Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 117 of 297
Found at i:41798685 original size:30 final size:30
Alignment explanation
Indices: 41798651--41798710 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
41798641 ATTTAATACG
41798651 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
41798681 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
41798711 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:41801038 original size:10 final size:9
Alignment explanation
Indices: 41800969--41801423 Score: 126
Period size: 9 Copynumber: 48.3 Consensus size: 9
41800959 GACTTTTTTT
41800969 ATTTTTATA
1 ATTTTTATA
*
41800978 ATCTTTATA
1 ATTTTTATA
*
41800987 ATTTATTAGA
1 ATTT-TTATA
*
41800997 ATTTTGAT-
1 ATTTTTATA
* *
41801005 ATTATATCTA
1 ATT-TTTATA
*
41801015 ATTTTTATG
1 ATTTTTATA
41801024 ATTTTTATA
1 ATTTTTATA
41801033 AGTTTTTATAA
1 A-TTTTTAT-A
*
41801044 AATTTTA-A
1 ATTTTTATA
*
41801052 ATATTTTAGA
1 AT-TTTTATA
41801062 TATATTTTATTA
1 -AT-TTTTA-TA
*
41801074 A-CTTTATAA
1 ATTTTTAT-A
41801083 ATATTTTATA
1 AT-TTTTATA
41801093 ATATTTTAT-
1 AT-TTTTATA
*
41801102 ATTTTTGTA
1 ATTTTTATA
* *
41801111 ATATTCATA
1 ATTTTTATA
*
41801120 AGTTTTTATT
1 A-TTTTTATA
*
41801130 ATTTATTATT
1 ATTT-TTATA
41801140 A-TTTTATA
1 ATTTTTATA
*
41801148 ACTTTTATA
1 ATTTTTATA
**
41801157 AGTTTACATA
1 A-TTTTTATA
* *
41801167 AATTTCA-A
1 ATTTTTATA
41801175 TATATTTT-TA
1 -AT-TTTTATA
*
41801185 ATATTTAATA
1 AT-TTTTATA
** *
41801195 ATACTTATG
1 ATTTTTATA
41801204 ATTTTTAT-
1 ATTTTTATA
41801212 ATTTTTATGA
1 ATTTTTAT-A
*
41801222 AATTTTATA
1 ATTTTTATA
*
41801231 ACTTTTTAAGA
1 A-TTTTT-ATA
41801242 ATTTTTATA
1 ATTTTTATA
*
41801251 CATTTTTCTAAA
1 -A-TTTT-TATA
* * *
41801263 ATTCTAATT
1 ATTTTTATA
* *
41801272 GTGTTTTATT
1 AT-TTTTATA
* *
41801282 ACTTTCATA
1 ATTTTTATA
41801291 ATTTTTATA
1 ATTTTTATA
* *
41801300 CTTTGTTAGA
1 ATTT-TTATA
*
41801310 ATTTATTAGA
1 ATTT-TTATA
*
41801320 TTTTTTAT-
1 ATTTTTATA
41801328 ATTTTTATAAA
1 ATTTTTAT--A
* *
41801339 ATTTATATT
1 ATTTTTATA
*
41801348 ATTTTATATT
1 ATTTT-TATA
*
41801358 GTTTTTATA
1 ATTTTTATA
41801367 ATTTTTATA
1 ATTTTTATA
41801376 AGTTTATT-TCA
1 A-TTT-TTAT-A
* *
41801387 ATCTTAAT-
1 ATTTTTATA
41801395 ATTTGTTA-A
1 ATTT-TTATA
*
41801404 ATATTT-TA
1 ATTTTTATA
41801412 ATTTTTATA
1 ATTTTTATA
41801421 ATT
1 ATT
41801424 CTTAATAAAA
Statistics
Matches: 328, Mismatches: 76, Indels: 84
0.67 0.16 0.17
Matches are distributed among these distances:
8 43 0.13
9 131 0.40
10 115 0.35
11 35 0.11
12 4 0.01
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTTTTATA
Found at i:41801070 original size:30 final size:30
Alignment explanation
Indices: 41801036--41801102 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
41801026 TTTTATAAGT
41801036 TTTTATAAAATTT-TAAATATTTTAGATATA
1 TTTTATAAAATTTATAAATATTTTAGA-ATA
* * *
41801066 TTTTATTAACTTTATAAATATTTTATAATA
1 TTTTATAAAATTTATAAATATTTTAGAATA
41801096 TTTTATA
1 TTTTATA
41801103 TTTTTGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTTATAAAATTTATAAATATTTTAGAATA
Found at i:41801256 original size:20 final size:19
Alignment explanation
Indices: 41801204--41801257 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
41801194 AATACTTATG
*
41801204 ATTTTTAT-ATTTTTATGA
1 ATTTTTATAATTTTTAAGA
*
41801222 AATTTTATAACTTTTTAAGA
1 ATTTTTATAA-TTTTTAAGA
41801242 ATTTTTATACATTTTT
1 ATTTTTATA-ATTTTT
41801258 CTAAAATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 1 0.03
20 21 0.70
21 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATTTTTAAGA
Found at i:41801380 original size:19 final size:19
Alignment explanation
Indices: 41801321--41801380 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
41801311 TTTATTAGAT
41801321 TTTTTAT-ATTTTTATAA-
1 TTTTTATAATTTTTATAAG
** * *
41801338 AATTTATATTATTTTATATTG
1 TTTTTATAAT-TTTTATA-AG
41801359 TTTTTATAATTTTTATAAG
1 TTTTTATAATTTTTATAAG
41801378 TTT
1 TTT
41801381 ATTTCAATCT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 11 0.35
20 7 0.23
21 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAG
Found at i:41804129 original size:17 final size:18
Alignment explanation
Indices: 41804103--41804136 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
41804093 ATAACAATAA
*
41804103 ATTTTGAAAT-TTTTTAT
1 ATTTTAAAATATTTTTAT
41804120 ATTTTAAAATATTTTTA
1 ATTTTAAAATATTTTTA
41804137 AAAGATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTAAAATATTTTTAT
Found at i:41804878 original size:13 final size:13
Alignment explanation
Indices: 41804860--41804893 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
41804850 GGTCACATGC
41804860 CCGTGTGGGTAGG
1 CCGTGTGGGTAGG
41804873 CCGTGTGGGTAGG
1 CCGTGTGGGTAGG
41804886 CCGTGTGG
1 CCGTGTGG
41804894 TCACACACGC
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:0.06, C:0.18, G:0.53, T:0.24
Consensus pattern (13 bp):
CCGTGTGGGTAGG
Found at i:41806279 original size:42 final size:42
Alignment explanation
Indices: 41806233--41806313 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
41806223 TTTACACTAT
* *
41806233 TCTCAT-ATCGATGCCATGTCCCAGACATGGTCTTACACGAAA
1 TCTCATAAT-GATGCCATATCCCAAACATGGTCTTACACGAAA
*
41806275 TCTCATAATGATGCCATATCCCAAATATGGTCTTACACG
1 TCTCATAATGATGCCATATCCCAAACATGGTCTTACACG
41806314 TAAACTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
TCTCATAATGATGCCATATCCCAAACATGGTCTTACACGAAA
Found at i:41810707 original size:54 final size:54
Alignment explanation
Indices: 41810636--41811587 Score: 1663
Period size: 54 Copynumber: 17.6 Consensus size: 54
41810626 AGGATACCAA
41810636 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41810690 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41810744 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41810798 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41810852 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41810906 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41810960 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811014 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811068 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811122 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811176 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811230 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811284 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811338 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
41811392 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
* * ** * * * * * ***
41811446 GTAAGACCATGTCAAGACATCTCATTGATAAACTACTATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGT-AAGTTCTACAAGGCAAGGAAATCAT
* * * * * * * *
41811501 GTAAGACCGTGCCAAGGCATGGAAATGGTGAGTTC-ATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
** * * *
41811554 GTAAGACCATTTCAAGACATGACAATGGTAAGTT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
41811588 TAAAAAGGAA
Statistics
Matches: 864, Mismatches: 33, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
53 42 0.05
54 783 0.91
55 39 0.05
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
Found at i:41819026 original size:53 final size:52
Alignment explanation
Indices: 41818847--41819050 Score: 192
Period size: 53 Copynumber: 3.8 Consensus size: 52
41818837 AGGGTTTGAG
* * * * *
41818847 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC-AA
* * * * * * *
41818901 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAA
* * * *
41818955 AATTCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GA-TACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
* *
41819008 TGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 -GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
41819051 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 44 0.37
54 39 0.33
55 36 0.30
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (52 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:41826608 original size:150 final size:150
Alignment explanation
Indices: 41826337--41826639 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 150
41826327 CATCAACAAG
41826337 TTAGTCACATAAGTATATATAATCATCCATTATCTCAATTTAATACTCAATACATTGTATCATAT
1 TTAGTCACATAAGTATATATAATCATCCATTATCTCAATTTAATACTCAATACATTGTATCATAT
41826402 CAAATTCATATATCATGTACATCATTTGAAACATTTCACTCTCAAACATATAAACAGTAAATCAA
66 CAAATTCATATATCATGTACATCATTTGAAACATTTCACTCTCAAACATATAAACAGTAAATCAA
*
41826467 TTGATAACAGTAACTCTTTC
131 TTGATAACAGTAACTCTTCC
41826487 TTAGTCACATAAGTATATATAATCATCCATTATCTCAATTTAATACTCAATACATTGTATCATAT
1 TTAGTCACATAAGTATATATAATCATCCATTATCTCAATTTAATACTCAATACATTGTATCATAT
41826552 CAAATTCATATATCATGTACATCATTTGAAACATTTCACTCTCAAACATATAAACAGTAAATCAA
66 CAAATTCATATATCATGTACATCATTTGAAACATTTCACTCTCAAACATATAAACAGTAAATCAA
41826617 TTGATAACAGTAACTCTTCC
131 TTGATAACAGTAACTCTTCC
41826637 TTA
1 TTA
41826640 TAACACATAA
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (150 bp):
TTAGTCACATAAGTATATATAATCATCCATTATCTCAATTTAATACTCAATACATTGTATCATAT
CAAATTCATATATCATGTACATCATTTGAAACATTTCACTCTCAAACATATAAACAGTAAATCAA
TTGATAACAGTAACTCTTCC
Found at i:41852490 original size:51 final size:51
Alignment explanation
Indices: 41852430--41852534 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
41852420 AATAGAAAAT
41852430 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
1 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
*
41852481 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAATG
1 TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
41852532 TTG
1 TTG
41852535 AATAATCACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (51 bp):
TTGTGTGAATATTGATTAACAGTGAAACAATTCAGGGTGCAAATATGAAAG
Found at i:41853595 original size:41 final size:41
Alignment explanation
Indices: 41853535--41853617 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
41853525 TCAGACATCG
*
41853535 AAATAGAGTTACAGAGCATTACTAAAAAATTTCAACTTAAA
1 AAATAGAGTTACAGAGCATTACCAAAAAATTTCAACTTAAA
* *
41853576 AAATAGGGTTACAGGGCATTACCAAAAAATTTCAACTTAAA
1 AAATAGAGTTACAGAGCATTACCAAAAAATTTCAACTTAAA
41853617 A
1 A
41853618 CATACAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.25
Consensus pattern (41 bp):
AAATAGAGTTACAGAGCATTACCAAAAAATTTCAACTTAAA
Found at i:41854753 original size:27 final size:26
Alignment explanation
Indices: 41854718--41854829 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
41854708 AGGATGGCTG
* *
41854718 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
41854744 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
41854772 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
41854799 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
41854826 CCAG
1 CCAG
41854830 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:41854811 original size:54 final size:54
Alignment explanation
Indices: 41854718--41854829 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
41854708 AGGATGGCTG
* *
41854718 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
41854772 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-TAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
41854826 CCAG
1 CCAG
41854830 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:41858820 original size:40 final size:40
Alignment explanation
Indices: 41858748--41858932 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
41858738 GCTACTCGTT
* *
41858748 CAAATGCCTTCGGGACATAGCCCCG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41858788 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
41858828 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41858867 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41858908 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41858933 CATCATTCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41858860 original size:79 final size:81
Alignment explanation
Indices: 41858750--41858932 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
41858740 TACTCGTTCA
* * *
41858750 AATGCCTTCGGGACATAGCCCCG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
41858813 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
41858830 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
41858893 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
41858909 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41858933 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:41864449 original size:28 final size:28
Alignment explanation
Indices: 41864417--41864544 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
41864407 ATAGTAAGTC
*
41864417 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41864445 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
41864474 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
41864502 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41864531 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41864545 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41864507 original size:57 final size:57
Alignment explanation
Indices: 41864416--41864544 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
41864406 TATAGTAAGT
*
41864416 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
41864473 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
41864530 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
41864545 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:41873347 original size:56 final size:56
Alignment explanation
Indices: 41873261--41873436 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
41873251 ACAAGGGATG
41873261 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
41873317 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
** *
41873373 ATGGGCAAAACATGTCATGAAACATCATGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
41873429 ATGGGCAA
1 ATGGGCAA
41873437 TAAACTAATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:41877920 original size:33 final size:33
Alignment explanation
Indices: 41877860--41877922 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
41877850 TACAATAATG
* * * * *
41877860 GTCTGGGCCTGAGCCCTGTTCATTAATAGTACA
1 GTCTAGGCCTAAGCCCTATGCAATAATAGTACA
41877893 GTCTAGGCCTAAGCCCTATGCAATAATAGT
1 GTCTAGGCCTAAGCCCTATGCAATAATAGT
41877923 GTGGGTCTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (33 bp):
GTCTAGGCCTAAGCCCTATGCAATAATAGTACA
Found at i:41878715 original size:9 final size:9
Alignment explanation
Indices: 41878690--41878723 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
41878680 TACACAAGCT
*
41878690 GGCCCATGG
1 GGCCCATTG
41878699 GGCCCATTG
1 GGCCCATTG
*
41878708 GGCCCATTT
1 GGCCCATTG
41878717 GGCCCAT
1 GGCCCAT
41878724 CGTGGCCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.35, G:0.32, T:0.21
Consensus pattern (9 bp):
GGCCCATTG
Found at i:41883538 original size:27 final size:27
Alignment explanation
Indices: 41883508--41883685 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41883498 ATATTGAGTC
* * * *
41883508 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41883535 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41883562 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41883590 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41883617 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41883644 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41883671 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41883686 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41883647 original size:82 final size:81
Alignment explanation
Indices: 41883529--41883684 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41883519 TGCTATATAA
* *
41883529 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41883594 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41883611 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41883675 CACTTAGTGC
65 CACTTAGTGC
41883685 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41887482 original size:27 final size:27
Alignment explanation
Indices: 41887452--41887629 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41887442 ATATTGAGTC
* * * *
41887452 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41887479 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41887506 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41887534 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41887561 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41887588 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41887615 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41887630 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41887591 original size:82 final size:81
Alignment explanation
Indices: 41887473--41887628 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41887463 TGCTATATAA
* *
41887473 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41887538 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41887555 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41887619 CACTTAGTGC
65 CACTTAGTGC
41887629 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41895545 original size:27 final size:27
Alignment explanation
Indices: 41895515--41895691 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
41895505 ATATTGAGTC
* *
41895515 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
41895542 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
41895569 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
41895597 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
41895624 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
41895651 CGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
41895677 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
41895692 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 15 0.12
27 88 0.69
28 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41895607 original size:55 final size:54
Alignment explanation
Indices: 41895515--41895691 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
41895505 ATATTGAGTC
* * * * *
41895515 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
41895569 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
41895624 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
41895677 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
41895692 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 16 0.16
54 42 0.41
55 45 0.44
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:41895654 original size:82 final size:80
Alignment explanation
Indices: 41895536--41895690 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
41895526 TGCTATATAA
* *
41895536 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-AAA-TCGCA
*
41895601 CACTTAGTGCCGCATGG
64 CACATAGTGCCGCATGG
* * **
41895618 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTAAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCAC
41895682 ACATAGTGC
65 ACATAGTGC
41895691 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 14 0.22
81 4 0.06
82 47 0.72
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCACA
CATAGTGCCGCATGG
Found at i:41907431 original size:59 final size:61
Alignment explanation
Indices: 41907339--41907481 Score: 209
Period size: 61 Copynumber: 2.4 Consensus size: 61
41907329 TTATACAACA
* * * * *
41907339 GATTACCAGTCCAAGCTAAATTCTATCTGC-A-ATATATATACTCAATAGAGCTTAGTCAG
1 GATTACTAGTCCAGGCTAAATCCTATCTCCAATATATATATACTCAATAAAGCTTAGTCAG
*
41907398 GATTACTAGTCCAGGCTAAATCCTATCTCCAATATATATATACTCAATAAAGCTTAGTTAG
1 GATTACTAGTCCAGGCTAAATCCTATCTCCAATATATATATACTCAATAAAGCTTAGTCAG
*
41907459 GATTACTAGTCCAGACTAAATCC
1 GATTACTAGTCCAGGCTAAATCC
41907482 GTTTTATGAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
59 26 0.35
60 1 0.01
61 48 0.64
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (61 bp):
GATTACTAGTCCAGGCTAAATCCTATCTCCAATATATATATACTCAATAAAGCTTAGTCAG
Found at i:41909354 original size:42 final size:41
Alignment explanation
Indices: 41909275--41909416 Score: 110
Period size: 42 Copynumber: 3.4 Consensus size: 41
41909265 ATGAGTTTAT
* * * * * *
41909275 GTGTTAGACCATATCTGGGATATGGCATCGTTTTGAGATTTC
1 GTGTAAGACCATATCTGGGACATCGCATCGATATGAGA-ATC
* *
41909317 GTGTAAGACCATGTCTGGGACATCGCATTGATATGAGAATC
1 GTGTAAGACCATATCTGGGACATCGCATCGATATGAGAATC
* *
41909358 GTGTAAGACAATAGT-TGGG-CTATTGGCATCGATATGAG-ATCCC
1 GTGTAAGACCATA-TCTGGGAC-A-TCGCATCGATATGAGAAT--C
*
41909401 ATGTAAGACCATATCT
1 GTGTAAGACCATATCT
41909417 AGGATATGAC
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
40 1 0.01
41 20 0.25
42 46 0.57
43 13 0.16
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGACATCGCATCGATATGAGAATC
Found at i:41910857 original size:40 final size:40
Alignment explanation
Indices: 41910786--41910972 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
41910776 TTCTAACACG
* * * *
41910786 AGCCTACGGGTCTTT-AACCCGGATTCCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCA-TAT
*
41910825 AGCATGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
* * * * *
41910865 AGCCGGCGGGTCTCTAGACCCGGATATAATTCTAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
*
41910905 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
*
41910945 AGCCTGCGGGTCTTTAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAACCCGGATACA
41910973 CAAATCAAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 14 0.11
40 113 0.89
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
Found at i:41918580 original size:40 final size:40
Alignment explanation
Indices: 41918509--41918695 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
41918499 TTCTAACACG
* * * *
41918509 AGCCTACGGGTCTTT-AACCCGGATTCCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCA-TAT
41918548 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
* *
41918588 AGCCTGCGGGTCTCTAAACCCGGATACAATTCCAGTATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
*
41918628 AGCCTGCGGGTCTTTAAACCCGGATATAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
*
41918668 AGCCTGCGGGTCTTTAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAACCCGGATACA
41918696 CAAATCAAAT
Statistics
Matches: 135, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.11
40 120 0.89
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
Found at i:41922546 original size:13 final size:13
Alignment explanation
Indices: 41922528--41922554 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41922518 GTAACAAGAT
41922528 CTACCTATTTCTA
1 CTACCTATTTCTA
41922541 CTACCTATTTCTA
1 CTACCTATTTCTA
41922554 C
1 C
41922555 CATTTAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (13 bp):
CTACCTATTTCTA
Found at i:41923329 original size:43 final size:43
Alignment explanation
Indices: 41923281--41923383 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
41923271 AATGCCAACG
41923281 TCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGTCTCTA
1 TCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGTCTCTA
41923324 TCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGTCTCTA
1 TCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGTCTCTA
41923367 TCCCAGACAG-GGTCTTA
1 TCCCAGAC-GTGGTCTTA
41923384 TACAAAAACA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 58 0.98
44 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGTCTCTA
Found at i:41925284 original size:40 final size:40
Alignment explanation
Indices: 41925212--41925429 Score: 375
Period size: 40 Copynumber: 5.5 Consensus size: 40
41925202 AACCCAAGTA
* * *
41925212 CCTTCGGGAATTAG-CCAGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
41925251 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
*
41925291 CCTTCGGCACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
* *
41925331 TCTTTGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
41925371 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
41925411 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41925430 TTATCATCCG
Statistics
Matches: 169, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.08
40 156 0.92
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
Found at i:41926959 original size:13 final size:13
Alignment explanation
Indices: 41926941--41926966 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41926931 ATTTTTATTT
41926941 TTAACATAAAATA
1 TTAACATAAAATA
41926954 TTAACATAAAATA
1 TTAACATAAAATA
41926967 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:41933555 original size:40 final size:40
Alignment explanation
Indices: 41933483--41933699 Score: 364
Period size: 40 Copynumber: 5.5 Consensus size: 40
41933473 AACCCAAGTA
* *
41933483 CCTTCGGGAATTAG-CCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
*
41933522 CCTTCGGGACTTAGCCCTGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
* *
41933562 CCTTTGGCACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
* *
41933602 TCTTCGGGACTTAGCCCAGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
41933642 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
41933682 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
41933700 ATTATCATCC
Statistics
Matches: 165, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 13 0.08
40 152 0.92
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
Found at i:41935229 original size:13 final size:13
Alignment explanation
Indices: 41935211--41935236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41935201 ATTTTTATTT
41935211 TTAACATAAAATA
1 TTAACATAAAATA
41935224 TTAACATAAAATA
1 TTAACATAAAATA
41935237 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:41949342 original size:34 final size:33
Alignment explanation
Indices: 41949257--41949349 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 33
41949247 TTGCATATTG
* *
41949257 TACTGTTACT-ATAATGGGCTTAGGCCCCACTGA
1 TACTGTTACTGAT-ATGGGCTAAGGCCACACTGA
* * * * * *
41949290 TACTATTATTGAAATGGGCTCAGGCCTAGACTGC
1 TACTGTTACTGATATGGGCTAAGGCC-ACACTGA
41949324 TACTGTTACTGATATGGGCTAAGGCC
1 TACTGTTACTGATATGGGCTAAGGCC
41949350 GTAACTGAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
33 20 0.43
34 27 0.57
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (33 bp):
TACTGTTACTGATATGGGCTAAGGCCACACTGA
Found at i:41951897 original size:42 final size:42
Alignment explanation
Indices: 41951850--41951996 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 42
41951840 AGTTTATGTA
* * *
41951850 TAAGACCATATCAGGGATATGGCATCGTTATAAGATTTCGTG
1 TAAGACCATATCAGGGATATGGCATCGATATGAGATATCGTG
* * * *
41951892 TAAGACCATGTCTGGGACATAGCATCGATATGAGA-ATCGTG
1 TAAGACCATATCAGGGATATGGCATCGATATGAGATATCGTG
* * ** *
41951933 TAAGACCAT-TTATGGGCTATTGGCATCGATATGAGATCCCATG
1 TAAGACCATATCA-GGGATA-TGGCATCGATATGAGATATCGTG
*
41951976 TAAGACCATATCTGGGATATG
1 TAAGACCATATCAGGGATATG
41951997 CCATTGGTAC
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
40 1 0.01
41 18 0.22
42 46 0.55
43 17 0.20
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCAGGGATATGGCATCGATATGAGATATCGTG
Found at i:41961975 original size:43 final size:44
Alignment explanation
Indices: 41961894--41961980 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
41961884 TATGTATGAG
* *
41961894 GCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGCTGGTCCGAGTTCATAATGGATGCGA
41961938 GCATCCGAGCTCGTTGA-CTGGTCCGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCGTTGAGCTGGTCCGAGTTCATAATGGATGCGA
41961981 TACATGTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 24 0.59
44 17 0.41
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.28
Consensus pattern (44 bp):
GCATCCGAGCTCGTTGAGCTGGTCCGAGTTCATAATGGATGCGA
Found at i:41965476 original size:18 final size:18
Alignment explanation
Indices: 41965438--41965476 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
41965428 GTGCGGACTA
*
41965438 CCCGTGTGGACCCACATG
1 CCCGTGTGGACCCACAGG
41965456 CCCGTGTGG-CCCACACGG
1 CCCGTGTGGACCCACA-GG
41965474 CCC
1 CCC
41965477 AATTTGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.13, C:0.46, G:0.28, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGACCCACAGG
Found at i:41966831 original size:43 final size:43
Alignment explanation
Indices: 41966734--41966894 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
41966724 ATCGAGATGT
* * *
41966734 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
*
41966777 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCG-TAATGA
* * * * ** *
41966820 GATTTCGTGTAAGACCCTGTCT-GGATAGAGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA-ATGA
* * *
41966862 GATAACATGTAA-ACCATATCTAGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCAT
41966895 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 14 0.14
42 25 0.26
43 54 0.56
44 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
Found at i:41976429 original size:48 final size:48
Alignment explanation
Indices: 41976315--41976448 Score: 191
Period size: 48 Copynumber: 2.8 Consensus size: 48
41976305 ACCACATTAC
* *
41976315 ATGTTTAATCGTGGTATATCCACCTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * * *
41976362 ATATGTAA-CGGTGGCATATCCACTTAGTACCACGTTACATGTATCAAT
1 ATGTGTAATC-GTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
41976410 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACA
41976449 CATATAACCG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.01
47 30 0.40
48 43 0.57
49 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:41986244 original size:30 final size:30
Alignment explanation
Indices: 41986208--41986267 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41986198 TTCCCGAGCC
*
41986208 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
41986238 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
41986268 CGTATTAAAT
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:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:41987039 original size:43 final size:43
Alignment explanation
Indices: 41986982--41987067 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
41986972 TAAAACGAAG
41986982 GTGATATATTGGTAAGTGTGGTGAATGAGAAATTTTGACAGGT
1 GTGATATATTGGTAAGTGTGGTGAATGAGAAATTTTGACAGGT
41987025 GTGATATATTGGTAAGTGTGGTGAATGAGAAATTTTGACAGGT
1 GTGATATATTGGTAAGTGTGGTGAATGAGAAATTTTGACAGGT
41987068 ATGTGTTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.33, T:0.35
Consensus pattern (43 bp):
GTGATATATTGGTAAGTGTGGTGAATGAGAAATTTTGACAGGT
Found at i:41993626 original size:38 final size:38
Alignment explanation
Indices: 41993583--41993659 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
41993573 TTTCAAATTA
41993583 ACATGTATAACCATGCCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGCCATATCCACTTAGCACCACGTT
* * **
41993621 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGCCATATCCACTTAGCACCACGTT
41993659 A
1 A
41993660 ATGAATCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCATGCCATATCCACTTAGCACCACGTT
Found at i:41993690 original size:85 final size:86
Alignment explanation
Indices: 41993590--41993829 Score: 320
Period size: 86 Copynumber: 2.8 Consensus size: 86
41993580 TTAACATGTA
* *
41993590 TAACCATGCCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
41993655 CGTTA-ATGAATCAATATATG
66 CGTTATATGAATCAATATATG
* * *
41993675 TAACCGTGGCATATCCACTTAGCACCACGTTATATGTTTAACCGTGGTATATCCACTCAGCATCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
* * * *
41993740 CGTCATGTGTATCAATATGTG
66 CGTTATATGAATCAATATATG
* * * * ** * *
41993761 TAATCGTGGTATATCCACTTAGTACCACGTTACACGAATAACCATGCTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
41993826 CGTT
66 CGTT
41993830 TTTCCATTCT
Statistics
Matches: 133, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
85 64 0.48
86 69 0.52
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (86 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTATATGAATCAATATATG
Found at i:42002237 original size:49 final size:48
Alignment explanation
Indices: 42002011--42002274 Score: 206
Period size: 49 Copynumber: 5.6 Consensus size: 48
42002001 TATGTGTGCT
* * *
42002011 AGTGTAAGACATGTCTGGGACAT-GCTTCGGCCA-C-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACATCGATATATGA-AGCC
* * * * *
42002057 AGTGTAAGACATGTCTGGGACATGGCATCGAC-TTGA-CT-TG-TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAAGCC
* *
42002101 AGTGTAAGACC-GTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATGA-AGCC
* * * * *
42002149 AATGTAAGACCTGTCTGGGACATGGTATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATG-AAGCC
* ** * * *
42002198 AGTGTAAGACCTGTCTGGGACATAGCATTAACTTAGATATGTG-AGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAAGCC
* *
42002245 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
42002275 AGCATTATAC
Statistics
Matches: 173, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
43 20 0.12
44 14 0.08
46 29 0.17
47 20 0.12
48 26 0.15
49 63 0.36
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAAGCC
Found at i:42004639 original size:30 final size:30
Alignment explanation
Indices: 42004603--42004663 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
42004593 CATTTAATGC
* *
42004603 AAACTTTGGTAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
42004633 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
42004663 A
1 A
42004664 GGCTCGGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:42009420 original size:63 final size:61
Alignment explanation
Indices: 42009320--42009470 Score: 214
Period size: 61 Copynumber: 2.4 Consensus size: 61
42009310 ATATATACAA
* *
42009320 CAGGATTACTAGTCCTA-GCTAAATCCTGTCTCCAATATATATATATACTCAATAGAGCTTAGT
1 CAGGATTACCAGT-CTAGGCTAAATCCTGTCTCC-A-ATATATATATACTCAATAGAGATTAGT
* *
42009383 CAGGATTACCAGTCTAGGCTAAATCTTGTCTCTAATATATATATACTCAATAGAGATTAGT
1 CAGGATTACCAGTCTAGGCTAAATCCTGTCTCCAATATATATATACTCAATAGAGATTAGT
* *
42009444 CAAGATTACCAGTCCAGGCTAAATCCT
1 CAGGATTACCAGTCTAGGCTAAATCCT
42009471 TTTTATGACA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 50 0.62
62 4 0.05
63 26 0.32
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (61 bp):
CAGGATTACCAGTCTAGGCTAAATCCTGTCTCCAATATATATATACTCAATAGAGATTAGT
Found at i:42011418 original size:40 final size:40
Alignment explanation
Indices: 42011353--42011453 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
42011343 CGCAAGCTTA
* *
42011353 CGAGTCTTTAA-CCCAGATACCATTCCAGCACGA-AGCCTG
1 CGAGTCTTTAAGCCCGGATACAATTCCAGCA-GATAGCCTG
* * *
42011392 CGGGTCTTTATGCCCGGATACAATTCCAGCATATAGCCTG
1 CGAGTCTTTAAGCCCGGATACAATTCCAGCAGATAGCCTG
42011432 CGAGTCTTTAAGCCCGGATACA
1 CGAGTCTTTAAGCCCGGATACA
42011454 GGGTCTTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 10 0.19
40 43 0.81
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
CGAGTCTTTAAGCCCGGATACAATTCCAGCAGATAGCCTG
Found at i:42011461 original size:21 final size:21
Alignment explanation
Indices: 42011435--42011474 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
42011425 TAGCCTGCGA
42011435 GTCTTTAAGCCCGGATACAGG
1 GTCTTTAAGCCCGGATACAGG
42011456 GTCTTTAAGCCCGGATACA
1 GTCTTTAAGCCCGGATACA
42011475 ATTCCAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
GTCTTTAAGCCCGGATACAGG
Found at i:42011488 original size:61 final size:61
Alignment explanation
Indices: 42011393--42011514 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
42011383 CGAAGCCTGC
*
42011393 GGGTCTTTATGCCCGGATACAATTCCAGCATATAGCCTGCGAGTCTTTAAGCCCGGATACA
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGAGTCTTTAAGCCCGGATACA
*
42011454 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACA
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGAGTCTTTAAGCCCGGATACA
42011515 ATTCCAAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (61 bp):
GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGAGTCTTTAAGCCCGGATACA
Found at i:42012805 original size:21 final size:21
Alignment explanation
Indices: 42012779--42012819 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42012769 CGGCAATTTC
42012779 AATTCAGACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
42012800 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
42012820 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.32
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:42012829 original size:21 final size:21
Alignment explanation
Indices: 42012790--42012829 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42012780 ATTCAGACCT
* *
42012790 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
42012811 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
42012830 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:42014330 original size:40 final size:40
Alignment explanation
Indices: 42014213--42014392 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
42014203 ACCCAAGTTT
* * * * * *
42014213 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
* * * * * *
42014252 CTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGC
* *
42014292 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
*
42014332 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
42014372 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
42014393 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 11 0.09
40 106 0.88
41 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
Found at i:42015177 original size:91 final size:92
Alignment explanation
Indices: 42015021--42015204 Score: 343
Period size: 91 Copynumber: 2.0 Consensus size: 92
42015011 TACCTTTTAC
42015021 TAACTAATGCATTACATATTATAACTCAATACGCATCCATCATGTACTCCATAACCGAAACACCA
1 TAACTAATGCATTACATATTATAACTCAATACGCATCCATCATGTACTCCATAACCGAAACACCA
42015086 TCATATGTAAATATATACCTTGAGATA
66 TCATATGTAAATATATACCTTGAGATA
* *
42015113 TAACTAATGCATTAC-TATTATAACTTAATGCGCATCCATCATGTACTCCATAACCGAAACACCA
1 TAACTAATGCATTACATATTATAACTCAATACGCATCCATCATGTACTCCATAACCGAAACACCA
42015177 TCATATGTAAATATATACCTTGAGATA
66 TCATATGTAAATATATACCTTGAGATA
42015204 T
1 T
42015205 TGTATATGTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 75 0.83
92 15 0.17
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (92 bp):
TAACTAATGCATTACATATTATAACTCAATACGCATCCATCATGTACTCCATAACCGAAACACCA
TCATATGTAAATATATACCTTGAGATA
Found at i:42022074 original size:64 final size:64
Alignment explanation
Indices: 42021996--42022179 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
42021986 CATTATTATG
* *
42021996 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
42022060 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
42022125 AA
63 AA
* * * *
42022127 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
42022180 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:42025000 original size:22 final size:22
Alignment explanation
Indices: 42024956--42025000 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
42024946 TGCAGCGCTA
* *
42024956 TTTTAAGTTCTTCTATCTTCTC
1 TTTTAAGTTCTTCAATCTACTC
42024978 TTTTAA-TTCTTCAATTCTACTC
1 TTTTAAGTTCTTCAA-TCTACTC
42025000 T
1 T
42025001 GACTAGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.18, C:0.22, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAGTTCTTCAATCTACTC
Found at i:42025107 original size:18 final size:18
Alignment explanation
Indices: 42025084--42025125 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
42025074 AATCTTTAAT
42025084 CCTTCTTTCTCATTTTGG
1 CCTTCTTTCTCATTTTGG
42025102 CCTTCTTTCTCATTTTGG
1 CCTTCTTTCTCATTTTGG
*
42025120 CTTTCT
1 CCTTCT
42025126 ACCAAACTTC
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:0.05, C:0.29, G:0.10, T:0.57
Consensus pattern (18 bp):
CCTTCTTTCTCATTTTGG
Found at i:42034691 original size:40 final size:40
Alignment explanation
Indices: 42034593--42034855 Score: 291
Period size: 40 Copynumber: 6.6 Consensus size: 40
42034583 TCCTCGTTCA
* * * ** *
42034593 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
42034632 AATGCCTTTGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
42034672 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
42034712 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
42034752 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
42034792 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
42034832 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42034856 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
39 36 0.18
40 151 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:42034738 original size:80 final size:79
Alignment explanation
Indices: 42034593--42034855 Score: 325
Period size: 80 Copynumber: 3.3 Consensus size: 79
42034583 TCCTCGTTCA
* * * * * *
42034593 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTTGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
42034658 TAACAACTCGCACG
66 TAACAACTCGCACG
*
42034672 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
42034737 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * *
42034752 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCGGA
* * *
42034816 TATATTC-ACTTAGCAC-
64 TTTA-ACAAC-TCGCACG
* *
42034832 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42034856 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 37 0.23
80 120 0.74
81 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:42041931 original size:40 final size:40
Alignment explanation
Indices: 42041876--42042067 Score: 314
Period size: 40 Copynumber: 4.8 Consensus size: 40
42041866 CATGAGCATT
* *
42041876 GTTGATATATCCGGGCTATGACCCGAAGGCAATTACGCGA
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
*
42041916 GTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGA
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
*
42041956 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAA
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
42041996 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGC-A
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
* *
42042035 GGTTGATATGTCCGGGTTAAGACCCGAAGGCAA
1 -GTTGATATATCCGGGCTAAGACCCGAAGGCAA
42042068 ATGTGTTTGC
Statistics
Matches: 146, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 145 0.99
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
Found at i:42044000 original size:27 final size:27
Alignment explanation
Indices: 42043970--42044255 Score: 349
Period size: 27 Copynumber: 10.6 Consensus size: 27
42043960 TTAGTTTACC
*
42043970 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
42043997 AAATTATGAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
42044024 AAATCACCAAAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
42044051 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
42044078 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
42044105 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
42044132 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
42044159 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
42044186 AAATTATCAAAATACCCCTAGTTTG-A
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
42044212 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
42044239 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
42044256 TCGACCTGTA
Statistics
Matches: 221, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.10
27 198 0.90
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:42044308 original size:27 final size:27
Alignment explanation
Indices: 42043970--42044316 Score: 235
Period size: 27 Copynumber: 12.9 Consensus size: 27
42043960 TTAGTTTACC
* *
42043970 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** * * *
42043997 AAATTATGAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
42044024 AAATCACCAAAATACTCCT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
* * * **
42044051 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
42044078 AAATTACAAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
42044105 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
42044132 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
42044159 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
42044186 AAATTATCAAAATACCC-CTAGTTTG-A
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
42044212 AAATTACCAAAATATCCCT-AATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
** **
42044239 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** *
42044266 AATTTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
42044293 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
42044317 ACAGAATTAT
Statistics
Matches: 263, Mismatches: 44, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 25 0.10
27 234 0.89
28 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:42044387 original size:27 final size:27
Alignment explanation
Indices: 42044357--42044596 Score: 320
Period size: 27 Copynumber: 8.9 Consensus size: 27
42044347 AAATGATCGA
*
42044357 AATA-CCCTCGTAGGGTAGAAATACCGG
1 AATACCCCT-GTAGGGTAGAATTACCGG
*
42044384 AATACCCCTGTAGGGTAAAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
*
42044411 AATACCCCTGTAGGGTGGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
42044438 AATACCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
* *
42044465 AATACCCCTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
* *
42044492 AATACCCCTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
* * *
42044519 AATACCCATGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGG
* * ***
42044546 AATACCCTTGTATGGTAGAATTACTAA
1 AATACCCCTGTAGGGTAGAATTACCGG
*
42044573 AATACCCCTGTAGGGTGGAATTAC
1 AATACCCCTGTAGGGTAGAATTAC
42044597 TGAGATACCT
Statistics
Matches: 195, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 191 0.98
28 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAGAATTACCGG
Found at i:42044597 original size:54 final size:54
Alignment explanation
Indices: 42044354--42044623 Score: 303
Period size: 54 Copynumber: 5.0 Consensus size: 54
42044344 ACAAAATGAT
* * * *
42044354 CGAAATA-CCCTCGTAGGGTAGAAATACCGGAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCT-GTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
* * * *
42044408 CGGAATACCCCTGTAGGGTGGAATTACCGGAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
* * *
42044462 CGGAATACCCCTGTAGGGTAGAATTA-TCGCAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTAC
* * * *
42044516 CGCAATACCCATGTAGGGTAGAATTACTGAAATACCCTTGTATGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
** * * * * *
42044570 TAAAATACCCCTGTAGGGTGGAATTACTGAGATA-CCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
42044623 C
1 C
42044624 ATTTTGCCCC
Statistics
Matches: 189, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
53 16 0.08
54 168 0.89
55 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (54 bp):
CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
Found at i:42044605 original size:81 final size:80
Alignment explanation
Indices: 42044358--42044623 Score: 306
Period size: 81 Copynumber: 3.3 Consensus size: 80
42044348 AATGATCGAA
* * * *
42044358 ATACCCTCGTAGGGTAGAAATACCGGAATACCCCTGTAGGGTAAAATTACCGGAATACCCCTGTA
1 ATACCCT-GTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA
*
42044423 GGGTGGAATTACCG-G
65 GGGTGGAATTACTGAG
*
42044438 AATACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTA-TCGCAATACCCCTG
1 -ATA-CCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTG
*
42044502 TAGGGTAGAATTA-TCGCA-
63 TAGGGTGGAATTACT-G-AG
* * * * *
42044520 ATACCCATGTAGGGTAGAATTACTGAAATACCCTTGTATGGTAGAATTACTAAAATACCCCTGTA
1 ATACCC-TGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA
42044585 GGGTGGAATTACTGAG
65 GGGTGGAATTACTGAG
* * *
42044601 ATACCTTGTGGGGTAAAATTACC
1 ATACCCTGTAGGGTAGAATTACC
42044624 ATTTTGCCCC
Statistics
Matches: 159, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
80 18 0.11
81 135 0.85
82 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (80 bp):
ATACCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAG
GGTGGAATTACTGAG
Found at i:42045102 original size:22 final size:22
Alignment explanation
Indices: 42045050--42045114 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
42045040 TTAAAGCCTT
*
42045050 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
42045072 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
42045094 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
42045115 ACGTATCTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:42045303 original size:27 final size:27
Alignment explanation
Indices: 42045273--42045374 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
42045263 GTTCTGTTAA
*
42045273 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
*
42045300 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
* * *
42045327 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* **
42045354 GTGACTTTATCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
42045375 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:42045557 original size:31 final size:31
Alignment explanation
Indices: 42045519--42045582 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
42045509 ACATTCTGTT
42045519 TTTTGATTCTATTACCTGATACTGATTCGGA
1 TTTTGATTCTATTACCTGATACTGATTCGGA
* *
42045550 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCGGA
42045581 TT
1 TT
42045583 CTGTCACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (31 bp):
TTTTGATTCTATTACCTGATACTGATTCGGA
Found at i:42045568 original size:25 final size:25
Alignment explanation
Indices: 42045540--42045607 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
42045530 TTACCTGATA
* * *
42045540 CTGATTCGGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
*
42045565 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
*
42045590 CTAATTCTGATTCTGATT
1 CTGATTCTGATTCTGATT
42045608 ATGATTCTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:42045582 original size:6 final size:6
Alignment explanation
Indices: 42045534--42045624 Score: 53
Period size: 6 Copynumber: 14.8 Consensus size: 6
42045524 ATTCTATTAC
* * * *
42045534 CTGATA CTGATT CGGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
42045583 CTG-TCAC CTAATT CTGATT CTGATT ATGATT CT-AGTT CTGAT
1 CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
42045625 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:42045633 original size:18 final size:18
Alignment explanation
Indices: 42045593--42045645 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
42045583 CTGTCACCTA
* *
42045593 ATTCTGATTCTGATTATG
1 ATTCTTATTCTGATAATG
42045611 ATTC-TAGTTCTGATAATG
1 ATTCTTA-TTCTGATAATG
*
42045629 TTTCTTATTCTG-TAATG
1 ATTCTTATTCTGATAATG
42045646 GGTTAAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 6 0.20
18 22 0.73
19 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (18 bp):
ATTCTTATTCTGATAATG
Found at i:42052285 original size:36 final size:36
Alignment explanation
Indices: 42052213--42052289 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
42052203 TTATTACGAA
* *
42052213 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCCCCACACGAAGTCATC-G
*
42052250 GTCTTACCCGGACA-AATCCCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCCCCACACGAAGTCATCG
42052285 GTCTT
1 GTCTT
42052290 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.16
36 17 0.46
37 14 0.38
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCCCCACACGAAGTCATCG
Found at i:42052518 original size:47 final size:47
Alignment explanation
Indices: 42052407--42052726 Score: 604
Period size: 47 Copynumber: 6.7 Consensus size: 47
42052397 GCCCTTCGGG
*
42052407 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
42052457 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
42052504 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
42052551 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
42052598 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
42052645 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
42052692 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
42052727 CTATCATTTC
Statistics
Matches: 269, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
47 231 0.86
49 34 0.13
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:42055278 original size:20 final size:19
Alignment explanation
Indices: 42055255--42055292 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
42055245 AGATGCTTGG
42055255 TGAATGGAA-CATGTGCTAAA
1 TGAAT-GAATCATG-GCTAAA
42055275 TGAATGAATCATGGCTAA
1 TGAATGAATCATGGCTAA
42055293 TAAGTATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGAATCATGGCTAAA
Found at i:42058691 original size:28 final size:28
Alignment explanation
Indices: 42058651--42058804 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
42058641 TAAATTGTAC
42058651 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
42058679 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
42058707 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
42058735 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
42058763 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
42058790 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42058805 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:42060521 original size:27 final size:27
Alignment explanation
Indices: 42060491--42060642 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
42060481 ATATTAAGTC
* *
42060491 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
42060518 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
42060546 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
42060573 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
42060600 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
42060628 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42060643 GTACAATTTA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 70 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:42060559 original size:55 final size:54
Alignment explanation
Indices: 42060491--42060642 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
42060481 ATATTAAGTC
* *
42060491 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
42060546 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
42060600 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
42060643 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:42060628 original size:82 final size:82
Alignment explanation
Indices: 42060491--42060642 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
42060481 ATATTAAGTC
* *
42060491 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
42060556 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
42060573 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
42060638 GTGCT
66 GTGCT
42060643 GTACAATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:42066981 original size:40 final size:40
Alignment explanation
Indices: 42066919--42067013 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
42066909 TCGATATCTT
* **
42066919 GCACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
* * * *
42066959 GCACACAAAGTGCCATATATAGCCAAAGCTATGTCGAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
42066999 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
42067014 CAAATAACTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
Found at i:42067857 original size:43 final size:43
Alignment explanation
Indices: 42067796--42067892 Score: 158
Period size: 43 Copynumber: 2.3 Consensus size: 43
42067786 AACATGAAGT
*
42067796 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCTTAC
1 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
* * *
42067839 AATTCACCACTTTGACATTTCAATACGATATATTTTTGCATAC
1 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
42067882 AATTCACCACT
1 AATTCACCACT
42067893 GCATCATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (43 bp):
AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
Found at i:42067862 original size:21 final size:21
Alignment explanation
Indices: 42067796--42067862 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
42067786 AACATGAAGT
42067796 AATTCACCACTTTGACATTTC
1 AATTCACCACTTTGACATTTC
* * * *
42067817 AATACAATACATTTCTG-C-TTAC
1 AATTC-A-CCACTT-TGACATTTC
42067839 AATTCACCACTTTGACATTTC
1 AATTCACCACTTTGACATTTC
42067860 AAT
1 AAT
42067863 ACGATATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.37
Consensus pattern (21 bp):
AATTCACCACTTTGACATTTC
Found at i:42070777 original size:49 final size:51
Alignment explanation
Indices: 42070705--42070845 Score: 205
Period size: 49 Copynumber: 2.8 Consensus size: 51
42070695 ACTATTGTGA
* * *
42070705 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT
* *
42070754 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT
* *
42070805 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
42070846 ATATTTGTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 42 0.52
50 1 0.01
51 38 0.47
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (51 bp):
GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT
Found at i:42070835 original size:51 final size:49
Alignment explanation
Indices: 42070710--42070845 Score: 191
Period size: 51 Copynumber: 2.7 Consensus size: 49
42070700 TGTGAGGTCG
* * * * *
42070710 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAATTGATCA
* *
42070759 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCA
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAA-T-TGATCA
42070810 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
42070846 ATATTTGTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
49 37 0.49
50 1 0.01
51 38 0.50
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (49 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAATTGATCA
Found at i:42080432 original size:20 final size:20
Alignment explanation
Indices: 42080395--42080432 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42080385 TGATGGGGAG
*
42080395 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
42080415 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
42080433 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:42082319 original size:46 final size:46
Alignment explanation
Indices: 42082267--42082406 Score: 174
Period size: 46 Copynumber: 3.0 Consensus size: 46
42082257 GTGTGCTCTC
* *
42082267 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
42082313 TGATATGAAATGAACAAGACCATGGTTGAAAGATAACATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
42082359 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
42082405 TG
1 TG
42082407 TCAAAGATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 1 0.01
46 79 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:42086554 original size:35 final size:36
Alignment explanation
Indices: 42086514--42086585 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
42086504 TAACTTAATC
*
42086514 AAGCTTTCATGAT-AAAAAAAATCTATAAAAATCAA
1 AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
42086549 AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
1 AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
42086585 A
1 A
42086586 GAAAAATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 13 0.37
36 22 0.63
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.24
Consensus pattern (36 bp):
AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
Found at i:42086569 original size:19 final size:19
Alignment explanation
Indices: 42086514--42086569 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
42086504 TAACTTAATC
42086514 AAGCTTTCATGATAAAAAA
1 AAGCTTTCATGATAAAAAA
*
42086533 AA--TCT-AT-A-AAAATCAA
1 AAGCTTTCATGATAAAA--AA
42086549 AAGCTTTCATGATAAAAAA
1 AAGCTTTCATGATAAAAAA
42086568 AA
1 AA
42086570 ATCAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
14 4 0.14
15 1 0.04
16 6 0.21
17 2 0.07
18 2 0.07
19 8 0.29
20 1 0.04
21 4 0.14
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (19 bp):
AAGCTTTCATGATAAAAAA
Found at i:42087373 original size:12 final size:12
Alignment explanation
Indices: 42087356--42087380 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42087346 TGTGTGAATT
42087356 AGAAATAATCTA
1 AGAAATAATCTA
42087368 AGAAATAATCTA
1 AGAAATAATCTA
42087380 A
1 A
42087381 TAAGCAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AGAAATAATCTA
Found at i:42087597 original size:18 final size:18
Alignment explanation
Indices: 42087549--42087598 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
42087539 ATATCATGAG
42087549 ATATATACAA-AATATAT
1 ATATATACAACAATATAT
* **
42087566 ATTTATACTTCAATATAT
1 ATATATACAACAATATAT
*
42087584 ATATATAAAACAATA
1 ATATATACAACAATA
42087599 AGCATCATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATACAACAATATAT
Found at i:42092336 original size:27 final size:28
Alignment explanation
Indices: 42092252--42092349 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
42092242 CATGAGATTG
* * * *
42092252 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
42092281 GCACTAAGTGTACGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
42092309 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42092336 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
42092350 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42092360 original size:27 final size:27
Alignment explanation
Indices: 42092280--42092362 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
42092270 TAAATTGTAC
* * *
42092280 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
42092308 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
42092335 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
42092362 A
1 A
42092363 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:42092363 original size:29 final size:27
Alignment explanation
Indices: 42092252--42092363 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
42092242 CATGAGATTG
** * *
42092252 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
42092281 GCACTAAGTGTACGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
42092309 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
42092336 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
42092364 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:42096228 original size:226 final size:227
Alignment explanation
Indices: 42095834--42096285 Score: 888
Period size: 226 Copynumber: 2.0 Consensus size: 227
42095824 TTGGTTCTTC
42095834 TTGGCCGAATTGAAAAGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTCACCTTTAAGTTGATT
1 TTGGCCGAATTGAAAAGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTCACCTTTAAGTTGATT
42095899 AAGAAGCTCTTGAATATTCGGTGCCTAGGGGAAAAGTTTCTAAGAAGTTTGGCCATGCATGTAAC
66 AAGAAGCTCTTGAATATTCGGTGCCTAGGGGAAAAGTTTCTAAGAAGTTTGGCCATGCATGTAAC
42095964 TAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAA
131 TAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAA
42096029 TCTACCTAGCCATGGTTCAAA-CTTTGTTAAA
196 TCTACCTAGCCATGGTTCAAATCTTTGTTAAA
42096060 TTGGCCGAATTGAAAAGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTCACCTTTAAGTTGATT
1 TTGGCCGAATTGAAAAGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTCACCTTTAAGTTGATT
42096125 AAGAAGCTCTTGAATATTCGGTGCCTAGGGGAAAAGTTTCTAAGAAGTTTGGCCATGCATGTAAC
66 AAGAAGCTCTTGAATATTCGGTGCCTAGGGGAAAAGTTTCTAAGAAGTTTGGCCATGCATGTAAC
42096190 TAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAA
131 TAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAA
*
42096255 TCTACCTAGCCATGGTTCAAATTTTTGTTAA
196 TCTACCTAGCCATGGTTCAAATCTTTGTTAA
42096286 TTGATGGAGA
Statistics
Matches: 224, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
226 216 0.96
227 8 0.04
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (227 bp):
TTGGCCGAATTGAAAAGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTCACCTTTAAGTTGATT
AAGAAGCTCTTGAATATTCGGTGCCTAGGGGAAAAGTTTCTAAGAAGTTTGGCCATGCATGTAAC
TAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAA
TCTACCTAGCCATGGTTCAAATCTTTGTTAAA
Found at i:42097259 original size:29 final size:28
Alignment explanation
Indices: 42097223--42097300 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
42097213 TCATGAGATT
42097223 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
42097253 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
42097280 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
42097301 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:42097563 original size:173 final size:174
Alignment explanation
Indices: 42097254--42097579 Score: 555
Period size: 173 Copynumber: 1.9 Consensus size: 174
42097244 AATTGTACAG
* * *
42097254 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
* *
42097319 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
42097384 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
* * * *
42097428 CACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATGC
1 CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
*
42097493 GTGC-AACCCTATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
42097557 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
42097580 ACCTTGAGTT
Statistics
Matches: 142, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
173 80 0.56
174 62 0.44
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
CACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGC
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGA
Found at i:42098064 original size:119 final size:119
Alignment explanation
Indices: 42097853--42098089 Score: 456
Period size: 119 Copynumber: 2.0 Consensus size: 119
42097843 GTTTCCTGTT
42097853 GTGATAATTTTATTAATGGATGGTTGTGGAATGCTTATGGCTTACTGAGTTATATACTCATTCGG
1 GTGATAATTTTATTAATGGATGGTTGTGGAATGCTTATGGCTTACTGAGTTATATACTCATTCGG
42097918 TGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGCGTGATC
66 TGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGCGTGATC
*
42097972 GTGATAATTTTATTAATGGATGGTTGTGGAATGCTTATGGCTTACTGAGTTATATACTCATTTGG
1 GTGATAATTTTATTAATGGATGGTTGTGGAATGCTTATGGCTTACTGAGTTATATACTCATTCGG
*
42098037 TGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGTGTGAT
66 TGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGCGTGAT
42098090 GATACTCATT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 116 1.00
ACGTcount: A:0.18, C:0.14, G:0.23, T:0.46
Consensus pattern (119 bp):
GTGATAATTTTATTAATGGATGGTTGTGGAATGCTTATGGCTTACTGAGTTATATACTCATTCGG
TGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGCGTGATC
Found at i:42098131 original size:66 final size:66
Alignment explanation
Indices: 42098025--42098149 Score: 241
Period size: 66 Copynumber: 1.9 Consensus size: 66
42098015 ACTGAGTTAT
*
42098025 ATACTCATTTGGTGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGTGTGAT
1 ATACTCATTCGGTGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGTGTGAT
42098090 G
66 G
42098091 ATACTCATTCGGTGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTG
1 ATACTCATTCGGTGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTG
42098150 CATGATCGTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (66 bp):
ATACTCATTCGGTGTTTGCTTGTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGTGTGAT
G
Found at i:42101887 original size:50 final size:50
Alignment explanation
Indices: 42101831--42101980 Score: 300
Period size: 50 Copynumber: 3.0 Consensus size: 50
42101821 CCAATACAAA
42101831 CCATCAAGCAAACTTTTATCAACAAAAATAGATCCAAATACATACTCAAG
1 CCATCAAGCAAACTTTTATCAACAAAAATAGATCCAAATACATACTCAAG
42101881 CCATCAAGCAAACTTTTATCAACAAAAATAGATCCAAATACATACTCAAG
1 CCATCAAGCAAACTTTTATCAACAAAAATAGATCCAAATACATACTCAAG
42101931 CCATCAAGCAAACTTTTATCAACAAAAATAGATCCAAATACATACTCAAG
1 CCATCAAGCAAACTTTTATCAACAAAAATAGATCCAAATACATACTCAAG
42101981 GTGCAGCAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 100 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.22
Consensus pattern (50 bp):
CCATCAAGCAAACTTTTATCAACAAAAATAGATCCAAATACATACTCAAG
Found at i:42103082 original size:17 final size:18
Alignment explanation
Indices: 42103056--42103107 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 18
42103046 CATAGTCTTA
42103056 ATACTATATTATGCATAT
1 ATACTATATTATGCATAT
*
42103074 ATA-TATATTGT-CA-AT
1 ATACTATATTATGCATAT
*
42103089 A-ACTATATTATGTATAT
1 ATACTATATTATGCATAT
42103106 AT
1 AT
42103108 TTCATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
14 1 0.04
15 10 0.37
16 3 0.11
17 10 0.37
18 3 0.11
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (18 bp):
ATACTATATTATGCATAT
Found at i:42103121 original size:26 final size:26
Alignment explanation
Indices: 42103075--42103132 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
42103065 TATGCATATA
* *
42103075 TATATATTGTCAATAACTATATTATG
1 TATATATTGTCAATAACTATATCACG
42103101 TATATATT-TCATATATA-TATATCACG
1 TATATATTGTCA-ATA-ACTATATCACG
42103127 TATATA
1 TATATA
42103133 CATTTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 24 0.86
27 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (26 bp):
TATATATTGTCAATAACTATATCACG
Found at i:42103174 original size:9 final size:10
Alignment explanation
Indices: 42103147--42103178 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
42103137 TTAATATCTC
42103147 ATATATAT-T
1 ATATATATGT
42103156 ATATATATGT
1 ATATATATGT
42103166 ATATA-ATGT
1 ATATATATGT
42103175 ATAT
1 ATAT
42103179 TTTCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (10 bp):
ATATATATGT
Found at i:42103203 original size:26 final size:25
Alignment explanation
Indices: 42103174--42103229 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
42103164 GTATATAATG
* *
42103174 TATATTTTCTTTTTTAATACTACGTA
1 TATATTTT-ATTTCTAATACTACGTA
* *
42103200 TATATTTTATTTCTATTATTACGTA
1 TATATTTTATTTCTAATACTACGTA
42103225 TATAT
1 TATAT
42103230 CTCAATGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATTTTATTTCTAATACTACGTA
Found at i:42107528 original size:51 final size:51
Alignment explanation
Indices: 42107463--42107560 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
42107453 CCTCCGGCAG
42107463 TCCTCGTCGGTCCGGAGTCGAAACCGACGTTCTTTCTTGCACCTCGAGCAA
1 TCCTCGTCGGTCCGGAGTCGAAACCGACGTTCTTTCTTGCACCTCGAGCAA
*
42107514 TCCTCGTCGGTCCGGAGTCGAAATCGACGTTCTTTCTTGCACCTCGA
1 TCCTCGTCGGTCCGGAGTCGAAACCGACGTTCTTTCTTGCACCTCGA
42107561 ACAACGGACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.16, C:0.33, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCTCGTCGGTCCGGAGTCGAAACCGACGTTCTTTCTTGCACCTCGAGCAA
Found at i:42111122 original size:17 final size:18
Alignment explanation
Indices: 42111088--42111125 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
42111078 AAACGGAAAA
42111088 TTTTTGAGAATGTAACTT
1 TTTTTGAGAATGTAACTT
* *
42111106 TTTTTTAGAA-GTTACTT
1 TTTTTGAGAATGTAACTT
42111123 TTT
1 TTT
42111126 CTCTACCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (18 bp):
TTTTTGAGAATGTAACTT
Found at i:42111456 original size:14 final size:14
Alignment explanation
Indices: 42111423--42111479 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
42111413 AATTTATATT
42111423 TATTAAAATAAA-A
1 TATTAAAATAAATA
*
42111436 AATTTAAAATAAATA
1 TA-TTAAAATAAATA
*
42111451 TATTAAATTAAATA
1 TATTAAAATAAATA
42111465 TTTATTAATAATAAA
1 --TATTAA-AATAAA
42111480 CTAATTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 1 0.03
14 21 0.60
15 2 0.06
16 6 0.17
17 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTAAAATAAATA
Found at i:42115507 original size:28 final size:30
Alignment explanation
Indices: 42115476--42115539 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
42115466 TAGTTTTGAT
* * *
42115476 ATAAATATATTAATTTA-TTTTTATTAA-A
1 ATAAATAAATTAACTTACTCTTTATTAATA
42115504 ATAAATAAATTAACTTACGTCTTTATTAATA
1 ATAAATAAATTAACTTAC-TCTTTATTAATA
42115535 ATAAA
1 ATAAA
42115540 CTAATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 15 0.50
30 9 0.30
31 6 0.20
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (30 bp):
ATAAATAAATTAACTTACTCTTTATTAATA
Found at i:42128078 original size:29 final size:29
Alignment explanation
Indices: 42128042--42128101 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
42128032 GTCCAATGAT
42128042 CCTTTATTTTTCCATCATTGGAATCCAAC
1 CCTTTATTTTTCCATCATTGGAATCCAAC
* *
42128071 CCTTTATTTTTCTATCTTTGGAATCCAAC
1 CCTTTATTTTTCCATCATTGGAATCCAAC
42128100 CC
1 CC
42128102 ACCAGCCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.28, G:0.07, T:0.43
Consensus pattern (29 bp):
CCTTTATTTTTCCATCATTGGAATCCAAC
Found at i:42131476 original size:22 final size:21
Alignment explanation
Indices: 42131441--42131481 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
42131431 ATTTAATTTA
42131441 ATAATAATTAAATTATTTTTGT
1 ATAATAATTAAATT-TTTTTGT
42131463 ATAACTAATT-AATTTTTTT
1 ATAA-TAATTAAATTTTTTT
42131482 AATATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATAATAATTAAATTTTTTTGT
Found at i:42137148 original size:38 final size:38
Alignment explanation
Indices: 42137090--42137174 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
42137080 TTTATTTCCA
42137090 ATAAGTCTGTTCTTATTTCTTTTGTCTATAGCAACCCCG
1 ATAAGT-TGTTCTTATTTCTTTTGTCTATAGCAACCCCG
*
42137129 ATAGGTTGTTCTTATTTCTTTTGTCTATAGCAACCCCG
1 ATAAGTTGTTCTTATTTCTTTTGTCTATAGCAACCCCG
42137167 ATAAGTTG
1 ATAAGTTG
42137175 AAACGAAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 39 0.89
39 5 0.11
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (38 bp):
ATAAGTTGTTCTTATTTCTTTTGTCTATAGCAACCCCG
Found at i:42142568 original size:23 final size:23
Alignment explanation
Indices: 42142516--42142568 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
42142506 GGAGAAGGTA
*
42142516 ATAGAGAAAAAAAAAGGAAAGAAG
1 ATAG-GAAAAAAAAAGGAAACAAG
* *
42142540 AAAGGAAAAAGAAAA-GAAACATG
1 ATAGGAAAAA-AAAAGGAAACAAG
42142563 ATAGGA
1 ATAGGA
42142569 GGGACGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.06
Consensus pattern (23 bp):
ATAGGAAAAAAAAAGGAAACAAG
Found at i:42148468 original size:17 final size:17
Alignment explanation
Indices: 42148423--42148469 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
42148413 AAATTTCAAT
42148423 AAATAA-AAAATATATA
1 AAATAATAAAATATATA
* *
42148439 AAATTATTAAATAT-TA
1 AAATAATAAAATATATA
42148455 AAATAATAATAATAT
1 AAATAATAA-AATAT
42148470 GAGCAGACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATAATAAAATATATA
Found at i:42151897 original size:35 final size:35
Alignment explanation
Indices: 42151874--42152066 Score: 257
Period size: 35 Copynumber: 5.5 Consensus size: 35
42151864 GGCAAAGTGC
*
42151874 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
42151909 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* * * *
42151944 GAAATATAGGTATGGTATTGTCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* *
42151979 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTAT-CCATACCGAGTTGA
* *
42152014 GAAACGTAGGTATGGTATTTTCCATACCGAGTAT-A
1 GAAATGTAGGTATGGTATTATCCATACCGAGT-TGA
42152049 -AAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
42152067 TCAATGAGGA
Statistics
Matches: 139, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
34 18 0.13
35 119 0.86
36 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
Found at i:42152041 original size:105 final size:104
Alignment explanation
Indices: 42151874--42152066 Score: 300
Period size: 105 Copynumber: 1.8 Consensus size: 104
42151864 GGCAAAGTGC
* *
42151874 GAAATGTAGGTATGGTATTATCCATACCGAGTTGTGAAATGTAGGTATGGTATCATCCATACCGA
1 GAAATGTAGGTATGGCATTATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGA
42151939 GT-TGAGAAATATAGGTATGGTATTGTCCATACTGAGTTAA
66 GTAT-A-AAATATAGGTATGGTATTGTCCATACTGAGTTAA
**
42151979 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTGTGAAACGTAGGTATGGTATTTTCCATACCG
1 GAAATGTAGGTATGGCATTAT-CCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCG
*
42152043 AGTATAAAATGTAGGTATGGTATT
65 AGTATAAAATATAGGTATGGTATT
42152067 TCAATGAGGA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
104 18 0.22
105 62 0.77
106 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (104 bp):
GAAATGTAGGTATGGCATTATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGA
GTATAAAATATAGGTATGGTATTGTCCATACTGAGTTAA
Found at i:42157886 original size:14 final size:15
Alignment explanation
Indices: 42157859--42157888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42157849 AAAATTTGAC
*
42157859 TTTTTGGACTTTTTT
1 TTTTTGAACTTTTTT
42157874 TTTTTGAACTTTTTT
1 TTTTTGAACTTTTTT
42157889 GAAAGAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TTTTTGAACTTTTTT
Found at i:42160512 original size:5 final size:6
Alignment explanation
Indices: 42160497--42160532 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
42160487 ATTTAGTTTC
* *
42160497 TTTTTG TTTTTG TTTTTG TTTTTG GTTATG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
42160533 CATATTTACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.19, T:0.78
Consensus pattern (6 bp):
TTTTTG
Done.