTATAAA--C-C-
1 CCTCCGCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAGTATATAAAAAGCCACT
3883446 T
66 T
* *** * * *
3883447 CCT---CCAGTTCCAGTCTACAAGCCTCCAGTCTATAAAACTCCTCCGGTTCCAGTATATAAGAA
1 CCTCCGCCAGTTCCAGTATACAAGAAGCCA--CT-T---CCTCCACCAGTTCCAGTATATAA-AA
3883509 A-CCACTT
59 AGCCACTT
* * * * * * *
3883516 CCTCCGCCAGTTCCAGTATATAAGAAGCCATTTCCTCCACCAGTTCCGGTGTACAAGAAGCGACT
1 CCTCCGCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAGTATATAAAAAGCCACT
3883581 T
66 T
* * *
3883582 CCTCCTCCAGTTCCAATCTACAAG
1 CCTCCGCCAGTTCCAGTATACAAG
3883606 CCTCCACCAG
Statistics
Matches: 223, Mismatches: 33, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
57 71 0.32
58 2 0.01
59 2 0.01
60 4 0.02
63 16 0.07
64 3 0.01
65 6 0.03
66 92 0.41
67 1 0.00
68 1 0.00
69 5 0.02
70 1 0.00
72 19 0.09
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.24
Consensus pattern (66 bp):
CCTCCGCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAGTATATAAAAAGCCACT
T
Found at i:3883390 original size:24 final size:24
Alignment explanation
Indices: 3883363--3883473 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 24
3883353 GAAGCCACTT
3883363 CCTCCACCAGTTCCAATCTATAAG
1 CCTCCACCAGTTCCAATCTATAAG
* * *
3883387 CCTCCGCCAGTTCCAGTATACAAGAAG
1 CCTCCACCAGTTCCA--AT-CTATAAG
*
3883414 CCACTTCCTCCACCAGTTCCAATCTATAAA
1 ------CCTCCACCAGTTCCAATCTATAAG
* * *
3883444 CCTCCTCCAGTTCCAGTCTACAAG
1 CCTCCACCAGTTCCAATCTATAAG
3883468 CCTCCA
1 CCTCCA
3883474 GTCTATAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
24 39 0.59
26 2 0.03
27 5 0.08
30 4 0.06
31 2 0.03
33 14 0.21
ACGTcount: A:0.27, C:0.40, G:0.10, T:0.23
Consensus pattern (24 bp):
CCTCCACCAGTTCCAATCTATAAG
Found at i:3883531 original size:33 final size:33
Alignment explanation
Indices: 3883492--3883596 Score: 138
Period size: 33 Copynumber: 3.2 Consensus size: 33
3883482 AACTCCTCCG
* *
3883492 GTTCCAGTATATAAGAAACCACTTCCTCCGCCA
1 GTTCCAGTATATAAGAAGCCACTTCCTCCACCA
*
3883525 GTTCCAGTATATAAGAAGCCATTTCCTCCACCA
1 GTTCCAGTATATAAGAAGCCACTTCCTCCACCA
* * * * *
3883558 GTTCCGGTGTACAAGAAGCGACTTCCTCCTCCA
1 GTTCCAGTATATAAGAAGCCACTTCCTCCACCA
3883591 GTTCCA
1 GTTCCA
3883597 ATCTACAAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (33 bp):
GTTCCAGTATATAAGAAGCCACTTCCTCCACCA
Found at i:3883532 original size:219 final size:219
Alignment explanation
Indices: 3883251--3883676 Score: 645
Period size: 219 Copynumber: 1.9 Consensus size: 219
3883241 CTCCACCAGT
** *
3883251 TCCAGTCTATAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAGTAT
1 TCCAGTCTATAAAACTCCACCAGTTCCAGTATACAAGAAACCACTTCCTCCACCAGTTCCAGTAT
*
3883316 ATAAAAAGCCACTTCCTCCCCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATC
66 ATAAAAAGCCACTTCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATC
* * *
3883381 TATAAGCCTCCGCCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATCTATAAACC
131 TACAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATCTACAAACC
*
3883446 TCCTCCAGTTCCAGTCTACAAGCC
196 TCCGCCAGTTCCAGTCTACAAGCC
* * * *
3883470 TCCAGTCTATAAAACTCCTCCGGTTCCAGTATATAAGAAACCACTTCCTCCGCCAGTTCCAGTAT
1 TCCAGTCTATAAAACTCCACCAGTTCCAGTATACAAGAAACCACTTCCTCCACCAGTTCCAGTAT
* * * * * *
3883535 ATAAGAAGCCATTTCCTCCACCAGTTCCGGTGTACAAGAAGCGACTTCCTCCTCCAGTTCCAATC
66 ATAAAAAGCCACTTCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATC
* * * * *
3883600 TACAAGCCTCCACCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAGCC
131 TACAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATCTACAAACC
3883665 TCCGCCAGTTCC
196 TCCGCCAGTTCC
3883677 GGTGTATAAG
Statistics
Matches: 184, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
219 184 1.00
ACGTcount: A:0.27, C:0.36, G:0.12, T:0.24
Consensus pattern (219 bp):
TCCAGTCTATAAAACTCCACCAGTTCCAGTATACAAGAAACCACTTCCTCCACCAGTTCCAGTAT
ATAAAAAGCCACTTCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATC
TACAAGCCTCCACCAGTTCCAGTATACAAGAAGCCACTTCCTCCACCAGTTCCAATCTACAAACC
TCCGCCAGTTCCAGTCTACAAGCC
Found at i:3883604 original size:33 final size:33
Alignment explanation
Indices: 3883484--3883605 Score: 136
Period size: 33 Copynumber: 3.7 Consensus size: 33
3883474 GTCTATAAAA
* * *
3883484 CTCCTCCGGTTCCAGTATATAAGAAACCACTTC
1 CTCCTCCAGTTCCAGTATACAAGAAGCCACTTC
* * *
3883517 CTCCGCCAGTTCCAGTATATAAGAAGCCATTTC
1 CTCCTCCAGTTCCAGTATACAAGAAGCCACTTC
* * * *
3883550 CTCCACCAGTTCCGGTGTACAAGAAGCGACTTC
1 CTCCTCCAGTTCCAGTATACAAGAAGCCACTTC
* *
3883583 CTCCTCCAGTTCCAATCTACAAG
1 CTCCTCCAGTTCCAGTATACAAG
3883606 CCTCCACCAG
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (33 bp):
CTCCTCCAGTTCCAGTATACAAGAAGCCACTTC
Found at i:3883766 original size:57 final size:57
Alignment explanation
Indices: 3883549--3883745 Score: 340
Period size: 57 Copynumber: 3.5 Consensus size: 57
3883539 GAAGCCATTT
* *
3883549 CCTCCACCAGTTCCGGTGTACAAGAAGCGACTTCCTCCTCCAGTTCCAATCTACAAG
1 CCTCCACCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAG
3883606 CCTCCACCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAG
1 CCTCCACCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAG
*
3883663 CCTCCGCCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAG
1 CCTCCACCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAG
* * *
3883720 CCTCCTCCAGTTCCCGTATATAAGAA
1 CCTCCACCAGTTCCGGTGTATAAGAA
3883746 ACCATTGCCT
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 134 1.00
ACGTcount: A:0.24, C:0.37, G:0.15, T:0.24
Consensus pattern (57 bp):
CCTCCACCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAG
Found at i:3883775 original size:114 final size:114
Alignment explanation
Indices: 3883549--3883781 Score: 333
Period size: 114 Copynumber: 2.0 Consensus size: 114
3883539 GAAGCCATTT
*
3883549 CCTCCACCAGTTCCGGTGTACAAGAAGCGACTTCCTCCTCCAGTTCCAATCTACAAGCCTCCACC
1 CCTCCACCAGTTCCGGTGTACAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAGCCTCCACC
* * * * *
3883614 AGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAG
66 AGTTCCCGTATATAAGAAACCACTTCCTCCACCAGTTCCAATCTACAAA
* * *
3883663 CCTCCGCCAGTTCCGGTGTATAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAGCCTCCTCC
1 CCTCCACCAGTTCCGGTGTACAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAGCCTCCACC
* ** *
3883728 AGTTCCCGTATATAAGAAACCA-TTGCCTCCACCCGTTCCGGTGTACAAA
66 AGTTCCCGTATATAAGAAACCACTT-CCTCCACCAGTTCCAATCTACAAA
3883777 CCTCC
1 CCTCC
3883782 TGTATACGAA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
113 2 0.02
114 103 0.98
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.24
Consensus pattern (114 bp):
CCTCCACCAGTTCCGGTGTACAAGAAGCCACTTCCTCCTCCAGTTCCAATCTACAAGCCTCCACC
AGTTCCCGTATATAAGAAACCACTTCCTCCACCAGTTCCAATCTACAAA
Found at i:3883906 original size:18 final size:18
Alignment explanation
Indices: 3883883--3883918 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
3883873 TACAAGCCAC
3883883 TCCCTCCACTTCCC-AAGA
1 TCCCTCCA-TTCCCTAAGA
3883901 TCCCTCCATTCCCTAAGA
1 TCCCTCCATTCCCTAAGA
3883919 AGCCATGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.22, C:0.47, G:0.06, T:0.25
Consensus pattern (18 bp):
TCCCTCCATTCCCTAAGA
Found at i:3883964 original size:18 final size:18
Alignment explanation
Indices: 3883927--3883967 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3883917 GAAGCCATGC
* *
3883927 CCTCCCCTTCCTAACCTT
1 CCTCCCCTTCCCAACATT
*
3883945 CCTCCCCTTCCCAAGATT
1 CCTCCCCTTCCCAACATT
3883963 CCTCC
1 CCTCC
3883968 AAAGAATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.56, G:0.02, T:0.29
Consensus pattern (18 bp):
CCTCCCCTTCCCAACATT
Found at i:3884041 original size:57 final size:57
Alignment explanation
Indices: 3883926--3884034 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
3883916 AGAAGCCATG
* * *
3883926 CCCTCCCCTTCCTAACCTTCCTCCCCTTCCCAAGATTCCTCCAAAGAATTTCGCCCA
1 CCCTCCCCTACCAAACCTTCCTCCCCTTCCCAAGATTCCTCCAAAGAACTTCGCCCA
* * * *
3883983 CCCTCCCCTACCAAAGCTTCCTCCTC-TCCCGAAGATTCCTCCCAAGTACTTC
1 CCCTCCCCTACCAAACCTTCCTCCCCTTCCC-AAGATTCCTCCAAAGAACTTC
3884035 CACCACCACC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 4 0.09
57 40 0.91
ACGTcount: A:0.19, C:0.49, G:0.06, T:0.26
Consensus pattern (57 bp):
CCCTCCCCTACCAAACCTTCCTCCCCTTCCCAAGATTCCTCCAAAGAACTTCGCCCA
Found at i:3885392 original size:23 final size:23
Alignment explanation
Indices: 3885297--3885385 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
3885287 TATTTATTTC
* *
3885297 TCACGAACATGTTCGTTTAATGT
1 TCACGAACGTGTTCGTTTAATAT
*
3885320 TCAC-AATCGTGTTTGTTTATATAT
1 TCACGAA-CGTGTTCGTTTA-ATAT
* * * *
3885344 CCATGAACGTGTTCATTTAACAT
1 TCACGAACGTGTTCGTTTAATAT
*
3885367 TCACGAACGTGTTTGTTTA
1 TCACGAACGTGTTCGTTTA
3885386 GTGTTCATTT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
22 2 0.04
23 32 0.63
24 15 0.29
25 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (23 bp):
TCACGAACGTGTTCGTTTAATAT
Found at i:3885753 original size:3 final size:3
Alignment explanation
Indices: 3885742--3885802 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
3885732 TTTTTTTCCG
** *
3885742 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3885787 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
3885803 CATATTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3885808 original size:28 final size:28
Alignment explanation
Indices: 3885748--3885813 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
3885738 TCCGTTATTT
* *
3885748 TATTATTATTATTATTATTATCGTTATCT
1 TATTATT-TTATTATTATTATCATTATCA
*
3885777 TATTATTTTATTATTATTTATTATTA-CA
1 TATTATTTTATTATTA-TTATCATTATCA
*
3885805 TATTTTTTT
1 TATTATTTT
3885814 GCAGGCCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 18 0.56
29 14 0.44
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (28 bp):
TATTATTTTATTATTATTATCATTATCA
Found at i:3888325 original size:22 final size:22
Alignment explanation
Indices: 3888300--3888343 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3888290 TCAAACGATG
*
3888300 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
3888322 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
3888344 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:3890644 original size:15 final size:14
Alignment explanation
Indices: 3890611--3890647 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
3890601 GGATCAATAT
3890611 TTTTGCATC-TGCA
1 TTTTGCATCTTGCA
3890624 -TTTGCATCTTTGCA
1 TTTTGCATC-TTGCA
3890638 TTTTGCATCT
1 TTTTGCATCT
3890648 GTATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (14 bp):
TTTTGCATCTTGCA
Found at i:3893745 original size:104 final size:100
Alignment explanation
Indices: 3893603--3893839 Score: 268
Period size: 104 Copynumber: 2.3 Consensus size: 100
3893593 TGAGAATTTT
*
3893603 AAAACAAA-TTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTGT-GAATTTGATTCA
1 AAAACAAATTTG-G-CTCGCTTGAGACATTTTCCCTTTGAGATACAAATT-TCGAATTTG-TTCA
*
3893666 C-TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
62 CATT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* *
3893708 AAAACAAATTTGGCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTCACATT
1 AAAACAAATTTGGCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGTTCACATT
* *
3893773 AAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 AAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
* *
3893808 AAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTGGCTCGCTTGAGACATTTTC
3893840 TCTAAAAACA
Statistics
Matches: 117, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
99 2 0.02
100 8 0.07
101 24 0.21
102 4 0.03
103 26 0.22
104 41 0.35
105 9 0.08
106 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (100 bp):
AAAACAAATTTGGCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGTTCACATT
AAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:3893830 original size:36 final size:36
Alignment explanation
Indices: 3893785--3893868 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
3893775 ACAAAGTTGA
**
3893785 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
3893821 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
3893857 TCTCA-TTGAGAC
1 TCTCACTTGAGAC
3893869 TATCTTAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 14 0.33
36 28 0.67
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:3894213 original size:28 final size:27
Alignment explanation
Indices: 3894171--3894266 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 27
3894161 TTTCTCTTGG
*
3894171 AAAAATCTTTGAGTTGTTCATTTGAAT
1 AAAAATCTTTGAGTTGTTCTTTTGAAT
*
3894198 AAAAATCCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAAT-CTTTGAG-TTGTT-CTTTTGAAT
*
3894228 AAATATCTTTGAGTTGTTTCTTTTG---
1 AAAAATCTTTGAGTTG-TTCTTTTGAAT
3894253 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
3894267 CTATTTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
25 13 0.22
27 6 0.10
28 15 0.25
29 13 0.22
30 13 0.22
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (27 bp):
AAAAATCTTTGAGTTGTTCTTTTGAAT
Found at i:3894241 original size:29 final size:27
Alignment explanation
Indices: 3894137--3894283 Score: 126
Period size: 27 Copynumber: 5.5 Consensus size: 27
3894127 CTTAAAGACA
*
3894137 TTCTTTT--AAAAATATTTGAGTTTGT
1 TTCTTTTGAAAAAATCTTTGAGTTTGT
* *
3894162 TTCTCTTGGAAAAATCTTTGAG-TTG-
1 TTCTTTTGAAAAAATCTTTGAGTTTGT
* *
3894187 TTCATTTGAATAAAAATCCTTGGAGTTTGT
1 TTCTTTTG-A-AAAAAT-CTTTGAGTTTGT
*
3894217 TCCTTTTGAATAAATATCTTTGAG-TTGT
1 TTCTTTTGAA-AAA-ATCTTTGAGTTTGT
* *
3894245 TTCTTTTG-AAAAATCTTTGAGTCTAT
1 TTCTTTTGAAAAAATCTTTGAGTTTGT
*
3894271 TTATTTTGAAAAA
1 TTCTTTTGAAAAA
3894284 GTTTTGTCTC
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
25 21 0.21
26 15 0.15
27 23 0.23
28 18 0.18
29 13 0.13
30 8 0.08
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (27 bp):
TTCTTTTGAAAAAATCTTTGAGTTTGT
Found at i:3894257 original size:55 final size:52
Alignment explanation
Indices: 3894137--3894259 Score: 124
Period size: 55 Copynumber: 2.3 Consensus size: 52
3894127 CTTAAAGACA
* * *
3894137 TTCTTTT-AAAAAT-ATTTGAGTTTGTTTCTCTTGGAAAAATCTTTGAGTTG
1 TTCTTTTGAAAAATCATTGGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTG
* * *
3894187 TTCATTTGAATAAAAATCCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTG
1 TTCTTTTG---AAAAATCATTGGAGTTTGTTCCTCTTGAA-AAA-ATCTTTGAGTTG
3894244 TTTCTTTTGAAAAATC
1 -TTCTTTTGAAAAATC
3894260 TTTGAGTCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
50 6 0.10
54 6 0.10
55 24 0.41
56 3 0.05
57 12 0.21
58 7 0.12
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.48
Consensus pattern (52 bp):
TTCTTTTGAAAAATCATTGGAGTTTGTTCCTCTTGAAAAAATCTTTGAGTTG
Found at i:3894266 original size:25 final size:25
Alignment explanation
Indices: 3894137--3894283 Score: 118
Period size: 26 Copynumber: 5.5 Consensus size: 25
3894127 CTTAAAGACA
*
3894137 TTCTTTT-AAAAATATTTGAGTTTGT
1 TTCTTTTGAAAAATCTTTGAG-TTGT
*
3894162 TTCTCTTGGAAAAATCTTTGAGTTG-
1 TTCT-TTTGAAAAATCTTTGAGTTGT
* *
3894187 TTCATTTGAATAAAAATCCTTGGAGTTTGT
1 TTCTTTTG---AAAAAT-CTTTGAG-TTGT
*
3894217 TCCTTTTGAATAAATATCTTTGAGTTGT
1 TTCTTTTG-A-AAA-ATCTTTGAGTTGT
*
3894245 TTCTTTTGAAAAATCTTTGAGTCTAT
1 TTCTTTTGAAAAATCTTTGAGT-TGT
*
3894271 TTATTTTGAAAAA
1 TTCTTTTGAAAAA
3894284 GTTTTGTCTC
Statistics
Matches: 99, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
24 3 0.03
25 17 0.17
26 22 0.22
27 19 0.19
28 18 0.18
29 12 0.12
30 8 0.08
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (25 bp):
TTCTTTTGAAAAATCTTTGAGTTGT
Found at i:3894425 original size:85 final size:89
Alignment explanation
Indices: 3894325--3894540 Score: 386
Period size: 85 Copynumber: 2.5 Consensus size: 89
3894315 GCTTTGAGTC
*
3894325 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTG
1 TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTG
3894390 AAAAATC-TTGAGTCTA-TTA-TT
66 AAAAATCTTTGAGTCTATTTATTT
3894411 TGAAACAAAG-TTTGTTTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTG
1 TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTG
3894475 AAAAATCTTTGAGTCTATTTATTT
66 AAAAATCTTTGAGTCTATTTATTT
*
3894499 TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTCGTGAAAAA
1 TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTTGTGAAAAA
3894541 TCCTTGAGTC
Statistics
Matches: 124, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
85 60 0.48
86 19 0.15
87 3 0.02
88 12 0.10
89 30 0.24
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (89 bp):
TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTG
AAAAATCTTTGAGTCTATTTATTT
Found at i:3894499 original size:26 final size:26
Alignment explanation
Indices: 3894449--3894503 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
3894439 ATTTTGTGAA
* *
3894449 AAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAATCTTTGAGATTATTTATTTTG
3894475 AAAAATCTTTGAG-TCTATTTATTTTG
1 AAAAATCTTTGAGAT-TATTTATTTTG
3894501 AAA
1 AAA
3894504 CAAAGTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (26 bp):
AAAAATCTTTGAGATTATTTATTTTG
Found at i:3894592 original size:52 final size:53
Alignment explanation
Indices: 3894499--3894601 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 53
3894489 CTATTTATTT
**
3894499 TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTCG-TGAAAAATCCTTGAGTC
1 TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTCGAAAAAAAATCCTTGAGTC
* *
3894551 TGAAACAAAGTTTTGTCTT-TCTTGAGACAATTTTGAAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGT-TTCTCTTGAGACAATTTCGAAAAAAAATCCTTGAG
3894602 ATGTTTCTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
52 31 0.69
53 14 0.31
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTTTCTCTTGAGACAATTTCGAAAAAAAATCCTTGAGTC
Found at i:3894624 original size:26 final size:26
Alignment explanation
Indices: 3894588--3894642 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
3894578 CAATTTTGAA
*
3894588 AAAAAATCTTTGAGATGTTTCTTTTG
1 AAAAAATCTTTGAGATGTTTCTTTGG
*
3894614 AAAAAATCTTTGAGTTGTTTCTTTGG
1 AAAAAATCTTTGAGATGTTTCTTTGG
3894640 AAA
1 AAA
3894643 CAAAATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (26 bp):
AAAAAATCTTTGAGATGTTTCTTTGG
Found at i:3894678 original size:140 final size:141
Alignment explanation
Indices: 3894411--3894690 Score: 390
Period size: 139 Copynumber: 2.0 Consensus size: 141
3894401 GTCTATTATT
*
3894411 TGAAACAAAGTTTGTTTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGA
1 TGAAACAAAGTTTGTTTCTCTTGAGACAATTTTGTAAAAAAAATCTTTGAGATTGTTTCTTTTGA
* * * *
3894476 AAAATCTTTGAGTCTATTTATTTTGAAACAAAGTTTTGTTTCTCTTGAGACAATTTCGTG-AAAA
66 AAAATCTTTGAGTCTATTTATTTGGAAACAAAATTTTGTCTCTCTTAAGACAATTTCGTGAAAAA
3894540 ATCCTTGAGTC
131 ATCCTTGAGTC
3894551 TGAAACAAAGTTTTGTCTT-TCTTGAGACAATTTTG-AAAAAAAATCTTTGAGA-TGTTTCTTTT
1 TGAAACAAAG-TTTGT-TTCTCTTGAGACAATTTTGTAAAAAAAATCTTTGAGATTGTTTCTTTT
* * * **
3894613 GAAAAAATCTTTGAGT-TGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGA
64 G-AAAAATCTTTGAGTCTATTTATTTGGAAACAAAATTTTGTCTCTCTTAAGACAATT-TCGTGA
*
3894677 AAAAATCTTTGAGT
127 AAAAATCCTTGAGT
3894691 TTGTTCTTTG
Statistics
Matches: 124, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
139 45 0.36
140 43 0.35
141 34 0.27
142 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (141 bp):
TGAAACAAAGTTTGTTTCTCTTGAGACAATTTTGTAAAAAAAATCTTTGAGATTGTTTCTTTTGA
AAAATCTTTGAGTCTATTTATTTGGAAACAAAATTTTGTCTCTCTTAAGACAATTTCGTGAAAAA
ATCCTTGAGTC
Found at i:3894724 original size:61 final size:63
Alignment explanation
Indices: 3894606--3894824 Score: 333
Period size: 61 Copynumber: 3.5 Consensus size: 63
3894596 TTTGAGATGT
3894606 TTCTTTTGAAAAAATCTTTGAG-TTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTCTTTTGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
3894668 TTCTTTTGAAAAAATCTTTGAGTTTG-TTCTTTGGAAACAAAA-TTTGTCTCTCTTAAGATAA
1 TTCTTTTGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
3894729 TTCTTTTGAAACAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTC-T-A-AT
1 TTCTTTTG----AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
3894791 AA
62 AA
* *
3894793 TTTCTTTTGAAAAAATCTTTGAATCTGTTTCT
1 -TTCTTTTGAAAAAATCTTTGAGTTTGTTTCT
3894825 CTTAAAATGA
Statistics
Matches: 147, Mismatches: 2, Indels: 17
0.89 0.01 0.10
Matches are distributed among these distances:
61 48 0.33
62 38 0.26
63 3 0.02
64 4 0.03
65 27 0.18
66 17 0.12
67 10 0.07
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (63 bp):
TTCTTTTGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:3894785 original size:65 final size:64
Alignment explanation
Indices: 3894614--3894807 Score: 276
Period size: 65 Copynumber: 3.0 Consensus size: 64
3894604 GTTTCTTTTG
3894614 AAAAAATCTTTGAG-TTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTG--
1 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTG--TCTCTTAAGATAATTCTTTTGAA
3894676 -
64 A
*
3894676 AAAAAATCTTTGAGTTTG-TTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTCTTTTGAAA
1 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTT-TGTCTCTTAAGATAATTCTTTTGAAA
3894740 CAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT-A-ATAATTTCTTTTGA
1 -AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCT-TAAGATAA-TTCTTTTGA
3894803 AA
63 AA
3894805 AAA
1 AAA
3894808 TCTTTGAATC
Statistics
Matches: 121, Mismatches: 2, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
61 21 0.17
62 33 0.27
63 4 0.03
64 7 0.06
65 36 0.30
66 20 0.17
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (64 bp):
AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTAAGATAATTCTTTTGAAA
Found at i:3894866 original size:128 final size:127
Alignment explanation
Indices: 3894614--3894866 Score: 325
Period size: 128 Copynumber: 2.0 Consensus size: 127
3894604 GTTTCTTTTG
3894614 AAAAAATCTTTGAGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAA
1 AAAAAATCTTTGAGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAA
* * * * * *
3894679 AAATCTTTGAGTTTGTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTCTTTTGAAAC
66 AAATCTTTGAATCTGTTCTTTGAAAACAAAATTTGTATCTCTTAAGACAATTCTCTTGAAAC
3894741 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTC-T-A-ATAATTTCTTTTGA
1 AAAAAATCTTTGAG-TTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA-TTCTTTTGA
** * * * *
3894803 AAAAATCTTTGAATCTGTTTCTCTT-AAAATGAATTTTGTATCTCTTGAGGCAGTCTCTCTTGAA
64 AAAAATCTTTGAATCTG-TTCT-TTGAAAACAAAATTTGTATCTCTTAAGACAAT-TCTCTTGAA
3894867 GTAAATCTTT
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
125 4 0.04
126 25 0.23
127 39 0.36
128 41 0.38
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (127 bp):
AAAAAATCTTTGAGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAA
AAATCTTTGAATCTGTTCTTTGAAAACAAAATTTGTATCTCTTAAGACAATTCTCTTGAAAC
Found at i:3895158 original size:62 final size:62
Alignment explanation
Indices: 3895043--3895165 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 62
3895033 AGATGGATTC
* * * *
3895043 ATCTTTGAGTATGTTTCTTTTGAAACAAAATTTATCTCTTAAAGACGATTTCTTTTGAAAAA
1 ATCTGTGAGTATGTTTCCTTTGAAACAAAATTTATCTCTTAAAGACAACTTCTTTTGAAAAA
* * **
3895105 ATCTGTGAGTTTGTTTCCTTTGAAACAAAATTT-TGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTGTGAGTATGTTTCCTTTGAAACAAAATTTATCTCT-TAAAGACAACTTCTTTTGAAAA
3895166 TACCAACTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 4 0.08
62 48 0.92
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (62 bp):
ATCTGTGAGTATGTTTCCTTTGAAACAAAATTTATCTCTTAAAGACAACTTCTTTTGAAAAA
Found at i:3895891 original size:40 final size:40
Alignment explanation
Indices: 3895830--3896062 Score: 126
Period size: 40 Copynumber: 5.6 Consensus size: 40
3895820 TGGCCAGCCG
* *
3895830 TCCTCATCATGTAGGAACCGTGTCATCCCCAGATCAGAGC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCAGAGC
* * ** * *
3895870 TCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCA-GAG-C
* * * * *
3895912 GTCCTCATCACGTGGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC--CAGAT---CAGAGC
* * ** * * *
3895959 TCTTCATCACGTATGAGCCGTGTCATCAGCTGACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCAGAGC
* ** * *
3895999 TCCTCATCACGTA-GAGCCGTGTCAACCATAGATAACCAGC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCA-GAGC
*
3896039 GTCCTCATCACGTAGGAACCGTGT
1 -TCCTCATCACGTAGGAGCCGTGT
3896063 TATCACCTAA
Statistics
Matches: 142, Mismatches: 39, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
39 15 0.11
40 48 0.34
41 15 0.11
42 9 0.06
43 24 0.17
44 1 0.01
46 27 0.19
47 1 0.01
48 1 0.01
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
TCCTCATCACGTAGGAGCCGTGTCATCCCCAGATCAGAGC
Found at i:3895980 original size:46 final size:45
Alignment explanation
Indices: 3895817--3896112 Score: 162
Period size: 46 Copynumber: 6.9 Consensus size: 45
3895807 TAAATCCTAA
* * * *
3895817 AGATGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATC-CC-C
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACCTT
* * *
3895860 AGAT---CAGAGCTCTTCATCACGTAGGAGCCGTGTCA--ACCAT
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
** * * * *
3895900 AGATAACCAG-CCGTCCTCATCACGTGGGAACCGTGTTATCACCTTT
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACC-TT
* * *
3895946 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC-T
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
* *
3895990 -GA---CCAGATCTCCTCATCACGTA-GAGCCGTGTCA--ACCAT
1 AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
** * * *
3896028 AGATAACCAG--CGTCCTCATCACGTAGGAACCGTGTTATCACCTA
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATCACCTT
* * * **
3896072 AGATGGCCAAGAACTCTTCATCATGTATGAGTAGTGTCATC
1 AGATGGCC-AGAACTCCTCATCACGTAGGAGCCGTGTCATC
3896113 CTTCGACCAG
Statistics
Matches: 194, Mismatches: 36, Indels: 43
0.71 0.13 0.16
Matches are distributed among these distances:
37 2 0.01
38 1 0.01
39 15 0.08
40 48 0.25
41 14 0.07
42 14 0.07
43 30 0.15
44 10 0.05
45 5 0.03
46 53 0.27
47 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
AGATGGCCAGAACTCCTCATCACGTAGGAGCCGTGTCATCACCTT
Found at i:3896085 original size:127 final size:128
Alignment explanation
Indices: 3895864--3896139 Score: 416
Period size: 127 Copynumber: 2.2 Consensus size: 128
3895854 ATCCCCAGAT
* *
3895864 CAGAGCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTGGGA
1 CAGATCTCTTCATCACGTA-GAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGA
* *
3895929 ACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC-T-GA
65 ACCGTGTTATCACCTTAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATC--CTTCGA
3895992 C
128 C
*
3895993 CAGATCTCCTCATCACGTAGAGCCGTGTCAACCATAGATAACCAG-CGTCCTCATCACGTAGGAA
1 CAGATCTCTTCATCACGTAGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAA
* *
3896057 CCGTGTTATCACC-TAAGATGGCCAAGAACTCTTCATCATGTATGAGTAGTGTCATCCTTCGAC
66 CCGTGTTATCACCTTAAGATGGCC-AGAACTCTTCATCACGTATGAGCAGTGTCATCCTTCGAC
*
3896120 CAGATGTCTTCATCACGTAG
1 CAGATCTCTTCATCACGTAG
3896140 GAACCATGTC
Statistics
Matches: 135, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
125 1 0.01
126 10 0.07
127 81 0.60
128 26 0.19
129 17 0.13
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (128 bp):
CAGATCTCTTCATCACGTAGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAA
CCGTGTTATCACCTTAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCTTCGAC
Found at i:3896179 original size:127 final size:125
Alignment explanation
Indices: 3895864--3896179 Score: 314
Period size: 127 Copynumber: 2.5 Consensus size: 125
3895854 ATCCCCAGAT
* * * * * ** *
3895864 CAGAGCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTGGGA
1 CAGATCTCCTCATCACGTA-GAACCATGTCAACCATAGACAACCA--CGAACTCATCACGTAGGA
* *
3895929 ACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGCTGAC
63 ACCGTGTTATCACCTTAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCA-CTGAC
* * * **
3895993 CAGATCTCCTCATCACGTAGAGCCGTGTCAACCATAGATAACCAGCGTCCTCATCACGTAGGAAC
1 CAGATCTCCTCATCACGTAGAACCATGTCAACCATAGACAACCA-CGAACTCATCACGTAGGAAC
* *
3896058 CGTGTTATCACC-TAAGATGGCCAAGAACTCTTCATCATGTATGAGTAGTGTCATC-CTTCGAC
65 CGTGTTATCACCTTAAGATGGCC-AGAACTCTTCATCACGTATGAGCAGTGTCATCAC-T-GAC
* * * * * *
3896120 CAGATGTCTTCATCACGTAGGAACCATGTCATCCTTAGACGACC-CGAACTCTTCTACGTA
1 CAGATCTCCTCATCACGTA-GAACCATGTCAACCATAGACAACCACGAACTCATC-ACGTA
3896180 TGAGCAGTGT
Statistics
Matches: 163, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
125 1 0.01
126 17 0.10
127 85 0.52
128 43 0.26
129 17 0.10
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (125 bp):
CAGATCTCCTCATCACGTAGAACCATGTCAACCATAGACAACCACGAACTCATCACGTAGGAACC
GTGTTATCACCTTAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCACTGAC
Found at i:3896361 original size:3 final size:3
Alignment explanation
Indices: 3896350--3896408 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
3896340 TTTTTTTCCG
** *
3896350 TTA TT- TTA TTA TTA TTA -TA TTA TTA TCG TTA -TC TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
3896393 TTA TTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA
3896409 CATATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 5 0.11
3 34 0.76
4 6 0.13
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3896367 original size:14 final size:14
Alignment explanation
Indices: 3896350--3896408 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
3896340 TTTTTTTCCG
3896350 TTATTTTATTATTA
1 TTATTTTATTATTA
* **
3896364 TTATATTATTATCG
1 TTATTTTATTATTA
*
3896378 TTATCTTATTATTTA
1 TTATTTTATTA-TTA
*
3896393 TTATTAT-TTATTA
1 TTATTTTATTATTA
3896406 TTA
1 TTA
3896409 CATATTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
13 6 0.17
14 24 0.67
15 6 0.17
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:3896407 original size:17 final size:17
Alignment explanation
Indices: 3896354--3896407 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
3896344 TTTCCGTTAT
3896354 TTTATTATTATTATATTA
1 TTTATTATTATT-TATTA
**
3896372 -TTATCGTTATCTTATTA
1 TTTATTATTAT-TTATTA
3896389 TTTATTATTATTTATTA
1 TTTATTATTATTTATTA
3896406 TT
1 TT
3896408 ACATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 21 0.70
18 9 0.30
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTATTATTTATTA
Found at i:3896632 original size:9 final size:9
Alignment explanation
Indices: 3896618--3896642 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3896608 TCGTCATCTA
3896618 CAGAAAAAT
1 CAGAAAAAT
3896627 CAGAAAAAT
1 CAGAAAAAT
3896636 CAGAAAA
1 CAGAAAA
3896643 CAGAGAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.08
Consensus pattern (9 bp):
CAGAAAAAT
Found at i:3899718 original size:3 final size:3
Alignment explanation
Indices: 3899710--3899734 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3899700 ATATAAATTA
3899710 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
3899735 TAACAGGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3900071 original size:2 final size:2
Alignment explanation
Indices: 3900057--3900093 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
3900047 TATTTACTTA
*
3900057 AT AT AT TT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3900094 TTAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3908180 original size:17 final size:17
Alignment explanation
Indices: 3908160--3908197 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
3908150 GTTAATTCGG
3908160 TCGGCCACCAAATTAGT
1 TCGGCCACCAAATTAGT
3908177 TCGGCCACCAAATTAGT
1 TCGGCCACCAAATTAGT
3908194 TCGG
1 TCGG
3908198 TCGGTTAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (17 bp):
TCGGCCACCAAATTAGT
Done.