Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 121 of 235
Found at i:41176904 original size:29 final size:30
Alignment explanation
Indices: 41176859--41176926 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
41176849 GCTTTCACAT
41176859 TAAA-AAAATAAT-AA-ATAAATA-AATAA
1 TAAATAAAATAATAAATATAAATATAATAA
41176885 TAACAATAAAATAATAAATATAAATATAATAA
1 T-A-AATAAAATAATAAATATAAATATAATAA
41176917 TAAATAAAAT
1 TAAATAAAAT
41176927 TTAAGACGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 2 0.06
29 8 0.22
30 10 0.28
31 8 0.22
32 6 0.17
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.26
Consensus pattern (30 bp):
TAAATAAAATAATAAATATAAATATAATAA
Found at i:41178394 original size:13 final size:13
Alignment explanation
Indices: 41178362--41178415 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
41178352 AGCTTAATCC
41178362 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
41178375 T-AA-AATAAAAA
1 TAAATAATAAAAA
*
41178386 TAAATAATAAAAC
1 TAAATAATAAAAA
*
41178399 TAAATAAATAATAA
1 TAAAT-AATAAAAA
41178413 TAA
1 TAA
41178416 TATCTTCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 3 0.09
11 5 0.15
12 4 0.12
13 13 0.38
14 9 0.26
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:41178397 original size:23 final size:24
Alignment explanation
Indices: 41178362--41178417 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
41178352 AGCTTAATCC
41178362 TAAATTAATAAAA-TAAAATAAA-AA
1 TAAA-TAATAAAACT-AAATAAATAA
41178386 TAAATAATAAAACTAAATAAATAA
1 TAAATAATAAAACTAAATAAATAA
41178410 T-AATAATA
1 TAAATAATA
41178418 TCTTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAATAATAAAACTAAATAAATAA
Found at i:41179036 original size:18 final size:16
Alignment explanation
Indices: 41179009--41179076 Score: 72
Period size: 15 Copynumber: 4.4 Consensus size: 16
41178999 GCCGTCTTAA
41179009 ATTTTATTTATTATTAT
1 ATTTTATTTATTATT-T
41179026 ATTTATATTTATTATTT
1 ATTT-TATTTATTATTT
* *
41179043 -TATT-GTTATTATTT
1 ATTTTATTTATTATTT
41179057 A-TTTATTTATTATTT
1 ATTTTATTTATTATTT
41179072 -TTTTA
1 ATTTTA
41179077 ATGTGAAAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 11 0.26
15 14 0.33
16 2 0.05
17 5 0.12
18 11 0.26
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (16 bp):
ATTTTATTTATTATTT
Found at i:41179063 original size:29 final size:30
Alignment explanation
Indices: 41179009--41179076 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 30
41178999 GCCGTCTTAA
41179009 ATTTTATTTATTATTATATTTATATTTATT
1 ATTTTATTTATTATTATATTTATATTTATT
41179039 ATTTTATTGTTATTATT-TA-TT-TATTTATT
1 ATTTTA-T-TTATTATTATATTTATATTTATT
41179068 ATTTT-TTTA
1 ATTTTATTTA
41179077 ATGTGAAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
26 3 0.08
27 1 0.03
29 13 0.36
30 8 0.22
31 3 0.08
32 8 0.22
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (30 bp):
ATTTTATTTATTATTATATTTATATTTATT
Found at i:41179065 original size:21 final size:19
Alignment explanation
Indices: 41179012--41179067 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
41179002 GTCTTAAATT
41179012 TTATTTATTA-TTATATTTA
1 TTATTTATTATTTAT-TTTA
41179031 -TATTTATTATTTTATTGTTA
1 TTATTTATTA-TTTATT-TTA
41179051 TTATTTATTTATTTATT
1 TTATTTA-TTATTTATT
41179068 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 9 0.28
19 1 0.03
20 7 0.22
21 12 0.38
22 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTATTTATTATTTATTTTA
Found at i:41182102 original size:146 final size:146
Alignment explanation
Indices: 41181873--41182163 Score: 501
Period size: 146 Copynumber: 2.0 Consensus size: 146
41181863 GCAATTTATT
*
41181873 AGATTCAAACTCAATTTAGTGAAATTATTTAGTCCACATGTTTCAATTCTATGACACTTGTTGAT
1 AGATTCAAACTCAATTTAGTGAAATTATTTAGTCCACATGTTTCAATTCTATAACACTTGTTGAT
* * * **
41181938 CGAACTTTGTATCTTGAGCGTTTATTTATTTTTTTCCTAAGTTGTTTGCATTGATCATGTATGCG
66 CAAACTTTGTATCTTGAGCGTTTATTTATTTTTTGCCTAAGATGTTCACATTGATCATGTATGCG
41182003 AAAAGAAGCTCGATTG
131 AAAAGAAGCTCGATTG
41182019 AGATTCAAACTCAATTTAGTGAAATTATTTAGTCCACATGTTTCAATTCTATAACACTTGTTGAT
1 AGATTCAAACTCAATTTAGTGAAATTATTTAGTCCACATGTTTCAATTCTATAACACTTGTTGAT
* *
41182084 CAAACTTTGTATCTTGAGCGTTTATTTATTTTTTGCTTAAGATGTTCACATTGATTATGTATGCG
66 CAAACTTTGTATCTTGAGCGTTTATTTATTTTTTGCCTAAGATGTTCACATTGATCATGTATGCG
*
41182149 AAAAGAGGCTCGATT
131 AAAAGAAGCTCGATT
41182164 TTTAATAAAG
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
146 136 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (146 bp):
AGATTCAAACTCAATTTAGTGAAATTATTTAGTCCACATGTTTCAATTCTATAACACTTGTTGAT
CAAACTTTGTATCTTGAGCGTTTATTTATTTTTTGCCTAAGATGTTCACATTGATCATGTATGCG
AAAAGAAGCTCGATTG
Found at i:41182504 original size:13 final size:13
Alignment explanation
Indices: 41182488--41182532 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
41182478 TTATTATTAT
41182488 TTATTTAGTTTTA
1 TTATTTAGTTTTA
*
41182501 TTATTTATTTTTA
1 TTATTTAGTTTTA
41182514 -T-TTTA-TTTTA
1 TTATTTAGTTTTA
41182524 TTAATTTAG
1 TT-ATTTAG
41182533 GATTAAGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
10 5 0.19
11 5 0.19
12 1 0.04
13 16 0.59
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:41182513 original size:23 final size:24
Alignment explanation
Indices: 41182481--41182531 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
41182471 GAAGATATTA
41182481 TTATTATTTA-TTTAGTTTTATTAT
1 TTATTATTTATTTTA-TTTTATTAT
41182505 TTATT-TTTATTTTATTTTATTAAT
1 TTATTATTTATTTTATTTTATT-AT
41182529 TTA
1 TTA
41182532 GGATTAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATTATTTATTTTATTTTATTAT
Found at i:41185327 original size:31 final size:31
Alignment explanation
Indices: 41185290--41185355 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
41185280 ACTGGGTGTG
*
41185290 TGGGCCCACATGAGTAGTCCACACGGGCATA
1 TGGGCCCACATGAGTAGTCCAAACGGGCATA
* * *
41185321 TGGGCCCACATGGGTAGTCCAAACTGGTATA
1 TGGGCCCACATGAGTAGTCCAAACGGGCATA
41185352 TGGG
1 TGGG
41185356 TTGCTGGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (31 bp):
TGGGCCCACATGAGTAGTCCAAACGGGCATA
Found at i:41188691 original size:16 final size:16
Alignment explanation
Indices: 41188669--41188702 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
41188659 AACTAAAACT
41188669 TTAT-TTTTAATTTT-
1 TTATATTTTAATTTTA
41188683 TTATATTTTAATTTTA
1 TTATATTTTAATTTTA
41188699 TTAT
1 TTAT
41188703 GCATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 10 0.56
16 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATATTTTAATTTTA
Found at i:41194393 original size:54 final size:55
Alignment explanation
Indices: 41194313--41194422 Score: 204
Period size: 54 Copynumber: 2.0 Consensus size: 55
41194303 CCTCTCTTCA
*
41194313 TTTTACTTTTTTAAAAAAAAATAGAATTCACAGTTCGATACTAAGAACTCGGCAT
1 TTTTACTTTTTAAAAAAAAAATAGAATTCACAGTTCGATACTAAGAACTCGGCAT
41194368 TTTTAC-TTTTAAAAAAAAAATAGAATTCACAGTTCGATACTAAGAACTCGGCAT
1 TTTTACTTTTTAAAAAAAAAATAGAATTCACAGTTCGATACTAAGAACTCGGCAT
41194422 T
1 T
41194423 CTATCATCCA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 48 0.89
55 6 0.11
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (55 bp):
TTTTACTTTTTAAAAAAAAAATAGAATTCACAGTTCGATACTAAGAACTCGGCAT
Found at i:41200158 original size:63 final size:63
Alignment explanation
Indices: 41200057--41200209 Score: 211
Period size: 63 Copynumber: 2.4 Consensus size: 63
41200047 AATTAAAGTC
* * * *
41200057 ACACGGGCATGTGTCT-AGACCATGTAACTCACTGTTTGTGAATTAGAGTCACATGGGCTAG-G
1 ACACGGGCGTGTGTCTAAG-CCGTGTAACTCACTATTTGTGAATTAGAGTCACATGGGCCAGAG
*
41200119 AACACGGACGTGTGTCTAAGCCGTGTAACTCACTATTTGTGAATTAGAGTCACATGGGCCAGAG
1 -ACACGGGCGTGTGTCTAAGCCGTGTAACTCACTATTTGTGAATTAGAGTCACATGGGCCAGAG
* *
41200183 ACACGGGCGTGTGTCCAGGCCGTGTAA
1 ACACGGGCGTGTGTCTAAGCCGTGTAA
41200210 GAGATATTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 77 0.96
64 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (63 bp):
ACACGGGCGTGTGTCTAAGCCGTGTAACTCACTATTTGTGAATTAGAGTCACATGGGCCAGAG
Found at i:41201810 original size:26 final size:25
Alignment explanation
Indices: 41201751--41201819 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
41201741 CACTATTGTA
*
41201751 ATTATTAT-TACTATTATTACATATT
1 ATTATT-TCTACTATTATTACAAATT
*
41201776 AGTATTTTCTACTATTATTACAAATAT
1 ATTA-TTTCTACTATTATTACAAAT-T
41201803 ATTATTTCT-CTTATTAT
1 ATTATTTCTAC-TATTAT
41201820 ATTATTAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.14
26 28 0.76
27 4 0.11
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.55
Consensus pattern (25 bp):
ATTATTTCTACTATTATTACAAATT
Found at i:41206590 original size:26 final size:26
Alignment explanation
Indices: 41206559--41206666 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
41206549 TGAAATGCCC
* *
41206559 ATCATGGAACATTTATCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
41206585 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
41206611 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
41206637 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
41206663 ATCA
1 ATCA
41206667 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:41209125 original size:18 final size:18
Alignment explanation
Indices: 41209073--41209127 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
41209063 GTTTTAGATT
*
41209073 TTATTATT-ATATTATTA
1 TTATTATTCATATCATTA
* * *
41209090 TTTTTAATCATATGATTA
1 TTATTATTCATATCATTA
*
41209108 TTATTATTCTTATCATTA
1 TTATTATTCATATCATTA
41209126 TT
1 TT
41209128 GTTGTTGTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATTATTCATATCATTA
Found at i:41209677 original size:127 final size:125
Alignment explanation
Indices: 41209422--41209680 Score: 281
Period size: 127 Copynumber: 2.0 Consensus size: 125
41209412 TAATTTTAAA
* * * * *
41209422 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAAGCGACGCTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGTTGGGCTTCG
** ** * *
41209487 ATCTTTCGTTTATTTAAATAATCAAATTTCCCTTTGAAATCTCGTCCGCATTTTCTAAACTT
66 ATCTTTCGTTTATCCAAATAATCAAACATCCCTTTAAAATCTCGTCCACATTTTCT--ACTT
* * *
41209549 TAAAACAAAAGCGACGCTTGATGTTTGGGAATTCG-GGAAATTGTGCCCTAATGTGTTGGGCTTC
1 TAAAACAAAAGCGACGCTTGATGTTTAGAAATTCGAGG-AATCGTGCCCTAATGTGTTGGGCTTC
* * *
41209613 GATTTTTTTTTTGTTTATCCAAATAATCAAACATCCCTTTAAAATTTCGTCCACATTTT-T-CTT
65 GA----TCTTTCGTTTATCCAAATAATCAAACATCCCTTTAAAATCTCGTCCACATTTTCTACTT
41209676 TAAAA
1 TAAAA
41209681 AACAAGGCAA
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
126 2 0.02
127 63 0.57
130 1 0.01
131 44 0.40
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (125 bp):
TAAAACAAAAGCGACGCTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGTTGGGCTTCG
ATCTTTCGTTTATCCAAATAATCAAACATCCCTTTAAAATCTCGTCCACATTTTCTACTT
Found at i:41210768 original size:23 final size:23
Alignment explanation
Indices: 41210742--41210785 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
41210732 ATAAATTATT
*
41210742 TTTATAATATAATTTTTTTAAGA
1 TTTATAATATAATTCTTTTAAGA
41210765 TTTATAATATAATTCTTTTAA
1 TTTATAATATAATTCTTTTAA
41210786 TATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATAATATAATTCTTTTAAGA
Found at i:41212052 original size:16 final size:15
Alignment explanation
Indices: 41212017--41212052 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
41212007 GAAAATCAAG
*
41212017 ATTTTTACGACATTC
1 ATTTTTACAACATTC
*
41212032 ATTTTTACAATATTC
1 ATTTTTACAACATTC
41212047 ATTTTT
1 ATTTTT
41212053 CTTTAGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:41213367 original size:40 final size:40
Alignment explanation
Indices: 41213303--41213414 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
41213293 ATTATGTTCG
* *
41213303 GCACTAGGTGTGCGATTTGAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAATA
* * ** *
41213343 GCACTAAGTGTGTGAATTGGAATAGCTTCGGCTATATGTG
1 GCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAATA
* * *
41213383 GCACTAAGTGTGCAGTATTGAGATAGTTTCGG
1 GCACTAAGTGTGC-GAATTGAAATAGCTTCGG
41213415 TTTAATATGA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 45 0.76
41 14 0.24
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAATA
Found at i:41214195 original size:10 final size:10
Alignment explanation
Indices: 41214155--41214201 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
41214145 TTATGGAACA
*
41214155 TATGTTTTGG
1 TATGATTTGG
41214165 TATGATTTTGG
1 TATGA-TTTGG
*
41214176 TTTAGATTTGG
1 TAT-GATTTGG
41214187 TATGATTTGG
1 TATGATTTGG
41214197 T-TGAT
1 TATGAT
41214202 GAGTTGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 14 0.44
12 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (10 bp):
TATGATTTGG
Found at i:41214427 original size:13 final size:13
Alignment explanation
Indices: 41214409--41214442 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
41214399 TGCGACACAT
41214409 GGTCATGTTGCAC
1 GGTCATGTTGCAC
41214422 GGTCATGTTGCAC
1 GGTCATGTTGCAC
41214435 GGTCATGT
1 GGTCATGT
41214443 GTCCCCTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (13 bp):
GGTCATGTTGCAC
Found at i:41218635 original size:19 final size:17
Alignment explanation
Indices: 41218601--41218645 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
41218591 TGATGCTACT
*
41218601 ATTTTGTTGCTATTGTATA
1 ATTTTGTT-TTATTGT-TA
41218620 ACTTTTGTTTTATTGTTA
1 A-TTTTGTTTTATTGTTA
41218638 ATTTTGTT
1 ATTTTGTT
41218646 ACTATTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.18, C:0.04, G:0.13, T:0.64
Consensus pattern (17 bp):
ATTTTGTTTTATTGTTA
Found at i:41219156 original size:37 final size:37
Alignment explanation
Indices: 41219115--41219191 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
41219105 TTGATAAAAA
41219115 ATAGTTTAATATTAAAATCAATGAGTTCAAATTTTTT
1 ATAGTTTAATATTAAAATCAATGAGTTCAAATTTTTT
41219152 ATAGTTTAATATTAAAATCAATGAGTTCAAATTTTTT
1 ATAGTTTAATATTAAAATCAATGAGTTCAAATTTTTT
41219189 ATA
1 ATA
41219192 TATTTATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (37 bp):
ATAGTTTAATATTAAAATCAATGAGTTCAAATTTTTT
Found at i:41222661 original size:24 final size:24
Alignment explanation
Indices: 41222629--41222674 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
41222619 GGGCCTGGTC
*
41222629 ACCACCTTGAGCACCTCCAGAAGA
1 ACCACCTTGAGCACCACCAGAAGA
*
41222653 ACCACCTTGGGCACCACCAGAA
1 ACCACCTTGAGCACCACCAGAA
41222675 CCACCAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.39, G:0.17, T:0.11
Consensus pattern (24 bp):
ACCACCTTGAGCACCACCAGAAGA
Found at i:41222680 original size:24 final size:24
Alignment explanation
Indices: 41222628--41222680 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
41222618 TGGGCCTGGT
* *
41222628 CACCACCTTGAGCACCTCCAGAAG
1 CACCACCTTGAGCACCACCAGAAC
* *
41222652 AACCACCTTGGGCACCACCAGAAC
1 CACCACCTTGAGCACCACCAGAAC
41222676 CACCA
1 CACCA
41222681 GCCATGTGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.43, G:0.15, T:0.09
Consensus pattern (24 bp):
CACCACCTTGAGCACCACCAGAAC
Found at i:41224901 original size:24 final size:24
Alignment explanation
Indices: 41224874--41224926 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
41224864 TAATAATAAT
41224874 TATATTAAGAATTTTATTAAATTA
1 TATATTAAGAATTTTATTAAATTA
*** * *
41224898 TATATTTTTATTTTTATTAAATTG
1 TATATTAAGAATTTTATTAAATTA
41224922 TATAT
1 TATAT
41224927 AATAATAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TATATTAAGAATTTTATTAAATTA
Found at i:41225172 original size:16 final size:16
Alignment explanation
Indices: 41225117--41225175 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
41225107 TTATTGCAGC
*
41225117 TCTATTCTATTACAAT
1 TCTATTCCATTACAAT
* **
41225133 TCTATTCAATTACAGC
1 TCTATTCCATTACAAT
*
41225149 CCTATTCCATTACAAT
1 TCTATTCCATTACAAT
41225165 TCTATTCCATT
1 TCTATTCCATT
41225176 CCCCCAACCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.44
Consensus pattern (16 bp):
TCTATTCCATTACAAT
Found at i:41235541 original size:8 final size:8
Alignment explanation
Indices: 41235508--41235551 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
41235498 ATAAGATATT
41235508 TAATATATA
1 TAATATA-A
*
41235517 TAATATAT
1 TAATATAA
*
41235525 TATTATAA
1 TAATATAA
*
41235533 TAATTTAA
1 TAATATAA
41235541 TAATATAA
1 TAATATAA
41235549 TAA
1 TAA
41235552 AGCATAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TAATATAA
Found at i:41235577 original size:16 final size:16
Alignment explanation
Indices: 41235556--41235586 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
41235546 TAATAAAGCA
41235556 TAAAATAAAGTAAAAT
1 TAAAATAAAGTAAAAT
41235572 TAAAATAAAGTAAAA
1 TAAAATAAAGTAAAA
41235587 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
TAAAATAAAGTAAAAT
Found at i:41235660 original size:15 final size:15
Alignment explanation
Indices: 41235608--41235666 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
41235598 ATAAATAAAT
41235608 AAAAGAAA-GAAAGA
1 AAAAGAAAGGAAAGA
* * *
41235622 ACAGAGAATGAAAACGA
1 A-AAAGAAAGGAAA-GA
*
41235639 AATAGAAAGGAAAGA
1 AAAAGAAAGGAAAGA
41235654 AAAAGAAAGGAAA
1 AAAAGAAAGGAAA
41235667 AATAGGGTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 1 0.03
15 19 0.54
16 12 0.34
17 3 0.09
ACGTcount: A:0.69, C:0.03, G:0.24, T:0.03
Consensus pattern (15 bp):
AAAAGAAAGGAAAGA
Found at i:41239240 original size:16 final size:16
Alignment explanation
Indices: 41239199--41239246 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
41239189 AACATAAAAA
41239199 AATAAAAAATATTTTC
1 AATAAAAAATATTTTC
* *
41239215 --CAAAACATATTTTC
1 AATAAAAAATATTTTC
41239229 AATAAAAAATATTTTC
1 AATAAAAAATATTTTC
41239245 AA
1 AA
41239247 CACGATACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.46
16 14 0.54
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAAAAATATTTTC
Found at i:41248295 original size:8 final size:8
Alignment explanation
Indices: 41248282--41248323 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
41248272 GGAAGAAAAT
41248282 AAGAGAAA
1 AAGAGAAA
*
41248290 ATGAGAAA
1 AAGAGAAA
41248298 AAGA-AAA
1 AAGAGAAA
41248305 GAAGAGAAA
1 -AAGAGAAA
41248314 ACAGAGAAA
1 A-AGAGAAA
41248323 A
1 A
41248324 TTAGAACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 3 0.10
8 15 0.52
9 11 0.38
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (8 bp):
AAGAGAAA
Found at i:41248301 original size:24 final size:25
Alignment explanation
Indices: 41248274--41248323 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
41248264 AAAATAAAGG
* *
41248274 AAGAAAATAAGAGAAAA-TGAGAAA
1 AAGAAAAGAAGAGAAAACAGAGAAA
41248298 AAGAAAAGAAGAGAAAACAGAGAAA
1 AAGAAAAGAAGAGAAAACAGAGAAA
41248323 A
1 A
41248324 TTAGAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (25 bp):
AAGAAAAGAAGAGAAAACAGAGAAA
Found at i:41249425 original size:12 final size:12
Alignment explanation
Indices: 41249408--41249435 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
41249398 AGTTTAGGGA
41249408 TAAAGTGATTCC
1 TAAAGTGATTCC
41249420 TAAAGTGATTCC
1 TAAAGTGATTCC
41249432 TAAA
1 TAAA
41249436 CAACAAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (12 bp):
TAAAGTGATTCC
Found at i:41255646 original size:22 final size:22
Alignment explanation
Indices: 41255618--41255669 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
41255608 AGAAGCTATC
41255618 CAAGGCTGATGATGTTGCTTTT
1 CAAGGCTGATGATGTTGCTTTT
41255640 CAAGGCTGATGATGTTGCTTTT
1 CAAGGCTGATGATGTTGCTTTT
*
41255662 CAAAGCTG
1 CAAGGCTG
41255670 GTACGTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (22 bp):
CAAGGCTGATGATGTTGCTTTT
Found at i:41273567 original size:17 final size:18
Alignment explanation
Indices: 41273524--41273567 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
41273514 CAAAACTACA
*
41273524 AGCTCACC-ATATCTGCG
1 AGCTCACCAAGATCTGCG
41273541 AGCTCACCAAGAT-TGCG
1 AGCTCACCAAGATCTGCG
41273558 AGCTCACCAA
1 AGCTCACCAA
41273568 ACCTATGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (18 bp):
AGCTCACCAAGATCTGCG
Found at i:41281810 original size:19 final size:20
Alignment explanation
Indices: 41281744--41281810 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 20
41281734 CAACGCGCAG
*
41281744 ATATATTATTTATTTCA-TT
1 ATATATTATTTATTTTATTT
* *
41281763 AAATATT-TTTA-TTT-TTC
1 ATATATTATTTATTTTATTT
*
41281780 ATAT-TTACTTATTTTATTT
1 ATATATTATTTATTTTATTT
41281799 ATATATT-TTTAT
1 ATATATTATTTAT
41281811 AAATAAAACA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
16 2 0.06
17 9 0.25
18 7 0.19
19 16 0.44
20 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (20 bp):
ATATATTATTTATTTTATTT
Found at i:41283797 original size:54 final size:54
Alignment explanation
Indices: 41283715--41283822 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
41283705 GAAACATAAT
41283715 TTTGATAATTTTTTTTATCTTGAACCCTAAATCTAGAATCCCAAACTATGAGCC
1 TTTGATAATTTTTTTTATCTTGAACCCTAAATCTAGAATCCCAAACTATGAGCC
41283769 TTTGATAATTTTTTTTATCTTGAACCCTAAATCTAGAATCCCAAACTATGAGCC
1 TTTGATAATTTTTTTTATCTTGAACCCTAAATCTAGAATCCCAAACTATGAGCC
41283823 AAAAACTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (54 bp):
TTTGATAATTTTTTTTATCTTGAACCCTAAATCTAGAATCCCAAACTATGAGCC
Found at i:41288078 original size:168 final size:170
Alignment explanation
Indices: 41287869--41288211 Score: 530
Period size: 173 Copynumber: 2.0 Consensus size: 170
41287859 ATTTTTTAAA
*
41287869 TTAATTTCCTCTTCCTTTTAAAGCATAATTCATTGAATATTTTTATACTAATATTTTTTTATAC-
1 TTAATTTCCTCTTCCTTTTAAAACATAATTCATTGAATATTTTTATACTAATA-TTTTTTATACA
* * * *
41287933 TG-CTTTTAGTTTTTAATTCCTCCTAACCTTTAAATTCGAAGAAAAATACACTTAAATATACACA
65 TGCCTTTTAGTTTTTAATTCATCCTAACCTTTAAATTAGAAGAAAAACACACTTAAATACACACA
*
41287997 AATTCACGTCTCCGCCCTCTTAGTTACTATAAT-AAAATGG
130 AATTCACGTCTCCGCCCTCTTAGTTACTACAATAAAAATGG
* *
41288037 TTAATTTCCTCTTCCTTTTAAAACATTATTCATTTAATATTTTTATACTAATATTTTTTATACAA
1 TTAATTTCCTCTTCCTTTTAAAACATAATTCATTGAATATTTTTATACTAATATTTTTTATAC-A
* *
41288102 TGCCTACTTTTAGTTTTTAATTCATCCTAACCTTTAAATTAGAAGAAAAACGCATTTAAATACAC
65 TG-C--CTTTTAGTTTTTAATTCATCCTAACCTTTAAATTAGAAGAAAAACACACTTAAATACAC
41288167 ACAAATTCACGTCTCCGCCCTCTTAGTTACTACAATAAAAATGG
127 ACAAATTCACGTCTCCGCCCTCTTAGTTACTACAATAAAAATGG
41288211 T
1 T
41288212 GCCAGTTAAA
Statistics
Matches: 158, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
167 10 0.06
168 50 0.32
169 2 0.01
173 88 0.56
174 8 0.05
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.42
Consensus pattern (170 bp):
TTAATTTCCTCTTCCTTTTAAAACATAATTCATTGAATATTTTTATACTAATATTTTTTATACAT
GCCTTTTAGTTTTTAATTCATCCTAACCTTTAAATTAGAAGAAAAACACACTTAAATACACACAA
ATTCACGTCTCCGCCCTCTTAGTTACTACAATAAAAATGG
Found at i:41288090 original size:14 final size:15
Alignment explanation
Indices: 41288071--41288099 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41288061 ATTATTCATT
41288071 TAATA-TTTTTATAC
1 TAATATTTTTTATAC
41288085 TAATATTTTTTATAC
1 TAATATTTTTTATAC
41288100 AATGCCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATATTTTTTATAC
Found at i:41289416 original size:21 final size:22
Alignment explanation
Indices: 41289381--41289421 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
41289371 ATATATATGG
* *
41289381 TTAAAAATTTTATAATTAAAGA
1 TTAAAAATTTAATAAATAAAGA
41289403 TTAAAAA-TTAATAAATAAA
1 TTAAAAATTTAATAAATAAA
41289422 ATGAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAAATTTAATAAATAAAGA
Found at i:41289965 original size:19 final size:19
Alignment explanation
Indices: 41289922--41289967 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
41289912 AAAAAGTTTT
41289922 ATAAATTAGAAATTGATTG
1 ATAAATTAGAAATTGATTG
41289941 -TGAAATTAGAAATAT-ATTG
1 AT-AAATTAGAAAT-TGATTG
41289960 ATAAATTA
1 ATAAATTA
41289968 TTATGTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.04
19 21 0.88
20 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (19 bp):
ATAAATTAGAAATTGATTG
Found at i:41292711 original size:23 final size:23
Alignment explanation
Indices: 41292684--41292761 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
41292674 CTTTGGAAAA
41292684 CCTTTGTGGTGTATTCTATGATG
1 CCTTTGTGGTGTATTCTATGATG
* * * *
41292707 CCTTTATGGTATATTCTGTGAAG
1 CCTTTGTGGTGTATTCTATGATG
* *
41292730 CATTTGTAGTGTATTCTATGATG
1 CCTTTGTGGTGTATTCTATGATG
*
41292753 CTTTTGTGG
1 CCTTTGTGG
41292762 CATATTCTGT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.17, C:0.12, G:0.24, T:0.47
Consensus pattern (23 bp):
CCTTTGTGGTGTATTCTATGATG
Found at i:41292742 original size:46 final size:46
Alignment explanation
Indices: 41292686--41292776 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
41292676 TTGGAAAACC
* * *
41292686 TTTGTGGTGTATTCTATGATGCCTTTATGGTATATTCTGTGAAGCA
1 TTTGTAGTGTATTCTATGATGCCTTTATGGCATATTCTGTAAAGCA
* *
41292732 TTTGTAGTGTATTCTATGATGCTTTTGTGGCATATTCTGTAAAGC
1 TTTGTAGTGTATTCTATGATGCCTTTATGGCATATTCTGTAAAGC
41292777 TAATAACTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.46
Consensus pattern (46 bp):
TTTGTAGTGTATTCTATGATGCCTTTATGGCATATTCTGTAAAGCA
Found at i:41294172 original size:23 final size:23
Alignment explanation
Indices: 41294146--41294199 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
41294136 CTGTGAAAAA
*
41294146 GCCTTTGTAGCATATTCTGTAAT
1 GCCTTTGTAGCATATTCTGTAAC
* * *
41294169 GCCTTTATGGCGTATTCTGTAAC
1 GCCTTTGTAGCATATTCTGTAAC
*
41294192 GCCCTTGT
1 GCCTTTGT
41294200 GGTGAAATCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (23 bp):
GCCTTTGTAGCATATTCTGTAAC
Found at i:41302436 original size:43 final size:44
Alignment explanation
Indices: 41302359--41302445 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
41302349 CATAGGATTC
*
41302359 CGATATGTGATGTGCAAGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATGTGATGTACAAGTAAGACCCTGTCTGGGAC-GTTGGCAT
* *
41302403 CGATATGTGAT-TACATGTAAGACCAC-GTGTGGGACGTTGGCAT
1 CGATATGTGATGTACAAGTAAGACC-CTGTCTGGGACGTTGGCAT
41302446 TGTACGATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 1 0.03
43 25 0.66
44 12 0.32
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
CGATATGTGATGTACAAGTAAGACCCTGTCTGGGACGTTGGCAT
Found at i:41309487 original size:15 final size:15
Alignment explanation
Indices: 41309454--41309487 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41309444 AGTTATGTCT
*
41309454 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
41309469 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
41309484 ATGT
1 ATGT
41309488 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:41319250 original size:40 final size:41
Alignment explanation
Indices: 41319188--41319281 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 41
41319178 GTCAGTATCG
*
41319188 CACACTTAGTGCC-TTATATAGCC-AGAGCTAT-TCCAACTCA
1 CACACTTAGTGCCATTATATAGCCGA-AGCTATATCAAAC-CA
* * *
41319228 CACACTTAGTGCCATT-TGTAGCCGAAGCTATATTAAACCG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATATCAAACCA
41319268 CACACTTAGTGCCA
1 CACACTTAGTGCCA
41319282 AGCATAGTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 40 0.85
41 7 0.15
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (41 bp):
CACACTTAGTGCCATTATATAGCCGAAGCTATATCAAACCA
Found at i:41321432 original size:13 final size:13
Alignment explanation
Indices: 41321414--41321438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41321404 CCCAGGGGAC
41321414 ACATAGCCGTGTA
1 ACATAGCCGTGTA
41321427 ACATAGCCGTGT
1 ACATAGCCGTGT
41321439 GTCGTACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATAGCCGTGTA
Found at i:41334081 original size:41 final size:41
Alignment explanation
Indices: 41334002--41334102 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 41
41333992 ACAGAGCACC
* * *
41334002 AAAAGCGCCGCTAAAAGTCGGGGCAATAGCGGCGCTTTTGGT
1 AAAA-CGCCGCTAAAAGTCGGAGCAATACCGGCACTTTTGGT
* *
41334044 AAAACGCCGCTAAAAGTTGGAGCATTACCGGCACTTTTGGT
1 AAAACGCCGCTAAAAGTCGGAGCAATACCGGCACTTTTGGT
41334085 AAAACGCCGCTAAAAGTC
1 AAAACGCCGCTAAAAGTC
41334103 ATATAACCCC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 49 0.92
42 4 0.08
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGTCGGAGCAATACCGGCACTTTTGGT
Found at i:41334183 original size:37 final size:37
Alignment explanation
Indices: 41334141--41334211 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
41334131 AAAAATCATG
* * *
41334141 AACACTAATCTATAACTCCTAAAATACTAAACCCATA
1 AACACTAAACCATAACTCCTAAAACACTAAACCCATA
* *
41334178 AACACTAAACCATAACTTCTAAAACCCTAAACCC
1 AACACTAAACCATAACTCCTAAAACACTAAACCC
41334212 CAAAAAACGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (37 bp):
AACACTAAACCATAACTCCTAAAACACTAAACCCATA
Found at i:41334337 original size:7 final size:7
Alignment explanation
Indices: 41334325--41334388 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
41334315 TTTATTTTTT
*
41334325 GGTTTAC
1 GGTTTAA
41334332 GGTTTAA
1 GGTTTAA
*
41334339 GATTTAA
1 GGTTTAA
41334346 GGTTTAA
1 GGTTTAA
* *
41334353 GGTCTAT
1 GGTTTAA
*
41334360 GGTTTAG
1 GGTTTAA
*
41334367 GGTTTTAT
1 GG-TTTAA
41334375 GGTTTAA
1 GGTTTAA
41334382 GGTTTAA
1 GGTTTAA
41334389 TGGCCATGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:41334363 original size:14 final size:14
Alignment explanation
Indices: 41334325--41334387 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
41334315 TTTATTTTTT
*
41334325 GGTTTACGGTTTAA
1 GGTTTATGGTTTAA
* *
41334339 GATTTAAGGTTTAA
1 GGTTTATGGTTTAA
* *
41334353 GGTCTATGGTTTAG
1 GGTTTATGGTTTAA
41334367 GGTTTTATGGTTTAA
1 GG-TTTATGGTTTAA
41334382 GGTTTA
1 GGTTTA
41334388 ATGGCCATGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 28 0.70
15 12 0.30
ACGTcount: A:0.22, C:0.03, G:0.29, T:0.46
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:41334994 original size:8 final size:8
Alignment explanation
Indices: 41334981--41335049 Score: 65
Period size: 8 Copynumber: 9.1 Consensus size: 8
41334971 AAATAAACTC
41334981 AAAATTTA
1 AAAATTTA
41334989 AAAATTT-
1 AAAATTTA
41334996 AAAATTTA
1 AAAATTTA
41335004 AAAATTT-
1 AAAATTTA
41335011 AAAA--TA
1 AAAATTTA
* *
41335017 AAAAATAA
1 AAAATTTA
* *
41335025 AAAAATAA
1 AAAATTTA
*
41335033 AAAACTTA
1 AAAATTTA
41335041 AAAATTTA
1 AAAATTTA
41335049 A
1 A
41335050 TATTTAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 1 0.02
6 4 0.08
7 11 0.21
8 37 0.70
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAATTTA
Found at i:41335001 original size:15 final size:15
Alignment explanation
Indices: 41334981--41335015 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
41334971 AAATAAACTC
41334981 AAAATTTAAAAATTT
1 AAAATTTAAAAATTT
41334996 AAAATTTAAAAATTT
1 AAAATTTAAAAATTT
41335011 AAAAT
1 AAAAT
41335016 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTTAAAAATTT
Found at i:41335021 original size:15 final size:15
Alignment explanation
Indices: 41334988--41335021 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41334978 CTCAAAATTT
**
41334988 AAAAATTTAAAATTT
1 AAAAATTTAAAATAA
41335003 AAAAATTTAAAATAA
1 AAAAATTTAAAATAA
41335018 AAAA
1 AAAA
41335022 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTTAAAATAA
Found at i:41335043 original size:15 final size:14
Alignment explanation
Indices: 41334987--41335045 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
41334977 ACTCAAAATT
* *
41334987 TAAAAATTTAAAAT
1 TAAAAAATTAAAAA
* *
41335001 TTAAAAATTTAAAA
1 TAAAAAATTAAAAA
*
41335015 TAAAAAATAAAAAAA
1 TAAAAAAT-TAAAAA
41335030 TAAAAAACTTAAAAA
1 TAAAAAA-TTAAAAA
41335045 T
1 T
41335046 TTAATATTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 17 0.49
15 17 0.49
16 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAAAATTAAAAA
Found at i:41335143 original size:19 final size:18
Alignment explanation
Indices: 41335119--41335159 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
41335109 TTCCAAAAGA
*
41335119 AAAAATAAAAAAATATGTT
1 AAAAATAAAAAAAAAT-TT
41335138 AAAAATAAAAAAAAATTT
1 AAAAATAAAAAAAAATTT
41335156 AAAA
1 AAAA
41335160 TTAATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAATAAAAAAAAATTT
Found at i:41339489 original size:84 final size:84
Alignment explanation
Indices: 41339298--41339530 Score: 281
Period size: 84 Copynumber: 2.8 Consensus size: 84
41339288 TATCATTATT
* * * * **
41339298 TTTAGCGGCGTTTGTGAGAAAAGTGCCGGTAAAGGTTATGATCTTTAGCGGCGTTTGTGAAAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT-T-TTAAAA
*
41339363 GTGCCGCTAAAGGTCATGGTC
64 GCGCCGCTAAAGGTCATGGTC
* * * *
41339384 TTTAGCGGCGTTTGCT-TAAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGTGTTTTTTAAAAG
1 TTTAGCGGCGTTTG-TGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTAAAAG
* *
41339448 CGCCGCTAAAGTTCCTGGTC
65 CGCCGCTAAAGGTCATGGTC
* *
41339468 TTTAGCGGCGTTTGTGAAAAAAGTGTCGCTAAAGATCAT-GTCTTTAGCGGCGTTTTTCTAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTT-TAAAA
41339531 AATGCCACTA
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
83 18 0.14
84 59 0.47
85 1 0.01
86 46 0.37
87 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (84 bp):
TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTAAAAGC
GCCGCTAAAGGTCATGGTC
Found at i:41339532 original size:43 final size:43
Alignment explanation
Indices: 41339298--41339522 Score: 278
Period size: 43 Copynumber: 5.3 Consensus size: 43
41339288 TATCATTATT
* * * *
41339298 TTTAGCGGCGTTTGTGAGAAAAGTGCCGGTAAAGGTTATGATC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
41339341 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
* * *
41339384 TTTAGCGGCGTTTGCT-TAAAAAGCGCCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTG-TGAAAAAAGTGCCGCTAAAGGTCATGGTC
* ** * * *
41339427 TTTAGCGGTGTTT-T-TTAAAAGCGCCGCTAAAGTTCCTGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
* *
41339468 TTTAGCGGCGTTTGTGAAAAAAGTGTCGCTAAAGATCAT-GTC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
41339510 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
41339523 TTCTAAAAAA
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
41 36 0.22
42 17 0.11
43 106 0.66
44 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
Found at i:41340265 original size:184 final size:184
Alignment explanation
Indices: 41339948--41340315 Score: 569
Period size: 184 Copynumber: 2.0 Consensus size: 184
41339938 AAACTCTTGA
* *
41339948 TTTTAGATCTAACAAAATTTTGAAATGGTTAGAAGTGTGGAGGGAAAGGACTGCAGGTGGTCTTA
1 TTTTAGACCTAACAAAATTTTGAAATGGTTAGAAGTGTGGAGGGAAAGGACTGCAGGTGATCTTA
* *
41340013 TATAGCCAACCAATTTTTAAAAATTGGGCTTTTAACCCTTTGACCACATATAGTTTCCTCTCTTT
66 TATAACCAACCAATTTTTAAAAATTGGGCTTTTAACCCTTTGACCACATATAGCTTCCTCTCTTT
*
41340078 TCCAAATTGGTCCTTAGTTTCCAATTGAAGCCAATCTCAAATTTATCTTCAAAT
131 TCCAAATTGGTCCTTAGTTTCCAATTGAAGCCAATCTCAAAATTATCTTCAAAT
* * * * *
41340132 TTTTAGACCTAACAAAGTTTTGAAATGGTT-GAAAGTGTGGAGGGAATGGATTGTAGGTGATTTT
1 TTTTAGACCTAACAAAATTTTGAAATGGTTAG-AAGTGTGGAGGGAAAGGACTGCAGGTGATCTT
* * *
41340196 ATATAACCAACTAATTTTTAAAAATTGGGCTTTTGACCCTTTGACCACCTATAGCTTCCTC-CTT
65 ATATAACCAACCAATTTTTAAAAATTGGGCTTTTAACCCTTTGACCACATATAGCTTCCTCTC-T
* *
41340260 TTTCCAAATTGGTCCTTAGTTTCTAATTGAAGCCAATCTCAAAATTATTTTCAAAT
129 TTTCCAAATTGGTCCTTAGTTTCCAATTGAAGCCAATCTCAAAATTATCTTCAAAT
41340316 CTGATCTCAT
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
183 2 0.01
184 165 0.99
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (184 bp):
TTTTAGACCTAACAAAATTTTGAAATGGTTAGAAGTGTGGAGGGAAAGGACTGCAGGTGATCTTA
TATAACCAACCAATTTTTAAAAATTGGGCTTTTAACCCTTTGACCACATATAGCTTCCTCTCTTT
TCCAAATTGGTCCTTAGTTTCCAATTGAAGCCAATCTCAAAATTATCTTCAAAT
Found at i:41344049 original size:11 final size:11
Alignment explanation
Indices: 41344035--41344079 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
41344025 AGATAAATAT
41344035 TATTTTATTAA
1 TATTTTATTAA
*
41344046 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
41344059 TATTTTATTAT
1 TATTTTATTAA
41344070 TATTTTATTA
1 TATTTTATTA
41344080 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:41346233 original size:38 final size:38
Alignment explanation
Indices: 41346180--41346252 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
41346170 CTGATATGAA
* *
41346180 ATGTGTAAGATCATGGTTGAAAGATACCATGGCAACCT
1 ATGTGTAAGACCATGGCTGAAAGATACCATGGCAACCT
41346218 ATGTGTAAGACCATGGCTGAAAGATACCATGGCAA
1 ATGTGTAAGACCATGGCTGAAAGATACCATGGCAA
41346253 ACTGATATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (38 bp):
ATGTGTAAGACCATGGCTGAAAGATACCATGGCAACCT
Found at i:41349239 original size:46 final size:46
Alignment explanation
Indices: 41349172--41349383 Score: 257
Period size: 46 Copynumber: 4.6 Consensus size: 46
41349162 GTATTACAAT
*
41349172 AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGA
1 AAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGA
* * *
41349218 AAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGT
1 AAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGA
* * * *
41349264 AAGTCCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG-AA
1 AAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGA
* * * *
41349309 TAAGATCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGT
1 -AAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGTGA
* * *
41349356 AAGACCATAGTTGAAAGACACTATGGCA
1 AAGACCATGGTTGAAAGATACCATGGCA
41349384 TCACGTCAAA
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 143 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGA
Found at i:41373481 original size:12 final size:12
Alignment explanation
Indices: 41373466--41373501 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
41373456 TATTTTTTTC
41373466 TTCTTTTAAGAG
1 TTCTTTTAAGAG
*
41373478 TTCTTTTAAGTG
1 TTCTTTTAAGAG
41373490 TTCTTTTAAGAG
1 TTCTTTTAAGAG
41373502 CGAATCAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (12 bp):
TTCTTTTAAGAG
Found at i:41374327 original size:89 final size:89
Alignment explanation
Indices: 41374180--41374370 Score: 226
Period size: 89 Copynumber: 2.1 Consensus size: 89
41374170 AATAATCTAC
* * * *
41374180 AAACACTGGTGGTTTATCCACAATTTATACTAGTAGCTTTAATCTGCAACTAAGTTGTGTATTCA
1 AAACACTGGTGG-TTATCCACAATTCATACTAGCAGCTTTAATCTGAAACTAAGTTGTGTAATCA
*
41374245 CAAGTACT-GACAGCGTATTAACCTG
65 CAACTACTAG-CAGCGTATTAACCTG
* * * * *
41374270 AAAACACTGGTGG-TATCCATAATTCATACTGGCATCTTTTATCTGTAAACT-CGTTGTGTAATC
1 -AAACACTGGTGGTTATCCACAATTCATACTAGCAGCTTTAATCTG-AAACTAAGTTGTGTAATC
41374333 ACAACTACTAGCAGCGTATTAACCTG
64 ACAACTACTAGCAGCGTATTAACCTG
*
41374359 CAACACTGGTGG
1 AAACACTGGTGG
41374371 CTCAGCCACA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
88 11 0.13
89 59 0.68
90 5 0.06
91 12 0.14
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (89 bp):
AAACACTGGTGGTTATCCACAATTCATACTAGCAGCTTTAATCTGAAACTAAGTTGTGTAATCAC
AACTACTAGCAGCGTATTAACCTG
Found at i:41376659 original size:47 final size:48
Alignment explanation
Indices: 41376551--41376916 Score: 224
Period size: 46 Copynumber: 7.8 Consensus size: 48
41376541 TTTGTGTGCC
** * * *
41376551 AGTGTAAGA-CATGTCTAAGACAT-GCATCGGCCA-T-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-GATGATAGCT
* *
41376597 AGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGATAGCT
* * * * *
41376645 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGATATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAT-AGCT
* * * * * *
41376691 AATATAAGA-CATGTTTGGGACAT-GCCTCGAC-TACGAGATG-T-G-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGATGATAGCT
* * * * *
41376734 CAGTGTAAGACCATGTCTGGGATATGGCATCGGTATAGATAAGTGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA-TGATAGCT
* * * ** *
41376785 AGTGTAAGACCATGTCTGGGACACGGCGTCGGCCTTGATTTCAATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-GATAGCT
* * *
41376833 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGACA-GATAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAT-AGCT
* *
41376881 AGTGTAAGACCATGTATGGGACATGGCATCAGCATT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
41376917 ACACCCTATG
Statistics
Matches: 248, Mismatches: 52, Indels: 38
0.73 0.15 0.11
Matches are distributed among these distances:
44 8 0.03
45 14 0.06
46 65 0.26
47 60 0.24
48 33 0.13
49 34 0.14
50 33 0.13
51 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGATAGCT
Found at i:41376854 original size:49 final size:47
Alignment explanation
Indices: 41376593--41376910 Score: 174
Period size: 47 Copynumber: 6.7 Consensus size: 47
41376583 ATATTATGAG
* * * *
41376593 AGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACACGGCATCGAC-TTGACA-GATA
* * * * *
41376641 AGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCAGCCTCGATATG-TA
1 AGCCAGTGTAAGACCATGTCTGGGACACGGCATC-GACTTGACA-GATA
* * * * * *
41376687 AGCCAATATAAGA-CATGTTTGGGACA-TGCCTCGAC-T-ACGAGATG
1 AGCCAGTGTAAGACCATGTCTGGGACACGGCATCGACTTGAC-AGATA
* * * * * *
41376731 TGTCAGTGTAAGACCATGTCTGGGATATGGCATCGGTA-TAGATA-AGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACACGGCATC-G-ACTTGACAGA-T-A
* * *
41376780 GAGCTAGTGTAAGACCATGTCTGGGACACGGCGTCGGCCTTGATTTCA-AT-
1 -AGCCAGTGTAAGACCATGTCTGGGACACGGCATC-GACTTGA---CAGATA
* *
41376830 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACAGATA
1 AGCCAGTGTAAGACCATGTCTGGGACACGGCATCGACTTGACAGATA
* *
41376877 AGCCAGTGTAAGACCATGTATGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACACGGCATC
41376911 AGCATTACAC
Statistics
Matches: 208, Mismatches: 43, Indels: 39
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 16 0.08
46 43 0.21
47 48 0.23
48 21 0.10
49 31 0.15
50 33 0.16
52 1 0.00
53 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACACGGCATCGACTTGACAGATA
Found at i:41390199 original size:93 final size:93
Alignment explanation
Indices: 41390040--41390210 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
41390030 GTAACCCGCA
*
41390040 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
41390105 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* * *
41390133 AACTCGGACTCAACTCGACGAGCTCGGACATTCGCATCGATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
41390198 GAGCTCGGATGCC
66 GAGCTCGGATGCC
41390211 CAAATATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:41390206 original size:46 final size:45
Alignment explanation
Indices: 41390040--41390206 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 45
41390030 GTAACCCGCA
*
41390040 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT-CATAAGTG
* * * *
41390086 AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATC-TCA-CG
1 AACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCATAAGTG
*
41390133 AACTCGGACTCAACTCGACGAGCTCGGACATTCGCATCGATAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATC-ATAAGTG
41390179 AACTCGGACTCAACTCAACGAGCTCGGA
1 AACTCGGACTCAACTCAACGAGCTCGGA
41390207 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 54 0.53
47 27 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCATAAGTG
Found at i:41392746 original size:20 final size:20
Alignment explanation
Indices: 41392704--41392746 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
41392694 TAAAAGGATA
* * *
41392704 ATTTTAATCAATTTGATTTG
1 ATTTTAATCAAATTAATTCG
41392724 ATTTTAATCAAATTAATTCG
1 ATTTTAATCAAATTAATTCG
41392744 ATT
1 ATT
41392747 GCTGCTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTTTAATCAAATTAATTCG
Found at i:41392919 original size:16 final size:14
Alignment explanation
Indices: 41392900--41392945 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
41392890 TAAATATAAA
41392900 TTATTCTATTTATATT
1 TTATT-TATTTAT-TT
*
41392916 TTATTTTATATATTT
1 TTA-TTTATTTATTT
41392931 TTATTTATTTATTT
1 TTATTTATTTATTT
41392945 T
1 T
41392946 ATTCGCTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 11 0.41
15 5 0.19
16 9 0.33
17 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTATTTATTT
Found at i:41392925 original size:28 final size:27
Alignment explanation
Indices: 41392894--41392948 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
41392884 AAAAACTAAA
41392894 TATAAATTATTCTATTTA-TATTTTATTT
1 TATAAATT-TT-TATTTATTATTTTATTT
*
41392922 TATATATTTTTATTTATTTATTTTATT
1 TATAAATTTTTATTTA-TTATTTTATT
41392949 CGCTAACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 2 0.08
28 16 0.67
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TATAAATTTTTATTTATTATTTTATTT
Found at i:41393393 original size:19 final size:19
Alignment explanation
Indices: 41393348--41393386 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41393338 GTAAGAGAAA
41393348 ACATTTTATGTTAAAAGTT
1 ACATTTTATGTTAAAAGTT
41393367 ACATTTTATGTTAAAAGTT
1 ACATTTTATGTTAAAAGTT
41393386 A
1 A
41393387 TCTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (19 bp):
ACATTTTATGTTAAAAGTT
Found at i:41396174 original size:13 final size:13
Alignment explanation
Indices: 41396156--41396180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41396146 TTACTATATA
41396156 AATAAGGGAATTC
1 AATAAGGGAATTC
41396169 AATAAGGGAATT
1 AATAAGGGAATT
41396181 AGTGAATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (13 bp):
AATAAGGGAATTC
Found at i:41399269 original size:14 final size:14
Alignment explanation
Indices: 41399250--41399279 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41399240 AATGTATCGC
41399250 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
*
41399264 AAAGAAAAATAAAG
1 AAAGAAAAAAAAAG
41399278 AA
1 AA
41399280 CACACAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:41399484 original size:48 final size:45
Alignment explanation
Indices: 41399413--41399520 Score: 144
Period size: 48 Copynumber: 2.3 Consensus size: 45
41399403 ACCATATTCT
* * *
41399413 AATAGAAGGAGTGTAGTAAGGTTGAAACACCTTATTCTAATAATATCA
1 AATAGAAGAAGTGTAATAAGGTTGAAAAACCTTATTCTAA-AATA--A
*
41399461 AATAGATGAAGTGTAATAAGGTTGAAAAACCTTATTCTAAAATAA
1 AATAGAAGAAGTGTAATAAGGTTGAAAAACCTTATTCTAAAATAA
*
41399506 AATAAAAGAAGTGTA
1 AATAGAAGAAGTGTA
41399521 GTTCTATATG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
45 14 0.26
47 4 0.07
48 36 0.67
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (45 bp):
AATAGAAGAAGTGTAATAAGGTTGAAAAACCTTATTCTAAAATAA
Found at i:41403982 original size:16 final size:17
Alignment explanation
Indices: 41403961--41404000 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
41403951 TTCTATATGG
*
41403961 ATTTTACT-TTTATTTT
1 ATTTTACTATATATTTT
41403977 ATTTTACTACTATATTTT
1 ATTTTACTA-TATATTTT
41403995 ATTTTA
1 ATTTTA
41404001 ATAAGAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
18 13 0.62
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTACTATATATTTT
Found at i:41404137 original size:57 final size:57
Alignment explanation
Indices: 41404049--41404165 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
41404039 ACACTCCACC
* *
41404049 ACTCTTTTCTTTTCAGATAAAACTTATTTAAAGATTCCATGTGTTGTAATTGCTCCT
1 ACTCTTTTCTTTTCAGATAAAACTTATTTAAAGACTCCATGTGTAGTAATTGCTCCT
41404106 ACTCTTTTCTTTTCAGATAAAACTTATTTAAAGACTCCATGTGTAGTAATTGCTCCT
1 ACTCTTTTCTTTTCAGATAAAACTTATTTAAAGACTCCATGTGTAGTAATTGCTCCT
41404163 ACT
1 ACT
41404166 AAGCTTTTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (57 bp):
ACTCTTTTCTTTTCAGATAAAACTTATTTAAAGACTCCATGTGTAGTAATTGCTCCT
Found at i:41405346 original size:21 final size:20
Alignment explanation
Indices: 41405320--41405362 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
41405310 ATGGGTTGGG
41405320 GAAAATCTCAGTCCCTACAC
1 GAAAATCTCAGTCCCTACAC
41405340 NGAAAATCTCAGTCCCTACAC
1 -GAAAATCTCAGTCCCTACAC
41405361 GA
1 GA
41405363 TTGATTGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.19
Consensus pattern (20 bp):
GAAAATCTCAGTCCCTACAC
Found at i:41410155 original size:24 final size:24
Alignment explanation
Indices: 41410123--41410174 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
41410113 TCAGTTACCT
* *
41410123 CCAATGCCAATGATCCCAAC-TCTG
1 CCAATGCCAACGATACCAACAT-TG
41410147 CCAATGCCAACGATACCAACATTG
1 CCAATGCCAACGATACCAACATTG
41410171 CCAA
1 CCAA
41410175 CGACTCAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.35, C:0.37, G:0.12, T:0.17
Consensus pattern (24 bp):
CCAATGCCAACGATACCAACATTG
Found at i:41411693 original size:20 final size:20
Alignment explanation
Indices: 41411665--41411702 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41411655 TCTTTTTTTA
*
41411665 ATTTGGTATCTGAATATAAC
1 ATTTAGTATCTGAATATAAC
41411685 ATTTAGTATCTGAATATA
1 ATTTAGTATCTGAATATA
41411703 GTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (20 bp):
ATTTAGTATCTGAATATAAC
Found at i:41411825 original size:58 final size:58
Alignment explanation
Indices: 41411704--41411854 Score: 144
Period size: 58 Copynumber: 2.6 Consensus size: 58
41411694 CTGAATATAG
* * * *
41411704 TTTTTTTTTAATTTGGTACCTAAATCTTTTTTTTCCAATTTGATACTTGATCCTAACA
1 TTTTTTCTTAATTTGGTACCTAAATCTTTTTTATCCAAATTGATACTTGAACCTAACA
* * * **
41411762 CTTTTTCTTAATTTGGTATCTAAAT-TTTTTTGGATCCAAATTGATACTTGAACTTGAATT
1 TTTTTTCTTAATTTGGTACCTAAATCTTTTTT--ATCCAAATTGATACTTGAACCT-AACA
* *
41411822 TTTTTTCCCTAATTTAGTACCTAAA-CTTGTTTT
1 TTTTTT-CTTAATTTGGTACCTAAATCTT-TTTT
41411855 TAGGTTTAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
57 6 0.08
58 22 0.30
59 18 0.24
60 7 0.09
61 17 0.23
62 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.52
Consensus pattern (58 bp):
TTTTTTCTTAATTTGGTACCTAAATCTTTTTTATCCAAATTGATACTTGAACCTAACA
Found at i:41412296 original size:57 final size:58
Alignment explanation
Indices: 41412225--41412374 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 58
41412215 AAACGTTTGA
* * ** *
41412225 CAAGTTCAAGTACCAAATCGAACAAAAAAAAT-TGGATACCAAATTAAGAAAAAGA-GT
1 CAAGTTTAAGTACCAAATAGAACAAAAAAAATCAAG-TACCAAATTAAGAAAAAAATGT
* * *
41412282 CAAGTTTAGGTACCAAATTGAACCCAAAAAAAGATCAAGTACCAATTTAAGAAAAAAATGT
1 CAAGTTTAAGTACCAAATAGAA--CAAAAAAA-ATCAAGTACCAAATTAAGAAAAAAATGT
* *
41412343 CAAGTTTAAGTATCAAATTAGAAAAAAAAAAA
1 CAAGTTTAAGTACCAAA-TAGAACAAAAAAAA
41412375 AGTCAAGTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
57 19 0.25
59 9 0.12
60 26 0.34
61 18 0.24
62 4 0.05
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.20
Consensus pattern (58 bp):
CAAGTTTAAGTACCAAATAGAACAAAAAAAATCAAGTACCAAATTAAGAAAAAAATGT
Found at i:41412372 original size:61 final size:60
Alignment explanation
Indices: 41412225--41412382 Score: 155
Period size: 61 Copynumber: 2.7 Consensus size: 60
41412215 AAACGTTTGA
* * * ** *
41412225 CAAGTTCAAGTACCAAATCGAAC--AAAAAAAATTGGA-TACCAAATTAAGAAAAAGAGT
1 CAAGTTTAAGTACCAAATTGAACAAAAAAAAAAGTCAAGTACCAAATTAAGAAAAAAAGT
* ** *
41412282 CAAGTTTAGGTACCAAATTGAAC-CCAAAAAAAGATCAAGTACCAATTTAAGAAAAAAATGT
1 CAAGTTTAAGTACCAAATTGAACAAAAAAAAAAG-TCAAGTACCAAATTAAGAAAAAAA-GT
*
41412343 CAAGTTTAAGTATCAAATTAGAA-AAAAAAAAAAGTCAAGT
1 CAAGTTTAAGTACCAAATT-GAACAAAAAAAAAAGTCAAGT
41412383 TCAGGTACTA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
57 20 0.24
58 7 0.09
59 2 0.02
60 17 0.21
61 25 0.30
62 11 0.13
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.20
Consensus pattern (60 bp):
CAAGTTTAAGTACCAAATTGAACAAAAAAAAAAGTCAAGTACCAAATTAAGAAAAAAAGT
Found at i:41414097 original size:24 final size:24
Alignment explanation
Indices: 41414070--41414139 Score: 131
Period size: 24 Copynumber: 2.9 Consensus size: 24
41414060 CGAAGGGAAA
*
41414070 CCAGGAAAGCCAGATGCTGAAGAG
1 CCAGGAAAGCCAGGTGCTGAAGAG
41414094 CCAGGAAAGCCAGGTGCTGAAGAG
1 CCAGGAAAGCCAGGTGCTGAAGAG
41414118 CCAGGAAAGCCAGGTGCTGAAG
1 CCAGGAAAGCCAGGTGCTGAAG
41414140 GAGGGACGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.34, C:0.21, G:0.36, T:0.09
Consensus pattern (24 bp):
CCAGGAAAGCCAGGTGCTGAAGAG
Found at i:41414829 original size:6 final size:6
Alignment explanation
Indices: 41414818--41414842 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41414808 AGTAAATTAT
41414818 AATATA AATATA AATATA AATATA A
1 AATATA AATATA AATATA AATATA A
41414843 TATTCGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:41417631 original size:17 final size:17
Alignment explanation
Indices: 41417606--41417643 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
41417596 CACGGGAGGC
*
41417606 CACACAGGCATGTGTTG
1 CACACAGGCATGTGTCG
*
41417623 CACATAGGCATGTGTCG
1 CACACAGGCATGTGTCG
41417640 CACA
1 CACA
41417644 GAAGCAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (17 bp):
CACACAGGCATGTGTCG
Found at i:41417892 original size:21 final size:21
Alignment explanation
Indices: 41417866--41417913 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
41417856 AGTTACACAT
*
41417866 GCGTGTGTCCCCTCCACATGG
1 GCGTGTGTACCCTCCACATGG
* *
41417887 GCGTGTGTAGCCTTCACATGG
1 GCGTGTGTACCCTCCACATGG
41417908 GCGTGT
1 GCGTGT
41417914 AGACTCCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.10, C:0.29, G:0.33, T:0.27
Consensus pattern (21 bp):
GCGTGTGTACCCTCCACATGG
Found at i:41417915 original size:19 final size:20
Alignment explanation
Indices: 41417877--41417926 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
41417867 CGTGTGTCCC
*
41417877 CTCCACATGGGCGTGTGTAGC
1 CTCCACATGGGCG-GTGTAGA
*
41417898 CTTCACATGGGC-GTGTAGA
1 CTCCACATGGGCGGTGTAGA
41417917 CTCCACATGG
1 CTCCACATGG
41417927 CCTAGGCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.58
21 11 0.42
ACGTcount: A:0.18, C:0.28, G:0.30, T:0.24
Consensus pattern (20 bp):
CTCCACATGGGCGGTGTAGA
Found at i:41420544 original size:13 final size:13
Alignment explanation
Indices: 41420528--41420558 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
41420518 CCTTCTCCTT
41420528 CCCTTTCCCCTAC
1 CCCTTTCCCCTAC
*
41420541 CCCTTTCCCTTAC
1 CCCTTTCCCCTAC
41420554 CCCTT
1 CCCTT
41420559 CCCTTTCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.58, G:0.00, T:0.35
Consensus pattern (13 bp):
CCCTTTCCCCTAC
Found at i:41420544 original size:31 final size:31
Alignment explanation
Indices: 41420509--41420567 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
41420499 CCATTCTTCT
*
41420509 CCCCTTTCCCCTT-CTCCTTCCCTTTCCCCTA
1 CCCCTTT-CCCTTACCCCTTCCCTTTCCCCTA
41420540 CCCCTTTCCCTTACCCCTTCCCTTTCCC
1 CCCCTTTCCCTTACCCCTTCCCTTTCCC
41420568 GTTTTGAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.03, C:0.59, G:0.00, T:0.37
Consensus pattern (31 bp):
CCCCTTTCCCTTACCCCTTCCCTTTCCCCTA
Found at i:41420560 original size:12 final size:12
Alignment explanation
Indices: 41420510--41420563 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
41420500 CATTCTTCTC
*
41420510 CCCTTTCCCCTT
1 CCCTTACCCCTT
*
41420522 CTCCTT-CCCTTT
1 C-CCTTACCCCTT
*
41420534 CCCCTACCCCTTT
1 CCCTTACCCC-TT
41420547 CCCTTACCCCTT
1 CCCTTACCCCTT
41420559 CCCTT
1 CCCTT
41420564 TCCCGTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 3 0.09
12 17 0.49
13 15 0.43
ACGTcount: A:0.04, C:0.57, G:0.00, T:0.39
Consensus pattern (12 bp):
CCCTTACCCCTT
Found at i:41420564 original size:18 final size:18
Alignment explanation
Indices: 41420510--41420567 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
41420500 CATTCTTCTC
41420510 CCCTTTCCCCTTCTCC-TT
1 CCCTTTCCCCTTC-CCTTT
*
41420528 CCCTTTCCCCTACCCCTTT
1 CCCTTTCCCCT-TCCCTTT
*
41420547 CCCTTACCCCTTCCCTTT
1 CCCTTTCCCCTTCCCTTT
41420565 CCC
1 CCC
41420568 GTTTTGAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 22 0.63
19 13 0.37
ACGTcount: A:0.03, C:0.59, G:0.00, T:0.38
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCTTT
Found at i:41422735 original size:29 final size:29
Alignment explanation
Indices: 41422686--41422743 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
41422676 CACAAAAAGT
* *
41422686 TCAGCAGGCAGATTCTGACAGTTCCATAG
1 TCAGCAGGCAGATCCTAACAGTTCCATAG
41422715 TCAGCAGGCAGATCCTAACAGTTCCATAG
1 TCAGCAGGCAGATCCTAACAGTTCCATAG
41422744 ATGTTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (29 bp):
TCAGCAGGCAGATCCTAACAGTTCCATAG
Found at i:41423134 original size:20 final size:20
Alignment explanation
Indices: 41423109--41423148 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41423099 AATATTTTTC
*
41423109 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
41423129 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
41423149 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:41423150 original size:34 final size:35
Alignment explanation
Indices: 41423097--41423163 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
41423087 CAAACACCAG
* *
41423097 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
41423132 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
41423164 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:41423155 original size:14 final size:14
Alignment explanation
Indices: 41423132--41423171 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41423122 ACAGAAAAGT
*
41423132 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
41423146 AAATCATTTTACGG
1 AAAACATTTTACAG
41423160 AAAACATTTTAC
1 AAAACATTTTAC
41423172 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:41423574 original size:29 final size:31
Alignment explanation
Indices: 41423496--41423574 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 31
41423486 TCATAAAGTT
*
41423496 TAAAGATAAATAATATTTATCTTAATATTATCA
1 TAAAGATAAATAATA-ATATCTTAATA-TATCA
41423529 TAAA-ATAAATAAATAATAT-TTAATA-ATCA
1 TAAAGATAAAT-AATAATATCTTAATATATCA
*
41423558 TAAAGATAAATATTAAT
1 TAAAGATAAATAATAAT
41423575 TATATAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 13 0.31
30 6 0.14
31 6 0.14
32 9 0.21
33 8 0.19
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (31 bp):
TAAAGATAAATAATAATATCTTAATATATCA
Found at i:41428196 original size:92 final size:92
Alignment explanation
Indices: 41428039--41428229 Score: 382
Period size: 92 Copynumber: 2.1 Consensus size: 92
41428029 ATTGACAGTG
41428039 ATCATATTAATCATTAAGAAGACACAACGATGACAATGAGATAAAATAAGATTGTATTGAGTGAA
1 ATCATATTAATCATTAAGAAGACACAACGATGACAATGAGATAAAATAAGATTGTATTGAGTGAA
41428104 CGAATTTAACTAAAAGGAATCAAGGAT
66 CGAATTTAACTAAAAGGAATCAAGGAT
41428131 ATCATATTAATCATTAAGAAGACACAACGATGACAATGAGATAAAATAAGATTGTATTGAGTGAA
1 ATCATATTAATCATTAAGAAGACACAACGATGACAATGAGATAAAATAAGATTGTATTGAGTGAA
41428196 CGAATTTAACTAAAAGGAATCAAGGAT
66 CGAATTTAACTAAAAGGAATCAAGGAT
41428223 ATCATAT
1 ATCATAT
41428230 GAGGGTAACA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 99 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.26
Consensus pattern (92 bp):
ATCATATTAATCATTAAGAAGACACAACGATGACAATGAGATAAAATAAGATTGTATTGAGTGAA
CGAATTTAACTAAAAGGAATCAAGGAT
Found at i:41430961 original size:21 final size:20
Alignment explanation
Indices: 41430937--41430976 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41430927 ACAACACCAA
*
41430937 ATAAAAAATCATTTAAAAAAC
1 ATAAAAAA-CACTTAAAAAAC
*
41430958 ATAAAGAACACTTAAAAAA
1 ATAAAAAACACTTAAAAAA
41430977 AGGGATTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.20
Consensus pattern (20 bp):
ATAAAAAACACTTAAAAAAC
Found at i:41435910 original size:5 final size:5
Alignment explanation
Indices: 41435900--41435934 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
41435890 TTAGTGTCAG
*
41435900 AGAAA AGAAA AGAAA AGAAA AGAAGA TGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA AGAA
41435935 GCGTGACCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (5 bp):
AGAAA
Found at i:41436245 original size:19 final size:20
Alignment explanation
Indices: 41436207--41436247 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
41436197 CAAAAAAAAG
* *
41436207 TTAAAATATCAAATTGAATA
1 TTAAAATATAAAATTAAATA
41436227 TTAAAA-ATAAAATTAAATA
1 TTAAAATATAAAATTAAATA
41436246 TT
1 TT
41436248 TCACTAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TTAAAATATAAAATTAAATA
Found at i:41445210 original size:18 final size:18
Alignment explanation
Indices: 41445187--41445229 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
41445177 GGCGTTGGAT
*
41445187 GTTAGCAGGAAGGTTTTC
1 GTTAGCAGGAAGGTTCTC
41445205 GTTAGCAGGAAGGTTCTC
1 GTTAGCAGGAAGGTTCTC
41445223 GTTAGCA
1 GTTAGCA
41445230 TAATCATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (18 bp):
GTTAGCAGGAAGGTTCTC
Found at i:41452821 original size:28 final size:28
Alignment explanation
Indices: 41452785--41452844 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
41452775 ACTATTACCA
41452785 GATA-GTTTTAGGAAGGATGCTTAACAT
1 GATATGTTTTAGGAAGGATGCTTAACAT
41452812 GATATGTTTTAGGAAGGATGCTTAACAT
1 GATATGTTTTAGGAAGGATGCTTAACAT
41452840 GATAT
1 GATAT
41452845 CAGAGTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (28 bp):
GATATGTTTTAGGAAGGATGCTTAACAT
Found at i:41464663 original size:17 final size:18
Alignment explanation
Indices: 41464643--41464684 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
41464633 TTATATAATT
* *
41464643 TTAAAATATA-TACTACA
1 TTAAAATATACAAATACA
41464660 TTAAAA-ATACAAATACA
1 TTAAAATATACAAATACA
41464677 TTAAAATA
1 TTAAAATA
41464685 AATATTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAATATACAAATACA
Found at i:41464858 original size:11 final size:11
Alignment explanation
Indices: 41464826--41464896 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
41464816 ATAATAACAA
*
41464826 TAAAATAGTAG
1 TAAAATAATAG
*
41464837 TAACATAATAG
1 TAAAATAATAG
*
41464848 TAAAATGATAG
1 TAAAATAATAG
* *
41464859 CAAAATAAGGAG
1 TAAAATAA-TAG
41464871 -AAAATAATAAG
1 TAAAATAAT-AG
*
41464882 -AAAATAATAT
1 TAAAATAATAG
41464892 TAAAA
1 TAAAA
41464897 AAAGTATCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 1 0.02
11 45 0.94
12 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.23
Consensus pattern (11 bp):
TAAAATAATAG
Found at i:41493564 original size:40 final size:40
Alignment explanation
Indices: 41493497--41493667 Score: 184
Period size: 40 Copynumber: 4.3 Consensus size: 40
41493487 CCATTACAGA
* * *
41493497 ATGTGCATTCAA-GGTATCGAAGTACAAATATGGGCACAT
1 ATGTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACAT
* * * *
41493536 ATGTGCATTTAAGGGTACCAAAGTACAAACAAGGGCACGT
1 ATGTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACAT
* * * *
41493576 ATGTGCAGTT-AGGGGTACTGAAGTACAAGCAGGGGCACGT
1 ATGTGCA-TTCAAGGGTACCGAAGTACAAACAGGGGCACAT
* **
41493616 ATGTGCATTCAGGGGTATTGAAGTACAAACAGGGGCACAT
1 ATGTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACAT
*
41493656 ATGTGCAATCAA
1 ATGTGCATTCAA
41493668 ACAATAATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.12
40 98 0.87
41 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
ATGTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACAT
Found at i:41501426 original size:32 final size:32
Alignment explanation
Indices: 41501390--41501453 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
41501380 ATATGAGAAG
41501390 AAGAAAAACTTCTGAGGCTAATCAAAGAATTC
1 AAGAAAAACTTCTGAGGCTAATCAAAGAATTC
41501422 AAGAAAAACTTCTGAGGCTAATCAAAGAATTC
1 AAGAAAAACTTCTGAGGCTAATCAAAGAATTC
41501454 CCTTTCCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (32 bp):
AAGAAAAACTTCTGAGGCTAATCAAAGAATTC
Found at i:41502063 original size:68 final size:67
Alignment explanation
Indices: 41501971--41502108 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 67
41501961 CCCCAAAATC
* * *
41501971 TTTCCCTATGTTATGGCCAGAATCCATCTCCCAATTAATACTATTGCTGTGATT-AGAACTTTCC
1 TTTCCCTATCTTATGGCCAAAATCCATATCCCAATTAATACTATTGCTGTGATTGA-AACTTTCC
41502035 ATA
65 ATA
*
41502038 TTTNCCCTATCTTATGGCCAAAATCCATATCCCAATTAATATTATTGCTGTGATTGAAACTTTCC
1 TTT-CCCTATCTTATGGCCAAAATCCATATCCCAATTAATACTATTGCTGTGATTGAAACTTTCC
41502103 ATA
65 ATA
41502106 TTT
1 TTT
41502109 TCAAGTTGGC
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 3 0.05
68 61 0.94
69 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.39
Consensus pattern (67 bp):
TTTCCCTATCTTATGGCCAAAATCCATATCCCAATTAATACTATTGCTGTGATTGAAACTTTCCA
TA
Found at i:41503543 original size:36 final size:39
Alignment explanation
Indices: 41503498--41503569 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 39
41503488 CTTTTTGTAT
* *
41503498 TTTTATATATA-ATAAAAATTAAAATC-AAAATTAAAAG
1 TTTTATATATACATAAAAATAAAAAACTAAAATTAAAAG
*
41503535 TTTT-TATATACATAAAACTAAAAAACTAAAATTAA
1 TTTTATATATACATAAAAATAAAAAACTAAAATTAA
41503570 TATTATACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 6 0.20
37 16 0.53
38 8 0.27
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (39 bp):
TTTTATATATACATAAAAATAAAAAACTAAAATTAAAAG
Found at i:41503566 original size:38 final size:38
Alignment explanation
Indices: 41503497--41503569 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
41503487 GCTTTTTGTA
* *
41503497 TTTTTATATATAATAAAAATTAAAATCAAAATTAAAAG
1 TTTTTATATATAATAAAAATAAAAAACAAAATTAAAAG
* *
41503535 TTTTTATATA-CATAAAACTAAAAAACTAAAATTAA
1 TTTTTATATATAATAAAAATAAAAAAC-AAAATTAA
41503570 TATTATACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 12 0.40
38 18 0.60
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (38 bp):
TTTTTATATATAATAAAAATAAAAAACAAAATTAAAAG
Found at i:41507398 original size:25 final size:24
Alignment explanation
Indices: 41507361--41507415 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 24
41507351 TGTATTTAAA
41507361 ATATTATTTTTATTATAATT-ATAG
1 ATATTATTTTTATTAT-ATTCATAG
41507385 ATATTATTTCTTATTATATTCATAG
1 ATATTATTT-TTATTATATTCATAG
41507410 ATATTA
1 ATATTA
41507416 AAGTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (24 bp):
ATATTATTTTTATTATATTCATAG
Found at i:41508364 original size:19 final size:19
Alignment explanation
Indices: 41508340--41508379 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
41508330 GAACCAAAAC
41508340 ATGGAGCTACTACAGAGTA
1 ATGGAGCTACTACAGAGTA
41508359 ATGGAGCTACTACAGAGTA
1 ATGGAGCTACTACAGAGTA
41508378 AT
1 AT
41508380 TTTAGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (19 bp):
ATGGAGCTACTACAGAGTA
Found at i:41526842 original size:27 final size:28
Alignment explanation
Indices: 41526778--41526876 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
41526768 AATAAGTCTA
* *
41526778 TCAGGACTATCTTACATGTGGAAGTTCG
1 TCAGGACTATCTTATATGTGGAAGTCCG
* *
41526806 TCAAGACTATTTTATATGTGG-AGTCCG
1 TCAGGACTATCTTATATGTGGAAGTCCG
41526833 TCAGGACTATCTTATATGTGGAAGTCCG
1 TCAGGACTATCTTATATGTGGAAGTCCG
41526861 TCAGGACTATCTTATA
1 TCAGGACTATCTTATA
41526877 AGTGAAAATC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 40 0.62
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (28 bp):
TCAGGACTATCTTATATGTGGAAGTCCG
Found at i:41526891 original size:28 final size:28
Alignment explanation
Indices: 41526778--41526898 Score: 100
Period size: 28 Copynumber: 4.4 Consensus size: 28
41526768 AATAAGTCTA
* * * * *
41526778 TCAGGACTATCTTACATGTGGAAGTTCG
1 TCAGGACTATCTTATAAGTGAAAATCCG
* * * * *
41526806 TCAAGACTATTTTATATGTG-GAGTCCG
1 TCAGGACTATCTTATAAGTGAAAATCCG
* * *
41526833 TCAGGACTATCTTATATGTGGAAGTCCG
1 TCAGGACTATCTTATAAGTGAAAATCCG
*
41526861 TCAGGACTATCTTATAAGTGAAAATCTG
1 TCAGGACTATCTTATAAGTGAAAATCCG
*
41526889 TCAAGACTAT
1 TCAGGACTAT
41526899 TTTACAAATA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 23 0.29
28 56 0.71
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (28 bp):
TCAGGACTATCTTATAAGTGAAAATCCG
Found at i:41534099 original size:19 final size:21
Alignment explanation
Indices: 41534075--41534114 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
41534065 AACATTCGAC
41534075 GAAATCAAGA-GAA-GCAAAG
1 GAAATCAAGAGGAAGGCAAAG
*
41534094 GAAATCTAGAGGAAGGCAAAG
1 GAAATCAAGAGGAAGGCAAAG
41534115 CAAACTCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.30, T:0.07
Consensus pattern (21 bp):
GAAATCAAGAGGAAGGCAAAG
Found at i:41536150 original size:10 final size:10
Alignment explanation
Indices: 41536135--41536207 Score: 55
Period size: 10 Copynumber: 7.4 Consensus size: 10
41536125 CTTTGTATAT
*
41536135 TTTTTAGAAA
1 TTTTTAAAAA
41536145 TTTTTAAAAA
1 TTTTTAAAAA
41536155 TTTTTAATATAA
1 TTTTTAA-A-AA
*
41536167 ATTTT-AAAA
1 TTTTTAAAAA
*
41536176 TTTTT--GAA
1 TTTTTAAAAA
41536184 -TTTTAAAAA
1 TTTTTAAAAA
*
41536193 TTATTTTAAAA
1 TT-TTTAAAAA
41536204 TTTT
1 TTTT
41536208 GGAAATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
7 4 0.08
8 2 0.04
9 8 0.16
10 20 0.39
11 11 0.22
12 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:41539285 original size:3 final size:3
Alignment explanation
Indices: 41539277--41539318 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
41539267 GCTATGATTT
*
41539277 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41539319 CTACCACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Done.