Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 223 of 356
Found at i:73118078 original size:46 final size:46
Alignment explanation
Indices: 73118028--73118203 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
73118018 TGGTTGAGCA
73118028 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
73118074 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
73118119 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
73118167 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
73118204 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 60 0.56
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:73118184 original size:93 final size:93
Alignment explanation
Indices: 73118025--73118196 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
73118015 GGATGGTTGA
* * *
73118025 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
73118090 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
73118118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
73118183 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73118197 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73121190 original size:14 final size:15
Alignment explanation
Indices: 73121141--73121190 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
73121131 GTATCTTGGG
*
73121141 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
73121156 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
73121171 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
73121185 TTTCTT
1 TTTCTT
73121191 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:73123630 original size:46 final size:46
Alignment explanation
Indices: 73123580--73123755 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
73123570 TGGTTTAGCA
*
73123580 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACG
* * *
73123626 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA--TA-AGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--A-ACG
* * ** *
73123673 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACG
* * * * *
73123719 CCCGAGCTTGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73123756 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
44 4 0.04
46 63 0.59
47 30 0.28
49 1 0.01
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACG
Found at i:73123736 original size:93 final size:93
Alignment explanation
Indices: 73123577--73123747 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
73123567 GGATGGTTTA
* ***
73123577 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGAAAACACCCGAACTCGTTGAGT
73123642 TGAGTCCGAGTTCATAAGATGTAACTAG
66 TGAGTCCGAGTTCATAAGATGTAACTAG
* ** * *
73123670 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTCATGGATGCGAACACCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGAAAACACCCGAACTCGTTGAGT
*
73123735 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
73123748 GCTTATGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGAAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCATAAGATGTAACTAG
Found at i:73125826 original size:46 final size:46
Alignment explanation
Indices: 73125775--73125899 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 46
73125765 GGTTGAGCAT
* *
73125775 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGC
* * *
73125821 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGC
* * *
73125867 CCGAGCTCATTGAGTTGAGTTCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
73125900 GGGGCGGGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGC
Found at i:73129938 original size:30 final size:31
Alignment explanation
Indices: 73129902--73129998 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
73129892 AGCTCACTCC
*
73129902 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
73129932 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
73129962 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
73129992 TAGCTCA
1 TAGCTCA
73129999 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:73133839 original size:20 final size:20
Alignment explanation
Indices: 73133814--73133868 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
73133804 TGTGGTTCAA
*
73133814 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
73133834 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
73133854 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
73133869 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:73141928 original size:13 final size:13
Alignment explanation
Indices: 73141910--73141934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73141900 GATATAAATT
73141910 CACATAAAATAAA
1 CACATAAAATAAA
73141923 CACATAAAATAA
1 CACATAAAATAA
73141935 TTTTTAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
CACATAAAATAAA
Found at i:73146174 original size:31 final size:31
Alignment explanation
Indices: 73146136--73146196 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
73146126 GTCCATAAAT
*
73146136 CTCTGACTGATATATTTCTAACGAAACTAAC
1 CTCTGACTAATATATTTCTAACGAAACTAAC
* *
73146167 CTCTGACTAATATATTTCTTATGAAACTAA
1 CTCTGACTAATATATTTCTAACGAAACTAA
73146197 GTCTAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (31 bp):
CTCTGACTAATATATTTCTAACGAAACTAAC
Found at i:73148867 original size:43 final size:43
Alignment explanation
Indices: 73148786--73148871 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
73148776 AAATCGTACA
* *
73148786 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAAACACATATCG
73148829 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCATAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-ATAAACACATATCG
73148872 GAATCACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATATAAACACATATCG
Found at i:73150079 original size:14 final size:14
Alignment explanation
Indices: 73150062--73150095 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
73150052 TTTCACAGAT
73150062 AATAATTCACATAA
1 AATAATTCACATAA
*
73150076 AATAA-ACACATAA
1 AATAATTCACATAA
73150089 AATAATT
1 AATAATT
73150096 TTTAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAATTCACATAA
Found at i:73150372 original size:38 final size:38
Alignment explanation
Indices: 73150329--73150490 Score: 164
Period size: 38 Copynumber: 4.0 Consensus size: 38
73150319 TTTCAAATTA
*
73150329 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* *
73150367 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* * *
73150408 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCAGGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
*
73150452 ACATGT-TCAACCATGGTATATCCACTTAGCACCACGTT
1 ACATGTAT-AACCATGGCATATCCACTTAGCACCACGTT
73150490 A
1 A
73150491 ATGAATCAAT
Statistics
Matches: 102, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
37 1 0.01
38 61 0.60
39 1 0.01
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 1 0.01
47 26 0.25
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:73150432 original size:85 final size:85
Alignment explanation
Indices: 73150336--73150520 Score: 352
Period size: 85 Copynumber: 2.2 Consensus size: 85
73150326 TTAACATGTA
*
73150336 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTCAACCATGGTATATCCACTTAGCACCA
73150401 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
*
73150421 TAACCGTGGCATATCCACTTAGCACCAGGTTACATGTTCAACCATGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTCAACCATGGTATATCCACTTAGCACCA
73150486 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
73150506 TAACCGTGGCATATC
1 TAACCGTGGCATATC
73150521 ATGTAACACC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTCAACCATGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:73150443 original size:47 final size:47
Alignment explanation
Indices: 73150374--73150520 Score: 168
Period size: 47 Copynumber: 3.3 Consensus size: 47
73150364 GTTACATGTT
*
73150374 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
73150421 TAACCGTGGCATATCCACTTAGCACCA-GGT--T--A-C-ATGT-T-
1 TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
73150459 CAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
73150506 TAACCGTGGCATATC
1 TAACCATGGCATATC
73150521 ATGTAACACC
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
38 24 0.30
39 3 0.04
40 3 0.04
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 3 0.04
47 37 0.47
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (47 bp):
TAACCATGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:73156581 original size:22 final size:23
Alignment explanation
Indices: 73156535--73156581 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
73156525 ATTTCGATAA
* *
73156535 CCTTTATGGCATATTCTGATTTGG
1 CCTTTATGGCA-ATTCTAATATGG
73156559 CCTTTATGGC-ATTCTAATATGG
1 CCTTTATGGCAATTCTAATATGG
73156581 C
1 C
73156582 TTGGTGGCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (23 bp):
CCTTTATGGCAATTCTAATATGG
Found at i:73156615 original size:20 final size:20
Alignment explanation
Indices: 73156590--73156633 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
73156580 GCTTGGTGGC
*
73156590 GCATTCTGTTAGCCTTTGTA
1 GCATTCTGCTAGCCTTTGTA
*
73156610 GCATTCTGCTAGCCTTTGTG
1 GCATTCTGCTAGCCTTTGTA
73156630 GCAT
1 GCAT
73156634 ACTCTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.41
Consensus pattern (20 bp):
GCATTCTGCTAGCCTTTGTA
Found at i:73156674 original size:25 final size:23
Alignment explanation
Indices: 73156621--73156686 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
73156611 CATTCTGCTA
*
73156621 GCCTTTGTGGCATACTCTATGTATT
1 GCCTTTGTGACATA-T-TATGTATT
*
73156646 GCCTTTGTGACGTATTATGTATCT
1 GCCTTTGTGACATATTATGTAT-T
73156670 CGCCTTTGTGACATATT
1 -GCCTTTGTGACATATT
73156687 CTATCAGGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 7 0.19
24 2 0.06
25 27 0.75
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (23 bp):
GCCTTTGTGACATATTATGTATT
Found at i:73158680 original size:20 final size:19
Alignment explanation
Indices: 73158657--73158721 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
73158647 AAGCTCAAAC
73158657 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
73158677 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
73158697 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
73158717 GAGCT
1 GAGCT
73158722 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:73159061 original size:14 final size:14
Alignment explanation
Indices: 73159014--73159061 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
73159004 GTACGAATGG
*
73159014 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
73159028 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
73159042 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
73159056 ATTGGT
1 AATGGT
73159062 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:73165974 original size:14 final size:14
Alignment explanation
Indices: 73165957--73165996 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
73165947 CGAATGGAAT
*
73165957 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
*
73165971 GGTAGGAACAAAAT
1 GGTAGGAACAAAAG
*
73165985 GGTATGAACAAA
1 GGTAGGAACAAA
73165997 TCGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.33, T:0.12
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:73171821 original size:19 final size:19
Alignment explanation
Indices: 73171797--73171834 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
73171787 AGCCGAACCT
73171797 ATCACTATTCCTACACTTA
1 ATCACTATTCCTACACTTA
73171816 ATCACTATTCCTACACTTA
1 ATCACTATTCCTACACTTA
73171835 CTTGAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCACTATTCCTACACTTA
Found at i:73174568 original size:20 final size:20
Alignment explanation
Indices: 73174545--73174598 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
73174535 AGTTTTTCCC
*
73174545 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
73174565 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
73174585 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
73174599 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:73174580 original size:30 final size:30
Alignment explanation
Indices: 73174545--73174618 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
73174535 AGTTTTTCCC
73174545 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
73174575 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
73174605 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
73174619 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:73174608 original size:20 final size:20
Alignment explanation
Indices: 73174545--73174609 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
73174535 AGTTTTTCCC
* * * *
73174545 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
73174565 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
73174584 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
73174605 AGCTC
1 AGCTC
73174610 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:73178795 original size:24 final size:24
Alignment explanation
Indices: 73178768--73178847 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
73178758 CCATTGAGCG
73178768 AGAAAAGGAGAAAGAGATTGAAAA
1 AGAAAAGGAGAAAGAGATTGAAAA
** * * **
73178792 AGAAATCGAAAAAGTGAGAGAAAA
1 AGAAAAGGAGAAAGAGATTGAAAA
* *
73178816 AGAAAATGAAGAAAAGAAAATTGAAAA
1 AGAAAA-GGAG-AAAG-AGATTGAAAA
73178843 AGAAA
1 AGAAA
73178848 TTGAGAATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
24 23 0.59
25 1 0.03
26 4 0.10
27 11 0.28
ACGTcount: A:0.66, C:0.01, G:0.24, T:0.09
Consensus pattern (24 bp):
AGAAAAGGAGAAAGAGATTGAAAA
Found at i:73178848 original size:12 final size:12
Alignment explanation
Indices: 73178778--73178875 Score: 61
Period size: 12 Copynumber: 7.6 Consensus size: 12
73178768 AGAAAAGGAG
*
73178778 AAAGAGATTGAA
1 AAAGAAATTGAA
*
73178790 AAAGAAATCGAA
1 AAAGAAATTGAA
** **
73178802 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
73178814 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
73178828 AAAGAAAATTGAA
1 AAAG-AAATTGAA
73178841 AAAGAAATTGAGAA
1 AAAGAAATT--GAA
*
73178855 TGAAAAAAATTGAA
1 --AAAGAAATTGAA
73178869 AAAGAAA
1 AAAGAAA
73178876 AAGCAAATAA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
12 35 0.53
13 6 0.09
14 12 0.18
15 5 0.08
16 8 0.12
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.12
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:73178864 original size:28 final size:27
Alignment explanation
Indices: 73178811--73178876 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
73178801 AAAAGTGAGA
*
73178811 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAAAAAATT
*
73178838 GAAAAAGAAATTG-AGAATGAAAAAAATT
1 GAAAAAGAAAATGAAGAA--AAAAAAATT
73178866 GAAAAAGAAAA
1 GAAAAAGAAAA
73178877 AGCAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 12 0.35
28 18 0.53
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAAAAAATT
Found at i:73178891 original size:27 final size:26
Alignment explanation
Indices: 73178811--73178896 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
73178801 AAAAGTGAGA
73178811 GAAAAAGAAAATGAAGA-AAAGAAAATT
1 GAAAAAGAAAATGAA-ATAAAG-AAATT
* *
73178838 GAAAAAGAAATTGAGAATGAAAAAAATT
1 GAAAAAGAAAATGA-AAT-AAAGAAATT
*
73178866 GAAAAAGAAAAAGCAAATAAAGAAATT
1 GAAAAAGAAAATG-AAATAAAGAAATT
73178893 GAAA
1 GAAA
73178897 GAGAGCTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 26 0.52
28 20 0.40
29 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.17, T:0.13
Consensus pattern (26 bp):
GAAAAAGAAAATGAAATAAAGAAATT
Found at i:73178930 original size:33 final size:33
Alignment explanation
Indices: 73178893--73178955 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
73178883 TAAAGAAATT
73178893 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
73178926 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
73178956 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:73180757 original size:20 final size:20
Alignment explanation
Indices: 73180734--73180787 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
73180724 AGTTTTTCCC
*
73180734 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
73180754 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
73180774 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
73180788 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:73180769 original size:30 final size:30
Alignment explanation
Indices: 73180734--73180807 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
73180724 AGTTTTTCCC
73180734 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
73180764 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
73180794 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
73180808 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:73180797 original size:20 final size:20
Alignment explanation
Indices: 73180734--73180798 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
73180724 AGTTTTTCCC
* * * *
73180734 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
73180754 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
73180773 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
73180794 AGCTC
1 AGCTC
73180799 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:73194454 original size:21 final size:20
Alignment explanation
Indices: 73194430--73194472 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
73194420 GAATGAGCCA
73194430 AAACGAGCTAAAATCAAGCTC
1 AAACGAGCTAAAA-CAAGCTC
* *
73194451 AAACGAGCTGAAACGAGCTC
1 AAACGAGCTAAAACAAGCTC
73194471 AA
1 AA
73194473 GTGAGCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.12
Consensus pattern (20 bp):
AAACGAGCTAAAACAAGCTC
Found at i:73200320 original size:33 final size:33
Alignment explanation
Indices: 73200282--73200344 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
73200272 GATTACTCAC
73200282 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
73200315 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
73200345 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:73200368 original size:6 final size:6
Alignment explanation
Indices: 73200359--73200465 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
73200349 TCTTTTTTCG
* * * **
73200359 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT C-TTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
73200409 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
73200457 -GTTTT CTTT
1 CTTTTT CTTT
73200466 CAATTTCTTT
Statistics
Matches: 73, Mismatches: 24, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
5 9 0.12
6 52 0.71
7 9 0.12
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:73200390 original size:14 final size:15
Alignment explanation
Indices: 73200361--73200398 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
73200351 TTTTTTCGCT
73200361 TTTTC-TTT-TTCAA
1 TTTTCTTTTCTTCAA
73200374 TTTTCTTTTCTTC-A
1 TTTTCTTTTCTTCAA
73200388 TTTTCTTTTCT
1 TTTTCTTTTCT
73200399 CTCACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 15 0.65
15 3 0.13
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTCTTCAA
Found at i:73200456 original size:18 final size:18
Alignment explanation
Indices: 73200359--73200461 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
73200349 TCTTTTTTCG
73200359 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
*
73200378 CTTTTCTTCATTTTC-TTTT
1 C-TTT-TTCTTTTTCATTTT
* **
73200397 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
73200415 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
73200433 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
73200451 CTTTTTGTTTT
1 CTTTTTCTTTT
73200462 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
17 7 0.11
18 42 0.64
19 6 0.09
20 3 0.05
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:73201535 original size:23 final size:24
Alignment explanation
Indices: 73201493--73201550 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
73201483 TTTAAACTTG
73201493 ATTTTTTTTGCTCACCTTTTTTTTC
1 ATTTTTTTTGCTCA-CTTTTTTTTC
73201518 -TTTTTTTTGCTCGA-TTTTTTTTC
1 ATTTTTTTTGCTC-ACTTTTTTTTC
*
73201541 ACTTTTTTTG
1 ATTTTTTTTG
73201551 AATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.30
24 20 0.67
25 1 0.03
ACGTcount: A:0.07, C:0.16, G:0.07, T:0.71
Consensus pattern (24 bp):
ATTTTTTTTGCTCACTTTTTTTTC
Found at i:73203697 original size:23 final size:22
Alignment explanation
Indices: 73203645--73203697 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
73203635 TCCACGTCTT
*
73203645 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
73203667 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
73203690 TTTCTTTT
1 TTTCTTTT
73203698 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:73222459 original size:56 final size:56
Alignment explanation
Indices: 73222368--73222490 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
73222358 GAGATTGGCG
* *
73222368 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* * *
73222425 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCT
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
73222480 CTGAGTGTGCG
1 CTAAGTGTGCG
73222491 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:73222477 original size:27 final size:28
Alignment explanation
Indices: 73222368--73222490 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
73222358 GAGATTGGCG
* * * *
73222368 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
73222397 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
73222425 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
73222453 CTAAGTGTGCGAG-TTGATTATATAGCT
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
73222480 CTGAGTGTGCG
1 CTAAGTGTGCG
73222491 GACTTAATAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 23 0.26
28 50 0.57
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:73222501 original size:27 final size:27
Alignment explanation
Indices: 73222393--73222503 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
73222383 TAAATTGTAC
* *
73222393 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
73222421 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
73222449 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
73222476 AGCTCTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
73222503 A
1 A
73222504 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 29 0.38
28 48 0.62
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:73224178 original size:40 final size:40
Alignment explanation
Indices: 73224141--73224366 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
73224131 GCTACTCGTT
* *
73224141 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
73224181 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
73224221 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
73224261 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * * *
73224301 CAAATGCCTTC-GGATCTTAGTCCGGGTATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
73224342 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
73224367 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:73233452 original size:40 final size:40
Alignment explanation
Indices: 73233371--73233554 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
73233361 TTGAATGCTG
* *
73233371 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAG-AAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* *
73233409 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
73233449 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
73233489 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
73233530 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73233555 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 18 0.14
39 4 0.03
40 103 0.80
41 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:73241309 original size:40 final size:40
Alignment explanation
Indices: 73241228--73241411 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
73241218 TTGAATGCTG
* *
73241228 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAG-AAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* *
73241266 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
73241306 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
73241346 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
73241387 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73241412 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 18 0.14
39 4 0.03
40 103 0.80
41 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:73243174 original size:40 final size:40
Alignment explanation
Indices: 73243137--73243362 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
73243127 GCTACTCGTT
* *
73243137 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
73243177 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
73243217 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
73243257 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * * *
73243297 CAAATGCCTTC-GGATCTTAGTCCGGGTATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
73243338 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
73243363 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 150 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:73251543 original size:42 final size:42
Alignment explanation
Indices: 73251436--73251557 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
73251426 TACCGTACCA
* * *
73251436 ATGCCATATCCCAGATATGGTCATAAATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* *
73251478 ATGCCAATAACCCAGAAATGGTCTTACATG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
*
73251521 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
73251558 GTAACCCTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 33 0.48
43 36 0.52
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:73255319 original size:39 final size:39
Alignment explanation
Indices: 73255263--73255421 Score: 221
Period size: 39 Copynumber: 4.1 Consensus size: 39
73255253 CATGGTATTT
73255263 GAAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
* * *
73255302 GGAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
1 GAAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
* * *
73255341 GAAATATATCCAGACTTGAAGTCCGCAGGCTATGTGCTG
1 GAAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
* * *
73255380 GAAATATATCCAGACTTGTA-GTCCGTAGGCTACATGCTG
1 GAAATATATCCAGACATG-AGGTCCGCAGGCTATATGCTG
73255419 GAA
1 GAA
73255422 TGGTACCCGG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 108 0.99
40 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (39 bp):
GAAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
Found at i:73267004 original size:43 final size:43
Alignment explanation
Indices: 73266912--73267008 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
73266902 ATTATTGGAC
* * * *
73266912 AAACCGAAGCATTTATACTAGCACACACAATGCATCATCGAAT
1 AAACCGAAGTAATTATACTAGCACACAAAATGCATCATAGAAT
* *
73266955 ATACCGAAGTAATTATACTAGCACATAAAATGCATCATTAG-AT
1 AAACCGAAGTAATTATACTAGCACACAAAATGCATCA-TAGAAT
73266998 AAACCGAAGTA
1 AAACCGAAGTA
73267009 TAACTTGTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (43 bp):
AAACCGAAGTAATTATACTAGCACACAAAATGCATCATAGAAT
Found at i:73268900 original size:41 final size:41
Alignment explanation
Indices: 73268809--73268909 Score: 134
Period size: 41 Copynumber: 2.4 Consensus size: 41
73268799 CAACTATAAG
*
73268809 TGGCACTTAGTGTGCAATTCGACATAGCTTCGGCTATATATA
1 TGGCACTTAGTGTGCAATTCGACATAGATTCGGC-ATATATA
* *
73268851 TGGCACTTAGTGTGCGAGA-TCGAGATAGATTTGGC-TATATA
1 TGGCACTTAGTGTGC-A-ATTCGACATAGATTCGGCATATATA
73268892 TGGCACTTAGTGTGCAAT
1 TGGCACTTAGTGTGCAAT
73268910 ATGAGGCTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 21 0.40
42 15 0.28
43 14 0.26
44 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (41 bp):
TGGCACTTAGTGTGCAATTCGACATAGATTCGGCATATATA
Found at i:73270004 original size:12 final size:12
Alignment explanation
Indices: 73269987--73270013 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
73269977 ATAGGTTTGG
73269987 CACGGCCTAGCA
1 CACGGCCTAGCA
73269999 CACGGCCTAGCA
1 CACGGCCTAGCA
73270011 CAC
1 CAC
73270014 AGGCGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.22, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:73271809 original size:93 final size:93
Alignment explanation
Indices: 73271695--73271865 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
73271685 GCCCATAAGC
* * *
73271695 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
73271760 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
*
73271788 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
73271853 CGAGTTCGGATGC
66 CGAGTTCGGATGC
73271866 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:73271862 original size:46 final size:46
Alignment explanation
Indices: 73271687--73271862 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73271677 TGTAACCCGC
* * * * *
73271687 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
73271733 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
73271783 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
73271826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
73271863 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.56
47 30 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:73271881 original size:46 final size:46
Alignment explanation
Indices: 73271736--73271874 Score: 153
Period size: 47 Copynumber: 3.0 Consensus size: 46
73271726 TTCGCATCCA
73271736 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * *
73271784 TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
73271829 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
73271875 CTAGTGACAT
Statistics
Matches: 77, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 29 0.38
47 31 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:73292001 original size:47 final size:48
Alignment explanation
Indices: 73291931--73292062 Score: 178
Period size: 47 Copynumber: 2.8 Consensus size: 48
73291921 CACAATCGAT
* * *
73291931 AAGTACATATACCACGGCCCGTAGCCAAATCAAGGTAACTGATCTC-G
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTGATCCCAG
* * *
73291978 GAGTACCTAT-CACATGGCTCGTAGCCAAATCAAGGTAACTTATCCCAG
1 AAGTACCTATAC-CATGGCCCGTAGCCAAATCAAGGTAACTGATCCCAG
*
73292026 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
73292063 TTATTCGCAC
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.01
47 38 0.52
48 33 0.45
49 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTGATCCCAG
Found at i:73293059 original size:32 final size:32
Alignment explanation
Indices: 73293018--73293085 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
73293008 GAATCGATCT
73293018 AGAGTCTGCAAATCATTCCCATTGTCGGGTTG
1 AGAGTCTGCAAATCATTCCCATTGTCGGGTTG
*
73293050 AGAGTCTGCAAATCATTCCTATTGTCGGGTTG
1 AGAGTCTGCAAATCATTCCCATTGTCGGGTTG
73293082 AGAG
1 AGAG
73293086 CGTCAACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (32 bp):
AGAGTCTGCAAATCATTCCCATTGTCGGGTTG
Found at i:73294258 original size:46 final size:46
Alignment explanation
Indices: 73294185--73294421 Score: 332
Period size: 46 Copynumber: 5.1 Consensus size: 46
73294175 TGATGTCTTA
* * *
73294185 GTATCTTTCAACTATGGTTTTACTCATTTTC-TATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATG
* * *** *
73294231 GTATCTTTCAACCATGGACTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATG
* *
73294278 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
*
73294324 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
*
73294370 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
73294416 GTATCT
1 GTATCT
73294422 CACGTTGCCA
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 137 0.79
47 37 0.21
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
Found at i:73294426 original size:18 final size:18
Alignment explanation
Indices: 73294403--73294439 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
73294393 ACATTTCATA
73294403 TCACGTTGCCATGGTATC
1 TCACGTTGCCATGGTATC
73294421 TCACGTTGCCATGGTATC
1 TCACGTTGCCATGGTATC
73294439 T
1 T
73294440 TTCAACCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (18 bp):
TCACGTTGCCATGGTATC
Found at i:73294429 original size:64 final size:64
Alignment explanation
Indices: 73294357--73294485 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
73294347 TCATTTCATA
73294357 TCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATC
1 TCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATC
* *
73294421 TCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATC
1 TCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATC
73294485 T
1 T
73294486 TTCAACCATG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (64 bp):
TCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATC
Found at i:73294516 original size:46 final size:46
Alignment explanation
Indices: 73294425--73294516 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
73294415 GGTATCTCAC
** *
73294425 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCAAATCAG
73294471 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCAAATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCAAATCAG
73294517 AGAGCACACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCAAATCAG
Found at i:73301330 original size:32 final size:33
Alignment explanation
Indices: 73301289--73301353 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
73301279 TTAATGTGTA
73301289 AAAATGCCCAAATGTATATTTTTGGACTAAATT
1 AAAATGCCCAAATGTATATTTTTGGACTAAATT
73301322 AAAA-GCCCAAATGTATATTTTTGGACTAAATT
1 AAAATGCCCAAATGTATATTTTTGGACTAAATT
73301354 GAATAAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (33 bp):
AAAATGCCCAAATGTATATTTTTGGACTAAATT
Found at i:73304745 original size:14 final size:15
Alignment explanation
Indices: 73304720--73304756 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
73304710 CCTGTAGAAA
73304720 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
73304735 TTAAA-TAAACTAA-
1 TTAAATTAAACTAAG
*
73304748 TGAAATTAA
1 TTAAATTAA
73304757 GTAAAAGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:73306611 original size:24 final size:25
Alignment explanation
Indices: 73306575--73306621 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
73306565 TAGCCTGAAA
73306575 TTAGATAATTTAGGTT-GTTTATAT
1 TTAGATAATTTAGGTTAGTTTATAT
*
73306599 TTAGACTAA-TTAGTTTAGTTTAT
1 TTAGA-TAATTTAGGTTAGTTTAT
73306622 TAGACTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (25 bp):
TTAGATAATTTAGGTTAGTTTATAT
Found at i:73308482 original size:18 final size:17
Alignment explanation
Indices: 73308449--73308483 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
73308439 AATCCTTTTG
73308449 TTTAATTTTCTTATTTA
1 TTTAATTTTCTTATTTA
*
73308466 TTTATTTTTCGTTATTTA
1 TTTAATTTTC-TTATTTA
73308484 ATTTTATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTAATTTTCTTATTTA
Found at i:73308854 original size:24 final size:25
Alignment explanation
Indices: 73308808--73308857 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
73308798 TTAGTTGCGG
73308808 AAACGTAGTATATAAAAAAAAACTA
1 AAACGTAGTATATAAAAAAAAACTA
73308833 AAACGTAGTATAT-AAAAAAAACTA
1 AAACGTAGTATATAAAAAAAAACTA
73308857 A
1 A
73308858 GATTTAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (25 bp):
AAACGTAGTATATAAAAAAAAACTA
Found at i:73309829 original size:28 final size:28
Alignment explanation
Indices: 73309798--73309900 Score: 102
Period size: 28 Copynumber: 3.7 Consensus size: 28
73309788 CATACATGCG
* *
73309798 TATGGCCCACTAGGCTCAATCTCTTTCA
1 TATGGCCCACTAGGCCCAATCACTTTCA
* * *
73309826 TATGGCCCATTAAGCCCATTCACATTT-A
1 TATGGCCCACTAGGCCCAATCAC-TTTCA
* * *
73309854 TGTGGCCCATTAGGCCCAAATCACATTCA
1 TATGGCCCACTAGGCCC-AATCACTTTCA
73309883 TATGG-CCACTAGGCCCAA
1 TATGGCCCACTAGGCCCAA
73309901 ACCACATTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.03
28 46 0.75
29 13 0.21
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACTTTCA
Found at i:73310167 original size:16 final size:16
Alignment explanation
Indices: 73310125--73310167 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
73310115 GTAGCCAAAC
*
73310125 TTTCGGCTTTTTTGCA
1 TTTCGGCTTTTTAGCA
**
73310141 TTTCAACTTTTTAGCA
1 TTTCGGCTTTTTAGCA
*
73310157 TTTCGGGTTTT
1 TTTCGGCTTTT
73310168 CAGGATTTGC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTTAGCA
Found at i:73314394 original size:28 final size:28
Alignment explanation
Indices: 73314363--73314475 Score: 122
Period size: 28 Copynumber: 4.0 Consensus size: 28
73314353 CATACATGCG
*
73314363 TATGGCCCATTAGGCCCAATCTC-TTTCA
1 TATGGCCCATTAGGCCCAATCACATTT-A
*
73314391 TATGGCCCATTAGGCCCATTCACATTTA
1 TATGGCCCATTAGGCCCAATCACATTTA
* *
73314419 TGTGGCCCATTAGGCCCAAATCACATTCA
1 TATGGCCCATTAGGCCC-AATCACATTTA
* * *
73314448 TATAG-CCACTGGGCCCAAATCACATTTA
1 TATGGCCCATTAGGCCC-AATCACATTTA
73314476 CAGTCATGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 58 0.79
29 15 0.21
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
TATGGCCCATTAGGCCCAATCACATTTA
Found at i:73314463 original size:56 final size:57
Alignment explanation
Indices: 73314365--73314475 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 57
73314355 TACATGCGTA
* * * * *
73314365 TGGCCCATTAGGCCCAATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCATTAGGCCCAATCACATTCATATAGCCCACTAGGCCCAAATCACATTTATG
*
73314421 TGGCCCATTAGGCCCAAATCACATTCATATAG-CCACTGGGCCCAAATCACATTTA
1 TGGCCCATTAGGCCC-AATCACATTCATATAGCCCACTAGGCCCAAATCACATTTA
73314476 CAGTCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 24 0.51
57 23 0.49
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
TGGCCCATTAGGCCCAATCACATTCATATAGCCCACTAGGCCCAAATCACATTTATG
Found at i:73314739 original size:16 final size:16
Alignment explanation
Indices: 73314695--73314732 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
73314685 AAACTTTCGG
*
73314695 CTTTTCGACATTTTGA
1 CTTTTCGGCATTTTGA
73314711 CTTTTCGGCATTTTGA
1 CTTTTCGGCATTTTGA
73314727 CTTTTC
1 CTTTTC
73314733 AGGATTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.13, T:0.53
Consensus pattern (16 bp):
CTTTTCGGCATTTTGA
Found at i:73318136 original size:18 final size:18
Alignment explanation
Indices: 73318115--73318193 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
73318105 TAACTGCCAT
73318115 TGAATAATCGACTGTTAC
1 TGAATAATCGACTGTTAC
* **
73318133 TGAATAA-CTAACTACTAC
1 TGAATAATC-GACTGTTAC
* * *
73318151 TGAATAATTGACTGATAT
1 TGAATAATCGACTGTTAC
* * *
73318169 TGAATAAACGACCGTTAT
1 TGAATAATCGACTGTTAC
73318187 TGAATAA
1 TGAATAA
73318194 CTGATTATTA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
17 1 0.02
18 46 0.98
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (18 bp):
TGAATAATCGACTGTTAC
Found at i:73321185 original size:49 final size:49
Alignment explanation
Indices: 73321123--73321254 Score: 149
Period size: 48 Copynumber: 2.7 Consensus size: 49
73321113 ATGAGATCTC
73321123 ATGTAAGACCATGTCTGGGAAATGGCATCGGCATCCAAGATGAGAGCCA
1 ATGTAAGACCATGTCTGGGAAATGGCATCGGCATCCAAGATGAGAGCCA
* * * * * *
73321172 ATGTAAGACCATGTCTGGGACATGGCATCAGCA-CCAATATGTGATCCC
1 ATGTAAGACCATGTCTGGGAAATGGCATCGGCATCCAAGATGAGAGCCA
* * * * * *
73321220 GTATAAGACCATATCAGGGATATGGCTTCGGCATC
1 ATGTAAGACCATGTCTGGGAAATGGCATCGGCATC
73321255 ATTAAGTGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
48 37 0.54
49 32 0.46
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (49 bp):
ATGTAAGACCATGTCTGGGAAATGGCATCGGCATCCAAGATGAGAGCCA
Found at i:73321245 original size:48 final size:48
Alignment explanation
Indices: 73321175--73321295 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 48
73321165 AGAGCCAATG
* * *
73321175 TAAGACCATGTCTGGGACATGGCATCAGCACCAATATGTGATCCCGTA
1 TAAGACCATATCAGGGACATGGCATCAGCACCAATAAGTGATCCCGTA
* * * * * **
73321223 TAAGACCATATCAGGGATATGGCTTCGGCATCATTAAGTGATTTCGTA
1 TAAGACCATATCAGGGACATGGCATCAGCACCAATAAGTGATCCCGTA
*
73321271 TAAGACCATTTCTA-GGACATGGCAT
1 TAAGACCATATC-AGGGACATGGCAT
73321296 TGATATGAGG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
48 58 0.98
49 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (48 bp):
TAAGACCATATCAGGGACATGGCATCAGCACCAATAAGTGATCCCGTA
Found at i:73324487 original size:18 final size:19
Alignment explanation
Indices: 73324464--73324504 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
73324454 GTATTTTTCT
73324464 AAAAAT-TATAAAAAATAA
1 AAAAATATATAAAAAATAA
*
73324482 AAAAATCATTTAAAAAATAA
1 AAAAAT-ATATAAAAAATAA
73324502 AAA
1 AAA
73324505 TATTCAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATATATAAAAAATAA
Found at i:73324853 original size:10 final size:10
Alignment explanation
Indices: 73324840--73324890 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
73324830 CTTTTTTTGA
73324840 AATTTTTAAT
1 AATTTTTAAT
73324850 AATTTTT-AT
1 AATTTTTAAT
73324859 AATTTTTATAT
1 AATTTTTA-AT
* *
73324870 TATATTTAAT
1 AATTTTTAAT
*
73324880 AAATTTTAAT
1 AATTTTTAAT
73324890 A
1 A
73324891 TTTGTTTTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 9 0.26
10 17 0.50
11 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:73324979 original size:18 final size:19
Alignment explanation
Indices: 73324958--73324998 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
73324948 AAGTATATTT
*
73324958 TTTTCTATT-TTTAAATTA
1 TTTTCTATTAATTAAATTA
*
73324976 TTTTCTATTAATTATATTA
1 TTTTCTATTAATTAAATTA
73324995 TTTT
1 TTTT
73324999 TAATCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCTATTAATTAAATTA
Found at i:73325025 original size:16 final size:16
Alignment explanation
Indices: 73325006--73325070 Score: 62
Period size: 15 Copynumber: 4.0 Consensus size: 16
73324996 TTTTAATCAT
73325006 TTTTAATTTTTTTAAA
1 TTTTAATTTTTTTAAA
*
73325022 TTTTTAA-ATTTTTAAA
1 -TTTTAATTTTTTTAAA
*
73325038 TTTT-ATTTTTTTGAA
1 TTTTAATTTTTTTAAA
*
73325053 TTTTTATGATTTTTTAAA
1 TTTTAAT--TTTTTTAAA
73325071 CAAATATACC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 15 0.38
16 10 0.25
17 6 0.15
18 8 0.20
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTAATTTTTTTAAA
Found at i:73325057 original size:8 final size:8
Alignment explanation
Indices: 73324994--73325041 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
73324984 TAATTATATT
73324994 ATTTTTAA
1 ATTTTTAA
73325002 TCATTTTTAA
1 --ATTTTTAA
*
73325012 TTTTTTTAA
1 -ATTTTTAA
73325021 ATTTTTAA
1 ATTTTTAA
73325029 ATTTTTAA
1 ATTTTTAA
73325037 ATTTT
1 ATTTT
73325042 ATTTTTTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 20 0.57
9 7 0.20
10 8 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTAA
Found at i:73326247 original size:42 final size:40
Alignment explanation
Indices: 73326167--73326247 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
73326157 AACACTATTT
* *
73326167 TTATATTTTTTAATCAATTTAAAATTTTTAAAAATAATTC
1 TTATATTTTTTAATAAATTTAAAATTTTAAAAAATAATTC
73326207 TTATATATTTTTAA-AAATTTAAAAATTTTAAAAAATTAATT
1 TTATAT-TTTTTAATAAATTT-AAAATTTTAAAAAA-TAATT
73326248 AAATACTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 11 0.31
41 20 0.56
42 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (40 bp):
TTATATTTTTTAATAAATTTAAAATTTTAAAAAATAATTC
Found at i:73326604 original size:31 final size:31
Alignment explanation
Indices: 73326568--73326630 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
73326558 AATGCAATAC
73326568 AATAAATGAAGCTTATTTAAGTGATTCATTA
1 AATAAATGAAGCTTATTTAAGTGATTCATTA
*
73326599 AATAAATGAAGCTTATTTATGTGATTCATTA
1 AATAAATGAAGCTTATTTAAGTGATTCATTA
73326630 A
1 A
73326631 CACATTAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (31 bp):
AATAAATGAAGCTTATTTAAGTGATTCATTA
Found at i:73332180 original size:68 final size:68
Alignment explanation
Indices: 73332033--73332188 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
73332023 AGCCGATTTG
* * * * *
73332033 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
73332098 TATC
65 TATA
* *
73332102 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
73332164 ATATAGTA
62 ATATA-TA
73332172 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
73332189 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:73344523 original size:40 final size:40
Alignment explanation
Indices: 73344473--73344555 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
73344463 AAGGGTATTA
** *
73344473 ATAAAATAGGGAAGGTATCTATACTTTGTTAAAAGTATCG
1 ATAAAATAGGGAAAATATCGATACTTTGTTAAAAGTATCG
* *
73344513 ATAAACTAGGGAAAATATCGATACTTTGTTAAATGTATCG
1 ATAAAATAGGGAAAATATCGATACTTTGTTAAAAGTATCG
73344553 ATA
1 ATA
73344556 CTTTTGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (40 bp):
ATAAAATAGGGAAAATATCGATACTTTGTTAAAAGTATCG
Found at i:73348530 original size:47 final size:47
Alignment explanation
Indices: 73348421--73348523 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 47
73348411 CCGGGATAAG
* *
73348421 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
73348468 CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTA-TAGTA
73348515 CACATAGTG
1 CACATAGTG
73348524 TCTCATCGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 46 0.96
48 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (47 bp):
CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:73356689 original size:41 final size:39
Alignment explanation
Indices: 73356538--73356718 Score: 159
Period size: 40 Copynumber: 4.5 Consensus size: 39
73356528 AATCAAGCAT
** ** * * *
73356538 CTTCGGGGTTTAGCCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCGGATATAGTCGCTAGCACAAATGC
* * * * * *
73356576 CTTCGGGTCTTAACCCGGATATGGTCACTAGTATAAATGC
1 CTTCGGGACTT-AGCCGGATATAGTCGCTAGCACAAATGC
73356616 CTTCGGGACTTAGCCGGAATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCGG-ATATAGTCGCTAGCACAAATGC
* *
73356656 CTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGA-CTTAG-CCGGATATAGTCGC-TAGCACAAATGC
73356697 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
73356719 CATTCGAGTA
Statistics
Matches: 116, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
38 9 0.08
39 23 0.20
40 50 0.43
41 31 0.27
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAGTCGCTAGCACAAATGC
Found at i:73363637 original size:64 final size:64
Alignment explanation
Indices: 73363556--73363739 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
73363546 AGAAATTATG
* * * *
73363556 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
73363620 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAAGACACCATGTAGACAAAAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTG---TACACCATGTAGACAAGAGAGCTACGAGAT
73363685 AA
63 AA
* *
73363687 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
73363740 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.17
64 27 0.27
66 23 0.23
67 29 0.29
68 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:73367607 original size:18 final size:19
Alignment explanation
Indices: 73367574--73367609 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
73367564 TTAAATTTAG
*
73367574 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
73367593 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
73367610 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:73368093 original size:64 final size:64
Alignment explanation
Indices: 73367989--73368196 Score: 170
Period size: 67 Copynumber: 3.2 Consensus size: 64
73367979 CATCATGTGT
*
73367989 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
73368054 TAG
62 TAG
*** * * * * * * *
73368057 ACAAGAGAGCTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
73368122 AG
63 AG
* * * * *
73368124 ACAAGAGAGCTACAAGATAAACTG--GCTAGGTCACATGGGTGGTAGTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
73368186 TACAAGAGAGC
1 -ACAAGAGAGC
73368197 CGAACTATAT
Statistics
Matches: 111, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 21 0.19
65 9 0.08
66 17 0.15
67 29 0.26
68 15 0.14
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:73373974 original size:39 final size:40
Alignment explanation
Indices: 73373929--73374060 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
73373919 GCTCCTCGTT
* * *
73373929 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
73373969 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
73374008 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
73374048 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
73374061 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:73374122 original size:41 final size:41
Alignment explanation
Indices: 73374045--73374122 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
73374035 TTAGTATCTC
* * *
73374045 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
73374086 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
73374123 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:73381826 original size:39 final size:40
Alignment explanation
Indices: 73381781--73381912 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
73381771 GCTCCTCGTT
* * *
73381781 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
73381821 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
73381860 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
73381900 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
73381913 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:73381974 original size:41 final size:41
Alignment explanation
Indices: 73381897--73381974 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
73381887 TTAGTATCTC
* * *
73381897 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
73381938 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
73381975 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:73386380 original size:21 final size:21
Alignment explanation
Indices: 73386341--73386380 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
73386331 TACACAATCA
* * *
73386341 AAAGTCATATATTATCATATC
1 AAAGTCAAATATCAACATATC
73386362 AAAGTCAAATATCAACATA
1 AAAGTCAAATATCAACATA
73386381 AAGTCCCTTT
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:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAGTCAAATATCAACATATC
Found at i:73388197 original size:8 final size:8
Alignment explanation
Indices: 73388186--73388217 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
73388176 ATTAACCCTC
*
73388186 ACATTTTC
1 ACATTTTA
73388194 ACATTTTA
1 ACATTTTA
73388202 ACATTTTA
1 ACATTTTA
73388210 ACATTTTA
1 ACATTTTA
73388218 GCCCCTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (8 bp):
ACATTTTA
Found at i:73391221 original size:7 final size:7
Alignment explanation
Indices: 73391209--73391233 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
73391199 AGAGAGCATT
73391209 GATATGA
1 GATATGA
73391216 GATATGA
1 GATATGA
73391223 GATATGA
1 GATATGA
73391230 GATA
1 GATA
73391234 AATATGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
GATATGA
Found at i:73393318 original size:27 final size:27
Alignment explanation
Indices: 73393288--73393379 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
73393278 ATTACCAAAG
* *
73393288 TACCCTCGATTTATAGAATCACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
73393315 TACCC-CTGATTTACAGAATTACTATTT
1 TACCCTC-GATTTACAGAATTACTATTT
* * **
73393342 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
73393369 TACCCTCGATT
1 TACCCTCGATT
73393380 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:73393444 original size:27 final size:27
Alignment explanation
Indices: 73393411--73393534 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
73393401 TATACGGTAG
73393411 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
73393438 AACTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
73393465 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* **
73393492 AATTTCCAAAATACCCC-AGATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
73393519 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
73393535 TTAACTTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 76 0.96
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:73393522 original size:54 final size:54
Alignment explanation
Indices: 73393411--73393611 Score: 172
Period size: 54 Copynumber: 3.7 Consensus size: 54
73393401 TATACGGTAG
* * * * * ***
73393411 AATTACCAAAATACCCCTAGTTTGTAAAACTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACAGATTTACAA
* *
73393465 AATTACCAAAATACCCTTAATTTGTAAAATTTCCAAAATACCCCAGATTTACAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACAGATTTACAA
* * ** *
73393519 AATTA-CAGAAATACCCTTAACTTTTTAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTAA-TTTGTAAAATTACCA-AAATACCACAGATTTACAA
** ** * *
73393574 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
73393612 CACCCTTGTA
Statistics
Matches: 117, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
53 2 0.02
54 74 0.63
55 41 0.35
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACAGATTTACAA
Found at i:73393584 original size:27 final size:27
Alignment explanation
Indices: 73393512--73393596 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
73393502 ATACCCCAGA
* **
73393512 TTTACAAAATTACAGAAATACCCTTAAC
1 TTTACAAAATTACTGAAATACCCTT-GG
** *
73393540 TTTTTAAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACT-GAAATACCCTTGG
73393567 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
73393594 TTT
1 TTT
73393597 GTAGATTTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 25 0.54
28 21 0.46
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:73394550 original size:25 final size:24
Alignment explanation
Indices: 73394507--73394576 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
73394497 AGGAAGTGCA
* *
73394507 AAAAGGGCTCTGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
73394531 GAAAAGGGCTTTACCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
73394556 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
73394577 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:73394589 original size:24 final size:23
Alignment explanation
Indices: 73394507--73394603 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 23
73394497 AGGAAGTGCA
* * *
73394507 AAAAGGGCTCTGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
73394531 GAAAAGGGCTTTACCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
73394556 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
73394580 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
73394604 ATGATAAAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.07
24 13 0.21
25 44 0.72
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:73394783 original size:42 final size:42
Alignment explanation
Indices: 73394724--73394818 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
73394714 TAGTCTCCCC
* ** *
73394724 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
73394766 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
73394808 AAATGGGCTTG
1 AAATGGGCTTG
73394819 TGGGCCATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:73396555 original size:44 final size:42
Alignment explanation
Indices: 73396505--73396661 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
73396495 TGTGTTTTCG
* *
73396505 TGTAAGACCACGTTTAGGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTTTGGGATATTGGCATCGA-TT-TGATTTACA
* *
73396549 TGTAAGACCACGTTTGGGATGTTGGCATCGTATTTTATTT-CA
1 TGTAAGACCACGTTTGGGATATTGGCATCG-ATTTGATTTACA
* *
73396591 TGTAAGACC-CTATTTGGGATAGTGGCATCGATATTTG-TTTACA
1 TGTAAGACCAC-GTTTGGGATATTGGCATCG--ATTTGATTTACA
* * *
73396634 TGTAAGACCACGTCTGGAATTTTGGCAT
1 TGTAAGACCACGTTTGGGATATTGGCAT
73396662 TGTATGAGGT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (42 bp):
TGTAAGACCACGTTTGGGATATTGGCATCGATTTGATTTACA
Found at i:73396640 original size:43 final size:41
Alignment explanation
Indices: 73396543--73396644 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 41
73396533 CGACTTATGA
*
73396543 TTTACATGTAAGACCACGTTTGGGATGTTGGCATCGTATTT
1 TTTACATGTAAGACCACATTTGGGATGTTGGCATCGTATTT
*
73396584 TATTTCATGTAAGACC-CTATTTGGGATAG-TGGCATCGATATTT
1 T-TTACATGTAAGACCAC-ATTTGGGAT-GTTGGCATCG-TATTT
73396627 GTTTACATGTAAGACCAC
1 -TTTACATGTAAGACCAC
73396645 GTCTGGAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
41 2 0.04
42 29 0.56
43 19 0.37
44 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTACATGTAAGACCACATTTGGGATGTTGGCATCGTATTT
Found at i:73397988 original size:16 final size:16
Alignment explanation
Indices: 73397967--73397998 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
73397957 ATTGTAACGC
*
73397967 CCCAAAAATCTCAAAA
1 CCCAAAAATCCCAAAA
73397983 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
73397999 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:73399577 original size:29 final size:29
Alignment explanation
Indices: 73399542--73399639 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
73399532 AATGTGACTA
*
73399542 GGCCTAATGGGCCATAAAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
73399571 GGCCTAATGGGCCATATATAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
73399600 GGCCTAATAGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
73399628 GGCTTAATGGGC
1 GGCCTAATGGGC
73399640 GAGATACAGG
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 13 0.22
29 46 0.78
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:73404311 original size:39 final size:39
Alignment explanation
Indices: 73404222--73404340 Score: 114
Period size: 39 Copynumber: 2.9 Consensus size: 39
73404212 TGTGTTATCT
* *
73404222 TGTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTTACG
1 TGTAAGACCATGTCTGGGACATT-GCATCGATAT-T--TTTA-G
*
73404266 GGTAAGACCATGTCTGGGACATTGCATCGTATATTTTT-G
1 TGTAAGACCATGTCTGGGACATTGCATCG-ATATTTTTAG
* * *
73404305 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATTT
1 TGTAAGACCATGTCTGGGACA-TTGCATCGATATTT
73404341 GATTTCATGT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
39 25 0.38
40 7 0.11
41 3 0.05
43 7 0.11
44 24 0.36
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (39 bp):
TGTAAGACCATGTCTGGGACATTGCATCGATATTTTTAG
Found at i:73406263 original size:18 final size:20
Alignment explanation
Indices: 73406227--73406273 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
73406217 AGTTGTAAGT
73406227 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
73406247 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
73406266 ATGATATA
1 AT-ATATA
73406274 ACCTATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:73407796 original size:49 final size:49
Alignment explanation
Indices: 73407719--73407963 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
73407709 TAGCCGAAGC
* * *
73407719 TATCTGGTACACATAGTAGCCAGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
73407768 TATCCGGTACACGTAGTATCCTACACTTAGTACTAAACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
73407818 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
73407869 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
73407918 TATCTGGGACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
73407964 TCACAATAGC
Statistics
Matches: 161, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 80 0.50
50 44 0.27
51 37 0.23
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:73408409 original size:17 final size:17
Alignment explanation
Indices: 73408379--73408412 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
73408369 TCAACTTTTC
*
73408379 CAATATATTAAATAATA
1 CAATATATGAAATAATA
*
73408396 CAATATATGCAATAATA
1 CAATATATGAAATAATA
73408413 GTAAGAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (17 bp):
CAATATATGAAATAATA
Found at i:73408645 original size:30 final size:30
Alignment explanation
Indices: 73408611--73408670 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
73408601 CTTTAATACG
*
73408611 AACTTTGGCAAAATTAC-CATTTTTCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
73408641 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
73408671 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:73410595 original size:15 final size:15
Alignment explanation
Indices: 73410566--73410604 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
73410556 AACAGAGAAG
73410566 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
73410582 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
73410597 CCATGATA
1 CCAAGATA
73410605 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:73413422 original size:49 final size:49
Alignment explanation
Indices: 73413343--73413587 Score: 285
Period size: 49 Copynumber: 4.9 Consensus size: 49
73413333 TAGCTGAAGC
* *
73413343 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
73413392 TATCCGGTACACGTAGTAGCCT-CTAGTTAGTACTACACACGTGACCAAAC
1 TATCTGGTACACGTAGTAGCCTGC-ACTTAGTACTACACACGCGACC-AAT
* * * *
73413442 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * * *
73413493 TATCAGGTACGCATAGTAGCCTGGACTTAGGACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
73413542 TATCTGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
73413588 TCACAATAGC
Statistics
Matches: 161, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 78 0.48
50 45 0.28
51 37 0.23
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:73414271 original size:30 final size:30
Alignment explanation
Indices: 73414237--73414294 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
73414227 TTAATACGGG
73414237 CTTTTACAAAATTAC-CATTTTGCCCCTAAA
1 CTTTTACAAAATTACAC-TTTTGCCCCTAAA
* * *
73414267 CTTTTGCATAATTACACTTTTTCCCCTA
1 CTTTTACAAAATTACACTTTTGCCCCTA
73414295 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (30 bp):
CTTTTACAAAATTACACTTTTGCCCCTAAA
Found at i:73415199 original size:50 final size:50
Alignment explanation
Indices: 73415118--73415450 Score: 219
Period size: 50 Copynumber: 6.6 Consensus size: 50
73415108 TTCGTTGTGA
*
73415118 GTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
* * * * * * * *
73415168 GTCGCATGTGTAGTAGTAAGTGTAGGCTACTATGCGTA-CACGTTAAC-TTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-G--ATCGATAG
* * * * * * * *
73415219 ATCACGTGTGTAGTACTAAGTGCAGGATACTACTTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
* * * *
73415269 GTCACGTGTGTAGCACTAAGTGCA-GCTAGTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
* * * * ** * * **
73415318 GTCGCATGTGTAGTACTAAGTCCAGGCTATTATGCATACCCGTTAACTTTA-
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--ATCGATAG
* * * * * * *
73415369 ATCACGTGTGTAGTACTAAGT-CTAGGCAACTACGTATATCAGATGGTTTA-
1 GTCACATGTGTAGTACTAAGTGC-AGGCTACTACGTGTACCAGATCG-ATAG
73415419 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
73415451 TGCGTGCCAA
Statistics
Matches: 213, Mismatches: 59, Indels: 22
0.72 0.20 0.07
Matches are distributed among these distances:
49 42 0.20
50 100 0.47
51 64 0.30
52 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
Found at i:73415389 original size:150 final size:150
Alignment explanation
Indices: 73415117--73415450 Score: 474
Period size: 150 Copynumber: 2.2 Consensus size: 150
73415107 ATTCGTTGTG
*
73415117 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCA-GCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGT
* ** * *
73415182 AGTAAGTGTAGGCTACTATGCGTACACGTTAACTTCGATCACGTGTGTAGTACTAAGTGC-AGG-
65 ACTAAGTCCAGGCTACTATGCATACACGTTAACTTCAATCACGTGTGTAGTACTAAGT-CTAGGC
* *
73415245 ATACTACTTGTATCAGATGGTTA
129 A-ACTACGTATATCAGATGGTTA
* * * *
73415268 AGTCACGTGTGTAGCACTAAGTGCAGCTAGTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 AGTCACATGTGTAGTACTAAGTGCAGCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGTA
* * *
73415333 CTAAGTCCAGGCTATTATGCATACCCGTTAACTTTAATCACGTGTGTAGTACTAAGTCTAGGCAA
66 CTAAGTCCAGGCTACTATGCATACACGTTAACTTCAATCACGTGTGTAGTACTAAGTCTAGGCAA
*
73415398 CTACGTATATCAGATGGTTT
131 CTACGTATATCAGATGGTTA
73415418 AGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGTCACATGTGTAGTACTAAGTGCA-GCTACTA
73415451 TGCGTGCCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
149 1 0.01
150 131 0.81
151 30 0.19
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (150 bp):
AGTCACATGTGTAGTACTAAGTGCAGCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGTA
CTAAGTCCAGGCTACTATGCATACACGTTAACTTCAATCACGTGTGTAGTACTAAGTCTAGGCAA
CTACGTATATCAGATGGTTA
Found at i:73415681 original size:16 final size:16
Alignment explanation
Indices: 73415660--73415691 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
73415650 AGAATGGAGT
73415660 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
73415676 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
73415692 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:73418174 original size:27 final size:28
Alignment explanation
Indices: 73418144--73418251 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 28
73418134 GGCTGCTAGA
* * *
73418144 ACAGATA-TTGTGACAGAGTCACCAGAT
1 ACAGATATTTGTGGCAAAGCCACCAGAT
* *
73418171 ACAGATA-TTGTGGCAAAGCCACTAGAA
1 ACAGATATTTGTGGCAAAGCCACCAGAT
*
73418198 ACAGATATTTGTGGCAAAGCCACTAGAT
1 ACAGATATTTGTGGCAAAGCCACCAGAT
* *
73418226 -TAGATATTTGTGGCAGAGCCACCAGA
1 ACAGATATTTGTGGCAAAGCCACCAGA
73418252 ACGCTTCATC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 52 0.73
28 19 0.27
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (28 bp):
ACAGATATTTGTGGCAAAGCCACCAGAT
Found at i:73418246 original size:55 final size:54
Alignment explanation
Indices: 73418139--73418252 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 54
73418129 AGCATGGCTG
* *
73418139 CTAG-AACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAAAGCCA
1 CTAGAAACAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCAAAGCCA
* * * *
73418192 CTAGAAACAGATATTTGTGGCAAAGCCACTAGAT-TAGATATTTGTGGCAGAGCCA
1 CTAGAAACAGATA-TTGTGACAAAGCCACCAGATACAGATA-TTGTGGCAAAGCCA
*
73418247 CCAGAA
1 CTAGAA
73418253 CGCTTCATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
53 4 0.08
54 13 0.25
55 34 0.67
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
CTAGAAACAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCAAAGCCA
Found at i:73421820 original size:96 final size:95
Alignment explanation
Indices: 73421702--73421919 Score: 375
Period size: 96 Copynumber: 2.3 Consensus size: 95
73421692 CATGGCCTTA
*
73421702 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
73421766 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
73421796 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
* *
73421861 ACACTTTCACATTCATCACATTGGCCATTCGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
73421894 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
73421920 CACAATTATC
Statistics
Matches: 117, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
94 8 0.07
96 64 0.55
98 45 0.38
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Done.