Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 136 of 427
Found at i:36615740 original size:40 final size:40
Alignment explanation
Indices: 36615684--36615807 Score: 169
Period size: 40 Copynumber: 3.1 Consensus size: 40
36615674 TGTATCTGGG
* *
36615684 CTTAAAGACCCGCAGGCTATATGCTAGAATTATATCCGGG
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
* *
36615724 CTTAAAGACCCACAGGCTATATGCTGGAATTATACCCGGA
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
** * *
36615764 CTT-AAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGA
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
36615803 CTTAA
1 CTTAA
36615808 GGTCCGCAGG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 34 0.46
40 40 0.54
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
Found at i:36615788 original size:39 final size:39
Alignment explanation
Indices: 36615693--36615817 Score: 169
Period size: 39 Copynumber: 3.2 Consensus size: 39
36615683 GCTTAAAGAC
* * * **
36615693 CCGCAGGCTATATGCTAGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
* *
36615733 CCACAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
36615772 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
36615811 CCGCAGG
1 CCGCAGG
36615818 ATACGCGCTG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 46 0.61
40 30 0.39
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:36615828 original size:39 final size:39
Alignment explanation
Indices: 36615746--36615830 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
36615736 CAGGCTATAT
* * * *
36615746 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
36615785 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
36615824 GCTGGAA
1 GCTGGAA
36615831 ATATGTCCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
Found at i:36616092 original size:2 final size:2
Alignment explanation
Indices: 36616085--36616119 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
36616075 TCAAAGAAGA
* *
36616085 AT AT AT AT AT AT AT AC AT TT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36616120 AGTGTAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36616822 original size:15 final size:15
Alignment explanation
Indices: 36616782--36616822 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
36616772 GAGTTTGGCG
36616782 ATGTATATTTTTATT
1 ATGTATATTTTTATT
*
36616797 -T-TATTTTTTTATT
1 ATGTATATTTTTATT
*
36616810 ATGTATGTTTTTA
1 ATGTATATTTTTA
36616823 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.50
14 2 0.09
15 9 0.41
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (15 bp):
ATGTATATTTTTATT
Found at i:36620176 original size:29 final size:27
Alignment explanation
Indices: 36620142--36620244 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
36620132 TACTCAATCA
*
36620142 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
36620171 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
36620200 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
36620229 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
36620245 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:36628199 original size:29 final size:29
Alignment explanation
Indices: 36628131--36628232 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
36628121 TACTCAATCA
* *
36628131 CGCACACTTAGTGCCATGT-GATTCAAGC-
1 CGCACACTTAGTGCCATATAG-TACAAGCT
* * * *
36628159 CCCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATAGTACAAGCT
* *
36628188 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCATATAGTACAAGCT
*
36628217 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
36628233 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 21 0.35
29 39 0.65
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAGTACAAGCT
Found at i:36631603 original size:33 final size:33
Alignment explanation
Indices: 36631561--36631626 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
36631551 TCGTTGACAT
36631561 GGGACTGACTCTTCTTGCTCAAGCAGGTTTACC
1 GGGACTGACTCTTCTTGCTCAAGCAGGTTTACC
36631594 GGGACTGACTCTTCTTGCTCAAGCAGGTTTACC
1 GGGACTGACTCTTCTTGCTCAAGCAGGTTTACC
36631627 TCTGAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.30
Consensus pattern (33 bp):
GGGACTGACTCTTCTTGCTCAAGCAGGTTTACC
Found at i:36635746 original size:51 final size:51
Alignment explanation
Indices: 36635670--36635767 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
36635660 GATTGGATTG
36635670 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
1 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
* *
36635721 TTATGGTTCATAAATCTAAGTTTAGCCCTTTGTAAGAGTATTTGAAA
1 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAA
36635768 TCGATTCTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (51 bp):
TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
Found at i:36645703 original size:15 final size:15
Alignment explanation
Indices: 36645679--36645767 Score: 72
Period size: 15 Copynumber: 5.7 Consensus size: 15
36645669 TGGATCCTAC
36645679 CCTCCACAAGGATAT
1 CCTCCACAAGGATAT
*
36645694 CCTCCTCAAGGATAT
1 CCTCCACAAGGATAT
* *
36645709 CCCCCACAAGGATAC
1 CCTCCACAAGGATAT
* * *
36645724 CCACCGGC-TGGATAT
1 CCTCC-ACAAGGATAT
*
36645739 CCTCCACCAGCGGGATAT
1 CCTCCA-CA--AGGATAT
36645757 CCTCCACAAGG
1 CCTCCACAAGG
36645768 CGGATACCCA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
15 42 0.74
16 1 0.02
17 2 0.04
18 12 0.21
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.17
Consensus pattern (15 bp):
CCTCCACAAGGATAT
Found at i:36645779 original size:33 final size:33
Alignment explanation
Indices: 36645742--36645809 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
36645732 TGGATATCCT
*
36645742 CCACCAGC-GGGATATCCTCCACAAGGCGGATAC
1 CCACCAGCAGGG-TATCCTCCACAAGGAGGATAC
* * *
36645775 CCACCTGCAGGGTATCCTCCTCATGGAGGATAC
1 CCACCAGCAGGGTATCCTCCACAAGGAGGATAC
36645808 CC
1 CC
36645810 TCATCCACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.16
Consensus pattern (33 bp):
CCACCAGCAGGGTATCCTCCACAAGGAGGATAC
Found at i:36646055 original size:21 final size:21
Alignment explanation
Indices: 36646018--36646058 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36646008 TCTTTACGGG
36646018 GCTCACCATTTGTCACATGGA
1 GCTCACCATTTGTCACATGGA
*
36646039 GCTCATCATCTTG-CACATGG
1 GCTCACCAT-TTGTCACATGG
36646059 GGGATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
GCTCACCATTTGTCACATGGA
Found at i:36646104 original size:15 final size:15
Alignment explanation
Indices: 36646078--36646119 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
36646068 TGGCCATGGT
*
36646078 CACGGAAAATTTAAA
1 CACGGGAAATTTAAA
* *
36646093 CATGGGAAATTTAAG
1 CACGGGAAATTTAAA
36646108 CACGGGAAATTT
1 CACGGGAAATTT
36646120 GGGAAGCGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (15 bp):
CACGGGAAATTTAAA
Found at i:36647936 original size:28 final size:28
Alignment explanation
Indices: 36647901--36647978 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
36647891 TTAATTTATG
*
36647901 TTTAGATAATAATGTTTAAATTTTAA-AA
1 TTTAGATAATAA-ATTTAAATTTTAATAA
* *
36647929 TTTAGATAATAAATTTCAATTTTAATAT
1 TTTAGATAATAAATTTAAATTTTAATAA
36647957 TTTAGATAATAAATTATAAATT
1 TTTAGATAATAAATT-TAAATT
36647979 AATTTTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 11 0.25
28 28 0.64
29 5 0.11
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTAGATAATAAATTTAAATTTTAATAA
Found at i:36648425 original size:21 final size:21
Alignment explanation
Indices: 36648381--36648425 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
36648371 AAAATTTTTA
*
36648381 AAATATGTATTATATTCTAAT
1 AAATATGTATTATATCCTAAT
*
36648402 AAAT-TGTATTATACTCCTATT
1 AAATATGTATTATA-TCCTAAT
36648423 AAA
1 AAA
36648426 GATCCGAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (21 bp):
AAATATGTATTATATCCTAAT
Found at i:36649277 original size:23 final size:21
Alignment explanation
Indices: 36649244--36649293 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
36649234 GACCAATAAG
*
36649244 TTTCAAATCATTTTAAA-ACCA
1 TTTCAAATCA-TTTAAACACAA
36649265 TTTCAAAGCTCATTTAAACACAA
1 TTTCAAA--TCATTTAAACACAA
36649288 TTTCAA
1 TTTCAA
36649294 TCCATACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 6 0.24
23 12 0.48
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (21 bp):
TTTCAAATCATTTAAACACAA
Found at i:36649942 original size:23 final size:23
Alignment explanation
Indices: 36649932--36649978 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
36649922 AATAAAGTAT
*
36649932 ATGCTATTTTAATATTAAAATTA
1 ATGCTATTTTAATAATAAAATTA
36649955 ATGCTATTTTAAT-ATCAAAATTA
1 ATGCTATTTTAATAAT-AAAATTA
36649978 A
1 A
36649979 GTTAAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
ATGCTATTTTAATAATAAAATTA
Found at i:36653366 original size:30 final size:29
Alignment explanation
Indices: 36653311--36653439 Score: 198
Period size: 29 Copynumber: 4.6 Consensus size: 29
36653301 ATAGTGAATC
36653311 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36653340 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
36653370 CGCACACTTAGTGCTATATA--TT----T
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
36653393 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36653422 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
36653440 CAATTTTTAA
Statistics
Matches: 93, Mismatches: 0, Indels: 14
0.87 0.00 0.13
Matches are distributed among these distances:
23 21 0.23
25 2 0.02
27 2 0.02
29 39 0.42
30 29 0.31
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:36653399 original size:23 final size:23
Alignment explanation
Indices: 36653369--36653415 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
36653359 AATTTTCAGC
36653369 TCGCACACTTAGTGCTATATATT
1 TCGCACACTTAGTGCTATATATT
36653392 TCGCACACTTAGTGCTATATATT
1 TCGCACACTTAGTGCTATATATT
36653415 T
1 T
36653416 TCAGTTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (23 bp):
TCGCACACTTAGTGCTATATATT
Found at i:36653921 original size:2 final size:2
Alignment explanation
Indices: 36653914--36653938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36653904 CATACTTATG
36653914 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
36653939 GGGTATCACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36654808 original size:19 final size:18
Alignment explanation
Indices: 36654784--36654819 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36654774 CCCCCTTTTT
*
36654784 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
36654803 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
36654820 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:36661098 original size:30 final size:29
Alignment explanation
Indices: 36661043--36661167 Score: 183
Period size: 29 Copynumber: 4.5 Consensus size: 29
36661033 ATAGTGAATC
36661043 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36661072 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
36661102 CGCACACTTAGTGCTAT-TA--TT----T
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
36661124 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36661153 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36661168 GTACAATTTT
Statistics
Matches: 88, Mismatches: 0, Indels: 16
0.85 0.00 0.15
Matches are distributed among these distances:
22 18 0.20
23 2 0.02
25 2 0.02
26 2 0.02
28 1 0.01
29 36 0.41
30 27 0.31
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:36661129 original size:22 final size:23
Alignment explanation
Indices: 36661101--36661146 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
36661091 AATTTTCAGC
36661101 TCGCACACTTAGTGCTAT-TATT
1 TCGCACACTTAGTGCTATATATT
36661123 TCGCACACTTAGTGCTATATATT
1 TCGCACACTTAGTGCTATATATT
36661146 T
1 T
36661147 TCAGTTCGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (23 bp):
TCGCACACTTAGTGCTATATATT
Found at i:36662533 original size:19 final size:18
Alignment explanation
Indices: 36662509--36662544 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36662499 CCCCCTTTTT
*
36662509 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
36662528 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
36662545 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:36663342 original size:26 final size:26
Alignment explanation
Indices: 36663293--36663344 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36663283 AGCGGACATT
* * **
36663293 CCCGTGTTTATTTTCCCAGTGGACTA
1 CCCGTGTTTACTATCCCAACGGACTA
36663319 CCCGTGTTTACTATCCCAACGGACTA
1 CCCGTGTTTACTATCCCAACGGACTA
36663345 TACTAGGTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (26 bp):
CCCGTGTTTACTATCCCAACGGACTA
Found at i:36667603 original size:30 final size:29
Alignment explanation
Indices: 36667548--36667671 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
36667538 ATAGTGAATC
36667548 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36667577 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
36667607 CGCACACTTAGTGCTAT-TA---T----T
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
36667628 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36667657 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36667672 GTACAATTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
21 18 0.21
22 2 0.02
25 2 0.02
28 1 0.01
29 36 0.42
30 27 0.31
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:36667632 original size:21 final size:22
Alignment explanation
Indices: 36667606--36667649 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
36667596 AATTTTCAGC
36667606 TCGCACACTTAGTGCTAT-TAT
1 TCGCACACTTAGTGCTATATAT
36667627 TCGCACACTTAGTGCTATATAT
1 TCGCACACTTAGTGCTATATAT
36667649 T
1 T
36667650 TTCAGTTCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (22 bp):
TCGCACACTTAGTGCTATATAT
Found at i:36667668 original size:50 final size:51
Alignment explanation
Indices: 36667576--36667671 Score: 176
Period size: 50 Copynumber: 1.9 Consensus size: 51
36667566 TATTTTCAGC
36667576 TCGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATTAT
1 TCGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATTAT
*
36667627 TCGCACACTTAGTGCTATAT-ATTTTCAGTTCGCACACTTAGTGCT
1 TCGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCT
36667672 GTACAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 24 0.55
51 20 0.45
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (51 bp):
TCGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATTAT
Found at i:36667681 original size:80 final size:81
Alignment explanation
Indices: 36667548--36667701 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 81
36667538 ATAGTGAATC
* * * *
36667548 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGCTCGCAC
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACCCGCAC
36667612 ACTTAGTGCTATTATT
66 ACTTAGTGCTATTATT
* *
36667628 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAACCCGCAC
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACCCGCAC
36667693 ACTTAGTGC
66 ACTTAGTGC
36667702 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 47 0.70
81 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (81 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACCCGCAC
ACTTAGTGCTATTATT
Found at i:36669038 original size:19 final size:18
Alignment explanation
Indices: 36669014--36669049 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36669004 CCCCCTTTTT
*
36669014 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
36669033 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
36669050 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:36669845 original size:26 final size:26
Alignment explanation
Indices: 36669796--36669847 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36669786 AGCGGACATT
* * **
36669796 CCCGTGTTTATTTTCCCAGTGGACTA
1 CCCGTGTTTACTATCCCAACGGACTA
36669822 CCCGTGTTTACTATCCCAACGGACTA
1 CCCGTGTTTACTATCCCAACGGACTA
36669848 TACTAGGTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (26 bp):
CCCGTGTTTACTATCCCAACGGACTA
Found at i:36674111 original size:30 final size:29
Alignment explanation
Indices: 36674056--36674182 Score: 192
Period size: 29 Copynumber: 4.5 Consensus size: 29
36674046 ATAGTGAATC
36674056 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36674085 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
36674115 CGCACACTTAGTGCTATAT-TATT----T
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
36674139 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
36674168 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36674183 GTACAATTTT
Statistics
Matches: 90, Mismatches: 2, Indels: 12
0.87 0.02 0.12
Matches are distributed among these distances:
24 20 0.22
25 3 0.03
28 3 0.03
29 35 0.39
30 29 0.32
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:36674146 original size:24 final size:23
Alignment explanation
Indices: 36674114--36674161 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
36674104 AATTTTCAGC
36674114 TCGCACACTTAGTGCTATATTATT
1 TCGCACACTTAGTGCTATA-TATT
36674138 TCGCACACTTAGTGCTATATATT
1 TCGCACACTTAGTGCTATATATT
36674161 T
1 T
36674162 TCAGTTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (23 bp):
TCGCACACTTAGTGCTATATATT
Found at i:36675549 original size:19 final size:18
Alignment explanation
Indices: 36675525--36675560 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36675515 CCCCCTTTTT
*
36675525 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
36675544 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
36675561 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:36676358 original size:26 final size:26
Alignment explanation
Indices: 36676309--36676360 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36676299 AGCGGACATT
* * **
36676309 CCCGTGTTTATTTTCCCAGTGGACTA
1 CCCGTGTTTACTATCCCAACGGACTA
36676335 CCCGTGTTTACTATCCCAACGGACTA
1 CCCGTGTTTACTATCCCAACGGACTA
36676361 TACTAGGTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (26 bp):
CCCGTGTTTACTATCCCAACGGACTA
Found at i:36680897 original size:2 final size:2
Alignment explanation
Indices: 36680892--36680918 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36680882 CCAAATAACA
36680892 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36680919 CCTACTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36681525 original size:49 final size:51
Alignment explanation
Indices: 36681465--36681562 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 51
36681455 ACACACTTGG
* *
36681465 GCACTAAGTGCCAAGCCCGTAGGC-TAACATCC-CTCCGAAACACACCTCC
1 GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCTCC
* * * *
36681514 GCACTGAGTGCCAAGTCCGAAGGCTTTACATCCACCCCGAACCACACCT
1 GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCT
36681563 GAATCACTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 21 0.51
50 7 0.17
51 13 0.32
ACGTcount: A:0.28, C:0.40, G:0.17, T:0.15
Consensus pattern (51 bp):
GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCTCC
Found at i:36685902 original size:58 final size:60
Alignment explanation
Indices: 36685753--36685899 Score: 176
Period size: 61 Copynumber: 2.5 Consensus size: 60
36685743 AAAAAATCAG
*
36685753 ACTCTAATATGAGAACAATTACTAAATTTAAAAACTAATTTGAAGGGAAAAACAAGTTTAA
1 ACTCTAATAT-AGAACAATTACTAAATTTAAAAACTAATCTGAAGGGAAAAACAAGTTTAA
* * * * *
36685814 ACTCTAATACCAGAACATTTGCTAAGTTTAAATACTAA-CT-AAGGCGAAAAA-AA-TTTAA
1 ACTCTAATA-TAGAACAATTACTAAATTTAAAAACTAATCTGAAGG-GAAAAACAAGTTTAA
*
36685872 ACTCTAATATAGAATAATTACTAAATTT
1 ACTCTAATATAGAACAATTACTAAATTT
36685900 TAATCCCAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
57 14 0.19
58 14 0.19
59 6 0.08
60 7 0.10
61 32 0.44
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (60 bp):
ACTCTAATATAGAACAATTACTAAATTTAAAAACTAATCTGAAGGGAAAAACAAGTTTAA
Found at i:36686013 original size:2 final size:2
Alignment explanation
Indices: 36686006--36686036 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36685996 AAATCTTTAA
36686006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36686037 ATACACGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36690753 original size:18 final size:18
Alignment explanation
Indices: 36690732--36690773 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
36690722 TAATTTAAAG
36690732 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
36690750 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
*
36690768 TGTAAA
1 TATAAA
36690774 AACAACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAAATTTATTAATATA
Found at i:36690873 original size:19 final size:20
Alignment explanation
Indices: 36690849--36690894 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
36690839 CATCCAAACA
*
36690849 CCAGAAAAGTAAATTA-TTT
1 CCAGAAAAGTAAATCATTTT
36690868 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
36690888 CCAGAAA
1 CCAGAAA
36690895 TAATTTTCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:36701986 original size:3 final size:3
Alignment explanation
Indices: 36701978--36702011 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
36701968 TGGTTTAACC
36701978 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
36702012 TTGAATTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:36706647 original size:33 final size:33
Alignment explanation
Indices: 36706596--36706673 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
36706586 TATGACATTC
36706596 AATATCAAGTTCATTTCGTATCAAAATTCATTTAA
1 AATATC-A-TTCATTTCGTATCAAAATTCATTTAA
**
36706631 AATATCATTCATTTCGTATTGAAATTCATTTAA
1 AATATCATTCATTTCGTATCAAAATTCATTTAA
*
36706664 GATATCATTC
1 AATATCATTC
36706674 GAACCTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 33 0.82
34 1 0.03
35 6 0.15
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.42
Consensus pattern (33 bp):
AATATCATTCATTTCGTATCAAAATTCATTTAA
Found at i:36707677 original size:632 final size:625
Alignment explanation
Indices: 36706640--36707791 Score: 1605
Period size: 632 Copynumber: 1.8 Consensus size: 625
36706630 AAATATCATT
** * * *
36706640 CATTTCGTATTGAAATTCATTTAAGATATCATTCGAACCTCTTTCTAGAGTCTATTGACTCATTC
1 CATTTCGTATCAAAATCCATTTAACATATCATCCGAACCTCTTTCTAGAGTCTATTGACTCATTC
* * * *
36706705 GTATTCATTTTGGTACTATATTATATTATCTATTTCATTTTGTAAATTTTTACAATTTCGAATAT
66 ATATTCATTTTGGCACTATATTATATTATCTATTTCATTTTGTAAAGTTTTACAATTTCAAATAT
** * *
36706770 AATGTTACGCTTGATGAATCCCTAGTAAAATAGACTCGGATACATGGGTAAACTACACCATACCA
131 AATGTTACGCCCGATAAAACCCTAGTAAAATAGACTCGGATACATGGGTAAACTACACCATA-CA
* * *
36706835 GATAGCTTTTAAGAGCTTTAACTACACCACACTAGAGCATCGAAGTGCAAAGCTCATAGGCATAA
195 GATAACTTGTAAGAGCTTTAACTACACCACACTAAAGCATCGAAGTGCAAAGCTCATAGGCATAA
* *
36706900 AATGCATTCTCATATGCATATAAATCCCTCCACTACACAAAGATCCTCGTGGAGACATATAATAC
260 AATGCATTCTCATATGAATATAAATCCCTCCACTACACAAAGATCCTCGTAGAGACATATAATAC
* * * ** *
36706965 TTGATGATTCGCAACAAATGCTAGATCCTGACATAGCCTGTAATGATCCCCTTATAACCACATAT
325 TCGATGATTCACAACAAATGCTAGATCCTGACATAACCTGTAACAATCCCCATATAACCACATAT
* *
36707030 CTCGTACAAGTGCACATAAAAACCTATTGGCATGACAGTCATATTCTAACCTTTTACTATGTTTA
390 CCCGTACAAGTGCACATAAAAACCTATTGGCATGACAGTCATATCCTAACCTTTTACTATGTTTA
** ** *
36707095 CAC-ATGCATCTATTATATATATAAGCATTTCCACACTTGATATCATCTTACTCGCATATTCATA
455 CACGA-GCATAAATTATATATATAAAAATTTCCACACTTGATATCATCTTACTCGCATATACATA
36707159 CATTGTACTACATATACCAAAACCTATCCTAAGGCCTTTAGCTATCAATACCAATAAAAAATTTA
519 CATTGTACTACATATACCAAAACCTATCCTAAGGCCTTTAGCTATCAATACCAATAAAAAATTTA
36707224 AAATATTTATAATCCATTCATTATGACATTCAATATCAAGTC
584 AAATATTTATAATCCATTCATTATGACATTCAATATCAAGTC
*
36707266 CATTTCGTATCAAAATCCATTTAACATATCATCCGAACCTCTTTCTGGAGTCTATTGACTCATTC
1 CATTTCGTATCAAAATCCATTTAACATATCATCCGAACCTCTTTCTAGAGTCTATTGACTCATTC
* * *
36707331 ATATTCATTTTGGCACTATATTTTATTATTAATCTATTTCATTATCTTTTTTAAGTTTTCCAATT
66 ATATTCATTTTGGCACTATA--TTA-TATT-ATCTATTTC---AT-TTTGTAAAGTTTTACAATT
* * * *
36707396 TCAAATATAATGTTATGCCCGATAAAACCCTAGTAAAATGGGCTTGGATACATGGGTAAACTACA
123 TCAAATATAATGTTACGCCCGATAAAACCCTAGTAAAATAGACTCGGATACATGGGTAAACTACA
* * *
36707461 CGATA-AGATAACTTGTAAGAGCTTTAACTACATCACACTAAAGCA-CTGAAGTGCAAAGC-CTG
188 CCATACAGATAACTTGTAAGAGCTTTAACTACACCACACTAAAGCATC-GAAGTGCAAAGCTC-A
* * * * * *
36707523 TAGGCGTCAAATGCATTCTCATGTGAATATACATCCCTCCACTACACCAAGGT-CTCTGTAGAGA
251 TAGGCATAAAATGCATTCTCATATGAATATAAATCCCTCCACTACACAAAGATCCTC-GTAGAGA
* * * **
36707587 CATATAATACTCGATGATTCACAACAAATGTTAGAT-CTCGATATAACTTGTAACAATCTTCATA
315 CATATAATACTCGATGATTCACAACAAATGCTAGATCCT-GACATAACCTGTAACAATCCCCATA
* * * *
36707651 TAATCACATCTCCCGTACAAGTGCACATAAAACCCTATTGGCATGCCAGTCATATCCTAACCTTT
379 TAACCACATATCCCGTACAAGTGCACATAAAAACCTATTGGCATGACAGTCATATCCTAACCTTT
**
36707716 TACTATGTTTACACGAGCATAAATTATATATATAAAAATTTCCTTACTTGATATCATCTTACTCG
444 TACTATGTTTACACGAGCATAAATTATATATATAAAAATTTCCACACTTGATATCATCTTACTCG
36707781 CATATACATAC
509 CATATACATAC
36707792 CCTGTATTTG
Statistics
Matches: 454, Mismatches: 59, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
626 77 0.17
628 3 0.01
629 4 0.01
630 9 0.02
631 7 0.02
632 276 0.61
633 3 0.01
634 75 0.17
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (625 bp):
CATTTCGTATCAAAATCCATTTAACATATCATCCGAACCTCTTTCTAGAGTCTATTGACTCATTC
ATATTCATTTTGGCACTATATTATATTATCTATTTCATTTTGTAAAGTTTTACAATTTCAAATAT
AATGTTACGCCCGATAAAACCCTAGTAAAATAGACTCGGATACATGGGTAAACTACACCATACAG
ATAACTTGTAAGAGCTTTAACTACACCACACTAAAGCATCGAAGTGCAAAGCTCATAGGCATAAA
ATGCATTCTCATATGAATATAAATCCCTCCACTACACAAAGATCCTCGTAGAGACATATAATACT
CGATGATTCACAACAAATGCTAGATCCTGACATAACCTGTAACAATCCCCATATAACCACATATC
CCGTACAAGTGCACATAAAAACCTATTGGCATGACAGTCATATCCTAACCTTTTACTATGTTTAC
ACGAGCATAAATTATATATATAAAAATTTCCACACTTGATATCATCTTACTCGCATATACATACA
TTGTACTACATATACCAAAACCTATCCTAAGGCCTTTAGCTATCAATACCAATAAAAAATTTAAA
ATATTTATAATCCATTCATTATGACATTCAATATCAAGTC
Found at i:36710233 original size:12 final size:14
Alignment explanation
Indices: 36710200--36710243 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
36710190 AGAAAAAGAA
36710200 AATAAATT-AAATT
1 AATAAATTAAAATT
36710213 AATAAATTAAAATT
1 AATAAATTAAAATT
36710227 -A-AAATTAAAA-T
1 AATAAATTAAAATT
36710238 AATAAA
1 AATAAA
36710244 AAGAATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 10 0.36
13 12 0.43
14 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAATTAAAATT
Found at i:36715690 original size:29 final size:29
Alignment explanation
Indices: 36715658--36715736 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
36715648 GGCCTTGTGC
36715658 TGGATCGTGTGAGACACACGAGC-ATATGT
1 TGGATCGTGTGAGACACACG-GCTATATGT
* * *
36715687 TGGATCATGTGAGACACACGGCTGTGTGT
1 TGGATCGTGTGAGACACACGGCTATATGT
*
36715716 TGGACCGTGTGAGACACACGG
1 TGGATCGTGTGAGACACACGG
36715737 TCTGGGCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.05
29 42 0.95
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (29 bp):
TGGATCGTGTGAGACACACGGCTATATGT
Found at i:36720165 original size:55 final size:53
Alignment explanation
Indices: 36720036--36720346 Score: 347
Period size: 55 Copynumber: 5.8 Consensus size: 53
36720026 AACTTACCAT
* * * *
36720036 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAAGTCATTAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
36720089 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
36720144 TTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAATTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
36720197 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
** * * * *
36720252 TGCCATGTTTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* * *
36720306 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTA
36720347 CCAAATGCCA
Statistics
Matches: 216, Mismatches: 33, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
52 4 0.02
53 79 0.37
54 44 0.20
55 85 0.39
56 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:36720227 original size:108 final size:108
Alignment explanation
Indices: 36720036--36720332 Score: 488
Period size: 108 Copynumber: 2.7 Consensus size: 108
36720026 AACTTACCAT
* * *
36720036 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAAGTCATTAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCATCAATGCCATGCCTTG
36720101 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* *
36720144 TTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCATCAATGCCATGCCTTG
36720209 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* * * *
36720252 TGCCATGTTTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTT-ATCAATGCCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA-TTCATCAATGCCATGCCT
36720316 TGGCATGGTCTTACATG
64 TGGCATGGTCTTACATG
36720333 ATATCCTTGT
Statistics
Matches: 176, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
108 140 0.80
109 34 0.19
110 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCATCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
Found at i:36720378 original size:47 final size:47
Alignment explanation
Indices: 36720323--36720440 Score: 200
Period size: 47 Copynumber: 2.5 Consensus size: 47
36720313 CCTTGGCATG
*
36720323 GTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
* * *
36720370 GTCTTACATGGTATCCTTGTCTTTCCAAATGCCATGTTTCAAACATG
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
36720417 GTCTTACATGGTATCCTTGTCTTA
1 GTCTTACATGGTATCCTTGTCTTA
36720441 GTGCGAATGC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
Found at i:36727689 original size:27 final size:27
Alignment explanation
Indices: 36727639--36727778 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
36727629 GTGACGAAGT
36727639 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
**
36727666 CAGAAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
36727693 CACCAG-ATAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
36727719 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
*
36727746 CACCAGATCAGATA-ATTGTGGCAGAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
36727773 CACCAG
1 CACCAG
36727779 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.02
26 30 0.30
27 65 0.66
28 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:36727713 original size:53 final size:54
Alignment explanation
Indices: 36727639--36727775 Score: 215
Period size: 53 Copynumber: 2.6 Consensus size: 54
36727629 GTGACGAAGT
*
36727639 CACCAGATACAGAT-ATTGTGGCAGAGCCAGAAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACAAGAACAGATATATGTGGCAGAGC
* * *
36727693 CACCAGAT-AGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACAAGAACAGATATATGTGGCAGAGC
36727746 CACCAGATCAGATAATTGTGGCAGAGCCAC
1 CACCAGATCAGATAATTGTGGCAGAGCCAC
36727776 CAGGACGCTT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
52 4 0.05
53 44 0.59
54 27 0.36
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACAAGAACAGATATATGTGGCAGAGC
Found at i:36729424 original size:26 final size:26
Alignment explanation
Indices: 36729388--36729495 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
36729378 TGAAATGCCA
*
36729388 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
36729414 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
36729440 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
36729466 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36729492 ATCA
1 ATCA
36729496 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36736343 original size:27 final size:28
Alignment explanation
Indices: 36736287--36736356 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
36736277 AAATTTGTAC
36736287 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
36736315 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
36736342 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36736357 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:36744230 original size:27 final size:28
Alignment explanation
Indices: 36744173--36744243 Score: 126
Period size: 27 Copynumber: 2.5 Consensus size: 28
36744163 AAATTTGTAC
36744173 AGCACTAAGTGTGCGAGTTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTTGATTATAT
36744202 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
36744229 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36744244 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 25 0.60
29 17 0.40
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:36744254 original size:27 final size:27
Alignment explanation
Indices: 36744173--36744255 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
36744163 AAATTTGTAC
* * *
36744173 AGCACTAAGTGTGCGAGTTTTGATTATAT
1 AGCACTAAGTGTGCGAG--CTCACTATAT
* * *
36744202 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
36744229 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
36744256 GCTTTTGAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.02
27 32 0.64
29 17 0.34
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:36744431 original size:27 final size:27
Alignment explanation
Indices: 36744393--36744448 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
36744383 GTTTTGGACC
36744393 TATGTGACAATTTTAATTGAAGTCACG
1 TATGTGACAATTTTAATTGAAGTCACG
36744420 TATGTGACAATTTTAATTGAAGTCACG
1 TATGTGACAATTTTAATTGAAGTCACG
36744447 TA
1 TA
36744449 CATAAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
TATGTGACAATTTTAATTGAAGTCACG
Found at i:36744458 original size:27 final size:27
Alignment explanation
Indices: 36744399--36744458 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
36744389 GACCTATGTG
** *
36744399 ACAATTTTAATTGAAGTCACGTATGTG
1 ACAATTTTAATTGAAGTCACGTACATA
36744426 ACAATTTTAATTGAAGTCACGTACATA
1 ACAATTTTAATTGAAGTCACGTACATA
*
36744453 AGAATT
1 ACAATT
36744459 ATCGTGGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (27 bp):
ACAATTTTAATTGAAGTCACGTACATA
Found at i:36747398 original size:43 final size:44
Alignment explanation
Indices: 36747349--36747501 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 44
36747339 CCCAGATGTA
* * *
36747349 GTCTTACATGTAATCAAATATCGATGAC-ACTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAGG
* * *
36747392 GTCTTACACGAAATCAAATAT-GATGCCGA-TTTCCCAGACATG
1 GTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAGG
* *
36747434 GTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCATAC-GTG
1 GTCTTACACG-AAATC-AAATATCGATGCCAACTGTCCCAGACAG-G
*
36747478 GTCTTACTCGAAATCAAATATCGA
1 GTCTTACACGAAATCAAATATCGA
36747502 AAATCCTATG
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
42 28 0.31
43 37 0.41
44 26 0.29
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
GTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAGG
Found at i:36747440 original size:42 final size:41
Alignment explanation
Indices: 36747349--36747498 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 41
36747339 CCCAGATGTA
* * * *
36747349 GTCTTACATGTAATCAAATATCGATGACACTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATAT-GATGCCA-TGTCCCAGACATG
*
36747392 GTCTTACACGAAATCAAATATGATGCCGATTTCCCAGACATG
1 GTCTTACACGAAATCAAATATGATGCC-ATGTCCCAGACATG
* * * *
36747434 GTCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCCATACGTG
1 GTCTTACACG-AAA--TCAAATATGATGCC-ATGTCCCAGACATG
*
36747478 GTCTTACTCGAAATCAAATAT
1 GTCTTACACGAAATCAAATAT
36747499 CGAAAATCCT
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
41 6 0.07
42 26 0.29
43 26 0.29
44 25 0.28
45 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (41 bp):
GTCTTACACGAAATCAAATATGATGCCATGTCCCAGACATG
Found at i:36749877 original size:20 final size:19
Alignment explanation
Indices: 36749813--36749877 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
36749803 GCAACTAGGT
*
36749813 CACACGGGCGTGTGTCTCTAA
1 CACACGGGCGTGT-CCTCT-A
* *
36749834 CACAC-GACGTGTGCCTCTTT
1 CACACGGGCGTGT-CCTC-TA
36749854 CACACGGGCGTGTCACTCTA
1 CACACGGGCGTGTC-CTCTA
36749874 CACA
1 CACA
36749878 TGGTCGTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (19 bp):
CACACGGGCGTGTCCTCTA
Found at i:36750476 original size:38 final size:38
Alignment explanation
Indices: 36750392--36750485 Score: 113
Period size: 37 Copynumber: 2.5 Consensus size: 38
36750382 ACTTCCCCAT
*
36750392 TTATGGTGTGTAGGGTGGATGGGCCTATTATGGTCCTA
1 TTATGGTGTGTAGGGTGGTTGGGCCTATTATGGTCCTA
* * *
36750430 -TGTGGTGTGCAGGGTGGTTGGGTCT-TTCATGG-CTCTA
1 TTATGGTGTGTAGGGTGGTTGGGCCTATT-ATGGTC-CTA
36750467 TTATGGTGTGTAGGGTGGT
1 TTATGGTGTGTAGGGTGGT
36750486 CGAAGTGGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
36 3 0.06
37 28 0.60
38 16 0.34
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (38 bp):
TTATGGTGTGTAGGGTGGTTGGGCCTATTATGGTCCTA
Found at i:36757659 original size:27 final size:27
Alignment explanation
Indices: 36757629--36757686 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
36757619 AAAACATCAT
36757629 GAAA-CAAAAATATGAAGGGA-GCTTTAA
1 GAAACCAAAAA-ATGAA-GGATGCTTTAA
* *
36757656 GAAACCTAAAAATGGAGGATGCTTTAA
1 GAAACCAAAAAATGAAGGATGCTTTAA
36757683 GAAA
1 GAAA
36757687 ATCATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 19 0.70
28 5 0.19
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (27 bp):
GAAACCAAAAAATGAAGGATGCTTTAA
Found at i:36757901 original size:39 final size:39
Alignment explanation
Indices: 36757858--36757936 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
36757848 AAACATAGAG
*
36757858 AAACTTCTACGAAATCCAAATATGTAGATTAAAAACAGA
1 AAACTTCTAAGAAATCCAAATATGTAGATTAAAAACAGA
* *
36757897 AAACTTCTAAGAAATCCAAATATGTAGTTTAAAAATAGA
1 AAACTTCTAAGAAATCCAAATATGTAGATTAAAAACAGA
36757936 A
1 A
36757937 GCTTTAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (39 bp):
AAACTTCTAAGAAATCCAAATATGTAGATTAAAAACAGA
Found at i:36771047 original size:11 final size:11
Alignment explanation
Indices: 36771031--36771058 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36771021 TCAAAACAAA
36771031 AATTTATCCAT
1 AATTTATCCAT
36771042 AATTTATCCAT
1 AATTTATCCAT
36771053 AATTTA
1 AATTTA
36771059 ATTAAATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTATCCAT
Found at i:36772478 original size:42 final size:42
Alignment explanation
Indices: 36772416--36772495 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
36772406 TGAAAAGTTT
* * * *
36772416 GTTAGGAAAACTGATGATAGATGGTTGGCATCTTTTCTGTTA
1 GTTAGGAAAACTGATCATAGATGGCTGACAGCTTTTCTGTTA
36772458 GTTAGGAAAATCT-ATCATAGATGGCTGACAGCTTTTCT
1 GTTAGGAAAA-CTGATCATAGATGGCTGACAGCTTTTCT
36772496 TGACTGTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (42 bp):
GTTAGGAAAACTGATCATAGATGGCTGACAGCTTTTCTGTTA
Found at i:36782366 original size:24 final size:24
Alignment explanation
Indices: 36782338--36782415 Score: 122
Period size: 24 Copynumber: 3.2 Consensus size: 24
36782328 CACCTGTGAG
*
36782338 ATCTGTTCCTACTTCTCAGATGCC
1 ATCTGTTCCTACTTTTCAGATGCC
*
36782362 ATCTGTTCTTACTTTTCAGATGCC
1 ATCTGTTCCTACTTTTCAGATGCC
36782386 ATCTGTGT-CTACTTTTCAGATGCC
1 ATCTGT-TCCTACTTTTCAGATGCC
36782410 ATCTGT
1 ATCTGT
36782416 GTCTAGTGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 49 0.98
25 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.14, T:0.42
Consensus pattern (24 bp):
ATCTGTTCCTACTTTTCAGATGCC
Found at i:36791630 original size:31 final size:31
Alignment explanation
Indices: 36791592--36791653 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36791582 ACAAGGAGAA
36791592 AGAATATGGTGAGAGTGGAGGAAGATTTTTT
1 AGAATATGGTGAGAGTGGAGGAAGATTTTTT
36791623 AGAATATGGTGAGAGTGGAGGAAGATTTTTT
1 AGAATATGGTGAGAGTGGAGGAAGATTTTTT
36791654 GGAAAATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (31 bp):
AGAATATGGTGAGAGTGGAGGAAGATTTTTT
Found at i:36792399 original size:5 final size:6
Alignment explanation
Indices: 36792385--36792418 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
36792375 ACTTGCAAAG
36792385 AAAATA AAAAT- AAAATA AAAATA AAAATTA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAA
36792419 AATTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:36792401 original size:11 final size:11
Alignment explanation
Indices: 36792385--36792410 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36792375 ACTTGCAAAG
36792385 AAAATAAAAAT
1 AAAATAAAAAT
36792396 AAAATAAAAAT
1 AAAATAAAAAT
36792407 AAAA
1 AAAA
36792411 ATTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:36792813 original size:13 final size:13
Alignment explanation
Indices: 36792784--36792824 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
36792774 TTGATGAGAT
*
36792784 AAAAATAAATATTG
1 AAAAATAAATA-AG
36792798 AAAAATAAATAAG
1 AAAAATAAATAAG
*
36792811 AAAAATAAAAAAG
1 AAAAATAAATAAG
36792824 A
1 A
36792825 TGACTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (13 bp):
AAAAATAAATAAG
Found at i:36796005 original size:40 final size:40
Alignment explanation
Indices: 36795950--36796179 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
36795940 ATTCGGATGA
*
36795950 TAATTCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
36795990 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
*
36796030 TAATTCCGGGCTAAGTCCCGAAGGCATGTGTGCTAGTGAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* *
36796070 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* ** *
36796110 T-ATATCTGGGCTAAGTCCCGAAGATATTTGTG-T-G-AAC
1 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
36796147 TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 TA--AT-TCCGGGCTAAGTCCCGAAGGCATTTG
36796180 AGCGAGTGGC
Statistics
Matches: 173, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
37 3 0.02
38 1 0.01
39 2 0.01
40 167 0.97
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
Found at i:36802461 original size:30 final size:30
Alignment explanation
Indices: 36802425--36802584 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
36802415 GACAAGATTG
* * * * *
36802425 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
36802455 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
36802483 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
36802512 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
36802542 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
36802571 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
36802585 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:36802553 original size:59 final size:57
Alignment explanation
Indices: 36802425--36802584 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
36802415 GACAAGATTG
* * * * * *
36802425 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
36802483 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
36802542 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
36802585 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:36808275 original size:25 final size:25
Alignment explanation
Indices: 36808241--36808292 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
36808231 ATTATAGCTT
*
36808241 TGACTAATCATTTATGCACTAAGTG
1 TGACTAATCATTTATGCACTAAATG
36808266 TGACTAATCATTTATGCACTAAATG
1 TGACTAATCATTTATGCACTAAATG
36808291 TG
1 TG
36808293 CGAGTTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (25 bp):
TGACTAATCATTTATGCACTAAATG
Found at i:36812017 original size:43 final size:42
Alignment explanation
Indices: 36811950--36812085 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 42
36811940 AGCTCGTACA
* * *
36811950 ATGCCAACGTCTCAGTCATGGTCTTACATGTAA-TCAAATATCG
1 ATGCCAATGTCTCAGACATGGTCTTACA-CTAATTCAAATA-CG
* *
36811993 ATGCCATTGTC-CTAGACATTGTCTTACACTAATTCAAATACG
1 ATGCCAATGTCTC-AGACATGGTCTTACACTAATTCAAATACG
*
36812035 ATGCCAATGTCTCAGACATGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAATGTCTCAGACATGGTCTTACAC-TAATTCA-AA-TACG
36812079 ATGCCAA
1 ATGCCAA
36812086 CGTTGTAATG
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
42 31 0.39
43 36 0.46
44 11 0.14
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCTCAGACATGGTCTTACACTAATTCAAATACG
Found at i:36813551 original size:46 final size:45
Alignment explanation
Indices: 36813458--36813543 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
36813448 TACATTTCAC
* *
36813458 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
36813504 GAACTCAGACTCAACTCAATGAGTTCGG-ATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
36813544 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:36820459 original size:29 final size:29
Alignment explanation
Indices: 36820397--36820503 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 29
36820387 TCACATACCA
* * *
36820397 GTATCTGGCCCATTAAGCCC-AATCATAT
1 GTATATGGCCCATTAGGCCCAAATCACAT
* *
36820425 -TCATATGCCCCATTAGGCCCAAATCACCT
1 GT-ATATGGCCCATTAGGCCCAAATCACAT
* * *
36820454 GTATATGGCTCATTACGCCTAAATCACAT
1 GTATATGGCCCATTAGGCCCAAATCACAT
* *
36820483 TTATATGGCCCGTTAGGCCCA
1 GTATATGGCCCATTAGGCCCA
36820504 GTCACATTCA
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
27 1 0.02
28 15 0.25
29 44 0.72
30 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
GTATATGGCCCATTAGGCCCAAATCACAT
Found at i:36831052 original size:30 final size:30
Alignment explanation
Indices: 36831017--36831076 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
36831007 CTTTAATACG
*
36831017 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
36831047 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
36831077 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:36834078 original size:20 final size:20
Alignment explanation
Indices: 36834053--36834101 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
36834043 TTGGCAGGCT
36834053 CGAACACGGCCTGAAGTAAG
1 CGAACACGGCCTGAAGTAAG
*
36834073 CGAACACGGCCTGAAGTAAT
1 CGAACACGGCCTGAAGTAAG
36834093 CGAACACGG
1 CGAACACGG
36834102 GTGTGTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.29, T:0.10
Consensus pattern (20 bp):
CGAACACGGCCTGAAGTAAG
Found at i:36838270 original size:21 final size:21
Alignment explanation
Indices: 36838244--36838295 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
36838234 TGTTAGATTG
36838244 ACACGGGCGTAGGGCCCTCCC
1 ACACGGGCGTAGGGCCCTCCC
* *
36838265 ACACGGGCGTGGGGCCCTCCT
1 ACACGGGCGTAGGGCCCTCCC
36838286 ACACGGGCGT
1 ACACGGGCGT
36838296 CGGAGAAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.38, G:0.37, T:0.12
Consensus pattern (21 bp):
ACACGGGCGTAGGGCCCTCCC
Found at i:36841095 original size:20 final size:20
Alignment explanation
Indices: 36841072--36841111 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
36841062 GAACTTGCTT
36841072 GATTATGCATGTCGAGACCA
1 GATTATGCATGTCGAGACCA
36841092 GATTATGCATGTCGAGACCA
1 GATTATGCATGTCGAGACCA
36841112 CACCATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (20 bp):
GATTATGCATGTCGAGACCA
Found at i:36842640 original size:97 final size:97
Alignment explanation
Indices: 36842474--36842668 Score: 372
Period size: 97 Copynumber: 2.0 Consensus size: 97
36842464 AAGAGTTTTG
*
36842474 GGTTTTCTTTATGTTGTGTATTTTTTATTATTCTGAGATGTTTTCTTATTTAGTTATGAACTAAA
1 GGTTTTCTTTATGTTGTGTATTCTTTATTATTCTGAGATGTTTTCTTATTTAGTTATGAACTAAA
36842539 TCCCCTAAATACCTAAGGGGAATGAAACCTAA
66 TCCCCTAAATACCTAAGGGGAATGAAACCTAA
*
36842571 GGTTTTCTTTATGTTTTGTATTCTTTATTATTCTGAGATGTTTTCTTATTTAGTTATGAACTAAA
1 GGTTTTCTTTATGTTGTGTATTCTTTATTATTCTGAGATGTTTTCTTATTTAGTTATGAACTAAA
36842636 TCCCCTAAATACCTAAGGGGAATGAAACCTAA
66 TCCCCTAAATACCTAAGGGGAATGAAACCTAA
36842668 G
1 G
36842669 ACGAATCTTC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (97 bp):
GGTTTTCTTTATGTTGTGTATTCTTTATTATTCTGAGATGTTTTCTTATTTAGTTATGAACTAAA
TCCCCTAAATACCTAAGGGGAATGAAACCTAA
Found at i:36844374 original size:29 final size:29
Alignment explanation
Indices: 36844317--36844431 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
36844307 TAGCCGTATC
* *
36844317 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
36844345 TGGCCCATTAGGCCCAAATCACCTGCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
36844374 TGGCCCATTACGCCAAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* **
36844403 TGACCCATTAGGCCC-AGCCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
36844431 T
1 T
36844432 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 25 0.35
29 46 0.65
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:36853360 original size:40 final size:40
Alignment explanation
Indices: 36853286--36853463 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
36853276 GAGTCACGTA
** *
36853286 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * * *
36853325 CCTTCGGGCCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
36853365 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * *
36853405 CCTTCGGGTCTTAACCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
36853445 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
36853464 GAATCATTCA
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 14 0.12
40 101 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:36858588 original size:20 final size:20
Alignment explanation
Indices: 36858563--36858604 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36858553 TAGCAAGGAG
36858563 ATAGCACACTTTAGGCATTC
1 ATAGCACACTTTAGGCATTC
36858583 ATAGCACACTTTAGGCATTC
1 ATAGCACACTTTAGGCATTC
36858603 AT
1 AT
36858605 CGGGTGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (20 bp):
ATAGCACACTTTAGGCATTC
Found at i:36860563 original size:40 final size:40
Alignment explanation
Indices: 36860489--36860666 Score: 166
Period size: 40 Copynumber: 4.5 Consensus size: 40
36860479 GAGTCACGTA
* **
36860489 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAACAACTCGCACAATTG
* * ** *
36860528 CCTTTGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
*
36860568 CCTTCGGGTCTTAACCCAGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCAC-AATTG
* * * *
36860608 CCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAA-CAACTCGCACAATTG
* *
36860648 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
36860667 GTATCATTCA
Statistics
Matches: 116, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.85
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
Found at i:36871181 original size:15 final size:15
Alignment explanation
Indices: 36871161--36871193 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36871151 ATGGTATTAG
*
36871161 AGTTGATCTAAGTAA
1 AGTTGATCAAAGTAA
36871176 AGTTGATCAAAGTAA
1 AGTTGATCAAAGTAA
36871191 AGT
1 AGT
36871194 ATCAACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (15 bp):
AGTTGATCAAAGTAA
Found at i:36877015 original size:40 final size:40
Alignment explanation
Indices: 36876956--36877097 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
36876946 AAATTGAATG
* * *
36876956 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
36876996 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
36877036 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
36877076 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
36877098 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:36877098 original size:40 final size:39
Alignment explanation
Indices: 36876995--36877123 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
36876985 TGCTGGAAAT
* * *
36876995 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
36877035 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
36877075 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
36877115 TATATCCGG
1 TATATCCGG
36877124 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:36880257 original size:40 final size:39
Alignment explanation
Indices: 36880200--36880463 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 39
36880190 TGGAATGATG
* *
36880200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTCACTAAA
* * *
36880240 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTCACTAAA
* *
36880280 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTCACTAAA
* * *
36880319 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTCACTAAA
* *
36880359 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTCACTAAA
* *
36880398 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTCACTA-AA
*
36880439 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
36880464 AATGAGTAGC
Statistics
Matches: 194, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
39 68 0.35
40 116 0.60
41 10 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTCACTAAA
Found at i:36880332 original size:79 final size:80
Alignment explanation
Indices: 36880200--36880461 Score: 399
Period size: 79 Copynumber: 3.3 Consensus size: 80
36880190 TGGAATGATG
* * *
36880200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
36880264 TGTGCGAGTTACTAAT
65 TGTGCGAGTTACTAAT
36880280 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
36880344 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
**
36880359 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATT
36880422 TGTGCGAGTTACT-AT
65 TGTGCGAGTTACTAAT
* *
36880437 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
36880462 TGAATGAGTA
Statistics
Matches: 171, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
78 3 0.02
79 139 0.81
80 29 0.17
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:36880414 original size:119 final size:121
Alignment explanation
Indices: 36880200--36880463 Score: 351
Period size: 119 Copynumber: 2.2 Consensus size: 121
36880190 TGGAATGATG
*
36880200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATT
* * *
36880264 TGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTA-AA
66 GGTGCGAGTCACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTATAA
* * * * *
36880319 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCAT
* * *
36880381 TGGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 TGGTGCGAGTCACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTATAA
*
36880439 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36880464 AATGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
118 35 0.28
119 81 0.64
120 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATT
GGTGCGAGTCACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTATAA
Found at i:36880494 original size:79 final size:78
Alignment explanation
Indices: 36880200--36880496 Score: 343
Period size: 79 Copynumber: 3.7 Consensus size: 78
36880190 TGGAATGATG
* * * *
36880200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGG-TTAA-ATTCCGAAGGCAT
36880263 TTGTGCGAGTTACTAAT
62 TTGTGCGAGTTACTAAT
*
36880280 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGA-TCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATCCGG-TTAA-ATTCCGAAGGCATTT
36880344 GTGCGAGTTACTAAT
64 GTGCGAGTTACTAAT
* *
36880359 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATCC-GGTTAAATTCCGAAGGCATTTG
36880424 TGCGAGTTACT-AT
65 TGCGAGTTACTAAT
* * * *** *
36880437 AACCGGGCTATGTCCCGAAGGCATTTGAATGAGT-AGCTATATCCGGTTAAATTCCGAAGG
1 -TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCA-CTAAATCCGGTTAAATTCCGAAGG
36880497 TACGTGATTC
Statistics
Matches: 196, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
78 2 0.01
79 151 0.77
80 43 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGTTAAATTCCGAAGGCATTTGT
GCGAGTTACTAAT
Found at i:36883332 original size:27 final size:27
Alignment explanation
Indices: 36883309--36883403 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 27
36883299 AAGTACCTTT
* *
36883309 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAAAATTACCGTTTTACCCTC
*
36883336 GATTTATAAAATTACCGTTTTACCCTC
1 GATTTACAAAATTACCGTTTTACCCTC
36883363 GATTTACAAAATTACCGTTTTACCCTC
1 GATTTACAAAATTACCGTTTTACCCTC
*
36883390 GATTT-CGAAATTAC
1 GATTTACAAAATTAC
36883404 TGAAATACCC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 8 0.13
27 55 0.87
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (27 bp):
GATTTACAAAATTACCGTTTTACCCTC
Found at i:36883412 original size:26 final size:27
Alignment explanation
Indices: 36883289--36883592 Score: 138
Period size: 27 Copynumber: 11.3 Consensus size: 27
36883279 CTCAACTTGT
* *
36883289 AAAATTACC-AAAGTACCTTTGATTTAC
1 AAAATTACCGAAA-TACCCTCGATTTAC
* * *** *
36883316 AGAATTACTGTTTTACCCTCGATTTAT
1 AAAATTACCGAAATACCCTCGATTTAC
***
36883343 AAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCGAAATACCCTCGATTTAC
***
36883370 AAAATTACCGTTTTACCCTCGATTT-C
1 AAAATTACCGAAATACCCTCGATTTAC
* * * *
36883396 GAAATTACTGAAATACCC-C--TGTAGG
1 AAAATTACCGAAATACCCTCGATTTA-C
* * **
36883421 ATAGAATTACCAAAATACCC-CTAGTTTGT
1 A-A-AATTACCGAAATACCCTCGA-TTTAC
* * **
36883450 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCGAAATACCCTCGA-TTTAC
* * **
36883477 AAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACCGAAATACC-CTCGATTTAC
* * **
36883504 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCGAAATACCCTCGATTTAC
* *
36883531 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACCGAAATACCCTCGATTTAC
* * *
36883558 AAAATTACAGAAATACCTTCGGTTTAC
1 AAAATTACCGAAATACCCTCGATTTAC
36883585 AAAATTAC
1 AAAATTAC
36883593 TAAAATGCCC
Statistics
Matches: 225, Mismatches: 41, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.01
25 1 0.00
26 17 0.08
27 200 0.89
28 2 0.01
29 1 0.00
30 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTTAC
Found at i:36883455 original size:27 final size:27
Alignment explanation
Indices: 36883425--36883548 Score: 187
Period size: 27 Copynumber: 4.6 Consensus size: 27
36883415 TGTAGGATAG
36883425 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
36883452 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
36883479 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
36883506 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
36883533 AATTACCAAAATACCC
1 AATTACCAAAATACCC
36883549 TTGATTTACA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.03
27 81 0.94
28 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:36883466 original size:54 final size:54
Alignment explanation
Indices: 36883397--36883574 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
36883387 CTCGATTTCG
* * *
36883397 AAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTGTA
* ** * *
36883451 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
* ** * **
36883505 AAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC-CTTGATTTACA
1 AAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACCACTAG-TTTGTA
*
36883559 AAATTACAGAAATACC
1 AAATTACCGAAATACC
36883575 TTCGGTTTAC
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
53 7 0.07
54 94 0.90
55 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (54 bp):
AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
Found at i:36883549 original size:27 final size:28
Alignment explanation
Indices: 36883425--36883630 Score: 178
Period size: 27 Copynumber: 7.6 Consensus size: 28
36883415 TGTAGGATAG
36883425 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCTAGTTTGTAA
36883452 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCTAGTTTGTAA
* * *
36883479 AATTACCAAAATA-CCACTGGTTTGTGA
1 AATTACCAAAATACCCTCTAGTTTGTAA
* *
36883506 AATTACCGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCTCTAGTTTGTAA
**
36883533 AATTACCAAAATACCCT-T-GATTTACAA
1 AATTACCAAAATACCCTCTAG-TTTGTAA
* * **
36883560 AATTA-CAGAAATACCTTC-GGTTTACAA
1 AATTACCA-AAATACCCTCTAGTTTGTAA
* * * *
36883587 AATTACTAAAATGCCCT-TGGTTTGTAT
1 AATTACCAAAATACCCTCTAGTTTGTAA
* *
36883614 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
36883631 TGTAGGATGA
Statistics
Matches: 148, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
26 4 0.03
27 139 0.94
28 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (28 bp):
AATTACCAAAATACCCTCTAGTTTGTAA
Found at i:36883590 original size:81 final size:80
Alignment explanation
Indices: 36883271--36883592 Score: 220
Period size: 81 Copynumber: 4.0 Consensus size: 80
36883261 ACCAATTATT
* * * * * * ***
36883271 GAAATGCCCTCAACTTGTAAAATTACCAAAGTACCTTTGATTTACAGAATTACTGTTTTACCCTC
1 GAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAATA-CCTC
*
36883336 GATTTATAAAATTACC
65 GGTTTATAAAATTACC
*** * ** **** * * * * *
36883352 GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTT-CGAAATTACTGAAATACCCCT
1 GAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCTCG
** *
36883416 GTAGGATAGAATTACC
66 GT-TTATAAAATTACC
* * * **
36883432 AAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACC
1 GAAATACCCTC-AATTTGTAAAATTACCAAAATACCCTTGA-TTTACAAAATTA-CAGAAATACC
* * *
36883494 ACTGGTTTGTGAAATTACC
63 TC-GGTTTATAAAATTACC
36883513 GAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCTTC
1 GAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACC-TC
*
36883578 GGTTTACAAAATTAC
65 GGTTTATAAAATTAC
36883593 TAAAATGCCC
Statistics
Matches: 173, Mismatches: 58, Indels: 20
0.69 0.23 0.08
Matches are distributed among these distances:
79 6 0.03
80 48 0.28
81 113 0.65
82 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (80 bp):
GAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAATACCTCG
GTTTATAAAATTACC
Found at i:36883611 original size:81 final size:82
Alignment explanation
Indices: 36883425--36883632 Score: 217
Period size: 81 Copynumber: 2.6 Consensus size: 82
36883415 TGTAGGATAG
* * **
36883425 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGAGTTTACAAAATTACCAAA
***
36883489 ATACCACTGGTTTGTGA
66 ATACCACTGGTTTACAA
* * *
36883506 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGA-TTTACAAAATTA-CAGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGAGTTTACAAAATTACCA-A
*
36883569 AATACC-TTCGGTTTACAA
65 AATACCACT-GGTTTACAA
* * * * * *
36883587 AATTACTAAAATGCCCTTGGTTTGTATATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTG
36883633 TAGGATGAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 3 0.03
81 100 0.96
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (82 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTGAGTTTACAAAATTACCAAA
ATACCACTGGTTTACAA
Found at i:36884532 original size:25 final size:25
Alignment explanation
Indices: 36884494--36884563 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
36884484 AGGAAGTGCT
* *
36884494 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
36884519 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
36884544 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
36884564 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:36884576 original size:24 final size:24
Alignment explanation
Indices: 36884493--36884608 Score: 99
Period size: 25 Copynumber: 4.6 Consensus size: 24
36884483 GAGGAAGTGC
*
36884493 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
36884518 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
36884542 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
36884566 TAAAAGAGGCTAGGCCTCCAGTTATAT
1 TAAAAG-GGCTATGCC-CCAGTT-TAT
*
36884593 TATAAAGCAGCTATGC
1 TA-AAAG-GGCTATGC
36884609 TGCCAGTGGA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
23 5 0.07
24 11 0.15
25 43 0.57
26 1 0.01
27 5 0.07
28 10 0.13
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:36884587 original size:50 final size:50
Alignment explanation
Indices: 36884494--36884588 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
36884484 AGGAAGTGCT
**
36884494 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
36884544 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
36884589 ATATTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:36886451 original size:47 final size:47
Alignment explanation
Indices: 36886377--36886484 Score: 128
Period size: 47 Copynumber: 2.3 Consensus size: 47
36886367 AAGGAGGACG
* * **
36886377 AAGTGGTAGTTTATCTAGAAAAATGGTGGCTCATACACAATATTA-T
1 AAGTGGCAGTTTATTTTCAAAAATGGTGGCTCATACACAATATTATT
* ** *
36886423 AGAGTGGCAGTTTATTTTCAAAAGTGGTGGCTTGTTCACAATATTATT
1 A-AGTGGCAGTTTATTTTCAAAAATGGTGGCTCATACACAATATTATT
36886471 AAGTGGCAGTTTAT
1 AAGTGGCAGTTTAT
36886485 CTACATTACT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
46 1 0.02
47 49 0.94
48 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (47 bp):
AAGTGGCAGTTTATTTTCAAAAATGGTGGCTCATACACAATATTATT
Found at i:36887290 original size:10 final size:10
Alignment explanation
Indices: 36887251--36887287 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
36887241 GAACGTGTTG
36887251 AATTTTAATT
1 AATTTTAATT
36887261 AATTTATAATT
1 AATTT-TAATT
*
36887272 AATTTTGATT
1 AATTTTAATT
36887282 AATTTT
1 AATTTT
36887288 GATCATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
AATTTTAATT
Found at i:36894942 original size:22 final size:19
Alignment explanation
Indices: 36894912--36894958 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
36894902 AAAGATGATA
36894912 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
36894935 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
36894954 ATTAT
1 ATTAT
36894959 CAACTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:36894954 original size:16 final size:15
Alignment explanation
Indices: 36894914--36894955 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
36894904 AGATGATAAT
36894914 TATTAATATATAATTA
1 TATTAAT-TATAATTA
36894930 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
36894946 TATTAATTAT
1 TATTAATTAT
36894956 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:36898087 original size:49 final size:49
Alignment explanation
Indices: 36898024--36898198 Score: 208
Period size: 49 Copynumber: 3.5 Consensus size: 49
36898014 CTGGTATGCA
* * *
36898024 TAGTAGCCTACACTTAGTACTACACATTCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATTCGACCAATTATCCGGTACACG
* * * * ** *
36898073 TAGTAGCCTGCACTTAGTACTACACACGT-GATCACAGTTTTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACA-TTCGA-C-CAATTATCCGGTACACG
*
36898124 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATTCGACCAATTATCCGGTACACG
*
36898173 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
36898199 CGTGACCTCA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 63 0.61
50 3 0.03
51 38 0.37
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATTCGACCAATTATCCGGTACACG
Found at i:36898130 original size:100 final size:100
Alignment explanation
Indices: 36898016--36898203 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
36898006 GAAGCTATCT
* *
36898016 GGTATGCATAGTAGCCTACACTTAGTACTACACATTCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
36898081 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
36898116 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCT
1 GGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
36898181 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
36898204 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:36900727 original size:53 final size:53
Alignment explanation
Indices: 36900664--36900870 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
36900654 TTCCTTTTTA
* *
36900664 AACTTATCATTGCCATGTCTTGACATGGTCTTCCATGGTATCCTTGCCTTATG
1 AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
* * * * ** *
36900717 AACTCATCATTGCCATGCCTTGGCATGGTCTTACATGGGATATTTTCCTTATC
1 AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
* * * * ** * *
36900770 ATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGAATTGTAA
1 A-A-CTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-C
* * * * *
36900826 AACTTACCAATGCCATG-CATTGGCATGGTCTTACTTGATATCCTT
1 AACTTATCATTGCCATGTC-TTGACATGGTCTTACATGGTATCCTT
36900871 AGACCCTAAT
Statistics
Matches: 121, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
53 46 0.38
54 37 0.31
55 37 0.31
56 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (53 bp):
AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATC
Found at i:36901362 original size:24 final size:24
Alignment explanation
Indices: 36901335--36901382 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
36901325 ATTTACCTAC
36901335 GGCAACATCAAATTTTCACTCTAA
1 GGCAACATCAAATTTTCACTCTAA
36901359 GGCAACATCAAATTTTCACTCTAA
1 GGCAACATCAAATTTTCACTCTAA
36901383 CATGTACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (24 bp):
GGCAACATCAAATTTTCACTCTAA
Found at i:36902184 original size:26 final size:25
Alignment explanation
Indices: 36902126--36902185 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
36902116 AAATTTTCTC
*
36902126 TTAAATTTTTAATTTCATTTAATCA
1 TTAAATTTTTAATTTCATTGAATCA
* *
36902151 TTTAATTTTTCAATTT-ATTGAATTA
1 TTAAATTTTT-AATTTCATTGAATCA
36902176 TTAATATTTT
1 TTAA-ATTTT
36902186 ATACTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (25 bp):
TTAAATTTTTAATTTCATTGAATCA
Found at i:36913924 original size:16 final size:17
Alignment explanation
Indices: 36913903--36913941 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36913893 CATTTATTAA
36913903 GTTTTTAAGACTCAATT
1 GTTTTTAAGACTCAATT
* *
36913920 GTTTTTAAGATTCATTT
1 GTTTTTAAGACTCAATT
36913937 GTTTT
1 GTTTT
36913942 CCTTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (17 bp):
GTTTTTAAGACTCAATT
Found at i:36927009 original size:35 final size:35
Alignment explanation
Indices: 36926963--36927108 Score: 177
Period size: 35 Copynumber: 4.2 Consensus size: 35
36926953 GTTGCCCCGT
** * *
36926963 AGGACCTATATACCATTTACACAATGTCACCTCAA
1 AGGACCTATATACCATTTACACGGTGTCGCCTCGA
* *
36926998 AGGACCTATATATCATTTACACGGTGTCGCCTTGA
1 AGGACCTATATACCATTTACACGGTGTCGCCTCGA
* *
36927033 AGGAGCTTTATACCATTTACACGGTGTCGCCTCGA
1 AGGACCTATATACCATTTACACGGTGTCGCCTCGA
* * *
36927068 TGGACTTGTATACCATTTACACGGTGTCGCC-CTGA
1 AGGACCTATATACCATTTACACGGTGTCGCCTC-GA
36927103 AGGACC
1 AGGACC
36927109 AGTAGATAAC
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 93 0.99
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (35 bp):
AGGACCTATATACCATTTACACGGTGTCGCCTCGA
Found at i:36937960 original size:30 final size:30
Alignment explanation
Indices: 36937903--36937960 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36937893 TTCTATTATC
*
36937903 AATTTTGTTATTATTTTAAAGCCATTTGTT
1 AATTTTGTTATTATTTTAAAGCAATTTGTT
* * *
36937933 AATTTTGTTGTTATTTTAGAGGAATTTG
1 AATTTTGTTATTATTTTAAAGCAATTTG
36937961 CTTGTTAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGCAATTTGTT
Found at i:36942185 original size:4 final size:4
Alignment explanation
Indices: 36942176--36942227 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
36942166 TTTGGGATAA
* * * *
36942176 ATAT ATAT ATGT ATAT ATGT ATAT ATAT ATAT ATAA ATAT TTAT -TAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
36942223 -TAT AT
1 ATAT AT
36942228 TTTAATTTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 6 0.15
4 34 0.85
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (4 bp):
ATAT
Found at i:36942190 original size:6 final size:6
Alignment explanation
Indices: 36942176--36942227 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
36942166 TTTGGGATAA
* * * *
36942176 ATATAT ATATGT ATATAT GTATAT ATATAT ATATAA ATATTT AT-TAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
36942223 -TATAT
1 ATATAT
36942228 TTTAATTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
4 1 0.03
5 5 0.14
6 31 0.84
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (6 bp):
ATATAT
Found at i:36943356 original size:31 final size:31
Alignment explanation
Indices: 36943318--36943381 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
36943308 CCTTTTCATA
36943318 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
36943349 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
36943380 TT
1 TT
36943382 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:36943624 original size:24 final size:24
Alignment explanation
Indices: 36943573--36943691 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
36943563 GCTTTATCAT
*
36943573 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
36943598 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
36943622 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
36943645 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
36943669 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
36943692 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:36943652 original size:47 final size:48
Alignment explanation
Indices: 36943573--36943691 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
36943563 GCTTTATCAT
*
36943573 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
36943622 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
36943669 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
36943692 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Done.