Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 157 of 205
Found at i:46987528 original size:37 final size:37
Alignment explanation
Indices: 46987458--46987640 Score: 104
Period size: 37 Copynumber: 4.7 Consensus size: 37
46987448 TTATTATTAA
*
46987458 ATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAATAAAATTCATAATATTAAATATTCTT
* * *
46987495 ATATGAATTTACTAAAA-TCATAATA-TATAATATTATAAA
1 ATAT-AATTTAATAAAATTCATAATATTA-AATATTCT--T
* * * ****
46987534 ATGTAATTTAAAATAATTATTATT-AAATATAATTTAATAAAAAT
1 ATATAATTT--AATAA--A--ATTCATA-AT-ATTAAATATTCTT
*
46987578 ATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATATAATTTAATAAAATTCATAATATTAAATATTCTT
*
46987615 ATATGAATTTACTAAAA-TCATAATAT
1 ATAT-AATTTAATAAAATTCATAATAT
46987641 ATAATACTAT
Statistics
Matches: 108, Mismatches: 22, Indels: 32
0.67 0.14 0.20
Matches are distributed among these distances:
36 2 0.02
37 38 0.35
38 32 0.30
39 4 0.04
40 5 0.05
42 6 0.06
44 11 0.10
45 3 0.03
46 6 0.06
47 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (37 bp):
ATATAATTTAATAAAATTCATAATATTAAATATTCTT
Found at i:46987579 original size:59 final size:59
Alignment explanation
Indices: 46987516--46987704 Score: 213
Period size: 59 Copynumber: 3.2 Consensus size: 59
46987506 CTAAAATCAT
*
46987516 AATATATAATATTATAAAATGTAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
* * * * * ** * *
46987575 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATATT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
*
46987636 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
46987695 AATATATAAT
1 AATATATAAT
46987705 TCCCCCACGT
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
58 4 0.04
59 45 0.44
60 16 0.16
61 35 0.34
62 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (59 bp):
AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
Found at i:46987615 original size:120 final size:120
Alignment explanation
Indices: 46987458--46987705 Score: 478
Period size: 120 Copynumber: 2.1 Consensus size: 120
46987448 TTATTATTAA
46987458 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
46987523 AATATTATAAAATGTAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
46987578 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
46987643 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
46987698 ATATAATT
1 ATATAATT
46987706 CCCCCACGTT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 126 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:46988612 original size:12 final size:12
Alignment explanation
Indices: 46988595--46988621 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46988585 AGAAACCGTG
46988595 AAAACATTTTAT
1 AAAACATTTTAT
46988607 AAAACATTTTAT
1 AAAACATTTTAT
46988619 AAA
1 AAA
46988622 CCATGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAACATTTTAT
Found at i:46997976 original size:15 final size:15
Alignment explanation
Indices: 46997956--46998005 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
46997946 TGTAGTTGAA
46997956 GATGACGACGACAAC
1 GATGACGACGACAAC
* *
46997971 GATGACGACGACGAT
1 GATGACGACGACAAC
* *
46997986 GATGACGATGACAAG
1 GATGACGACGACAAC
46998001 GATGA
1 GATGA
46998006 AGATGATGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.32, T:0.12
Consensus pattern (15 bp):
GATGACGACGACAAC
Found at i:47001425 original size:5 final size:5
Alignment explanation
Indices: 47001417--47001444 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
47001407 ATATAATATA
47001417 ATAGT ATAGT ATAGT ATAGT ATAGT ATA
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATA
47001445 TAATGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (5 bp):
ATAGT
Found at i:47003233 original size:30 final size:29
Alignment explanation
Indices: 47003184--47003255 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
47003174 ACGAATAAAA
*
47003184 ATATATAAATATAAATAAA-TAAATATTTTT
1 ATATATAAAT-TAAATAAATTAAATA-ATTT
*
47003214 ATATGTAAATTAAATTAAATTAAATAATTT
1 ATATATAAATTAAA-TAAATTAAATAATTT
*
47003244 ATATTTAAATTA
1 ATATATAAATTA
47003256 TTGAATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 4 0.11
30 27 0.73
31 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATATAAATTAAATAAATTAAATAATTT
Found at i:47003720 original size:20 final size:20
Alignment explanation
Indices: 47003672--47003720 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
47003662 ATTAAAGGGG
47003672 AAATTAAATCAATTTGATTA
1 AAATTAAATCAATTTGATTA
*
47003692 AAATCAAATCTAA-TTGATTA
1 AAATTAAATC-AATTTGATTA
*
47003712 GAATTAAAT
1 AAATTAAAT
47003721 AAAATCAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (20 bp):
AAATTAAATCAATTTGATTA
Found at i:47006434 original size:42 final size:43
Alignment explanation
Indices: 47006338--47006563 Score: 341
Period size: 43 Copynumber: 5.3 Consensus size: 43
47006328 CGTTTTTTTT
* * *
47006338 ACAAACGCCACTATAGATCAAGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
*
47006381 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCAC-TTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
47006423 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
* *
47006466 ACAAACGCCGCTATAAATCAGGACCTTTAGCTA-CGTTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGC-AGCGCTTTTCCC
* **
47006509 ACAAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTTTTTC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
47006551 ACAAACGCCGCTA
1 ACAAACGCCGCTA
47006564 AAAGTGCCAT
Statistics
Matches: 168, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
42 71 0.42
43 96 0.57
44 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
Found at i:47006437 original size:85 final size:86
Alignment explanation
Indices: 47006338--47006563 Score: 350
Period size: 85 Copynumber: 2.7 Consensus size: 86
47006328 CGTTTTTTTT
* *
47006338 ACAAACGCCACTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGG
1 ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
47006403 ACCTTTAGC-A-GCACTTTCCC
66 ACCTTTAGCTACG-ACTTTCCC
* *
47006423 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
1 ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
**
47006488 ACCTTTAGCTACGTTTTTCCC
66 ACCTTTAGCTACGACTTTCCC
**
47006509 ACAAACGCCGCTATAGATC-AGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTA
1 ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
47006564 AAAGTGCCAT
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
85 102 0.79
86 26 0.20
87 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (86 bp):
ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
ACCTTTAGCTACGACTTTCCC
Found at i:47007137 original size:21 final size:21
Alignment explanation
Indices: 47007074--47007128 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
47007064 TCTGCCTTCT
47007074 TTGAGTAACTACATGGCAATC
1 TTGAGTAACTACATGGCAATC
47007095 TTGAGTAACTACATGGCAATC
1 TTGAGTAACTACATGGCAATC
47007116 TTGAGTAACTACA
1 TTGAGTAACTACA
47007129 GTAGCATCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (21 bp):
TTGAGTAACTACATGGCAATC
Found at i:47009664 original size:57 final size:57
Alignment explanation
Indices: 47009551--47009664 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
47009541 CTCCACTCCA
* **
47009551 ACATTTACAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTGTGCTGC
1 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTCAGCTGC
* *
47009608 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGACAG-GCTTTTCTTCAGCTGC
1 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAG-CAGAGCTCTTATTCAGCTGC
47009665 TCTTCAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 48 0.94
58 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (57 bp):
ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTCAGCTGC
Found at i:47011225 original size:110 final size:111
Alignment explanation
Indices: 47011048--47011314 Score: 310
Period size: 110 Copynumber: 2.4 Consensus size: 111
47011038 TATATAAGAA
* *
47011048 CTTATTTAGTATATAAATTAAAAAATATTAATTAATCTAAACCTTAAACCCTAACCCGACCCCGA
1 CTTATTTAATATATAAATT-AAAAATACTAATTAATCTAAACCTTAAACCCTAACCCGACCCCGA
*
47011113 ATCTCTAAACCCTAAATCAC-TAA-CTA-TT-AACCCCAAACCCCTAAAC
65 ATCTCT-AACCCTAAA-C-CTTAACCAACTTGAACCCCAAACCCCTAAAC
* **
47011159 CTTATTTAATATATAAATTAAAAATACTAATTAATCTAAATCC-TAAACCCTAACCTGACCTTGA
1 CTTATTTAATATATAAATTAAAAATACTAATTAATCTAAA-CCTTAAACCCTAACCCGACCCCGA
* * * * *
47011223 ATCTCTAACCCTAAACCTTAACCCAACCTTGAATCTCTAACCCTTAAAT
65 ATCTCTAACCCTAAACCTTAA-CCAA-CTTGAACCCCAAACCCCTAAAC
* *
47011272 ATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACC
1 CTTATTTAATATATAAATTAAAA-ATACTAATTAATCTAAACC
47011315 ATAACCTGAC
Statistics
Matches: 135, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
107 1 0.01
108 4 0.03
109 9 0.07
110 46 0.34
111 20 0.15
112 2 0.01
113 37 0.27
114 16 0.12
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (111 bp):
CTTATTTAATATATAAATTAAAAATACTAATTAATCTAAACCTTAAACCCTAACCCGACCCCGAA
TCTCTAACCCTAAACCTTAACCAACTTGAACCCCAAACCCCTAAAC
Found at i:47011236 original size:32 final size:32
Alignment explanation
Indices: 47011200--47011266 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
47011190 TAATCTAAAT
**
47011200 CCTAAACCCTAACCTGACCTTGAATCTCTAAC
1 CCTAAACCCTAACCCAACCTTGAATCTCTAAC
*
47011232 CCTAAACCTTAACCCAACCTTGAATCTCTAAC
1 CCTAAACCCTAACCCAACCTTGAATCTCTAAC
47011264 CCT
1 CCT
47011267 TAAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.39, G:0.04, T:0.25
Consensus pattern (32 bp):
CCTAAACCCTAACCCAACCTTGAATCTCTAAC
Found at i:47011372 original size:7 final size:7
Alignment explanation
Indices: 47011360--47011393 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
47011350 TAACTGATCT
*
47011360 TAACCTC
1 TAACCCC
*
47011367 TAACCTC
1 TAACCCC
47011374 TAACCCC
1 TAACCCC
47011381 TAACCCC
1 TAACCCC
47011388 TAACCC
1 TAACCC
47011394 ATAAACCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:47012309 original size:41 final size:41
Alignment explanation
Indices: 47012250--47012367 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
47012240 TTTTATTATT
* *
47012250 ATTAGCGGCGCTTTTTCAAAAAACGCTGCTAAAGGTC-GAGC
1 ATTAGCGGCGCTTTTTC-AAAAACGCAGCTAAAGGCCAGAGC
* *
47012291 ATTAGAGGCGCTTCTTCAAAAACGCAGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCAGCTAAAGGCCAGAGC
*
47012332 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTTTTCAAAAACGCAGCTAAAGGCC
47012368 CCAAAAACTC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 17 0.25
41 52 0.75
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCAGCTAAAGGCCAGAGC
Found at i:47012464 original size:39 final size:38
Alignment explanation
Indices: 47012421--47012536 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 38
47012411 GGCGCTTTTT
* *
47012421 AAAAAACGCCGCTAATGCTTATTTTTAGTGGGGCTTTCC
1 AAAAAGCGCCGCTAATGCTTATTTTTAGTGGCG-TTTCC
* ** * **
47012460 AAAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTT
1 AAAAAGCGCCGCTAATGCT-TATTTTTAGTGGCGTTTCC
47012499 ATAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTT
1 A-AAAAGCGCCGCTAATGCTT-ATTTTTAGTGGCGTTT
47012537 TTTGTCTAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
39 22 0.35
40 40 0.65
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (38 bp):
AAAAAGCGCCGCTAATGCTTATTTTTAGTGGCGTTTCC
Found at i:47016832 original size:42 final size:42
Alignment explanation
Indices: 47016785--47016869 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
47016775 GCTTAAGACT
*
47016785 TAAAACTTAATATATTTATTTTTTTATTTACATAGTTTTTTA
1 TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
47016827 TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
1 TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
47016869 T
1 T
47016870 TGAAGCAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (42 bp):
TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
Found at i:47020188 original size:32 final size:34
Alignment explanation
Indices: 47020128--47020193 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 34
47020118 AAACCACTTG
47020128 AGTTCAAACTCTCAGGAGAGCAAGTGGAAAATCCT
1 AGTTCAAACTCTCA-GAGAGCAAGTGGAAAATCCT
47020163 AGTTCAAACTCTC-GAG-GCAAGTGGAAAATCC
1 AGTTCAAACTCTCAGAGAGCAAGTGGAAAATCC
47020194 CCATCTAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 15 0.48
33 3 0.10
35 13 0.42
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (34 bp):
AGTTCAAACTCTCAGAGAGCAAGTGGAAAATCCT
Found at i:47029830 original size:21 final size:21
Alignment explanation
Indices: 47029804--47029848 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
47029794 CTCCAACAGC
47029804 TTTCTTCCTCATTGTTCTTCA
1 TTTCTTCCTCATTGTTCTTCA
47029825 TTTCTTCCTCATTGTTCTTCA
1 TTTCTTCCTCATTGTTCTTCA
47029846 TTT
1 TTT
47029849 ATCTTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.27, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTCTTCCTCATTGTTCTTCA
Found at i:47036211 original size:17 final size:18
Alignment explanation
Indices: 47036181--47036214 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47036171 ATTTAAATTG
47036181 CGGTCGCAGTCGCGTTTT
1 CGGTCGCAGTCGCGTTTT
47036199 CGGTCGC-GTCGCGTTT
1 CGGTCGCAGTCGCGTTT
47036215 ATCGCGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.03, C:0.29, G:0.35, T:0.32
Consensus pattern (18 bp):
CGGTCGCAGTCGCGTTTT
Found at i:47036810 original size:18 final size:18
Alignment explanation
Indices: 47036789--47036829 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
47036779 TAATTGATAT
* *
47036789 GGAGGATATATTTGAGGA
1 GGAGGATACATGTGAGGA
*
47036807 GGAGGATACATGTGAGGT
1 GGAGGATACATGTGAGGA
47036825 GGAGG
1 GGAGG
47036830 TGGGTGATAC
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:0.29, C:0.02, G:0.46, T:0.22
Consensus pattern (18 bp):
GGAGGATACATGTGAGGA
Found at i:47036858 original size:18 final size:18
Alignment explanation
Indices: 47036789--47036860 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
47036779 TAATTGATAT
* * *
47036789 GGAGGATATATTTGAGGA
1 GGAGGATACATTAGTGGA
47036807 GGAGGATACATGTGAGGTGGA
1 GGAGGATACAT-T-A-GTGGA
*
47036828 GGTGGGTGATACATTAGTGGA
1 -G-GAG-GATACATTAGTGGA
47036849 GGAGGATACATT
1 GGAGGATACATT
47036861 TGAGGCTGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 18 0.42
19 3 0.07
20 1 0.02
21 9 0.21
22 2 0.05
23 3 0.07
24 7 0.16
ACGTcount: A:0.29, C:0.04, G:0.42, T:0.25
Consensus pattern (18 bp):
GGAGGATACATTAGTGGA
Found at i:47038547 original size:37 final size:36
Alignment explanation
Indices: 47038479--47038596 Score: 135
Period size: 37 Copynumber: 3.5 Consensus size: 36
47038469 AACTATAAAG
* *
47038479 GCCGAATGC--ACAT-TTTCACTTATACCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
47038512 GCCGAATGCATACATATATACACTTATATCTACCTAT
1 GCCGAATGCATACATATAT-CACTTATATCCACCTAT
47038549 GCCGAATGCATACA-A-AT-A--TATATCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
47038580 GCCGAATGCCTACATAT
1 GCCGAATGCATACATAT
47038597 GCACACATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
31 25 0.34
32 1 0.01
33 10 0.14
35 6 0.08
36 3 0.04
37 29 0.39
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (36 bp):
GCCGAATGCATACATATATCACTTATATCCACCTAT
Found at i:47038831 original size:41 final size:41
Alignment explanation
Indices: 47038781--47038956 Score: 289
Period size: 41 Copynumber: 4.3 Consensus size: 41
47038771 AATTCATCAT
* *
47038781 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
47038822 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
47038863 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
47038904 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
47038945 ATTCAAATCACC
1 ATTCAGATCACC
47038957 AATTCCAAAC
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 125 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:47038924 original size:82 final size:82
Alignment explanation
Indices: 47038787--47038956 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
47038777 TCATATTCGG
47038787 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
*
47038852 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAA
47038869 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
47038934 TTTATAACCTGATTCAA
66 TTTATAACCTGATTCAA
47038951 ATCACC
1 ATCACC
47038957 AATTCCAAAC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAA
Found at i:47039211 original size:15 final size:17
Alignment explanation
Indices: 47039170--47039213 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
47039160 TTGTTCGATC
47039170 CACATATATATATTACA
1 CACATATATATATTACA
*
47039187 CACATATATATATT-CG
1 CACATATATATATTACA
47039203 CACAT-TATATA
1 CACATATATATA
47039214 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:47040920 original size:18 final size:18
Alignment explanation
Indices: 47040897--47040968 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
47040887 ACCAGCTTCA
47040897 AATGTATCCTCCTCCACC
1 AATGTATCCTCCTCCACC
*
47040915 AATGTATCACCCACCTCCACCTC
1 AATGTAT---CCTCCTCCA-C-C
* *
47040938 ACATGTATCCTCCTCCTCA
1 A-ATGTATCCTCCTCCACC
*
47040957 AATATATCCTCC
1 AATGTATCCTCC
47040969 ATATCAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 17 0.40
19 1 0.02
20 1 0.02
21 15 0.35
22 1 0.02
23 2 0.05
24 6 0.14
ACGTcount: A:0.25, C:0.43, G:0.04, T:0.28
Consensus pattern (18 bp):
AATGTATCCTCCTCCACC
Found at i:47040955 original size:24 final size:22
Alignment explanation
Indices: 47040903--47040955 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
47040893 TTCAAATGTA
47040903 TCCTCCTCCACCAATGTATCAC
1 TCCTCCTCCACCAATGTATCAC
*
47040925 -CCACCTCCACCTCACATGTATC-C
1 TCCTCCTCCA-C-CA-ATGTATCAC
47040948 TCCTCCTC
1 TCCTCCTC
47040956 AAATATATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 3 0.12
24 13 0.52
ACGTcount: A:0.19, C:0.51, G:0.04, T:0.26
Consensus pattern (22 bp):
TCCTCCTCCACCAATGTATCAC
Found at i:47041817 original size:17 final size:18
Alignment explanation
Indices: 47041795--47041828 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47041785 CGACCGCGAT
47041795 AAACGCGA-CGCGACCGA
1 AAACGCGACCGCGACCGA
47041812 AAACGCGACCGCGACCG
1 AAACGCGACCGCGACCG
47041829 TAATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.38, G:0.29, T:0.00
Consensus pattern (18 bp):
AAACGCGACCGCGACCGA
Found at i:47045470 original size:21 final size:21
Alignment explanation
Indices: 47045444--47045487 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
47045434 AGACGAGCAA
* *
47045444 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47045465 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47045486 TA
1 TA
47045488 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:47056791 original size:40 final size:41
Alignment explanation
Indices: 47056701--47056792 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
47056691 CCATTTTTCG
**
47056701 GGAAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGTGTCA
1 GGAAATCGCGTCCACGTCAGCGCGATGTCA-GGTACGTGGAA
* *
47056743 GGACATCGCGTCCACGTCAGCGCGACCTG-C-TG-ACGTGGAA
1 GGAAATCGCGTCCACGTCAGCGCGA--TGTCAGGTACGTGGAA
47056783 GGAAATCGCG
1 GGAAATCGCG
47056793 CCCTCAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 15 0.35
41 1 0.02
42 24 0.56
43 1 0.02
44 2 0.05
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (41 bp):
GGAAATCGCGTCCACGTCAGCGCGATGTCAGGTACGTGGAA
Found at i:47060781 original size:9 final size:9
Alignment explanation
Indices: 47060769--47060820 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
47060759 AAATTAATCA
47060769 AATTAAACG
1 AATTAAACG
47060778 AATTAAACG
1 AATTAAACG
*
47060787 AATTAACCG
1 AATTAAACG
*
47060796 AATT-ACCTG
1 AATTAAAC-G
*
47060805 AATTAACCG
1 AATTAAACG
47060814 AATTAAA
1 AATTAAA
47060821 TCACTACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 3 0.08
9 33 0.85
10 3 0.08
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAAACG
Found at i:47060783 original size:18 final size:18
Alignment explanation
Indices: 47060760--47060800 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
47060750 TTTGGTTAAA
*
47060760 AATTAATCAAATTAAACG
1 AATTAAACAAATTAAACG
* *
47060778 AATTAAACGAATTAACCG
1 AATTAAACAAATTAAACG
47060796 AATTA
1 AATTA
47060801 CCTGAATTAA
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:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (18 bp):
AATTAAACAAATTAAACG
Found at i:47060791 original size:27 final size:27
Alignment explanation
Indices: 47060760--47060819 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
47060750 TTTGGTTAAA
*
47060760 AATTAATCAAATTAAAC-GAATTAAACG
1 AATTAACCAAATT-AACTGAATTAAACG
* * *
47060787 AATTAACCGAATTACCTGAATTAACCG
1 AATTAACCAAATTAACTGAATTAAACG
47060814 AATTAA
1 AATTAA
47060820 ATCACTACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTAACCAAATTAACTGAATTAAACG
Found at i:47060982 original size:18 final size:18
Alignment explanation
Indices: 47060956--47060999 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47060946 AATTTTTGTG
* *
47060956 ATTGTGTTGAGTTGGGTA
1 ATTGGGTTGAGTTGGATA
*
47060974 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGAGTTGGATA
*
47060992 TTTGGGTT
1 ATTGGGTT
47061000 TGGATTAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (18 bp):
ATTGGGTTGAGTTGGATA
Found at i:47061169 original size:82 final size:82
Alignment explanation
Indices: 47061073--47061257 Score: 370
Period size: 82 Copynumber: 2.3 Consensus size: 82
47061063 CGGTTAAACC
47061073 GAAAAAATTCGGTTAACCGACTGGTTTCAAACCGAATTAACCGTTAACCGAAAAATCAAAAATAA
1 GAAAAAATTCGGTTAACCGACTGGTTTCAAACCGAATTAACCGTTAACCGAAAAATCAAAAATAA
47061138 TTAACCGACCCCCGACT
66 TTAACCGACCCCCGACT
47061155 GAAAAAATTCGGTTAACCGACTGGTTTCAAACCGAATTAACCGTTAACCGAAAAATCAAAAATAA
1 GAAAAAATTCGGTTAACCGACTGGTTTCAAACCGAATTAACCGTTAACCGAAAAATCAAAAATAA
47061220 TTAACCGACCCCCGACT
66 TTAACCGACCCCCGACT
47061237 GAAAAAATTCGGTTAACCGAC
1 GAAAAAATTCGGTTAACCGAC
47061258 CGATTAACCG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 103 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.21
Consensus pattern (82 bp):
GAAAAAATTCGGTTAACCGACTGGTTTCAAACCGAATTAACCGTTAACCGAAAAATCAAAAATAA
TTAACCGACCCCCGACT
Found at i:47067535 original size:6 final size:6
Alignment explanation
Indices: 47067524--47067558 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
47067514 AAACAAAAGT
47067524 AAACTC AAACTC AAAACTC AAACTC AAACTC AAAC
1 AAACTC AAACTC -AAACTC AAACTC AAACTC AAAC
47067559 AGAAGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (6 bp):
AAACTC
Found at i:47067540 original size:13 final size:12
Alignment explanation
Indices: 47067524--47067558 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
47067514 AAACAAAAGT
47067524 AAACTCAAACTC
1 AAACTCAAACTC
47067536 AAAACTCAAACTC
1 -AAACTCAAACTC
47067549 AAACTCAAAC
1 AAACTCAAAC
47067559 AGAAGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (12 bp):
AAACTCAAACTC
Found at i:47088019 original size:5 final size:5
Alignment explanation
Indices: 47088009--47088034 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47087999 TAGAGAGATC
47088009 GGTCG GGTCG GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTCG GGTCG GGTCG G
47088035 CTCATCTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.62, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:47090278 original size:22 final size:22
Alignment explanation
Indices: 47090253--47090308 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
47090243 TTTGTTGCCG
*
47090253 TTTTGATGTTATTTTACTATTA
1 TTTTGATGTTATATTACTATTA
* * *
47090275 TTTTGCTATTATATTATTATTA
1 TTTTGATGTTATATTACTATTA
47090297 TTTT-ATGGTTAT
1 TTTTGAT-GTTAT
47090309 CATTTGGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTTGATGTTATATTACTATTA
Found at i:47090302 original size:11 final size:11
Alignment explanation
Indices: 47090261--47090301 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
47090251 CGTTTTGATG
47090261 TTATTTTACTA
1 TTATTTTACTA
*
47090272 TTATTTTGCTA
1 TTATTTTACTA
* *
47090283 TTATATTATTA
1 TTATTTTACTA
47090294 TTATTTTA
1 TTATTTTA
47090302 TGGTTATCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (11 bp):
TTATTTTACTA
Found at i:47096135 original size:2 final size:2
Alignment explanation
Indices: 47096128--47096160 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
47096118 TGTCAGTGAT
*
47096128 TC TC TC TC TC AC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
47096161 TACAGTGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:47098933 original size:43 final size:43
Alignment explanation
Indices: 47098872--47098960 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
47098862 TTTTTCTTAT
47098872 TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
1 TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
*
47098915 TTTGATGGCATTATATATGAACTGTGGGAGTAGCATTTAAAAA
1 TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
47098958 TTT
1 TTT
47098961 CTTTTCTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (43 bp):
TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
Found at i:47101511 original size:17 final size:17
Alignment explanation
Indices: 47101491--47101527 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47101481 TTTTTATTCC
47101491 TATGA-TATGATTATTAT
1 TATGATTAT-ATTATTAT
47101508 TATGATTATATTATTAT
1 TATGATTATATTATTAT
47101525 TAT
1 TAT
47101528 TGTAGTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (17 bp):
TATGATTATATTATTAT
Found at i:47103132 original size:6 final size:6
Alignment explanation
Indices: 47103121--47103161 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
47103111 ATTTTATGTT
47103121 TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA T-CAAA T-CAAA T
1 TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA T
47103162 AACTCATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (6 bp):
TCCAAA
Found at i:47103671 original size:30 final size:31
Alignment explanation
Indices: 47103611--47103690 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
47103601 CATAAAATAC
* *
47103611 TTTAAA-AACTTAA-AT-ATAAAAAATGGTA
1 TTTAAATAATTTAATATAATAAAAAATGATA
47103639 TTTAAATAATTTAATATAATAAAAAAT-ATA
1 TTTAAATAATTTAATATAATAAAAAATGATA
*
47103669 TTTAAATAATTTAGTATAATAA
1 TTTAAATAATTTAATATAATAA
47103691 TACATAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 6 0.13
29 6 0.13
30 25 0.54
31 9 0.20
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATAAAAAATGATA
Found at i:47104076 original size:30 final size:31
Alignment explanation
Indices: 47104040--47104187 Score: 193
Period size: 30 Copynumber: 5.0 Consensus size: 31
47104030 AATTTTTTTG
*
47104040 CATTTTGACTCCTAAACTTTTCT-AAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
*
47104070 CATTTTGACCTCTAAACTTTT-TCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
**
47104100 CATTTCAACCCCTAAACTTTT-T--AAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
47104128 CATTTTGACCCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
* *
47104158 CATTTTAACTCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
47104188 TAATTTTGCC
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 22 0.21
29 1 0.01
30 79 0.75
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (31 bp):
CATTTTGACCCCTAAACTTTTCTCAAAATTA
Found at i:47104137 original size:58 final size:60
Alignment explanation
Indices: 47104050--47104187 Score: 210
Period size: 58 Copynumber: 2.3 Consensus size: 60
47104040 CATTTTGACT
* *
47104050 CCTAAACTTTTCTAAAATTACATTTTGACCTCTAAACTTTTTCAAAATTACATTTCAACC
1 CCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACC
* *
47104110 CCTAAACTTTT-T-AAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACT
1 CCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACC
47104168 CCTAAAC-TTTCTCAAAATTA
1 CCTAAACTTTTCT-AAAATTA
47104188 TAATTTTGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
57 3 0.04
58 50 0.70
59 1 0.01
60 17 0.24
ACGTcount: A:0.36, C:0.23, G:0.01, T:0.40
Consensus pattern (60 bp):
CCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACC
Found at i:47104209 original size:88 final size:88
Alignment explanation
Indices: 47104040--47104209 Score: 220
Period size: 88 Copynumber: 1.9 Consensus size: 88
47104030 AATTTTTTTG
* * * *
47104040 CATTTTGACTCCTAAACTTTTCTAAAATTACATTTTGACCTCTAAACTTTTTCAAAATTACATTT
1 CATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCTCTAAACTTTCTCAAAATTAAATTT
* *
47104105 CAACCCCTAAACTTTTTAAATTA
66 CAACCCCAAAAATTTTTAAATTA
47104128 CATTTTGACCCCTAAAC-TTTCTCAAAATTACATTTTAA-CTCCTAAACTTTCTCAAAATTATAA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTACATTTTAACCT-CTAAACTTTCTCAAAATTA-AA
**
47104191 TTT-TGCCCCAAAAATTTTT
63 TTTCAACCCCAAAAATTTTT
47104210 CTGCGTTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
87 7 0.10
88 60 0.85
89 4 0.06
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.41
Consensus pattern (88 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCTCTAAACTTTCTCAAAATTAAATTT
CAACCCCAAAAATTTTTAAATTA
Found at i:47104420 original size:27 final size:27
Alignment explanation
Indices: 47104390--47104443 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
47104380 AAGGGGAGCA
*
47104390 AAAAAAAAGAAAGAAAAAAACAGCAGC
1 AAAAAAAAGAAAAAAAAAAACAGCAGC
* **
47104417 AAAAACACTAAAAAAAAAAACAGCAGC
1 AAAAAAAAGAAAAAAAAAAACAGCAGC
47104444 CACACCACCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.72, C:0.15, G:0.11, T:0.02
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAAAAACAGCAGC
Found at i:47104721 original size:32 final size:32
Alignment explanation
Indices: 47104685--47104745 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
47104675 AAAAAGCAAA
* *
47104685 AAAAAAAGAGAAAGAAACAAGAAGCAAAAGAG
1 AAAAAAAGAGAAAGAAAAAAGAAGAAAAAGAG
47104717 AAAAAAAGAGAAAGAAAAAAGAAGAAAAA
1 AAAAAAAGAGAAAGAAAAAAGAAGAAAAA
47104746 TGGGTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (32 bp):
AAAAAAAGAGAAAGAAAAAAGAAGAAAAAGAG
Found at i:47104725 original size:10 final size:10
Alignment explanation
Indices: 47104685--47104745 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
47104675 AAAAAGCAAA
47104685 AAAAAAAGAG
1 AAAAAAAGAG
47104695 AAAGAAACA-AG
1 AAA-AAA-AGAG
*
47104706 AAGCAAAAGAG
1 AA-AAAAAGAG
47104717 AAAAAAAGAG
1 AAAAAAAGAG
*
47104727 AAAGAAAAAAG
1 AAA-AAAAGAG
47104738 AAGAAAAA
1 AA-AAAAA
47104746 TGGGTGAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
10 14 0.33
11 26 0.62
12 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:47104730 original size:16 final size:15
Alignment explanation
Indices: 47104684--47104741 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
47104674 CAAAAAGCAA
47104684 AAAAAAAAGAGAAAG
1 AAAAAAAAGAGAAAG
*
47104699 AAACAAGAAGCA-AAAG
1 AAA-AAAAAG-AGAAAG
47104715 AGAAAAAAAGAGAAAG
1 A-AAAAAAAGAGAAAG
47104731 AAAAAAGAAGA
1 AAAAAA-AAGA
47104742 AAAATGGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 9 0.25
16 24 0.67
17 3 0.08
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGAAAG
Found at i:47104855 original size:4 final size:4
Alignment explanation
Indices: 47104846--47104919 Score: 62
Period size: 4 Copynumber: 18.0 Consensus size: 4
47104836 GGCTGATCGG
* *
47104846 GAAA GAAA GAAA AAAGA GAAA GAAAA GAGAA GAAA GAAA G-AA G-AA GGAA
1 GAAA GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA
* *
47104895 GAAGA AAAA GAAA GAAA AAAA GAAA
1 GAA-A GAAA GAAA GAAA GAAA GAAA
47104920 AATAAAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
3 6 0.10
4 38 0.66
5 14 0.24
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:47104867 original size:13 final size:13
Alignment explanation
Indices: 47104849--47104919 Score: 74
Period size: 13 Copynumber: 5.4 Consensus size: 13
47104839 TGATCGGGAA
47104849 AGAAAGAAAAAAG
1 AGAAAGAAAAAAG
*
47104862 AGAAAGAAAAGAG
1 AGAAAGAAAAAAG
*
47104875 AAGAAAGAAAGAAG
1 -AGAAAGAAAAAAG
*
47104889 AAGGAAGAAGAAAA-
1 -AGAAAGAA-AAAAG
47104903 AGAAAGAAAAAA-
1 AGAAAGAAAAAAG
47104915 AGAAA
1 AGAAA
47104920 AATAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
12 9 0.18
13 19 0.38
14 19 0.38
15 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:47104876 original size:7 final size:7
Alignment explanation
Indices: 47104846--47104936 Score: 53
Period size: 7 Copynumber: 13.0 Consensus size: 7
47104836 GGCTGATCGG
47104846 GAAAGAAA
1 GAAA-AAA
47104854 GAAAAAA
1 GAAAAAA
*
47104861 G-AGAAA
1 GAAAAAA
*
47104867 GAAAAGA
1 GAAAAAA
*
47104874 GAAGAAA
1 GAAAAAA
*
47104881 GAAAGAA
1 GAAAAAA
**
47104888 GAAGGAA
1 GAAAAAA
*
47104895 GAAGAAA
1 GAAAAAA
*
47104902 -AAGAAA
1 GAAAAAA
47104908 GAAAAAAA
1 G-AAAAAA
47104916 GAAAAATA
1 GAAAAA-A
47104924 -AAAAAA
1 GAAAAAA
*
47104930 TAAAAAA
1 GAAAAAA
47104937 AACAGCAAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
6 12 0.18
7 45 0.66
8 11 0.16
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:47104883 original size:18 final size:18
Alignment explanation
Indices: 47104862--47104919 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
47104852 AAGAAAAAAG
47104862 AGAAAGAAAAGAGAAGAA
1 AGAAAGAAAAGAGAAGAA
47104880 AGAAAGAAGAAG-GAAG-A
1 AGAAAGAA-AAGAGAAGAA
* *
47104897 AGAAAAAGAAAGA-AAAAA
1 AGAAAGA-AAAGAGAAGAA
47104915 AGAAA
1 AGAAA
47104920 AATAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.35
18 19 0.56
19 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAAGAGAAGAA
Found at i:47104884 original size:31 final size:31
Alignment explanation
Indices: 47104846--47104921 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
47104836 GGCTGATCGG
47104846 GAAAGAAAGAAAAAAG-AGAA-AGAAAAGAGAA
1 GAAAGAAAGAAAAAAGAAGAAGA-AAAAGA-AA
* *
47104877 GAAAGAAAGAAGAAGGAAGAAGAAAAAGAAA
1 GAAAGAAAGAAAAAAGAAGAAGAAAAAGAAA
*
47104908 GAAAAAAAGAAAAA
1 GAAAGAAAGAAAAA
47104922 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 28 0.72
32 10 0.26
33 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (31 bp):
GAAAGAAAGAAAAAAGAAGAAGAAAAAGAAA
Found at i:47104920 original size:18 final size:18
Alignment explanation
Indices: 47104847--47104938 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 18
47104837 GCTGATCGGG
*
47104847 AAAGAAAG-AAAAAAGAG
1 AAAGAAAGAAAAAAAGAA
*
47104864 AAAGAAAAGAGAAGAAAGAA
1 AAAG-AAAGA-AAAAAAGAA
* *
47104884 AGAAG-AAG-GAAGAAGAA
1 A-AAGAAAGAAAAAAAGAA
47104901 AAAGAAAGAAAAAAAGAA
1 AAAGAAAGAAAAAAAGAA
*
47104919 AAATAAA-AAAATAAA-AA
1 AAAGAAAGAAAA-AAAGAA
47104936 AAA
1 AAA
47104939 CAGCAAGCCA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.05
17 23 0.38
18 20 0.33
19 3 0.05
20 8 0.13
21 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (18 bp):
AAAGAAAGAAAAAAAGAA
Found at i:47104935 original size:6 final size:6
Alignment explanation
Indices: 47104847--47104927 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
47104837 GCTGATCGGG
* * *
47104847 AAAGAA AGA-AA AAAGAG AAAGAA AAGAGAA GAAAG-- AAAGAA GAAGGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA-AGAA -AAAGAA AAAGAA -AAAGAA
* *
47104895 GAAGAA AAAGAA AGAA-AA AAAGAA AAATAA AAA
1 AAAGAA AAAGAA A-AAGAA AAAGAA AAAGAA AAA
47104928 AATAAAAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
4 4 0.07
5 6 0.10
6 33 0.57
7 13 0.22
8 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:47105421 original size:53 final size:53
Alignment explanation
Indices: 47105364--47105471 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
47105354 GACGCCCTTC
47105364 TAAAAATCCAAAATATTGAAAAATCCTCGTGTTTTAAAAAAATCGAGTTTTAA
1 TAAAAATCCAAAATATTGAAAAATCCTCGTGTTTTAAAAAAATCGAGTTTTAA
*
47105417 TAAAAATCCAAAATATTGAAAAATCCTCGTGTTTTAAAAAAATCGTGTTTTAA
1 TAAAAATCCAAAATATTGAAAAATCCTCGTGTTTTAAAAAAATCGAGTTTTAA
47105470 TA
1 TA
47105472 GGATCACGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (53 bp):
TAAAAATCCAAAATATTGAAAAATCCTCGTGTTTTAAAAAAATCGAGTTTTAA
Found at i:47105628 original size:18 final size:20
Alignment explanation
Indices: 47105597--47105639 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
47105587 CTCGTGTTTC
47105597 AAAAATTTTGAGTTTT-AAA
1 AAAAATTTTGAGTTTTCAAA
47105616 AAAAATTTT-AGTTTTCAAA
1 AAAAATTTTGAGTTTTCAAA
47105635 AAAAA
1 AAAAA
47105640 ATTCTCGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
AAAAATTTTGAGTTTTCAAA
Found at i:47105675 original size:56 final size:56
Alignment explanation
Indices: 47105581--47105695 Score: 135
Period size: 56 Copynumber: 2.1 Consensus size: 56
47105571 TTTTTTTAAG
* * *
47105581 AAAATTCTCGTGTTTCAAAAATTTTGAGTTTTAAAAAAAATTTTAGT-TTTCAAAAA
1 AAAATTCTCGCGTTTCAAAAATCTTCAGTTTTAAAAAAAATTTTAGTGTTT-AAAAA
* * * *
47105637 AAAATTCTCGCGTTTCACAAATCTTCATGTTTT-CAAAAACTTTTCGTGTTTAAAAA
1 AAAATTCTCGCGTTTCAAAAATCTTCA-GTTTTAAAAAAAATTTTAGTGTTTAAAAA
47105693 AAA
1 AAA
47105696 CCGTGTTTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 42 0.84
57 8 0.16
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (56 bp):
AAAATTCTCGCGTTTCAAAAATCTTCAGTTTTAAAAAAAATTTTAGTGTTTAAAAA
Found at i:47105794 original size:17 final size:18
Alignment explanation
Indices: 47105758--47105799 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
47105748 CCCGTGTTTC
47105758 AAATTTTCGTAATTTCAA
1 AAATTTTCGTAATTTCAA
47105776 AAATTTCTCGT-ATTT-AA
1 AAATTT-TCGTAATTTCAA
47105793 AAATTTT
1 AAATTTT
47105800 TTCACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.04
17 8 0.35
18 10 0.43
19 4 0.17
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (18 bp):
AAATTTTCGTAATTTCAA
Found at i:47105917 original size:20 final size:21
Alignment explanation
Indices: 47105892--47105933 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
47105882 TCGTGTTTGT
*
47105892 AAAATTCTCGCG-TTTTAAAA
1 AAAATTATCGCGTTTTTAAAA
*
47105912 AAAATTATCGTGTTTTTAAAA
1 AAAATTATCGCGTTTTTAAAA
47105933 A
1 A
47105934 TTATCGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAATTATCGCGTTTTTAAAA
Found at i:47105953 original size:18 final size:18
Alignment explanation
Indices: 47105911--47105980 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
47105901 GCGTTTTAAA
*
47105911 AAAAATTATCGTGTTTTT
1 AAAAATTATCGTGTTTTC
47105929 AAAAATTATCGTGTTTTC
1 AAAAATTATCGTGTTTTC
* * *
47105947 AACAATTCTCGCG-TTTC
1 AAAAATTATCGTGTTTTC
* * *
47105964 ACAAATTTTCGTATTTT
1 AAAAATTATCGTGTTTT
47105981 AAATTTTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
17 12 0.29
18 30 0.71
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAAATTATCGTGTTTTC
Found at i:47106049 original size:17 final size:17
Alignment explanation
Indices: 47105999--47106223 Score: 210
Period size: 17 Copynumber: 12.9 Consensus size: 17
47105989 TAGAAAAAGA
*
47105999 AAAAATCTTCTCGTGTTTC
1 AAAAAT-TT-TCGTGTTTT
*
47106018 AAAAA-TGTCGTGTTTT
1 AAAAATTTTCGTGTTTT
*
47106034 AAAAATTTTCGCGTTTCT
1 AAAAATTTTCGTGTTT-T
47106052 -AAAA-TTTCTGTGTTTT
1 AAAAATTTTC-GTGTTTT
* *
47106068 AAAAAAATTTCGTGTTTCA
1 -AAAAATTTTCGTGTTT-T
47106087 AAAAATTTT-GTGTTTT
1 AAAAATTTTCGTGTTTT
47106103 AAAAATTTTCGTGTTTCT
1 AAAAATTTTCGTGTTT-T
*
47106121 -AAAATTTCCGTGTTTT
1 AAAAATTTTCGTGTTTT
*
47106137 AAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTT
47106154 CAAAAATTTTCGTGTTTTT
1 -AAAAATTTTCGTG-TTTT
* *
47106173 AAGAATTTTCGTGTCTCT
1 AAAAATTTTCGTGT-TTT
*
47106191 -AAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTT
47106207 AAAAAAATTTTCGTGTT
1 --AAAAATTTTCGTGTT
47106224 CTCAAAAATA
Statistics
Matches: 172, Mismatches: 18, Indels: 32
0.77 0.08 0.14
Matches are distributed among these distances:
16 30 0.17
17 70 0.41
18 46 0.27
19 26 0.15
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTT
Found at i:47106073 original size:35 final size:34
Alignment explanation
Indices: 47105999--47106232 Score: 251
Period size: 35 Copynumber: 6.7 Consensus size: 34
47105989 TAGAAAAAGA
*
47105999 AAAAATCTTCTCGTGTTTCAAAAATGTC-GTGTTTT
1 AAAAAT-TT-TCGTGTTTCAAAAATTTCTGTGTTTT
* *
47106034 AAAAATTTTCGCGTTTCTAAAATTTCTGTGTTTT
1 AAAAATTTTCGTGTTTCAAAAATTTCTGTGTTTT
*
47106068 AAAAAAATTTCGTGTTTCAAAAAATTT-TGTGTTTT
1 -AAAAATTTTCGTGTTTC-AAAAATTTCTGTGTTTT
* *
47106103 AAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTT
1 AAAAATTTTCGTGTTTCAAAAATTTCTGTGTTTT
*
47106137 AAAAATTCTCGTGTTTTCAAAAATTT-TCGTGTTTTT
1 AAAAATTTTCGTG-TTTCAAAAATTTCT-GTG-TTTT
* * *
47106173 AAGAATTTTCGTGTCTCTAAAA-TTCTCGTGTTTT
1 AAAAATTTTCGTGTTTCAAAAATTTCT-GTGTTTT
47106207 AAAAAAATTTTCGTGTTCTCAAAAAT
1 --AAAAATTTTCGTGTT-TCAAAAAT
47106233 AAAAATTGTT
Statistics
Matches: 168, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
33 22 0.13
34 50 0.30
35 55 0.33
36 35 0.21
37 6 0.04
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTCAAAAATTTCTGTGTTTT
Found at i:47106100 original size:69 final size:68
Alignment explanation
Indices: 47106009--47106232 Score: 301
Period size: 69 Copynumber: 3.2 Consensus size: 68
47105999 AAAAATCTTC
* * *
47106009 TCGTGTTTCAAAAATGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTCTGTGTTTTAAAAAA
1 TCGTGTTTCAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCTGTGTTTTAAAAAA
47106074 ATT
66 ATT
*
47106077 TCGTGTTTCAAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTT--AAA
1 TCGTGTTTC-AAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCTGTGTTTTAAAAA
47106140 AATT
65 AATT
* *
47106144 CTCGTGTTTTCAAAAATTTTCGTGTTTTTAAGAATTTTCGTGTCTCTAAAA-TTCTCGTGTTTTA
1 -TCGTG-TTTCAAAAATTTT-GTG-TTTTAAAAATTTTCGTGTTTCTAAAATTTCT-GTGTTTTA
47106208 AAAAAATTT
61 AAAAAA-TT
47106217 TCGTGTTCTCAAAAAT
1 TCGTGTT-TCAAAAAT
47106233 AAAAATTGTT
Statistics
Matches: 139, Mismatches: 7, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
67 7 0.05
68 23 0.17
69 56 0.40
70 31 0.22
71 2 0.01
72 18 0.13
73 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (68 bp):
TCGTGTTTCAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCTGTGTTTTAAAAAA
ATT
Found at i:47109273 original size:18 final size:18
Alignment explanation
Indices: 47109230--47109276 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
47109220 TGTAATTTTT
*
47109230 ATAATTGGGTTGGGTTGG
1 ATAATTGGGTTGGGTTGA
*
47109248 GTAATTGGGTTGGGTTGA
1 ATAATTGGGTTGGGTTGA
*
47109266 ATACTTGGGTT
1 ATAATTGGGTT
47109277 TGGATTGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (18 bp):
ATAATTGGGTTGGGTTGA
Found at i:47114031 original size:21 final size:21
Alignment explanation
Indices: 47113985--47114040 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
47113975 CCCTTAAGGA
47113985 TTAAACAAAAGCTCAAAAGAG
1 TTAAACAAAAGCTCAAAAGAG
* * *
47114006 CTAAACGAAAA-CTCATATGAG
1 TTAAAC-AAAAGCTCAAAAGAG
* *
47114027 TTAAATAGAAGCTC
1 TTAAACAAAAGCTC
47114041 GTGAGAGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 3 0.11
21 20 0.74
22 4 0.15
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (21 bp):
TTAAACAAAAGCTCAAAAGAG
Found at i:47119877 original size:46 final size:45
Alignment explanation
Indices: 47119810--47119945 Score: 227
Period size: 46 Copynumber: 3.0 Consensus size: 45
47119800 CATGGCAAAG
*
47119810 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTC-GTGAAGAAAACCATACTGAGT
*
47119856 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCG-TGAAGAAAACCATACTGAGT
47119902 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGA
1 TGTGAAAAGTAGGTATGGTATTT-CGTGAAGAAAACCATACTGA
47119946 ATTATAGCAA
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
45 1 0.01
46 82 0.96
47 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (45 bp):
TGTGAAAAGTAGGTATGGTATTTCGTGAAGAAAACCATACTGAGT
Found at i:47126515 original size:26 final size:26
Alignment explanation
Indices: 47126493--47126577 Score: 116
Period size: 26 Copynumber: 3.3 Consensus size: 26
47126483 ACAATTATTG
* *
47126493 AAATACCCTCAATGGTTAAATTACAA
1 AAATACCCTCAATGGGTAAATTACCA
*
47126519 AAATACCCTTAATGGGTAAATTACCA
1 AAATACCCTCAATGGGTAAATTACCA
* * *
47126545 AAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCAATGGGTAAATTACCA
47126571 AAATACC
1 AAATACC
47126578 TTCGAAAGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (26 bp):
AAATACCCTCAATGGGTAAATTACCA
Found at i:47126588 original size:26 final size:26
Alignment explanation
Indices: 47126493--47126588 Score: 79
Period size: 26 Copynumber: 3.7 Consensus size: 26
47126483 ACAATTATTG
* *
47126493 AAATACCCTC-AATGGTTAAATTACAA
1 AAATACCCTCGAAAGG-TAAATTACCA
* *
47126519 AAATACCCT-TAATGGGTAAATTACCA
1 AAATACCCTCGAA-AGGTAAATTACCA
** * *
47126545 AAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGAAAGGTAAATTACCA
*
47126571 AAATACCTTCGAAAGGTA
1 AAATACCCTCGAAAGGTA
47126589 GAATGACCGT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 55 0.95
27 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (26 bp):
AAATACCCTCGAAAGGTAAATTACCA
Found at i:47130113 original size:5 final size:5
Alignment explanation
Indices: 47130103--47130129 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47130093 TAATTTGATG
47130103 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
47130130 ACAAAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:47135627 original size:17 final size:17
Alignment explanation
Indices: 47135605--47135649 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
47135595 TTTTAATAAT
* *
47135605 TATTTTTATTTTTTGTG
1 TATTTTAATTTTTTATG
47135622 TATTTTAATTTTTTATG
1 TATTTTAATTTTTTATG
47135639 TATTTTAATTT
1 TATTTTAATTT
47135650 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (17 bp):
TATTTTAATTTTTTATG
Found at i:47139876 original size:2 final size:2
Alignment explanation
Indices: 47139869--47139905 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
47139859 TATTTGCTGG
* *
47139869 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47139906 GTTAATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:47143212 original size:14 final size:14
Alignment explanation
Indices: 47143190--47143232 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
47143180 TGAATAAAGG
* *
47143190 AATACTATAATACT
1 AATAATATAATAAT
47143204 AATAATATAATAAT
1 AATAATATAATAAT
*
47143218 AATAAGATTAATAAT
1 AATAATA-TAATAAT
47143233 CACGTCATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:47143467 original size:4 final size:4
Alignment explanation
Indices: 47143458--47143499 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
47143448 ATAAAAATAA
* *
47143458 AAAT AAAT AAGT -AAT AAAT GAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
47143500 ATTTTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 2 0.06
4 31 0.94
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:47145188 original size:42 final size:42
Alignment explanation
Indices: 47145129--47145212 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
47145119 CTATATACAC
* * * *
47145129 CACACGGCTGGGACACATGCCCGTGTCCTTGTACGTGTGGTT
1 CACACGGCTAGGACACATGCCCATGTCCTTGCACGTATGGTT
* *
47145171 CACACGGCCTAGG-CACATGTCTATGTCCTTGCACGTATGGTT
1 CACACGG-CTAGGACACATGCCCATGTCCTTGCACGTATGGTT
47145213 TTAAAGCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (42 bp):
CACACGGCTAGGACACATGCCCATGTCCTTGCACGTATGGTT
Found at i:47145811 original size:57 final size:56
Alignment explanation
Indices: 47145723--47145836 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 56
47145713 CCATAAAAAT
*
47145723 AATTCTGGTCTGCAAAATTTGAGAAAACAGGTTCGGGAACTCAGTTACGCACGAGGA
1 AATTCTGGTCTGCAAAATTTGAGAAAACAGGTTCGGG-ACTCAATTACGCACGAGGA
*
47145780 AATTCTGGTCTGCAAAATTTGAGAAAACAGGTTCGGGAGTCAATTACGCACGAGGA
1 AATTCTGGTCTGCAAAATTTGAGAAAACAGGTTCGGGACTCAATTACGCACGAGGA
47145836 A
1 A
47145837 GGGTTAGCAC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 18 0.33
57 37 0.67
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (56 bp):
AATTCTGGTCTGCAAAATTTGAGAAAACAGGTTCGGGACTCAATTACGCACGAGGA
Found at i:47146554 original size:21 final size:21
Alignment explanation
Indices: 47146521--47146572 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
47146511 ATTTTTTTAC
*
47146521 AAAAAAAACAACAG-AAAAATG
1 AAAAAAAA-AACAGTAAAAAGG
47146542 AAAACAAAAAACAGTAAAAAGG
1 AAAA-AAAAAACAGTAAAAAGG
47146564 AAAAAAAAA
1 AAAAAAAAA
47146573 TGGAGAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.79, C:0.08, G:0.10, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAACAGTAAAAAGG
Found at i:47147583 original size:50 final size:50
Alignment explanation
Indices: 47147529--47149308 Score: 885
Period size: 50 Copynumber: 35.6 Consensus size: 50
47147519 CACCGCTAAA
* * * *
47147529 GAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* ** ** * * * *
47147579 GAAATCAGATCCGTTGTTGTGACTTCAATCATGCTCTACTGC-ATCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATC-TTTTCAATTGCGCT-GTCAGG
* ** * * * **
47147630 GAAGTAAGATATGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTTGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** * * ** *** * **
47147680 GAAACCAGATCCGTCGTTGTGAATTCAATCTGCTCCGCTGCAC-CACTA-G
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTC-AGG
* * * *
47147729 GAAAGTAAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGG
1 GAAA-TAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** * * * * *
47147780 GAAACT-AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGG
1 GAAA-TAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * * * *
47147830 GAAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTT-AATTACGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAAT-CTTTTCAATTGCGCTGTCAGG
** * ** * * * * *
47147880 GAAACT-AGATCCGTTGTCGTGACTTCAATCTGCTCCACTGCACCGCCAGG
1 GAAA-TAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * * * *
47147930 GAAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTT-AATTACGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAAT-CTTTTCAATTGCGCTGTCAGG
** * ** * * * * * * *
47147980 GAAACT-AGATCCGTTGTCGTGACTTCAATCTGCTCCACTACACCGCCAGA
1 GAAA-TAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* ** * * *
47148030 GAAGTAAGATCTACCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** ** ** * * * * * * *
47148080 GAAACCAGATCCGTTGTTGTGACTTCAATCTGCTCCACTACACCGCCAGA
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* ** * * *
47148130 GAAGTAAGATCTACCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** ** ** * * * * * *
47148180 GAAACCAGATCCGTTGTTGTGACTTCAATCTGCTCCACTACACCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * *
47148230 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** * * *** * * *
47148280 GAAACCAGATCCGTCGTTGTGACTTCAAT-TTGCTCCGCTGCACCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTT-TTCAATTGCGCTGTCAGG
* * * * *
47148330 GAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTT-AATTGTGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** ** *** * ***
47148379 GAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCACCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * *
47148429 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** * * *** * * *
47148479 GAAACCAGATCCGTCGTTGTGACTTCAAT-TTGCTCCGCTGCACCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTT-TTCAATTGCGCTGTCAGG
* * * * *
47148529 GAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTT-AATTGTGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** ** *** * ***
47148578 GAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCACCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * *
47148628 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** * * *** * * *
47148678 GAAACCAGATCCGTCGTTGTGACTTCAAT-TTGCTCCGCTGCACCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTT-TTCAATTGCGCTGTCAGG
* * * * *
47148728 GAAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTTAAATTGTGCTGTC-GAG
1 GAAATAAGATCCGCCGTTGTGACTTCAAT-CTTTTCAATTGCGCTGTCAG-G
** * * ** * * * * * *
47148779 GAAACCAGATCTGCCGATGTGACTTCAATCTGCTCCACTACACCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * * *
47148829 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTC-GAG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAG-G
** * ** * * * * *
47148879 GAAACCAGATTCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * * * * *
47148929 GAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** ** *** * ***
47148979 GAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCACCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * * *
47149029 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** ** *** * ***
47149079 GAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCACCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
* * *
47149129 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** * * *** * * *
47149179 GAAACCAGATCCGTCGTTGTGACTTCAAT-TTGCTCCGCTGCACCGCCAGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTT-TTCAATTGCGCTGTCAGG
* * * * *
47149229 GAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTT-AATTGTGCTGTCGGG
1 GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
** *
47149278 GAAACCAGATCCGCCGTTGTGACCTCAATCT
1 GAAATAAGATCCGCCGTTGTGACTTCAATCT
47149309 GCTTCGCTAC
Statistics
Matches: 1181, Mismatches: 518, Indels: 63
0.67 0.29 0.04
Matches are distributed among these distances:
49 123 0.10
50 970 0.82
51 86 0.07
52 2 0.00
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.29
Consensus pattern (50 bp):
GAAATAAGATCCGCCGTTGTGACTTCAATCTTTTCAATTGCGCTGTCAGG
Found at i:47147770 original size:100 final size:100
Alignment explanation
Indices: 47147533--47149316 Score: 2728
Period size: 100 Copynumber: 17.9 Consensus size: 100
47147523 GCTAAAGAAA
* * *
47147533 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTGCTGTCGGGGAAATCAGATCCGTTGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
** *
47147598 TGACTTCAATCATGCTCTACTGCATCGCCAGGGAAG
66 TGACTTCAATC-TGCTCCGCTGCACCGCCAGGGAAG
** * *
47147634 TAAGATATGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTTGGGGAAACCAGATCCGTCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
* * * *
47147699 TGAATTCAATCTGCTCCGCTGCACCACTAGGAAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * *
47147734 TAAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGGGAAACTAGATCCGCCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47147799 TGACTTCAATCTGCTCCACTGCACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * * * * *
47147834 TAAGATCTGCCGTTGTGGCTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGTTGTCG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47147899 TGACTTCAATCTGCTCCACTGCACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * * * * *
47147934 TAAGATCTGCCGTTGTGGCTTCAATCCTTTTAATTACGCTGTCGGGGAAACTAGATCCGTTGTCG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
* * *
47147999 TGACTTCAATCTGCTCCACTACACCGCCAGAGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
** * *
47148034 TAAGATCTACCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGGGAAACCAGATCCGTTGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
* * *
47148099 TGACTTCAATCTGCTCCACTACACCGCCAGAGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
** * *
47148134 TAAGATCTACCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGGGAAACCAGATCCGTTGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
* *
47148199 TGACTTCAATCTGCTCCACTACACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
*
47148234 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCCGTCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47148299 TGACTTCAATTTGCTCCGCTGCACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * *
47148334 TAAGATCTGCCGTTGTGGCTTCAATC-TTTTAATTGTGCTGTCGGGGAAACCAGATCCGCCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47148398 TGACTTCAATCTGCTCCGCTGCACCACCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
*
47148433 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCCGTCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47148498 TGACTTCAATTTGCTCCGCTGCACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * *
47148533 TAAGATCTGCCGTTGTGGCTTCAATC-TTTTAATTGTGCTGTCGGGGAAACCAGATCCGCCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47148597 TGACTTCAATCTGCTCCGCTGCACCACCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
*
47148632 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCCGTCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47148697 TGACTTCAATTTGCTCCGCTGCACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * * * * * *
47148732 TAAGATCTGCCGTTGTGGCTTCAATCCTTTTAAATTGTGCTGTCGAGGAAACCAGATCTGCCGAT
1 TAAGATCCGCCGTTGTGGCTTCAAT-CTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTT
* *
47148797 GTGACTTCAATCTGCTCCACTACACCGCCAGGGAAG
65 GTGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * * *
47148833 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCGAGGAAACCAGATTCGCCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47148898 TGACTTCAATCTGCTCCACTGCACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * *
47148933 TAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47148998 TGACTTCAATCTGCTCCGCTGCACCACCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* *
47149033 TAAGATCCGCCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGGGAAACCAGATCCGCCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47149098 TGACTTCAATCTGCTCCGCTGCACCACCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
*
47149133 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCCGTCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
*
47149198 TGACTTCAATTTGCTCCGCTGCACCGCCAGGGAAG
66 TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
* * *
47149233 TAAGATCTGCCGTTGTGGCTTCAATC-TTTTAATTGTGCTGTCGGGGAAACCAGATCCGCCGTTG
1 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
* *
47149297 TGACCTCAATCTGCTTCGCT
66 TGACTTCAATCTGCTCCGCT
47149317 ACAACGCTAA
Statistics
Matches: 1565, Mismatches: 115, Indels: 8
0.93 0.07 0.00
Matches are distributed among these distances:
99 238 0.15
100 1170 0.75
101 157 0.10
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (100 bp):
TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTCGTTG
TGACTTCAATCTGCTCCGCTGCACCGCCAGGGAAG
Found at i:47150628 original size:15 final size:15
Alignment explanation
Indices: 47150608--47150654 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
47150598 CCCTAGCCTC
47150608 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
*
47150623 TCCA-TTTTCCATTTT
1 TCCATTTTTAC-TTTT
* *
47150638 TCTATTTTTATTTTT
1 TCCATTTTTACTTTT
47150653 TC
1 TC
47150655 ACATCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.19
15 17 0.65
16 4 0.15
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:47154902 original size:49 final size:50
Alignment explanation
Indices: 47154819--47154918 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 50
47154809 TTCGATTATT
*
47154819 TAGATCAGATAAAGAAAAAATCCAAACCCAGTAAATTAGGGCACAATTTC
1 TAGATCAAATAAAGAAAAAATCCAAACCCAGTAAATTAGGGCACAATTTC
** *
47154869 TAGATCAAATAAAG-AAAAATTGAAACCCAGTAAATTAGGGCATAATTTC
1 TAGATCAAATAAAGAAAAAATCCAAACCCAGTAAATTAGGGCACAATTTC
47154918 T
1 T
47154919 CAGAATTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 33 0.72
50 13 0.28
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.23
Consensus pattern (50 bp):
TAGATCAAATAAAGAAAAAATCCAAACCCAGTAAATTAGGGCACAATTTC
Found at i:47154987 original size:69 final size:68
Alignment explanation
Indices: 47154877--47155012 Score: 236
Period size: 69 Copynumber: 2.0 Consensus size: 68
47154867 TCTAGATCAA
** *
47154877 ATAAAGAAAAATTGAAACCCAGTAAATTAGGGCATAATTTCTCAGAATTTCAAATACCGAATAGC
1 ATAAAGAAAAATCCAAACCCAGTAAATTAGGGCACAATTTCTCAGAATTTCAAATACCGAATAGC
47154942 ACG
66 ACG
47154945 ATAAAGAAAAAATCCAAACCCAGTAAATTAGGGCACAATTTCTCAGAATTTCAAATACCGAATAG
1 ATAAAG-AAAAATCCAAACCCAGTAAATTAGGGCACAATTTCTCAGAATTTCAAATACCGAATAG
47155010 CAC
65 CAC
47155013 CTTTCGTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 6 0.09
69 58 0.91
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (68 bp):
ATAAAGAAAAATCCAAACCCAGTAAATTAGGGCACAATTTCTCAGAATTTCAAATACCGAATAGC
ACG
Found at i:47155711 original size:21 final size:21
Alignment explanation
Indices: 47155678--47155729 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
47155668 TATTTTTTAC
*
47155678 AAAAAAAACAACAG-AAAAATG
1 AAAAAAAA-AACAGTAAAAAGG
47155699 AAAACAAAAAACAGTAAAAAGG
1 AAAA-AAAAAACAGTAAAAAGG
47155721 AAAAAAAAA
1 AAAAAAAAA
47155730 TGGAGAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.79, C:0.08, G:0.10, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAACAGTAAAAAGG
Found at i:47159246 original size:50 final size:52
Alignment explanation
Indices: 47159118--47159248 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 52
47159108 GGGATAAGAT
* * *
47159118 CCCATGTAAGACCATGTCTAGGATATGGCGTTGGCACCGAGATGAGAGATCC
1 CCCATGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGATGAGAGATCC
* * * *
47159170 CCCA--TAAGACCATGTCTGCGACATGGCATGGGCACCGATATGAGA-A-CT
1 CCCATGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGATGAGAGATCC
* * *
47159218 CCTATGTAAGACCATATTTGGGATATGGCAT
1 CCCATGTAAGACCATGTCTGGGATATGGCAT
47159249 TGGTAGTACA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
48 4 0.06
49 1 0.02
50 56 0.86
52 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (52 bp):
CCCATGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGATGAGAGATCC
Found at i:47166041 original size:28 final size:27
Alignment explanation
Indices: 47165995--47166071 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
47165985 AAAAATTTTA
*
47165995 TATTTATATTTTTTGAATTTTTAATAAT
1 TATTTATATTTTAT-AATTTTTAATAAT
* *
47166023 TATTTATATTTTAATAATTTCTATTAAT
1 TATTTATATTTT-ATAATTTTTAATAAT
*
47166051 T-TTGTA-ATTTTATGATTTTTA
1 TATT-TATATTTTATAATTTTTA
47166072 GAAATATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 8 0.19
27 7 0.17
28 26 0.62
29 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (27 bp):
TATTTATATTTTATAATTTTTAATAAT
Found at i:47166116 original size:20 final size:20
Alignment explanation
Indices: 47166065--47166116 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
47166055 TAATTTTATG
*
47166065 ATTTTTAGA-AATATTTAAT
1 ATTTTTAAATAATATTTAAT
* * **
47166084 AATATTATTTAATATTTAAT
1 ATTTTTAAATAATATTTAAT
47166104 ATTTTTAAATAAT
1 ATTTTTAAATAAT
47166117 TGCTAATAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTTAAATAATATTTAAT
Found at i:47166266 original size:20 final size:21
Alignment explanation
Indices: 47166233--47166272 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
47166223 TAAAATAAAA
47166233 TTTTAGAAAATTTTATTAATT
1 TTTTAGAAAATTTTATTAATT
* *
47166254 TTTTA-AAATTTTTGTTAAT
1 TTTTAGAAAATTTTATTAAT
47166273 GTGACATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTAGAAAATTTTATTAATT
Found at i:47172508 original size:22 final size:22
Alignment explanation
Indices: 47172480--47172521 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47172470 TATATTAAAC
*
47172480 CATGTATTTATTTGATTGATGA
1 CATGTATTTATTTAATTGATGA
47172502 CATGTATTTATTTAATTGAT
1 CATGTATTTATTTAATTGAT
47172522 ATGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (22 bp):
CATGTATTTATTTAATTGATGA
Found at i:47178409 original size:2 final size:2
Alignment explanation
Indices: 47178402--47178431 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47178392 GTTTCTCATA
47178402 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
47178432 CAACCACCTA
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):
AT
Found at i:47178605 original size:41 final size:41
Alignment explanation
Indices: 47178560--47178661 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
47178550 ACTGGCAATT
* * *
47178560 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCAGAAACATTTCACCGGCATCA
*
47178601 AGCCTGCTAGACGTATAGTCAGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCAGAAACATTTCACCGGCATCA
47178642 AGCCTGCTAGACGTAAAGTC
1 AGCCTGCTAGACGTAAAGTC
47178662 TGAATTATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCAGAAACATTTCACCGGCATCA
Found at i:47195571 original size:17 final size:18
Alignment explanation
Indices: 47195531--47195623 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 18
47195521 TGATCTGATA
*
47195531 AAAACACGAGAATTTTTTT
1 AAAACACGAGAA-TTTTTG
47195550 AAAACACGAGAA-TTTTG
1 AAAACACGAGAATTTTTG
* ***
47195567 GAAACAC---AATTTAAA
1 AAAACACGAGAATTTTTG
* * *
47195582 AAAAAACGAAAATTTATG
1 AAAACACGAGAATTTTTG
*
47195600 -AAACACGGGAATTTTTG
1 AAAACACGAGAATTTTTG
47195617 AAAACAC
1 AAAACAC
47195624 AAAAAATTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
14 2 0.04
15 7 0.12
17 23 0.41
18 12 0.21
19 12 0.21
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.25
Consensus pattern (18 bp):
AAAACACGAGAATTTTTG
Found at i:47195772 original size:22 final size:20
Alignment explanation
Indices: 47195738--47195780 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
47195728 CGTTACCTTA
47195738 TTTTTGAAAACACGAGAAATT
1 TTTTTGAAAACACGA-AAATT
*
47195759 TTTTTTAAAGACACGAAAATT
1 TTTTTGAAA-ACACGAAAATT
47195780 T
1 T
47195781 CGAAGCCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (20 bp):
TTTTTGAAAACACGAAAATT
Found at i:47196694 original size:20 final size:20
Alignment explanation
Indices: 47196638--47196696 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
47196628 TCGGAGGCTC
*
47196638 TCCTCTTC-TTCT-TCTTTC
1 TCCTCTTCTTTCTCTCTTTT
47196656 TCCTC-TCTTTCTCTCCTTTT
1 TCCTCTTCTTTCTCT-CTTTT
*
47196676 TCCTCTTCTTTTTCTCTTTT
1 TCCTCTTCTTTCTCTCTTTT
47196696 T
1 T
47196697 TGCAAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 9 0.26
19 1 0.03
20 15 0.43
21 8 0.23
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TCCTCTTCTTTCTCTCTTTT
Found at i:47196965 original size:30 final size:29
Alignment explanation
Indices: 47196931--47197054 Score: 117
Period size: 29 Copynumber: 4.2 Consensus size: 29
47196921 GCTGAAACAA
* *
47196931 AATTTTGAGAAAGTTT-GGGGTTCAAAATGT
1 AATTTT-AAAAAGTTTAGGGGTT-AAAATAT
* * *
47196961 AATTTAAAAAAGTTTATGGATTAAAATAT
1 AATTTTAAAAAGTTTAGGGGTTAAAATAT
* * *
47196990 AATTTTATGAAATTTTAGGGGTCAAAATGA-
1 AATTTTA-AAAAGTTTAGGGGTTAAAAT-AT
*
47197020 AATTTTAAAAAATTTAGGGGTTAAAATAT
1 AATTTTAAAAAGTTTAGGGGTTAAAATAT
47197049 AATTTT
1 AATTTT
47197055 TTATTTTTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
28 1 0.01
29 43 0.57
30 31 0.41
31 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.39
Consensus pattern (29 bp):
AATTTTAAAAAGTTTAGGGGTTAAAATAT
Found at i:47196994 original size:59 final size:59
Alignment explanation
Indices: 47196931--47197054 Score: 164
Period size: 59 Copynumber: 2.1 Consensus size: 59
47196921 GCTGAAACAA
* *
47196931 AATTTTGA-GAAAGTTT-GGGGTTCAAAATGTAA-TTTAAAAAAGTTTATGGATTAAAATAT
1 AATTTT-ATGAAAGTTTAGGGG-TCAAAATGAAATTTTAAAAAA-TTTAGGGATTAAAATAT
* *
47196990 AATTTTATGAAATTTTAGGGGTCAAAATGAAATTTTAAAAAATTTAGGGGTTAAAATAT
1 AATTTTATGAAAGTTTAGGGGTCAAAATGAAATTTTAAAAAATTTAGGGATTAAAATAT
47197049 AATTTT
1 AATTTT
47197055 TTATTTTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
58 1 0.02
59 44 0.76
60 13 0.22
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.39
Consensus pattern (59 bp):
AATTTTATGAAAGTTTAGGGGTCAAAATGAAATTTTAAAAAATTTAGGGATTAAAATAT
Found at i:47201249 original size:7 final size:7
Alignment explanation
Indices: 47201237--47201264 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47201227 ATGATGATTT
47201237 TTTTATA
1 TTTTATA
47201244 TTTTATA
1 TTTTATA
47201251 TTTTATA
1 TTTTATA
47201258 TTTTATA
1 TTTTATA
47201265 AATTAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTATA
Found at i:47201850 original size:14 final size:15
Alignment explanation
Indices: 47201830--47201863 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47201820 AACTTAACTT
47201830 AAAATAAAT-TTAAA
1 AAAATAAATATTAAA
*
47201844 GAAATAAATATTAAA
1 AAAATAAATATTAAA
47201859 AAAAT
1 AAAAT
47201864 CTTAGAGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATAAATATTAAA
Found at i:47203907 original size:19 final size:18
Alignment explanation
Indices: 47203883--47203946 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
47203873 TGCAAAACTA
47203883 AAAAAAATTTAAAATTTAT
1 AAAAAAATTTAAAATTT-T
*
47203902 AAAAAATATTTATAATTGTT
1 AAAAAA-ATTTAAAATT-TT
47203922 -AAAAAATTCTAAAATGTTTT
1 AAAAAAATT-TAAAA--TTTT
47203942 AAAAA
1 AAAAA
47203947 TAACATATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 3 0.08
19 15 0.41
20 12 0.32
21 7 0.19
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAAAATTTAAAATTTT
Found at i:47203928 original size:20 final size:20
Alignment explanation
Indices: 47203881--47203946 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
47203871 AGTGCAAAAC
*
47203881 TAAAAAAAATTTAAAATTTA
1 TAAAAAATATTTAAAATTTA
*
47203901 TAAAAAATATTTATAATTGT-
1 TAAAAAATATTTAAAATT-TA
* *
47203921 TAAAAAAT-TCTAAAATGTTT
1 TAAAAAATATTTAAAAT-TTA
47203941 TAAAAA
1 TAAAAA
47203947 TAACATATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 7 0.18
20 31 0.79
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAAAAATATTTAAAATTTA
Found at i:47204084 original size:19 final size:18
Alignment explanation
Indices: 47204059--47204131 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 18
47204049 GGATGACTTC
47204059 AAAATTATAAAAAAATTT
1 AAAATTATAAAAAAATTT
*
47204077 AGAAATTAT-AAAAGATATT
1 A-AAATTATAAAAAAAT-TT
*
47204096 AATAATTATTAAAAAATTAT
1 AA-AATTATAAAAAAATT-T
47204116 AAAAATTACTAAAAAA
1 -AAAATTA-TAAAAAA
47204132 TTAAAATGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.18
19 17 0.38
20 12 0.27
21 8 0.18
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATTATAAAAAAATTT
Found at i:47204122 original size:20 final size:20
Alignment explanation
Indices: 47204059--47204134 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
47204049 GGATGACTTC
*
47204059 AAAATTATAAAAAAATT-TA
1 AAAATTATTAAAAAATTATA
* *
47204078 GAAATTA-TAAAAGA-TATTA
1 AAAATTATTAAAAAATTA-TA
*
47204097 ATAATTATTAAAAAATTATA
1 AAAATTATTAAAAAATTATA
*
47204117 AAAATTACTAAAAAATTA
1 AAAATTATTAAAAAATTA
47204135 AAATGTGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
17 1 0.02
18 5 0.11
19 13 0.29
20 24 0.53
21 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATTATTAAAAAATTATA
Found at i:47204130 original size:11 final size:10
Alignment explanation
Indices: 47204059--47204134 Score: 61
Period size: 11 Copynumber: 7.7 Consensus size: 10
47204049 GGATGACTTC
47204059 AAAATTATAAA
1 AAAATTAT-AA
47204070 AAAATT-T-A
1 AAAATTATAA
*
47204078 GAAATTATAA
1 AAAATTATAA
* *
47204088 AAGA-TATTA
1 AAAATTATAA
*
47204097 ATAATTATTAA
1 AAAATTA-TAA
47204108 AAAATTAT-A
1 AAAATTATAA
47204117 AAAATTACTAA
1 AAAATTA-TAA
47204128 AAAATTA
1 AAAATTA
47204135 AAATGTGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 6 0.12
9 15 0.29
10 8 0.16
11 22 0.43
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAATTATAA
Found at i:47204194 original size:18 final size:20
Alignment explanation
Indices: 47204158--47204209 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
47204148 CTCAAAGAAG
47204158 TATTTAATATTTTTAATAAT
1 TATTTAATATTTTTAATAAT
47204178 TATTTAA-ATTTTT-ATAAT
1 TATTTAATATTTTTAATAAT
**
47204196 TATAAAATATTTTT
1 TATTTAATATTTTT
47204210 TTCCATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.34
19 12 0.41
20 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTAATATTTTTAATAAT
Found at i:47204468 original size:19 final size:19
Alignment explanation
Indices: 47204444--47204485 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
47204434 TATACATTTG
47204444 ATTTTATCTATA-TTTATAA
1 ATTTTAT-TATATTTTATAA
*
47204463 ATTTTATTTTATTTTATAA
1 ATTTTATTATATTTTATAA
47204482 ATTT
1 ATTT
47204486 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTATTATATTTTATAA
Found at i:47205299 original size:29 final size:30
Alignment explanation
Indices: 47205266--47205329 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
47205256 ACTTAATGGA
*
47205266 TTATTATTTTGGAT-TACTATTTGTTGATG
1 TTATTATTTTGGATGTAATATTTGTTGATG
**
47205295 TTATT-TTTTTTATGTAATATTTGTTGATG
1 TTATTATTTTGGATGTAATATTTGTTGATG
47205324 TTATTA
1 TTATTA
47205330 ATATTACGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.22, C:0.02, G:0.14, T:0.62
Consensus pattern (30 bp):
TTATTATTTTGGATGTAATATTTGTTGATG
Found at i:47212567 original size:18 final size:18
Alignment explanation
Indices: 47212514--47212570 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 18
47212504 GCGTTAATTT
* * *
47212514 ATTTTTAAAAAAATTATAG
1 ATTTATAAAAATATTA-AA
*
47212533 ATTTGTAAAACATTATTAAA
1 ATTTATAAAA-A-TATTAAA
47212553 ATTTATAAAAATATTAAA
1 ATTTATAAAAATATTAAA
47212571 TAAAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 11 0.34
21 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
ATTTATAAAAATATTAAA
Found at i:47213128 original size:20 final size:21
Alignment explanation
Indices: 47213100--47213148 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
47213090 TTTTTAATTT
* * *
47213100 TTTTAAATATTTTTTTATAAA
1 TTTTAAATAATGTTTTACAAA
47213121 TTTT-AATAATGTTTTACAAA
1 TTTTAAATAATGTTTTACAAA
47213141 TTTATAAA
1 TTT-TAAA
47213149 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 16 0.70
21 5 0.22
22 2 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTAAATAATGTTTTACAAA
Found at i:47213158 original size:9 final size:9
Alignment explanation
Indices: 47213144--47213192 Score: 62
Period size: 9 Copynumber: 5.1 Consensus size: 9
47213134 TTACAAATTT
47213144 ATAAAAAAA
1 ATAAAAAAA
47213153 ATAAAAAAA
1 ATAAAAAAA
47213162 ATAAAAAATAA
1 AT-AAAAA-AA
*
47213173 AAAATAAAAA
1 ATAA-AAAAA
47213183 ATAAAAAAA
1 ATAAAAAAA
47213192 A
1 A
47213193 AATTATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 17 0.49
10 12 0.34
11 6 0.17
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:47213160 original size:7 final size:7
Alignment explanation
Indices: 47213157--47213194 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
47213147 AAAAAAATAA
47213157 AAAAAAT
1 AAAAAAT
47213164 AAAAAAT
1 AAAAAAT
47213171 AAAAAAT
1 AAAAAAT
47213178 AAAAAAT
1 AAAAAAT
47213185 AAAAAA-
1 AAAAAAT
47213191 AAAA
1 AAAA
47213195 TTATTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 27 0.87
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:47213209 original size:1 final size:1
Alignment explanation
Indices: 47213146--47213194 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
47213136 ACAAATTTAT
* * * * *
47213146 AAAAAAAATAAAAAAAATAAAAAATAAAAAATAAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
47213195 TTATTTTAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (1 bp):
A
Found at i:47215819 original size:26 final size:26
Alignment explanation
Indices: 47215790--47215857 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
47215780 AAAAACAAGT
* *
47215790 CTTGAGCTGGTGGTTATGTAGTAGGC
1 CTTGAGCCGGTGGTTATGTAGCAGGC
*
47215816 CTTGAGCCGGTGGTTATTTAGCAGGC
1 CTTGAGCCGGTGGTTATGTAGCAGGC
* * *
47215842 CTCGAGTCAGTGGTTA
1 CTTGAGCCGGTGGTTA
47215858 GCAGGCTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.32
Consensus pattern (26 bp):
CTTGAGCCGGTGGTTATGTAGCAGGC
Found at i:47217103 original size:29 final size:29
Alignment explanation
Indices: 47217019--47217104 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
47217009 GTCGTGTACC
* * * **
47217019 ACACACGGTCTCCTACATGACCGTGTGCC
1 ACACACGGTCTCCCACACGGCCGTGTGGA
* * * *
47217048 ACATATGGTCTCCCACATC-GTCATGTGGA
1 ACACACGGTCTCCCACA-CGGCCGTGTGGA
47217077 ACACACGGTCTCCCACACGGCCGTGTGG
1 ACACACGGTCTCCCACACGGCCGTGTGG
47217105 TTGTTTGATT
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (29 bp):
ACACACGGTCTCCCACACGGCCGTGTGGA
Found at i:47219956 original size:3 final size:3
Alignment explanation
Indices: 47219948--47219992 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
47219938 AAATTAGTTA
47219948 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47219993 GGAACCCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47220108 original size:42 final size:42
Alignment explanation
Indices: 47220054--47220138 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
47220044 TAGAAACCCC
*
47220054 TAGAAGAAGAACCTCTAGAAACACCGATGAACGGGAAAGAAA
1 TAGAAGAAGAACCTCTAGAAACACCGATGAACAGGAAAGAAA
47220096 TAGAAGAAGAACCTCTAGAAACACCGATGAACAGGAAAGAAA
1 TAGAAGAAGAACCTCTAGAAACACCGATGAACAGGAAAGAAA
47220138 T
1 T
47220139 TTGAATATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (42 bp):
TAGAAGAAGAACCTCTAGAAACACCGATGAACAGGAAAGAAA
Done.