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 135 of 205
Found at i:40942801 original size:97 final size:97
Alignment explanation
Indices: 40942635--40942827 Score: 368
Period size: 97 Copynumber: 2.0 Consensus size: 97
40942625 TTTTGAGGAA
*
40942635 ATTGTTAGCCTTTACACAAATGGTGAGAACTTCAAAGAATCTTTGGTTTTAAGGATATTATTAGC
1 ATTGTTAGCCTTTACACAAATGGTAAGAACTTCAAAGAATCTTTGGTTTTAAGGATATTATTAGC
40942700 CTCTATACAAATGATGAGGACATAGAAGAAAG
66 CTCTATACAAATGATGAGGACATAGAAGAAAG
*
40942732 ATTGTTAGCCTTTACACAAATGGTAAGAACTTCAAAGAATCTTTGGTTTTGAGGATATTATTAGC
1 ATTGTTAGCCTTTACACAAATGGTAAGAACTTCAAAGAATCTTTGGTTTTAAGGATATTATTAGC
40942797 CTCTATACAAATGATGAGGACATAGAAGAAA
66 CTCTATACAAATGATGAGGACATAGAAGAAA
40942828 TAAAGAAAGC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (97 bp):
ATTGTTAGCCTTTACACAAATGGTAAGAACTTCAAAGAATCTTTGGTTTTAAGGATATTATTAGC
CTCTATACAAATGATGAGGACATAGAAGAAAG
Found at i:40949543 original size:19 final size:19
Alignment explanation
Indices: 40949519--40949555 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
40949509 TTAAATAATA
*
40949519 AATTATTGTTATAATTATT
1 AATTATTATTATAATTATT
*
40949538 AATTATTATTATTATTAT
1 AATTATTATTATAATTAT
40949556 ATTATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
AATTATTATTATAATTATT
Found at i:40949546 original size:16 final size:17
Alignment explanation
Indices: 40949522--40949560 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
40949512 AATAATAAAT
*
40949522 TATTGTTATAATTATTA
1 TATTATTATAATTATTA
*
40949539 -ATTATTATTATTATTA
1 TATTATTATAATTATTA
40949555 TATTAT
1 TATTAT
40949561 AAAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTATTATAATTATTA
Found at i:40949845 original size:11 final size:12
Alignment explanation
Indices: 40949815--40949848 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
40949805 ATATATTTAC
40949815 TTATTATATAAG
1 TTATTATATAAG
40949827 TATATTAT-TAAG
1 T-TATTATATAAG
40949839 TTATTATATA
1 TTATTATATA
40949849 TATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:40951731 original size:35 final size:32
Alignment explanation
Indices: 40951666--40951732 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
40951656 ATTATTATTG
*
40951666 AATAATTGATTGTTACTGACTGTTATTGAATA
1 AATAATTGATTGTTACTGACTGTTAATGAATA
* *
40951698 AATAATTGTTCTGATTAGCTGATTGTTAATGAATA
1 AATAATTGAT-TG-TTA-CTGACTGTTAATGAATA
40951733 TTACTGATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 2 0.07
34 3 0.10
35 15 0.52
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.43
Consensus pattern (32 bp):
AATAATTGATTGTTACTGACTGTTAATGAATA
Found at i:40952441 original size:22 final size:22
Alignment explanation
Indices: 40952413--40952456 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
40952403 GCCACTTTAG
40952413 CATAGTTGGTTCTTCTCTCTAT
1 CATAGTTGGTTCTTCTCTCTAT
40952435 CATAGTTGGTTCTTCTCTCTAT
1 CATAGTTGGTTCTTCTCTCTAT
40952457 TCCCAGCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.50
Consensus pattern (22 bp):
CATAGTTGGTTCTTCTCTCTAT
Found at i:40957038 original size:39 final size:40
Alignment explanation
Indices: 40956943--40957165 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
40956933 TTGAATGATG
*
40956943 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
40956981 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
40957022 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
40957061 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
40957100 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
40957139 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
40957166 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:40957129 original size:79 final size:81
Alignment explanation
Indices: 40956943--40957165 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
40956933 TTGAATGATG
* * *
40956943 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
40957004 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
40957022 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
40957084 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
40957100 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
40957164 TG
66 TG
40957166 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:40957187 original size:79 final size:79
Alignment explanation
Indices: 40956943--40957198 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
40956933 TTGAATGATG
* * * *
40956943 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
40957004 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
40957022 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
40957086 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
40957100 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
40957164 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
40957180 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40957199 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:40970138 original size:30 final size:30
Alignment explanation
Indices: 40970102--40970160 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
40970092 TTTCTTTTGC
40970102 TGAAACACCTTAGGGTCGTTCTTTTCTCTT
1 TGAAACACCTTAGGGTCGTTCTTTTCTCTT
*
40970132 TGAAACACCTTAGGGTTGTTCTTTTCTCT
1 TGAAACACCTTAGGGTCGTTCTTTTCTCT
40970161 CTTTTCCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (30 bp):
TGAAACACCTTAGGGTCGTTCTTTTCTCTT
Found at i:40976251 original size:22 final size:22
Alignment explanation
Indices: 40976226--40976275 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
40976216 GAAAATTCCG
*
40976226 CTATGGAAGTGGGAAAGAGTAA
1 CTATGGAACTGGGAAAGAGTAA
*
40976248 CTATGG-ACTTGGAAAGAGTAA
1 CTATGGAACTGGGAAAGAGTAA
*
40976269 CAATGGA
1 CTATGGA
40976276 CTTTGTGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.40, C:0.08, G:0.32, T:0.20
Consensus pattern (22 bp):
CTATGGAACTGGGAAAGAGTAA
Found at i:40976263 original size:21 final size:21
Alignment explanation
Indices: 40976237--40976278 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
40976227 TATGGAAGTG
*
40976237 GGAAAGAGTAACTATGGACTT
1 GGAAAGAGTAACAATGGACTT
40976258 GGAAAGAGTAACAATGGACTT
1 GGAAAGAGTAACAATGGACTT
40976279 TGTGAGTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (21 bp):
GGAAAGAGTAACAATGGACTT
Found at i:40977467 original size:28 final size:28
Alignment explanation
Indices: 40977434--40977489 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
40977424 TGGATGTGAA
*
40977434 ATTAATATTTTGAGTAGGTATATGGGCT
1 ATTAATATTTTGAGTAGGAATATGGGCT
40977462 ATTAATATTTTGAGTAGGAATATGGGCT
1 ATTAATATTTTGAGTAGGAATATGGGCT
40977490 TATAGAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.41
Consensus pattern (28 bp):
ATTAATATTTTGAGTAGGAATATGGGCT
Found at i:40978100 original size:15 final size:15
Alignment explanation
Indices: 40978080--40978109 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40978070 CAACACTTGT
40978080 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
40978095 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
40978110 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:40982225 original size:43 final size:43
Alignment explanation
Indices: 40982164--40982250 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
40982154 TTTCATACCT
*
40982164 TTGAAATTTAGTTTCCTTATATTATTTTTAGGAATTTAGTTAG
1 TTGAAATTTAGTTTCCTTATATTATTTTCAGGAATTTAGTTAG
*
40982207 TTGAAATTTAGTTTCCTTATTTTATTTTCAGGAATTTAGTTAG
1 TTGAAATTTAGTTTCCTTATATTATTTTCAGGAATTTAGTTAG
40982250 T
1 T
40982251 CTACTTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (43 bp):
TTGAAATTTAGTTTCCTTATATTATTTTCAGGAATTTAGTTAG
Found at i:40983064 original size:21 final size:21
Alignment explanation
Indices: 40983040--40983082 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
40983030 ATATTTTATT
*
40983040 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TAAAAAATATA
40983061 TAAATATTAATAAAAAATATA
1 TAAATATTAATAAAAAATATA
40983082 T
1 T
40983083 TTTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATAAAAAATATA
Found at i:40983163 original size:18 final size:16
Alignment explanation
Indices: 40983125--40983163 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
40983115 TATATATTTA
*
40983125 ATATAAAATTTAAAAT
1 ATATAAAATTAAAAAT
40983141 ATATAAAATTAAACAATT
1 ATATAAAATTAAA-AA-T
40983159 ATATA
1 ATATA
40983164 TACAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 2 0.10
18 6 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAAATTAAAAAT
Found at i:40983255 original size:40 final size:41
Alignment explanation
Indices: 40983168--40983262 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 41
40983158 TATATATACA
* *
40983168 ATTTATTTTATTATATTAATATTAAAATTATACATTTTAAT
1 ATTTATATTAATATATTAATATTAAAATTATACATTTTAAT
* *
40983209 A-GTATATTAATATATTAATA-TAAAATTA-A-ATATTTAGTT
1 ATTTATATTAATATATTAATATTAAAATTATACAT-TTTA-AT
*
40983248 ATTTATATAAATATA
1 ATTTATATTAATATA
40983263 GTTTTTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
37 2 0.04
38 5 0.11
39 10 0.22
40 27 0.60
41 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (41 bp):
ATTTATATTAATATATTAATATTAAAATTATACATTTTAAT
Found at i:40993641 original size:41 final size:40
Alignment explanation
Indices: 40993582--40993724 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
40993572 CTCGAATGAT
* *
40993582 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTAC
* *
40993623 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACTAC
* *
40993663 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
* *
40993703 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
40993725 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAC
Found at i:40993674 original size:40 final size:40
Alignment explanation
Indices: 40993580--40993760 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
40993570 TACTCGAATG
* *
40993580 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* *
40993621 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
40993661 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * * **
40993701 ACATCCGGGTTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
40993740 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40993761 ATGCTTGATT
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 12 0.10
39 15 0.13
40 61 0.52
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:41000590 original size:38 final size:38
Alignment explanation
Indices: 41000528--41000705 Score: 200
Period size: 38 Copynumber: 4.6 Consensus size: 38
41000518 GTTTGATGTG
41000528 TATCCGGGCTTAAAGAT-CCGCAGGCTAT-ATGCTGGTATTA
1 TATCCGGG-TT-AA-ATCCCGCAGGCT-TCATGCTGGTATTA
*
41000568 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
* * *
41000606 TAGCCGCGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
* *
41000644 TATCCGAGTTAAATCCCGCAGGCTT-AGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATTA
* *
41000682 TATTCGAGCTTAAAGTCCCGCAGG
1 TATCCG-GGTTAAA-TCCCGCAGG
41000706 TTTTGTGCTA
Statistics
Matches: 123, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
37 3 0.02
38 96 0.78
39 7 0.06
40 17 0.14
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
Found at i:41007862 original size:15 final size:15
Alignment explanation
Indices: 41007842--41007871 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41007832 TGATGGCCTG
41007842 TGTGGTTCACATAGC
1 TGTGGTTCACATAGC
41007857 TGTGGTTCACATAGC
1 TGTGGTTCACATAGC
41007872 CTAAGCACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
TGTGGTTCACATAGC
Found at i:41009189 original size:46 final size:47
Alignment explanation
Indices: 41009140--41009319 Score: 194
Period size: 46 Copynumber: 3.9 Consensus size: 47
41009130 TGAACTGACA
41009140 CATCTCGTA-GCTGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 CATCTCGTAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
41009185 ACATCTCG-AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
1 -CATCTCGTAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* * *
41009232 CATCTC-AATG-TCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCT
1 CATCTCGTAGGCT-GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* * *
41009280 CATAAT-GT-GGCTGATTCATGTCCTAGACATGTCTTACACT
1 CAT-CTCGTAGGCTGATGCATGTCCCAGACATGTCTTACACT
41009320 AGCACACAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
45 1 0.01
46 61 0.54
47 28 0.25
48 21 0.19
49 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (47 bp):
CATCTCGTAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:41009300 original size:94 final size:96
Alignment explanation
Indices: 41008954--41009322 Score: 284
Period size: 94 Copynumber: 3.9 Consensus size: 96
41008944 CATAGGGTAT
* * * * * *
41008954 AATGCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTATCGA-AATCGAGGCTGACGGAATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAATCGAGGCCGA-TGCATG
* *
41009018 T-CTAGACATGGTCTTACACTAGCTCTCACATATC
64 TCCCAGACATGGTCTTACACTAGCTCT--CATCTC
** * * * * *
41009052 CGTGCCGATGCCATATCCCAGACATGGTCTTACACTGACACCTC-TATAT-G-TGCCAATGCCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATCGAGGCCGATG-CAT
* * * *
41009114 GCCCCAAACATGGTCTTGA-ACT-G-ACACATCTC
63 GTCCCAGACATGGTCTT-ACACTAGCTCTCATCTC
* * *
41009146 -GTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATG
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCGAGGCCGATGCATG
41009206 TCCCAGACAT-GTCTTACACTAGCTCTCATCTC
64 TCCCAGACATGGTCTTACACTAGCTCTCATCTC
* * * * *
41009238 AATGTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGCTGATTCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGAGGCCGATGCATGTC
*
41009302 CTAGACAT-GTCTTACACTAGC
66 CCAGACATGGTCTTACACTAGC
41009323 ACACAAATAA
Statistics
Matches: 213, Mismatches: 39, Indels: 42
0.72 0.13 0.14
Matches are distributed among these distances:
89 1 0.00
90 10 0.05
91 15 0.07
92 31 0.15
93 30 0.14
94 60 0.28
95 2 0.01
96 2 0.01
97 7 0.03
98 50 0.23
99 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGAGGCCGATGCATGTC
CCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:41014418 original size:38 final size:38
Alignment explanation
Indices: 41014366--41014643 Score: 403
Period size: 38 Copynumber: 7.3 Consensus size: 38
41014356 ATATTCGATG
* *
41014366 TATATCCGGATTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
41014404 TATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
41014442 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
41014480 CATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
41014518 TATATCCAGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCC-GGGTTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
41014558 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
41014596 TATATCTGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
41014634 TATATTCGGG
1 TATATCCGGG
41014644 CCTTCGTGCC
Statistics
Matches: 214, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 173 0.81
39 14 0.07
40 27 0.13
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:41014582 original size:116 final size:114
Alignment explanation
Indices: 41014367--41014638 Score: 418
Period size: 116 Copynumber: 2.4 Consensus size: 114
41014357 TATTCGATGT
* * * *
41014367 ATATCCGGATTAAATCCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGCTTAAAACCCGCAAGCTTC
*
41014432 GTGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATC
66 GTGCTGGTAAAATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATC
*
41014481 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCAGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC-GGCTTAAA-ACCCGCAAGCT
* *
41014546 TCGTGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
64 TCGTGCTGGTAAAATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATC
* * * *
41014597 ATATCTGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATAT
41014639 TCGGGCCTTC
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
114 42 0.29
115 7 0.05
116 95 0.66
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (114 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGCTTAAAACCCGCAAGCTTC
GTGCTGGTAAAATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATC
Found at i:41014715 original size:43 final size:43
Alignment explanation
Indices: 41014636--41014717 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
41014626 GCTGGTATTA
* * **
41014636 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATACCGGTGATGTG
*
41014679 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATACCGGTGA
41014718 AATGACATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.28
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCGTAATACCGGTGATGTG
Found at i:41018023 original size:18 final size:17
Alignment explanation
Indices: 41018000--41018033 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41017990 TTGGGCCTCG
41018000 ATGGGCCATGTGGGCCCA
1 ATGGG-CATGTGGGCCCA
*
41018018 ATGGGCTTGTGGGCCC
1 ATGGGCATGTGGGCCC
41018034 CACGCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.26, G:0.41, T:0.21
Consensus pattern (17 bp):
ATGGGCATGTGGGCCCA
Found at i:41022165 original size:27 final size:27
Alignment explanation
Indices: 41022135--41022195 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
41022125 TTCGGTTTGG
* * *
41022135 AAAATGATCGTAATGCCCTTTTAGGGT
1 AAAATGATCGTAATACCCCTGTAGGGT
*
41022162 AAAATGATCGTAATACCCCTGTATGGT
1 AAAATGATCGTAATACCCCTGTAGGGT
41022189 AAAATGA
1 AAAATGA
41022196 CGATTATGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (27 bp):
AAAATGATCGTAATACCCCTGTAGGGT
Found at i:41022455 original size:22 final size:22
Alignment explanation
Indices: 41022430--41022472 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
41022420 CTGTAATATT
* * *
41022430 TACGGCCTTTAGCTGTTCTGTC
1 TACGGCATTAAGCCGTTCTGTC
41022452 TACGGCATTAAGCCGTTCTGT
1 TACGGCATTAAGCCGTTCTGT
41022473 TGACTTAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (22 bp):
TACGGCATTAAGCCGTTCTGTC
Found at i:41023970 original size:7 final size:7
Alignment explanation
Indices: 41023960--41023985 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
41023950 AGGAGAGAAT
41023960 GATGATG
1 GATGATG
41023967 GATGATG
1 GATGATG
41023974 GATGATG
1 GATGATG
41023981 GATGA
1 GATGA
41023986 GTAGAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.27
Consensus pattern (7 bp):
GATGATG
Found at i:41028579 original size:41 final size:40
Alignment explanation
Indices: 41028493--41028651 Score: 210
Period size: 41 Copynumber: 3.9 Consensus size: 40
41028483 GACAAATCAA
* * ***
41028493 CTATATATGGCACTTAGTGTGCGACTCGACATAGCTTCCA
1 CTATATATGGCACTTAGTGTGCGAATCGAGATAGCTTTGG
* *
41028533 CTATATGTGGCACTTAGTGTACGAGATCGAGATAGCTTTGG
1 CTATATATGGCACTTAGTGTGCGA-ATCGAGATAGCTTTGG
41028574 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTTGG
1 CTATATATGGCACTTAGTGTGCGA-ATCGAGATAGCTTTGG
* * *
41028615 CAATATATGGCACTTAGTGTGCGATTTGAGATAGCTT
1 CTATATATGGCACTTAGTGTGCGAATCGAGATAGCTT
41028652 CAGCTGTGTA
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 33 0.31
41 73 0.69
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGCGAATCGAGATAGCTTTGG
Found at i:41028588 original size:81 final size:81
Alignment explanation
Indices: 41028493--41028651 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 81
41028483 GACAAATCAA
* * *
41028493 CTATATATGGCACTTAGTGTGCGA-CTCGACATAGCTTCCACTATATGTGGCACTTAGTGTACGA
1 CTATATATGGCACTTAGTGTGCGAGATCGACATAGCTTCCACAATATATGGCACTTAGTGTACGA
41028557 GATCGAGATAGCTTTGG
66 -ATCGAGATAGCTTTGG
* *** *
41028574 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTTGGCAATATATGGCACTTAGTGTGCGA
1 CTATATATGGCACTTAGTGTGCGAGATCGACATAGCTTCCACAATATATGGCACTTAGTGTACGA
* *
41028639 TTTGAGATAGCTT
66 ATCGAGATAGCTT
41028652 CAGCTGTGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
81 35 0.52
82 32 0.48
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (81 bp):
CTATATATGGCACTTAGTGTGCGAGATCGACATAGCTTCCACAATATATGGCACTTAGTGTACGA
ATCGAGATAGCTTTGG
Found at i:41028669 original size:81 final size:81
Alignment explanation
Indices: 41028493--41028676 Score: 190
Period size: 81 Copynumber: 2.3 Consensus size: 81
41028483 GACAAATCAA
* * * * *
41028493 CTATATATGGCACTTAGTGTGCGACTCGACATAGCTTCCACTATATGTGGCACTTAGTGTACGAG
1 CTATATACGACACTTAGTGTGCGAATCGACATAGCTTCCACAATATATGGCACTTAGTGTACGAG
**
41028558 ATCGAGATAGCTTTGG
66 ATCGAGATAGCTTCAG
* * * *** *
41028574 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTTGGCAATATATGGCACTTAGTGTGCGA
1 CTATATACGACACTTAGTGTGCGA-ATCGACATAGCTTCCACAATATATGGCACTTAGTGTACGA
* *
41028639 -TTTGAGATAGCTTCAG
65 GATCGAGATAGCTTCAG
* *
41028655 CTGTGTACGACACTTAGTGTGC
1 CTATATACGACACTTAGTGTGC
41028677 ACAATATCGA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 54 0.63
82 32 0.37
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (81 bp):
CTATATACGACACTTAGTGTGCGAATCGACATAGCTTCCACAATATATGGCACTTAGTGTACGAG
ATCGAGATAGCTTCAG
Found at i:41030769 original size:42 final size:44
Alignment explanation
Indices: 41030666--41030823 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 44
41030656 ATGTGTTATT
* * * * *
41030666 GTGTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATCTAC
41030710 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATCT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATCTAC
* * * * * *
41030752 GTGTAAGGCCCTGTCTGGGACAGTGGCATCAATATTTGAT-TTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATCTAC
* * * *
41030795 ATGTAAGACCACGTTTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACATTGGCAT
41030824 TGTAAGAGCT
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 28 0.29
43 37 0.39
44 30 0.32
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATCTAC
Found at i:41032701 original size:27 final size:27
Alignment explanation
Indices: 41032671--41032799 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
41032661 ATTACCAAAG
* *
41032671 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
41032698 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
41032725 TACCTTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
41032752 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
41032779 TACCCTCGATTTA-AAAATTAC
1 TACCCTCGATTTACAGAATTAC
41032800 TAAAATACCC
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 7 0.08
27 83 0.92
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:41032737 original size:54 final size:54
Alignment explanation
Indices: 41032671--41032799 Score: 188
Period size: 54 Copynumber: 2.4 Consensus size: 54
41032661 ATTACCAAAG
*
41032671 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
* * * * *
41032725 TACCTTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
*
41032779 TACCCTCGATTTA-AAAATTAC
1 TACCCTCGATTTATAGAATTAC
41032800 TAAAATACCC
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 7 0.10
54 60 0.90
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
Found at i:41032831 original size:27 final size:27
Alignment explanation
Indices: 41032792--41033025 Score: 280
Period size: 27 Copynumber: 8.7 Consensus size: 27
41032782 CCTCGATTTA
*
41032792 AAAATTACTAAAATACCCTCAGTTTAG-
1 AAAATTACCAAAATACCCTCAGTTT-GT
**
41032819 AAAATTACCAAAATACCCTC-GATCAGT
1 AAAATTACCAAAATACCCTCAG-TTTGT
*
41032846 AAAATTACCAAAATACCCT-AGTCTGT
1 AAAATTACCAAAATACCCTCAGTTTGT
* * **
41032872 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTCAGTTTGT
* * *
41032899 AAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCAGTTTGT
41032926 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTC-AGTTTGT
*
41032953 AAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACCAAAATACC-CTCAGTTTGT
*
41032980 AAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCAGTTTGT
41033007 AAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCT
41033026 TGATTTACAA
Statistics
Matches: 178, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
26 26 0.15
27 151 0.85
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAGTTTGT
Found at i:41032984 original size:81 final size:80
Alignment explanation
Indices: 41032792--41033024 Score: 335
Period size: 81 Copynumber: 2.9 Consensus size: 80
41032782 CCTCGATTTA
* * **
41032792 AAAATTACTAAAATACCCTCAGTTTAG-AAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCT-GGTTT-GTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
41032856 AAATA-CCCTAGTCTGT
64 AAATACCCCTAGTCTGT
* * *
41032872 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
*
41032937 AATACCCCTAGTTTGT
65 AATACCCCTAGTCTGT
*
41032953 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
41033018 AATACCC
65 AATACCC
41033025 TTGATTTACA
Statistics
Matches: 137, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 1 0.01
80 58 0.42
81 77 0.56
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTCTGT
Found at i:41033031 original size:27 final size:27
Alignment explanation
Indices: 41032779--41033138 Score: 259
Period size: 27 Copynumber: 13.3 Consensus size: 27
41032769 ATTACTGTTT
* * *
41032779 TACCCTCGATTT-AAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
41032805 TACCC-TCAGTTTAG-AAAATTACCAAAA
1 TACCCTTGA-TTT-GTAAAATTACCAAAA
* **
41032832 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * * *
41032859 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * *
41032885 TACCCTTGGTTTGTAAAATTATCGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
**
41032912 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
41032939 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAA
*
41032966 TACCAC-TGGTTTGTAAAATTACCAAAA
1 TACC-CTTGATTTGTAAAATTACCAAAA
**
41032993 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
** *
41033020 TACCCTTGATTTACAAAGTTA-CAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* ***
41033046 GTACCCTTGACTTTCTAAAAATTATGGAAA
1 -TACCCTTGA-TTTGT-AAAATTACCAAAA
* * * **
41033076 TACCATTGGTTT-AACAAGATTACTGAAA
1 TACCCTTGATTTGTA-AA-ATTACCAAAA
* * *
41033104 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
41033131 CACCCTTG
1 TACCCTTG
41033139 TAGGATGAAA
Statistics
Matches: 267, Mismatches: 50, Indels: 33
0.76 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 39 0.15
27 182 0.68
28 28 0.10
29 14 0.05
30 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:41033199 original size:27 final size:27
Alignment explanation
Indices: 41033169--41033256 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
41033159 ACCCCTATTA
**
41033169 GGTAAAAAGACTTTAAAGCACCTGTAG
1 GGTAAAAAGACCGTAAAGCACCTGTAG
* *
41033196 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCACCTGTAG
** * *
41033223 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCACCTGTAG
41033250 GGTAAAA
1 GGTAAAA
41033257 TGACGAATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCACCTGTAG
Found at i:41033260 original size:27 final size:27
Alignment explanation
Indices: 41033182--41033260 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
41033172 AAAAAGACTT
*
41033182 TAAAGCACCTGTAGGGTAAAGA-GACCG
1 TAAAGCCCCTGTAGGGTAAA-ATGACCG
*
41033209 TAAAGCCCCTGTAGGGTAAAGTGACCG
1 TAAAGCCCCTGTAGGGTAAAATGACCG
*
41033236 TAATA-CCCCTGTATGGTAAAATGAC
1 TAA-AGCCCCTGTAGGGTAAAATGAC
41033261 GAATGTGCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
TAAAGCCCCTGTAGGGTAAAATGACCG
Found at i:41034137 original size:52 final size:51
Alignment explanation
Indices: 41034059--41034194 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
41034049 GAGGAAGTGC
*
41034059 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TACCCCAGTTTACCG
41034111 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
41034162 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
41034195 AGGCCTCCAG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 24 0.29
52 36 0.44
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
Found at i:41034158 original size:25 final size:26
Alignment explanation
Indices: 41034059--41034194 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
41034049 GAGGAAGTGC
41034059 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
41034085 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
41034111 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
41034137 AAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
41034162 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
41034185 AAAAGAGGCT
1 AAAAG-GGCT
41034195 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 29 0.29
26 58 0.59
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:41034435 original size:31 final size:31
Alignment explanation
Indices: 41034400--41034602 Score: 361
Period size: 31 Copynumber: 6.5 Consensus size: 31
41034390 CGTTTATAGT
*
41034400 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
41034431 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
41034462 AAAGGCTTCAGCCCAGTAACATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
41034493 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
41034524 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
41034555 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
41034586 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
41034603 AACCGTTAAA
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 163 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:41034655 original size:93 final size:92
Alignment explanation
Indices: 41034400--41034642 Score: 273
Period size: 93 Copynumber: 2.7 Consensus size: 92
41034390 CGTTTATAGT
* * * * * * *
41034400 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
1 AAAGGCTTCGGCCCAGTGATACGATTAACGAAAAGGCTTCGGCCCAGTGATATGA-TCAAGATAA
*
41034465 GGCTTCAGCCCAGTAACATGATTTATGA
65 GGCTTCGGCCCAGTAACATGATTTATGA
* * * * *
41034493 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGATAA
1 AAAGGCTTCGGCCCAGTGATACGATTAACGAAAAGGCTTCGGCCCAGTGATATGA-TCAAGATAA
* *
41034558 GGCTTCGGCCCAGTGATATGATTTATGA
65 GGCTTCGGCCCAGTAACATGATTTATGA
41034586 AAAGGCTTCGGCCCAGT-A-ACCG-TTAAACG-AAAGGCTTCGGCCCAGT-ATATG-TCAAGA
1 AAAGGCTTCGGCCCAGTGATA-CGATT-AACGAAAAGGCTTCGGCCCAGTGATATGATCAAGA
41034643 CTAAATAGGG
Statistics
Matches: 138, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
88 4 0.03
90 5 0.04
91 20 0.14
92 4 0.03
93 105 0.76
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (92 bp):
AAAGGCTTCGGCCCAGTGATACGATTAACGAAAAGGCTTCGGCCCAGTGATATGATCAAGATAAG
GCTTCGGCCCAGTAACATGATTTATGA
Found at i:41036989 original size:47 final size:47
Alignment explanation
Indices: 41036931--41037278 Score: 615
Period size: 47 Copynumber: 7.4 Consensus size: 47
41036921 CAGCCAAGAC
41036931 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
41036978 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
41037025 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
41037072 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
41037119 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
41037166 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
41037213 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
41037260 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
41037279 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 289 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:41037861 original size:44 final size:44
Alignment explanation
Indices: 41037798--41037884 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
41037788 GCTTAAAACT
41037798 TACTAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCTG
1 TACTAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCTG
*
41037842 TACTAAGCATTGTAATGCTTACTCCGTTTACTTTGTTTCCTCT
1 TACTAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCT
41037885 ATTTTATAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (44 bp):
TACTAAGCATTGTAATGCTTACTCCGTTTACTCTGTTTCCTCTG
Found at i:41039420 original size:29 final size:29
Alignment explanation
Indices: 41039385--41039458 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
41039375 GTTGTGAGAT
* *
41039385 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
41039414 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
41039443 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41039459 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:41040003 original size:40 final size:40
Alignment explanation
Indices: 41039769--41039989 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
41039759 TCGAATGATG
* *
41039769 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
41039809 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
41039849 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
41039889 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
41039929 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
41039969 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
41039990 TAATCATGCT
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 130 0.86
41 20 0.13
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:41045022 original size:37 final size:37
Alignment explanation
Indices: 41044964--41045042 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
41044954 CCGAGCTCTA
* * *
41044964 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAG-ATTATGTCCGGGT
*
41045001 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
41045038 AAGAC
1 AAGAC
41045043 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:41051735 original size:42 final size:43
Alignment explanation
Indices: 41051633--41051736 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
41051623 GTTATTGTGT
* * *
41051633 AAGACCA-AGTCTGGGACATTGGCATCGATTTGTTATTTACGTGT
1 AAGACCATA-TCTGGGACATTGGAATCGATATG-TATTTACGTGG
*
41051677 AAGACCATGTCTGGGACATTGGAATCGTATATG-ATTT-CGTGG
1 AAGACCATATCTGGGACATTGGAATCG-ATATGTATTTACGTGG
*
41051719 AAGACCCTATCTGGGACA
1 AAGACCATATCTGGGACA
41051737 GTGACATCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
42 20 0.38
43 4 0.08
44 24 0.46
45 4 0.08
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
AAGACCATATCTGGGACATTGGAATCGATATGTATTTACGTGG
Found at i:41051766 original size:43 final size:42
Alignment explanation
Indices: 41051630--41051778 Score: 104
Period size: 43 Copynumber: 3.5 Consensus size: 42
41051620 TGTGTTATTG
* * * * * *
41051630 TGTAAGACCA-AGTCTGGGACATTGGCATCGATTTGTTATTTACG
1 TGTAAGACCATA-TCTGGGACAGTGGAATC-ATATATGATTT-CA
* * * *
41051674 TGTAAGACCATGTCTGGGACATTGGAATCGTATATGATTTCG
1 TGTAAGACCATATCTGGGACAGTGGAATCATATATGATTTCA
* * *
41051716 TGGAAGACCCTATCTGGGACAGT-GACATCAATATTTGATTTCA
1 TGTAAGACCATATCTGGGACAGTGGA-ATC-ATATATGATTTCA
* *
41051759 TGTAAGACAACATCTGGGAC
1 TGTAAGACCATATCTGGGAC
41051779 GTTCGCATTG
Statistics
Matches: 85, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 24 0.28
43 33 0.39
44 26 0.31
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACAGTGGAATCATATATGATTTCA
Found at i:41059426 original size:40 final size:40
Alignment explanation
Indices: 41059205--41059418 Score: 324
Period size: 40 Copynumber: 5.4 Consensus size: 40
41059195 AAACCAAGTA
* *
41059205 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
41059244 CCTTCGGAATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
41059284 CCTTCGGGACTTATCCCGGATATAGTAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41059324 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41059364 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41059404 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
41059419 TCGGTTATCA
Statistics
Matches: 159, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.08
40 146 0.92
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41068382 original size:40 final size:40
Alignment explanation
Indices: 41067376--41068378 Score: 1792
Period size: 40 Copynumber: 25.1 Consensus size: 40
41067366 GAGAATTAGT
* * * *
41067376 CGGATATAGCT-ACTCGCTCAAATGCCTTCGGGATTTAGCC
1 CGGATATAG-TAACTCACACAAATGCCTTTGGGACTTAGCC
* * *
41067416 CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067456 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
** *
41067496 CGGATATAGTAACTCGTACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067536 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067576 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067616 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067656 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067696 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067736 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067776 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067816 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067856 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067896 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067936 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41067976 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41068016 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41068056 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41068096 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41068136 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41068176 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41068216 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
** *
41068256 CGGATATAGTAACTCGTACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
* * * * *
41068296 CGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAACC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
* * * *
41068336 CGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
41068376 CGG
1 CGG
41068379 TTATCATCCG
Statistics
Matches: 940, Mismatches: 22, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
39 1 0.00
40 939 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
CGGATATAGTAACTCACACAAATGCCTTTGGGACTTAGCC
Found at i:41068818 original size:45 final size:45
Alignment explanation
Indices: 41068759--41068848 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
41068749 TAATCATTCG
* *
41068759 ACATCTTGCTCAAATCACCATAGGGAATCTCAACTTTCTTGACAT
1 ACATCTTGCTCAAATCACCACAGGAAATCTCAACTTTCTTGACAT
41068804 ACATCTTGCTCAAATCACCACAGGAAATCTCAACTTTCTTGACAT
1 ACATCTTGCTCAAATCACCACAGGAAATCTCAACTTTCTTGACAT
41068849 TACCAAGAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (45 bp):
ACATCTTGCTCAAATCACCACAGGAAATCTCAACTTTCTTGACAT
Found at i:41088714 original size:17 final size:17
Alignment explanation
Indices: 41088675--41088733 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
41088665 AAAACAAATA
*
41088675 GAGGCCCAAA-CCTA-T
1 GAGGCCCAAACCCAACT
*
41088690 GTGGCCCAAACCCAACT
1 GAGGCCCAAACCCAACT
* *
41088707 GAGGCCCAAACCAAACA
1 GAGGCCCAAACCCAACT
*
41088724 GAAGCCCAAA
1 GAGGCCCAAA
41088734 GCAGATTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 24 0.67
ACGTcount: A:0.39, C:0.36, G:0.19, T:0.07
Consensus pattern (17 bp):
GAGGCCCAAACCCAACT
Found at i:41102011 original size:44 final size:44
Alignment explanation
Indices: 41101951--41102762 Score: 426
Period size: 44 Copynumber: 18.8 Consensus size: 44
41101941 TAGTGGCCGG
* *
41101951 GATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
41101995 GATCTTATCTCGCTGAAGTTGCAG-AGAGCAGA-TCACATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * *
41102036 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* **
41102080 G-TCTTATC-CTCCTGAAGTTGCAGT-GACGCAGACTAAAGATGACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAA-ATCTCA
* * *
41102124 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TCA
* * * * *
41102169 -ATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATATTA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
** * ** * *
41102212 GATCTTATCTTTCTGAAGTTACA-AAGAGCAGA-TCACATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
41102253 G-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* * **
41102297 G-TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
* * *
41102341 AATCTTATCTCCCTGAATTTACAGTGGAGCAGATTAAAA-C-CGA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTC-A
* * *
41102384 TAATCCTATCTCCCTGAAGTTGCGGTGGAGC-GAATTAAAATCTCA
1 -GATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATCTCA
** * * ***
41102429 GATCTTATCTTTCTGAAGCTGCAG-AGAGCAGA-TCGCATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
41102470 G-TCTTATCTCTCTGAAGTTTCAGTGGAGCAG-TCTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAA--AATCTCA
* * ***
41102514 G-TCTTATCCTCCC-GAAGTTGCAGT-GAGGCAGACTGAAGATGGAA
1 GATCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
* *
41102558 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-C-C-
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* *
41102599 GATAATTCTATCTTCCTGAAGTTGCAGTGGAGC-GAATTAAAATCTCA
1 GAT--CT-TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATCTCA
* ** * ****
41102646 AATCTTATCTCTTTGAAGTTGCA-TAGAGCAGA-TCGCGTCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
41102687 G-TCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAA--GCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
** *
41102730 GATCTTATCTCCCT-AAGCAGTAGTGGAGCAGAT
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
41102763 CGAAGATGGC
Statistics
Matches: 587, Mismatches: 121, Indels: 121
0.71 0.15 0.15
Matches are distributed among these distances:
40 75 0.13
41 36 0.06
42 28 0.05
43 57 0.10
44 288 0.49
45 90 0.15
46 11 0.02
47 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
Found at i:41102148 original size:89 final size:87
Alignment explanation
Indices: 41102037--41102761 Score: 380
Period size: 89 Copynumber: 8.4 Consensus size: 87
41102027 TCACATCTAG
41102037 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCAAGTCTTATCTC-CCTGAAGTTGC
41102101 AGT-GACGCAGACTAAAGATGACAAA
63 AGTGGA-GCAGACTAAAGATGACAAA
* *
41102126 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA-TCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAA--G-CAAGTCTTATCTCCCTGAAGTTGC
* * * * *
41102190 GGTGGAGCGGATTAAA-AT-ATTAGA
63 AGTGGAGCAGACTAAAGATGA-CAAA
** * ** * * * *
41102214 TCTTATCTTTCTGAAGTTACA-AAGAGCAGA-TCACATCTAGTCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
* * *
41102277 GGAGTAGACT-AAG-TAAGCAAG
66 GGAGCAGACTAAAGATGA-CAAA
* * *
41102298 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAATTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-AAG-CAAGTCTTATCTCCCTGAAGTT
* * * *
41102361 ACAGTGGAGCAGATTAAA-ACCGA-TAA
61 GCAGTGGAGCAGACTAAAGA-TGACAAA
* * * * * ** *
41102387 TCCTATCTCCCTGAAGTTGCGGTGGAGC-GAATTAAAATCTCAGATCTTATCTTTCTGAAGCTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAAAGC-AAG-TCTTATCTCCCTGAAGTTGC
* * * *
41102451 AG-AGAGCAGA-T--CGCAT--CTAG
63 AGTGGAGCAGACTAAAG-ATGACAAA
* * *
41102471 TCTTATCTCTCTGAAGTTTCAGTGGAGCAGTCTAAGTAAGCAAGTCTTATCCTCCC-GAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCAAGTCTTAT-CTCCCTGAAGTTGC
*
41102535 AGT-GAGGCAGACTGAAGATGGA-AAA
63 AGTGGA-GCAGACTAAAGAT-GACAAA
* * * * *
41102560 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCGATAAT-TCTATCTTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGC-A-AGTCT-TATCTCCCTGAAGTTGC
* **
41102624 AGTGGAGC-GAATTAAA-ATCTCAAA
63 AGTGGAGCAG-ACTAAAGATGACAAA
** * *** * * *
41102648 TCTTATCTCTTTGAAGTTGCA-TAGAGCAGA-T-CGCGTCTAGTCTTGTCTCCCTGAAGTTGTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAG-CAAGTCTTATCTCCCTGAAGTTGCAG
* *
41102710 TGGAGCAGACT-AAG-TAAGCAGA
65 TGGAGCAGACTAAAGATGA-CAAA
** *
41102732 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
41102762 TCGAAGATGG
Statistics
Matches: 477, Mismatches: 107, Indels: 109
0.69 0.15 0.16
Matches are distributed among these distances:
83 13 0.03
84 142 0.30
85 18 0.04
86 13 0.03
87 33 0.07
88 73 0.15
89 171 0.36
90 13 0.03
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTAAAGATGACAAA
Found at i:41102311 original size:217 final size:217
Alignment explanation
Indices: 41101952--41102738 Score: 1256
Period size: 217 Copynumber: 3.6 Consensus size: 217
41101942 AGTGGCCGGG
* **
41101952 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCGCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
41102017 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* * *
41102082 CTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
*
41102147 GTGGAGCAGATTAAAACCGACA
196 GTGGAGCAGATTAAAACCGATA
* * * * *
41102169 ATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATATTAGATCTTATCTTTCTGAAGTTAC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
* *
41102234 AAAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
41102299 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAATTTACA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
41102364 GTGGAGCAGATTAAAACCGATA
196 GTGGAGCAGATTAAAACCGATA
* *
41102386 ATCCTATCTCCCTGAAGTTGCGGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGCTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
* * * *
41102451 AGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTTCAGTGGAGCAGTCTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
41102516 CTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGA-AAATCTTATCTCCCTGAAGTTAC
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GACAAATCTTATCTCCCTGAAGTTAC
41102580 AGTGGAGCAGATTAAAACCGATA
195 AGTGGAGCAGATTAAAACCGATA
* * *
41102603 ATTCTATCTTCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAAATCTTATCTCTT-TGAAGTTG
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCT-TTCTGAAGTTG
* * * * *
41102667 CATAGAGCAGATCGCGTCTAGTCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGC-AG
65 CAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
41102731 ATCTTATC
130 -TCTTATC
41102739 TCCCTAAGCA
Statistics
Matches: 529, Mismatches: 38, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
216 2 0.00
217 523 0.99
218 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAACCGATA
Found at i:41102403 original size:173 final size:173
Alignment explanation
Indices: 41102079--41102404 Score: 373
Period size: 173 Copynumber: 1.9 Consensus size: 173
41102069 TAAGTAAGCA
*
41102079 AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGAAGACAAATCTTATCTCCCTGAAGTT
* * * * *
41102144 GCAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATA
66 GCAGTGGAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAGA
* **
41102209 TTAGATCTTATCTTTCTGAAGTTACAAAGAGCAGATCACATCT
131 TTAGATCCTATCTCCCTGAAGTTACAAAGAGCAGATCACATCT
* *
41102252 AGTCTTAT-CTCCCTGAAGTTGCAGTGGA-GTAGACT-AAGTAAG-CAAGTCTTATC-CTCCTGA
1 AGTCTTATCCT-CCTGAAGTTGCAGT-GACGCAGACTAAAG-AAGACAAATCTTATCTC-CCTGA
* * * *
41102312 AGTTGCAGT-GAGGCAGACTGAAGA-TGACAAATCTTATCTCCCTGAATTTACAGTGGAGCAGAT
62 AGTTGCAGTGGA-GCAGA-TGAAAACCGAC-AATCCTATCTCCCTGAAGTTACAGTGGAGCAGAT
41102375 TAAAACCGA-TA-ATCCTATCTCCCTGAAGTT
124 TAAAA--GATTAGATCCTATCTCCCTGAAGTT
41102405 GCGGTGGAGC
Statistics
Matches: 129, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
171 3 0.02
172 37 0.29
173 84 0.65
174 4 0.03
175 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGAAGACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAGA
TTAGATCCTATCTCCCTGAAGTTACAAAGAGCAGATCACATCT
Found at i:41103261 original size:17 final size:17
Alignment explanation
Indices: 41103222--41103280 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
41103212 AAAACAAATA
*
41103222 GAGGCCCAAA-CCTA-T
1 GAGGCCCAAACCCAACT
*
41103237 GTGGCCCAAACCCAACT
1 GAGGCCCAAACCCAACT
* *
41103254 GAGGCCCAAACCAAACA
1 GAGGCCCAAACCCAACT
*
41103271 GAAGCCCAAA
1 GAGGCCCAAA
41103281 GCAGATTCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 24 0.67
ACGTcount: A:0.39, C:0.36, G:0.19, T:0.07
Consensus pattern (17 bp):
GAGGCCCAAACCCAACT
Found at i:41115581 original size:14 final size:15
Alignment explanation
Indices: 41115562--41115598 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
41115552 TCCAAGTTTG
41115562 AATGCTA-TATAACA
1 AATGCTATTATAACA
41115576 AATGCTAATTATAACA
1 AATGCT-ATTATAACA
41115592 AATGCTA
1 AATGCTA
41115599 ATTAAAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 13 0.62
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (15 bp):
AATGCTATTATAACA
Found at i:41115590 original size:16 final size:16
Alignment explanation
Indices: 41115569--41115602 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
41115559 TTGAATGCTA
41115569 TATAACAAATGCTAAT
1 TATAACAAATGCTAAT
41115585 TATAACAAATGCTAAT
1 TATAACAAATGCTAAT
41115601 TA
1 TA
41115603 AAATGCCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
TATAACAAATGCTAAT
Found at i:41121437 original size:47 final size:47
Alignment explanation
Indices: 41121361--41121572 Score: 266
Period size: 47 Copynumber: 4.5 Consensus size: 47
41121351 CTTCGGGACT
* * * *
41121361 TATCACAT-TAATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATAT-ATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* * *
41121408 TGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* *
41121454 TCATCACATATATACACATTCACATTCATCACATCGGCCATTCGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* * *
41121502 TATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* *
41121549 TATCACATATATATACATTCACAT
1 TATCACATATATACACTTTCACAT
41121573 CACAATTATC
Statistics
Matches: 145, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
46 3 0.02
47 139 0.96
48 3 0.02
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
Found at i:41121482 original size:25 final size:25
Alignment explanation
Indices: 41121454--41121533 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
41121444 CCATTAGGCC
41121454 TCATCACATATATACACATTCACAT
1 TCATCACATATATACACATTCACAT
*** * *
41121479 TCATCAC--ATCGGC-CATTCGGCCT
1 TCATCACATATATACACATTC-ACAT
*
41121502 T-ATCACATATATACACTTTCACAT
1 TCATCACATATATACACATTCACAT
41121526 TCATCACA
1 TCATCACA
41121534 CCGGCCATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
22 10 0.26
23 6 0.15
24 6 0.15
25 17 0.44
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (25 bp):
TCATCACATATATACACATTCACAT
Found at i:41121523 original size:94 final size:94
Alignment explanation
Indices: 41121362--41121573 Score: 309
Period size: 94 Copynumber: 2.3 Consensus size: 94
41121352 TTCGGGACTT
* * * * *
41121362 ATCACAT-TAATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACATTT
1 ATCACATAT-ATACACATTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTT
*
41121426 TCACATTCATCACATCGGCCATTAGGCCTC
65 TCACATTCATCACACCGGCCATTAGGCCTC
* * *
41121456 ATCACATATATACACATTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTT
1 ATCACATATATACACATTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTTT
*
41121521 CACATTCATCACACCGGCCATTAGGCCTT
66 CACATTCATCACACCGGCCATTAGGCCTC
*
41121550 ATCACATATATATACATTCACATC
1 ATCACATATATACACATTCACATC
41121574 ACAATTATCC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 104 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (94 bp):
ATCACATATATACACATTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTTT
CACATTCATCACACCGGCCATTAGGCCTC
Found at i:41134728 original size:29 final size:29
Alignment explanation
Indices: 41134695--41134912 Score: 154
Period size: 29 Copynumber: 7.5 Consensus size: 29
41134685 CCATCAACCA
* * *
41134695 ATGAAAAGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
** * *
41134724 ATGAAAAGGGATGGTGGCGACCATCAACT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
* ** * *
41134753 ATGAAGAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
* *
41134782 ATGAAAAGGGATGGTGAT-GACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATCGATT
* * * *
41134811 ATGAAAAGGGATAGCTTC-AGCTATTGATT
1 ATGAAAAGGGATGGTTTCGA-CCATCGATT
* * * *
41134840 ATGAAAAAGGATAGTTTC-AGCTATCAATT
1 ATGAAAAGGGATGGTTTCGA-CCATCGATT
* * *
41134869 AATGGAAAGGGATGGTTTTGACCATCGAAT
1 -ATGAAAAGGGATGGTTTCGACCATCGATT
41134899 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
41134913 CTACAACTAT
Statistics
Matches: 152, Mismatches: 32, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
28 2 0.01
29 129 0.85
30 20 0.13
31 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACCATCGATT
Found at i:41138595 original size:30 final size:30
Alignment explanation
Indices: 41138561--41138645 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
41138551 TACCAAAAAA
*
41138561 TGGAAGCCTATGTGGCTATTCTCTAATAAC
1 TGGAAGCCTTTGTGGCTATTCTCTAATAAC
* **
41138591 TGGAAGCCTTTATGGCTGA-TCTCTAATATG
1 TGGAAGCCTTTGTGGCT-ATTCTCTAATAAC
*
41138621 TGGAAGCCTTTGTGTCTATTCTCTA
1 TGGAAGCCTTTGTGGCTATTCTCTA
41138646 TTCTTTGTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 45 0.96
31 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (30 bp):
TGGAAGCCTTTGTGGCTATTCTCTAATAAC
Found at i:41149314 original size:50 final size:50
Alignment explanation
Indices: 41149196--41149633 Score: 522
Period size: 50 Copynumber: 8.7 Consensus size: 50
41149186 TAATAATAAC
* * * * * *
41149196 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGAGA--TGT-TTCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * ** * *
41149243 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCA
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* **
41149295 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* *
41149345 ATGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
41149395 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * *
41149445 GTGTCAACGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * * * *
41149495 GTGCCAACGTCATGTCCCAGACTTGGTCTTACATTGGACTTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
41149545 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---G
41149601 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
41149634 CTGGCTCACA
Statistics
Matches: 338, Mismatches: 42, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
48 1 0.00
49 32 0.09
50 262 0.78
51 3 0.01
52 2 0.01
53 5 0.01
56 33 0.10
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:41165588 original size:111 final size:112
Alignment explanation
Indices: 41165387--41165610 Score: 378
Period size: 111 Copynumber: 2.0 Consensus size: 112
41165377 TCCATGATTG
* *
41165387 AAATCTACCTTTAATTATCTTTGTGTTGACTTGTTAAAGGTCTTTTTAGAGTTTTAGAGACTTCA
1 AAATCTACCTTTAATTATCTTTATGTTGACTTGTTAAAGG-CTTTTTAGAGATTTAGAGACTTCA
* *
41165452 CCTGGCCTTAATCAAAGAAAATCCACCAGGGACTTCTAAGATTAAATC
65 CCTGGCCTTAACCAAAGAAAATCCACCAGCGACTTCTAAGATTAAATC
* *
41165500 AAATTTACCTTTAATTATCTTTATGTTGACTTGTTAAAGG-TTTTTAGAGATTTAGAGACTTCGC
1 AAATCTACCTTTAATTATCTTTATGTTGACTTGTTAAAGGCTTTTTAGAGATTTAGAGACTTCAC
41165564 CTGGCCTTAACCAAAGAAAATCCACCAGCGACTTCTAAGATTAAATC
66 CTGGCCTTAACCAAAGAAAATCCACCAGCGACTTCTAAGATTAAATC
41165611 TGAAGTTGTC
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 67 0.64
113 38 0.36
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (112 bp):
AAATCTACCTTTAATTATCTTTATGTTGACTTGTTAAAGGCTTTTTAGAGATTTAGAGACTTCAC
CTGGCCTTAACCAAAGAAAATCCACCAGCGACTTCTAAGATTAAATC
Found at i:41168246 original size:50 final size:49
Alignment explanation
Indices: 41168187--41168310 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 49
41168177 CATTGAGATT
* * ** * *
41168187 ATGAGAGGTCCAATGTAAGACCATGTTTGGGACATGGTGTTGGCACTGAG
1 ATGAGAGGTCC-ATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** *
41168237 ATGAGAGGTCTCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTC-CATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
**
41168287 ATGAGAACTCCTATGTAAGACCAT
1 ATGAGAGGTCC-ATGTAAGACCAT
41168311 ATCTGGGATA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 57 0.97
51 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
ATGAGAGGTCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:41177478 original size:42 final size:42
Alignment explanation
Indices: 41177431--41177534 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
41177421 TATCGGGATG
* * *
41177431 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
41177473 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
41177515 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
41177535 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:41177548 original size:42 final size:42
Alignment explanation
Indices: 41177431--41177556 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
41177421 TATCGGGATG
* * ** *
41177431 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
41177473 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
41177515 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
41177556 T
1 T
41177557 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:41178469 original size:21 final size:21
Alignment explanation
Indices: 41178443--41178499 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
41178433 ATGGTATAAG
41178443 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
41178464 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
41178488 GTGGCATGAATT
1 GTTG-ATGAATT
41178500 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:41184789 original size:29 final size:28
Alignment explanation
Indices: 41184753--41184830 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
41184743 TCATGAGATT
41184753 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
41184783 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
41184810 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
41184831 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:41185048 original size:174 final size:174
Alignment explanation
Indices: 41184783--41185110 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
41184773 AAATTGTACA
*
41184783 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
41184848 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
41184913 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
41184957 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
41185022 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
41185087 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
41185111 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:41188319 original size:50 final size:50
Alignment explanation
Indices: 41188269--41188491 Score: 229
Period size: 50 Copynumber: 4.5 Consensus size: 50
41188259 TTATGAGAGG
* * * * **
41188269 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGATATGAAAAC
* * *
41188319 TACCC-CGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAAAAC
1 T-CCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGATATGAAAAC
** * * * **
41188369 TCCCATGTAAGACCATATCTGGGATTTGGAATTGGTA--G-TACAAGAAAC
1 TCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGATATGA-AAAC
* *
41188417 ATCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAAAAC
1 -TCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGATATGAAAAC
41188468 TCCCATGTAAGACCATATCTGGGA
1 TCCCATGTAAGACCATATCTGGGA
41188492 TTTGGAATTG
Statistics
Matches: 136, Mismatches: 30, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
47 3 0.02
48 5 0.04
49 33 0.24
50 84 0.62
51 8 0.06
52 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGATATGAAAAC
Found at i:41188427 original size:49 final size:49
Alignment explanation
Indices: 41188365--41188532 Score: 207
Period size: 49 Copynumber: 3.4 Consensus size: 49
41188355 ACCGATATGA
41188365 AAAC-TCCCATGTAAGACCATATCTGGGATTTGGAATTGGTAGTACAAG
1 AAACATCCCATGTAAGACCATATCTGGGATTTGGAATTGGTAGTACAAG
* * ** * * * * *
41188413 AAACATCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCG-ATATG
1 AAACATCCCATGTAAGACCATATCTGGGATTTGGAATTGGTA--GTACAAG
41188463 AAA-ACTCCCATGTAAGACCATATCTGGGATTTGGAATTGGTAGTACAAG
1 AAACA-TCCCATGTAAGACCATATCTGGGATTTGGAATTGGTAGTACAAG
41188512 AAACATCCCATGTAAGACCAT
1 AAACATCCCATGTAAGACCAT
41188533 GTCTAGGACA
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
48 5 0.05
49 53 0.55
50 37 0.39
51 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (49 bp):
AAACATCCCATGTAAGACCATATCTGGGATTTGGAATTGGTAGTACAAG
Found at i:41188452 original size:99 final size:99
Alignment explanation
Indices: 41188325--41188546 Score: 444
Period size: 99 Copynumber: 2.2 Consensus size: 99
41188315 GAGGTACCCC
41188325 GTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAAAACTCCCATGTAAGACCATATCTG
1 GTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAAAACTCCCATGTAAGACCATATCTG
41188390 GGATTTGGAATTGGTAGTACAAGAAACATCCCAT
66 GGATTTGGAATTGGTAGTACAAGAAACATCCCAT
41188424 GTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAAAACTCCCATGTAAGACCATATCTG
1 GTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAAAACTCCCATGTAAGACCATATCTG
41188489 GGATTTGGAATTGGTAGTACAAGAAACATCCCAT
66 GGATTTGGAATTGGTAGTACAAGAAACATCCCAT
41188523 GTAAGACCATGTCTAGGACATGGC
1 GTAAGACCATGTCTAGGACATGGC
41188547 TTTGGCATGT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 123 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (99 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAAAACTCCCATGTAAGACCATATCTG
GGATTTGGAATTGGTAGTACAAGAAACATCCCAT
Found at i:41189436 original size:21 final size:21
Alignment explanation
Indices: 41189412--41189451 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41189402 CTGACTATAT
*
41189412 AAAATCATTAAGACTTGTACA
1 AAAATAATTAAGACTTGTACA
* *
41189433 AAAATAATTATGAGTTGTA
1 AAAATAATTAAGACTTGTA
41189452 ATTTATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAGACTTGTACA
Found at i:41192734 original size:40 final size:40
Alignment explanation
Indices: 41192703--41192952 Score: 292
Period size: 40 Copynumber: 6.3 Consensus size: 40
41192693 GGACTAAGAT
* *
41192703 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGTC
* *
41192743 CCGAAGGCCTTTGTGCGAGATA-CTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATC-AAATCCGGGTTAAGTC
* *
41192783 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* *
41192823 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* * * *
41192863 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* * * * *
41192903 CCGAAGGCATT-GTGTGAGTTA-CTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATATC-AAATCCGGGTTAAGTC
41192942 CCGAAGGCATT
1 CCGAAGGCATT
41192953 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 33 0.17
40 158 0.81
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
Found at i:41192787 original size:80 final size:79
Alignment explanation
Indices: 41192650--41192952 Score: 342
Period size: 80 Copynumber: 3.8 Consensus size: 79
41192640 TTGAATGCTG
* * * * * **
41192650 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
41192713 TTGTGCGAGATACAAA
64 TCGTGCGAGTTATAAA
* *
41192729 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
41192794 CGTGCGAGTTATTAAA
65 CGTGCGAGTTA-TAAA
* * *
41192810 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
41192875 GTGCGAGTTGTTAAA
66 GTGCGAGTT-ATAAA
* * * * * *
41192890 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
41192953 TGAACGAGGA
Statistics
Matches: 192, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
79 36 0.19
80 145 0.76
81 11 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATAAA
Found at i:41192866 original size:120 final size:119
Alignment explanation
Indices: 41192650--41192952 Score: 358
Period size: 120 Copynumber: 2.5 Consensus size: 119
41192640 TTGAATGCTG
* * * * * *
41192650 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
* * *
41192714 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
* *
41192770 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* * * * **
41192835 GTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
* * * * *
41192890 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
41192953 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
119 35 0.22
120 115 0.73
121 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:41200726 original size:40 final size:39
Alignment explanation
Indices: 41200695--41200904 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
41200685 GGACTAAGAT
* *
41200695 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
41200735 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
41200775 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
41200815 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
41200855 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
41200894 CCGAAGGCATT
1 CCGAAGGCATT
41200905 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:41200858 original size:120 final size:120
Alignment explanation
Indices: 41200642--41200904 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
41200632 TTGAATGCTG
* *
41200642 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
41200706 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
41200762 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
41200825 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
41200881 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41200905 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:41200924 original size:79 final size:80
Alignment explanation
Indices: 41200643--41200939 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
41200633 TGAATGCTGT
* ** * * * **
41200643 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
41200706 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
41200723 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
41200787 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
41200803 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
41200867 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
41200882 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
41200940 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:41202817 original size:28 final size:28
Alignment explanation
Indices: 41202777--41202889 Score: 167
Period size: 28 Copynumber: 4.0 Consensus size: 28
41202767 CAGTATAGTT
41202777 TGGGCCTTAGCCCAATACAATAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
* *
41202805 TGGGCCTTAGCCCAATATAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
41202833 TGGGCCTTAGCCCAATACAA-AACCAGTG
1 TGGGCCTTAGCCCAATACAATAA-CAGTG
*
41202861 TGGGCCTTATCCCAATA-AAGTAACAGTG
1 TGGGCCTTAGCCCAATACAA-TAACAGTG
41202889 T
1 T
41202890 AGTGCAATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
27 4 0.05
28 71 0.92
29 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAACAGTG
Found at i:41202831 original size:61 final size:59
Alignment explanation
Indices: 41202736--41202892 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 59
41202726 CAGCATGCTG
* * * *
41202736 TAACAGTCTGGGCCTGAGCCCTAT-TCAGTGACAGTATAGTTTGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATAT-AGTAACAGT-TAG-TTGGGCCTTAGCCCAATACAA
41202797 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAG-T-G-TGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
* *
41202853 -AACCAGTGTGGGCCTTATCCCAATAAAGTAACAGTGTAGT
1 TAA-CAGTGTGGGCCTTAGCCCAATATAGTAACAGT-TAGT
41202893 GCAATAATGC
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
55 2 0.02
56 49 0.58
58 2 0.02
59 2 0.02
61 28 0.33
62 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (59 bp):
TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
Found at i:41202860 original size:56 final size:56
Alignment explanation
Indices: 41202777--41202889 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
41202767 CAGTATAGTT
*
41202777 TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
*
41202833 TGGGCCTTAGCCCAATACAA-AACCAGTGTGGGCCTTATCCCAATAAAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAA-CAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
41202889 T
1 T
41202890 AGTGCAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 2 0.04
56 52 0.96
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (56 bp):
TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
Found at i:41203051 original size:26 final size:26
Alignment explanation
Indices: 41202987--41203069 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
41202977 GCCAACACAC
*
41202987 CAGTATCGCAGCAAAGCTGCCGGTAAT
1 CAGTATCGCAGCAAAGCTGCCAGT-AT
* * *
41203014 -AGCATCACAGCAGAGCTGCCAGTAT
1 CAGTATCGCAGCAAAGCTGCCAGTAT
* *
41203039 CAGTATCGTAGCAAAGCTGCCAGTAA
1 CAGTATCGCAGCAAAGCTGCCAGTAT
41203065 CAGTA
1 CAGTA
41203070 CATGTGGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.04
26 44 0.96
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGTATCGCAGCAAAGCTGCCAGTAT
Found at i:41203511 original size:81 final size:81
Alignment explanation
Indices: 41203305--41203577 Score: 410
Period size: 81 Copynumber: 3.4 Consensus size: 81
41203295 AGTATAACAG
41203305 TCATTTTACCCTAT-GCGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
1 TCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
*
41203369 CTAT-GGGGTATTTCAG
65 CTATCGGGGTATTTCAA
* * *
41203385 TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACCC
41203450 TATCGGGGTATTTCAA
66 TATCGGGGTATTTCAA
* * *
41203466 TCATTTTACCCTATAGTGGTATTTCGGTCATTTTAC-CTTACAGGGGTATTTCGATCATTTTACC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTC-TATAGGGGTATTTCGGTCATTTTACC
41203530 CTA-CGGGGGTATTTCAA
65 CTATC-GGGGTATTTCAA
* *
41203547 TCATTTTACCCTATAGGAGTATTTTGGTCAT
1 TCATTTTACCCTATAGGGGTATTTCGGTCAT
41203578 AACACTATAA
Statistics
Matches: 177, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
80 66 0.37
81 111 0.63
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACCC
TATCGGGGTATTTCAA
Found at i:41203577 original size:27 final size:27
Alignment explanation
Indices: 41203304--41203577 Score: 354
Period size: 27 Copynumber: 10.2 Consensus size: 27
41203294 GAGTATAACA
41203304 GTCATTTTACCCTAT-GCGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
*
41203331 GTCATTTTACTCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
41203358 GTCATTTTACCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
41203384 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
41203411 GTCATTTTACTCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
41203438 GTCATTTTACCCTATCGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
41203465 ATCATTTTACCCTATAGTGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
41203492 GTCATTTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* ** *
41203519 ATCATTTTACCCTACGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
41203546 ATCATTTTACCCTATAGGAGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
41203573 GTCAT
1 GTCAT
41203578 AACACTATAA
Statistics
Matches: 214, Mismatches: 31, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 24 0.11
27 189 0.88
28 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:41203766 original size:19 final size:20
Alignment explanation
Indices: 41203744--41203785 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
41203734 AGCCCATTGA
41203744 GCCCA-CACGGCCCAACATG
1 GCCCATCACGGCCCAACATG
* *
41203763 GCCCATTACGGCCTAACATG
1 GCCCATCACGGCCCAACATG
41203783 GCC
1 GCC
41203786 ACTTACGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.43, G:0.21, T:0.12
Consensus pattern (20 bp):
GCCCATCACGGCCCAACATG
Found at i:41209339 original size:15 final size:16
Alignment explanation
Indices: 41209310--41209339 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41209300 CAAACATGCT
41209310 TTAACACATTATCAAA
1 TTAACACATTATCAAA
41209326 TTAACACA-TATCAA
1 TTAACACATTATCAA
41209340 CAACGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:41214998 original size:36 final size:36
Alignment explanation
Indices: 41214929--41214998 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
41214919 AGAAAAGTAA
*
41214929 TTTTTACATATATTAATAAATTTATATTTTAAATTT
1 TTTTTACATATATTAATAAATTTATATTATAAATTT
41214965 TTTTTACATATATTACA-ATAATTTAT-TTATAAAT
1 TTTTTACATATATTA-ATA-AATTTATATTATAAAT
41214999 AAATAAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 23 0.74
37 8 0.26
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTTACATATATTAATAAATTTATATTATAAATTT
Found at i:41220455 original size:48 final size:48
Alignment explanation
Indices: 41220387--41220486 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
41220377 GAAACTACTT
*
41220387 CAAACAGACTTGGTGTGTAACACCTCTTACCTGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
*
41220435 CAAACAGACTTGGTGTGTAACACCTTTTACCCGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
41220483 CAAA
1 CAAA
41220487 GTAAGAAGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (48 bp):
CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
Found at i:41221914 original size:51 final size:50
Alignment explanation
Indices: 41221771--41222065 Score: 290
Period size: 51 Copynumber: 5.8 Consensus size: 50
41221761 ACTTTTATCA
* *
41221771 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * *
41221820 TTACGGTTCACGCAGTACCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * *
41221872 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * *
41221922 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACGAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGCTT
* * * * * * *
41221974 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGA-CTATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* ** *
41222024 GATCAATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
41222066 TTCATCAATA
Statistics
Matches: 198, Mismatches: 39, Indels: 16
0.78 0.15 0.06
Matches are distributed among these distances:
49 6 0.03
50 42 0.21
51 142 0.72
52 6 0.03
53 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:41221964 original size:102 final size:102
Alignment explanation
Indices: 41221771--41222065 Score: 412
Period size: 102 Copynumber: 2.9 Consensus size: 102
41221761 ACTTTTATCA
* * * * * *** * *
41221771 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGCAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
* *
41221835 TACCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
41221872 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
41221937 TAGCCTTCACACAGTACTACACACGTGACGAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* * * * * *
41221974 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACTATCATTGATCAATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
41222039 TAGCCTTCACACAGTACTACACACGTG
66 TAGCCTTCACACAGTACTACACACGTG
41222066 TTCATCAATA
Statistics
Matches: 174, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
101 44 0.25
102 130 0.75
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
Found at i:41222057 original size:153 final size:151
Alignment explanation
Indices: 41221772--41222061 Score: 343
Period size: 153 Copynumber: 1.9 Consensus size: 151
41221762 CTTTTATCAT
* * * *
41221772 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGCAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAGTTCTACGGTACACACAGTA
* ** **
41221837 CCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTA
66 CCCTTCACATAGTACTACACACGTGACCAAA-CTTATCAATACACATAGTAGCCTTCACACAGTA
41221902 CTACACATGTGACCATCATTTA
130 CTACACATGTGACCATCATTTA
* **
41221924 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGA-CGAAAGCTTCT-CGGTACACATT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATC--AAG-TTCTACGGTACACACA
* * * * * *
41221987 GTAGCCTTCACTTAGTACTACACATGTGA-CTATCATTGATCAATACACGTAGTAGCCTTCACAC
63 GTACCCTTCACATAGTACTACACACGTGACCAAAC-TT-ATCAATACACATAGTAGCCTTCACAC
41222051 AGTACTACACA
126 AGTACTACACA
41222062 CGTGTTCATC
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
151 2 0.02
152 43 0.37
153 67 0.58
154 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (151 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAGTTCTACGGTACACACAGTA
CCCTTCACATAGTACTACACACGTGACCAAACTTATCAATACACATAGTAGCCTTCACACAGTAC
TACACATGTGACCATCATTTA
Found at i:41227121 original size:100 final size:100
Alignment explanation
Indices: 41226997--41227192 Score: 356
Period size: 100 Copynumber: 2.0 Consensus size: 100
41226987 AAACAGCAAA
* *
41226997 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACGGCAAGAAAA
1 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
* *
41227062 GAGGGATTTTGTGAATCAAAACGTTTTTTGTGAAT
66 GAGCGATTTTGTGAATCAAAACGTTTCTTGTGAAT
41227097 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
1 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
41227162 GAGCGATTTTGTGAATCAAAACGTTTCTTGT
66 GAGCGATTTTGTGAATCAAAACGTTTCTTGT
41227193 TGCCCAAGGA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (100 bp):
CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
GAGCGATTTTGTGAATCAAAACGTTTCTTGTGAAT
Found at i:41234420 original size:81 final size:81
Alignment explanation
Indices: 41234285--41234446 Score: 252
Period size: 81 Copynumber: 2.0 Consensus size: 81
41234275 TAAAAACTCC
* * * * *
41234285 TTTAATGATTTTTTAGCTCCCTTTATAATATCCCATTTAATTGTAACTCAAAAGAACTTGAACAG
1 TTTAATGATTTTTAAGCTCCCTTTATAACAGCCCATTTAAGTGTAACTCAAAAGAACTTGAACAA
41234350 CCACTTAATTAAATGT
66 CCACTTAATTAAATGT
* * *
41234366 TTTAATTATTTTTAAGCTCGCTTTATAACAGCCCCTTTAAGTGTAACTCAAAAGAACTTGAACAA
1 TTTAATGATTTTTAAGCTCCCTTTATAACAGCCCATTTAAGTGTAACTCAAAAGAACTTGAACAA
41234431 CCACTTAATTAAATGT
66 CCACTTAATTAAATGT
41234447 GTAACAGCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (81 bp):
TTTAATGATTTTTAAGCTCCCTTTATAACAGCCCATTTAAGTGTAACTCAAAAGAACTTGAACAA
CCACTTAATTAAATGT
Found at i:41234771 original size:45 final size:45
Alignment explanation
Indices: 41234721--41234874 Score: 152
Period size: 45 Copynumber: 3.3 Consensus size: 45
41234711 TCAATAACTA
41234721 ACTCATTTATTAAAACTTAAGATAAGTTAAATTAATTGATCAGCT
1 ACTCATTTATTAAAACTTAAGATAAGTTAAATTAATTGATCAGCT
* * * * * * *
41234766 ACTCATTTATT-AAAC-CAAAACAATCTTTATTTAATAAAGTTCAAT-AACT
1 ACTCATTTATTAAAACTTAAGATAA--GTTA---AATTAA-TT-GATCAGCT
41234815 AACTCATTTATTAAAACTTAAGATAAGTTAAATTAATTGATCAGCT
1 -ACTCATTTATTAAAACTTAAGATAAGTTAAATTAATTGATCAGCT
41234861 ACTCATTTATTAAA
1 ACTCATTTATTAAA
41234875 CCAAAACAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
43 5 0.06
44 4 0.05
45 30 0.36
46 5 0.06
47 5 0.06
48 5 0.06
49 5 0.06
50 16 0.19
51 4 0.05
52 5 0.06
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.38
Consensus pattern (45 bp):
ACTCATTTATTAAAACTTAAGATAAGTTAAATTAATTGATCAGCT
Found at i:41234796 original size:95 final size:95
Alignment explanation
Indices: 41234693--41234883 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
41234683 ATTAAGAAGC
*
41234693 ATCTTTATTTAATAAATTTCAATAACTAACTCATTTATTAAAACTTAAGATAAGTTAAATTAATT
1 ATCTTTATTTAATAAAGTTCAATAACTAACTCATTTATTAAAACTTAAGATAAGTTAAATTAATT
41234758 GATCAGCTACTCATTTATTAAACCAAAACA
66 GATCAGCTACTCATTTATTAAACCAAAACA
41234788 ATCTTTATTTAATAAAGTTCAATAACTAACTCATTTATTAAAACTTAAGATAAGTTAAATTAATT
1 ATCTTTATTTAATAAAGTTCAATAACTAACTCATTTATTAAAACTTAAGATAAGTTAAATTAATT
41234853 GATCAGCTACTCATTTATTAAACCAAAACA
66 GATCAGCTACTCATTTATTAAACCAAAACA
41234883 A
1 A
41234884 GTTAATTAAA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.37
Consensus pattern (95 bp):
ATCTTTATTTAATAAAGTTCAATAACTAACTCATTTATTAAAACTTAAGATAAGTTAAATTAATT
GATCAGCTACTCATTTATTAAACCAAAACA
Found at i:41234955 original size:38 final size:38
Alignment explanation
Indices: 41234913--41234987 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
41234903 TTTAGCTTGC
*
41234913 AATAAATTGCAAGTAACGCTTTTTGAACGGTTCGAAGT
1 AATAAATTACAAGTAACGCTTTTTGAACGGTTCGAAGT
41234951 AATAAATTACAAGTAACGCTTTTTGAACGGTTCGAAG
1 AATAAATTACAAGTAACGCTTTTTGAACGGTTCGAAG
41234988 CACGACTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (38 bp):
AATAAATTACAAGTAACGCTTTTTGAACGGTTCGAAGT
Found at i:41241782 original size:11 final size:11
Alignment explanation
Indices: 41241764--41241800 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
41241754 ACAAAATAAT
41241764 ATTTTTTTTCGA
1 ATTTTTTTTC-A
41241776 ATTTTTTTTCA
1 ATTTTTTTTCA
41241787 ATTTTTTTTACA
1 ATTTTTTTT-CA
41241799 AT
1 AT
41241801 CTCGTAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.68
Consensus pattern (11 bp):
ATTTTTTTTCA
Found at i:41244342 original size:27 final size:28
Alignment explanation
Indices: 41244292--41244344 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
41244282 AAAGAGGGAT
* *
41244292 AAAAAAGGAGAGGACGAAACAAAAGAAA
1 AAAAAAGAAGAGGACAAAACAAAAGAAA
*
41244320 AAAAAAGAAGA-GACAAAAGAAAAGA
1 AAAAAAGAAGAGGACAAAACAAAAGA
41244345 GTGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.72, C:0.06, G:0.23, T:0.00
Consensus pattern (28 bp):
AAAAAAGAAGAGGACAAAACAAAAGAAA
Found at i:41252160 original size:90 final size:90
Alignment explanation
Indices: 41252047--41252329 Score: 566
Period size: 90 Copynumber: 3.1 Consensus size: 90
41252037 CAAGATTTGA
41252047 AATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGTCAAGATTCGGTTTCT
1 AATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGTCAAGATTCGGTTTCT
41252112 TGACTTTCTTGAAAACAAGAAAGTG
66 TGACTTTCTTGAAAACAAGAAAGTG
41252137 AATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGTCAAGATTCGGTTTCT
1 AATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGTCAAGATTCGGTTTCT
41252202 TGACTTTCTTGAAAACAAGAAAGTG
66 TGACTTTCTTGAAAACAAGAAAGTG
41252227 AATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGTCAAGATTCGGTTTCT
1 AATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGTCAAGATTCGGTTTCT
41252292 TGACTTTCTTGAAAACAAGAAAGTG
66 TGACTTTCTTGAAAACAAGAAAGTG
41252317 AATCTTGATTTTC
1 AATCTTGATTTTC
41252330 GTAACTCAAA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 193 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (90 bp):
AATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGTCAAGATTCGGTTTCT
TGACTTTCTTGAAAACAAGAAAGTG
Found at i:41252461 original size:21 final size:23
Alignment explanation
Indices: 41252416--41252462 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
41252406 TCACCTGCAA
* *
41252416 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
41252439 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
41252460 TAA
1 TAA
41252463 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:41253052 original size:57 final size:57
Alignment explanation
Indices: 41252975--41253089 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
41252965 CACCTACATC
*
41252975 AAAAAGGGATAAATCAGCAACATTAAAAGTAGCACTAACCCCATACTCACCAGGTAA
1 AAAAAGAGATAAATCAGCAACATTAAAAGTAGCACTAACCCCATACTCACCAGGTAA
41253032 AAAAAGAGATAAATCAGCAACATTAAAAGTAGCACTAACCCCATACTCACCAGGTAA
1 AAAAAGAGATAAATCAGCAACATTAAAAGTAGCACTAACCCCATACTCACCAGGTAA
41253089 A
1 A
41253090 TCTAACTTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.16
Consensus pattern (57 bp):
AAAAAGAGATAAATCAGCAACATTAAAAGTAGCACTAACCCCATACTCACCAGGTAA
Found at i:41259233 original size:42 final size:43
Alignment explanation
Indices: 41259187--41259350 Score: 131
Period size: 43 Copynumber: 3.9 Consensus size: 43
41259177 TAAAAGTCAT
*
41259187 GACCTTTAGCGACG-CTTTCCCACAAACGCCGCTAAAGACTAC
1 GACCTTTAGCGACGTCTTTCCCACAAACGCCGCTAAAGACCAC
* * * * *
41259229 GACCTTTAGCGGCGTTTTTTCCACAAAGGCCGCTAAAGACCAT
1 GACCTTTAGCGACGTCTTTCCCACAAACGCCGCTAAAGACCAC
* * * *
41259272 GACCTTTAGCG--GATCTTTTTCTACAAACGCCGCTATAGAACA-
1 GACCTTTAGCGACG-TC-TTTCCCACAAACGCCGCTAAAGACCAC
* * * * *
41259314 AATCTTTAGCGACG-CGTCTCGCAAAAACGCCGCTAAA
1 GACCTTTAGCGACGTC-TTTCCCACAAACGCCGCTAAA
41259351 AACATATCAT
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 39 0.40
43 56 0.58
44 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
GACCTTTAGCGACGTCTTTCCCACAAACGCCGCTAAAGACCAC
Found at i:41259264 original size:43 final size:43
Alignment explanation
Indices: 41259187--41259306 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
41259177 TAAAAGTCAT
* * * *
41259187 GACCTTTAGCGACG-CTTTCCCACAAACGCCGCTAAAGACTAC
1 GACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACCAC
* *
41259229 GACCTTTAGCGGCGTTTTTTCCACAAAGGCCGCTAAAGACCAT
1 GACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACCAC
* *
41259272 GACCTTTAGCGG-ATCTTTTTCTACAAACGCCGCTA
1 GACCTTTAGCGGCGT-TTTTTCCACAAACGCCGCTA
41259307 TAGAACAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 14 0.21
43 53 0.79
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (43 bp):
GACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACCAC
Found at i:41260704 original size:15 final size:17
Alignment explanation
Indices: 41260684--41260721 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
41260674 GATAAGGAAA
41260684 AAAAATTAT-AAAT-AT
1 AAAAATTATAAAATAAT
*
41260699 AAAAATTCTAAAATAAT
1 AAAAATTATAAAATAAT
41260716 AAAAAT
1 AAAAAT
41260722 AAATAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAAATAAT
Found at i:41263647 original size:12 final size:12
Alignment explanation
Indices: 41263614--41263648 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
41263604 TAAAAGAGTA
*
41263614 TACAAACCAATC
1 TACAAACCAGTC
41263626 TACAAACCAGTC
1 TACAAACCAGTC
*
41263638 TACAATCCAGT
1 TACAAACCAGT
41263649 TTAAGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.43, C:0.31, G:0.06, T:0.20
Consensus pattern (12 bp):
TACAAACCAGTC
Found at i:41265468 original size:15 final size:16
Alignment explanation
Indices: 41265448--41265485 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
41265438 CCGACCCCTG
41265448 AATCCCTAAAC-CTTA
1 AATCCCTAAACTCTTA
41265463 AATCCCT-AACTCTTA
1 AATCCCTAAACTCTTA
41265478 AA-CCCTAA
1 AATCCCTAA
41265486 CATCTAACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.26
Consensus pattern (16 bp):
AATCCCTAAACTCTTA
Found at i:41265485 original size:14 final size:15
Alignment explanation
Indices: 41265459--41265500 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
41265449 ATCCCTAAAC
41265459 CTTAAATCCCTAAC-T
1 CTTAAA-CCCTAACAT
41265474 CTTAAACCCTAACAT
1 CTTAAACCCTAACAT
*
41265489 C-TAACCCCTAAC
1 CTTAAACCCTAAC
41265501 CCCTAAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (15 bp):
CTTAAACCCTAACAT
Found at i:41265555 original size:49 final size:51
Alignment explanation
Indices: 41265450--41265563 Score: 155
Period size: 49 Copynumber: 2.3 Consensus size: 51
41265440 GACCCCTGAA
* * *
41265450 TCCCTAAACCTTAAATCCCTAACTCTTAAACCCTAACATCTAACCCCTAAC
1 TCCCTAAACCTTAAATCCCTAACCCTTAAACCATAACATCTAACCCATAAC
*
41265501 -CCCTAAACCTTAAATCCC-AACCCTTAAACCATAATCA-CTAATCCAT-AC
1 TCCCTAAACCTTAAATCCCTAACCCTTAAACCATAA-CATCTAACCCATAAC
41265549 TCCCTAAACCTTAAA
1 TCCCTAAACCTTAAA
41265564 ATATGAACTC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
48 2 0.04
49 35 0.61
50 20 0.35
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (51 bp):
TCCCTAAACCTTAAATCCCTAACCCTTAAACCATAACATCTAACCCATAAC
Found at i:41265797 original size:21 final size:21
Alignment explanation
Indices: 41265729--41265790 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
41265719 CTTAACACGT
* * *
41265729 CTAACCCCTAAACCCCTAACCTT
1 CTAACCCCTAAA-CCATAA-ATC
*
41265752 CTAACCCCTAAACCTTAAATC
1 CTAACCCCTAAACCATAAATC
*
41265773 CTAACCCTTAAACCATAA
1 CTAACCCCTAAACCATAA
41265791 TCCCTAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 17 0.50
22 5 0.15
23 12 0.35
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAACCCCTAAACCATAAATC
Found at i:41266162 original size:41 final size:41
Alignment explanation
Indices: 41266101--41266295 Score: 282
Period size: 41 Copynumber: 4.8 Consensus size: 41
41266091 TAAAATGTTT
* *
41266101 TTAGCGGCGCTTCTTTAAAAATGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
* *
41266142 TTAGCGGCGCTTATTCAAAAACACCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
*
41266183 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGTA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
* * * **
41266224 TTAGTGGCGCTTATTTAAAAACGCCGCTAAAGAATAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
* *
41266265 TTAGCGGCGCTTCTTAAAAAACGCCACTAAA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAA
41266296 TCCCCAAAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
Found at i:41270298 original size:45 final size:42
Alignment explanation
Indices: 41270219--41270612 Score: 152
Period size: 44 Copynumber: 8.9 Consensus size: 42
41270209 AATTTATAGT
* *
41270219 TTCAACCTGTTCCACTGTAACTTCAGGG-GAATAAGA-TTCGATATC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAG-ATAAGACTTC---A-C
* * *
41270264 TTTAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTCAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCAC
* * *
41270306 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGCTATGGTAGA
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT-C------A-C
* * * * * * *
41270356 TTTAATCCGAC-CTACTGCAACTTTAGAGG-CATAGGA-TTCATC
1 TTCAATCTG-CTCCACTGTAACTTCAG-GGAGATAAGACTTCA-C
* * ** * *
41270398 ATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGCAAC
1 --TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT-C-AC
* * *
41270444 TTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGA-TTCAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCAC
* * * *
41270485 TATCTTTAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAAC
1 T-TC---AATCTGCTCCACTGTAACTTCAGGGAGATAAGAC-T-TCAC
** * * **
41270533 TTCAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA--CTTCAC
* * * *
41270577 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA
41270613 TTCGCCAGGA
Statistics
Matches: 274, Mismatches: 47, Indels: 57
0.72 0.12 0.15
Matches are distributed among these distances:
41 3 0.01
42 39 0.14
43 7 0.03
44 119 0.43
45 61 0.22
46 6 0.02
47 4 0.01
48 5 0.02
49 3 0.01
50 24 0.09
51 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCAC
Done.